Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 112 of 226
Found at i:38440111 original size:11 final size:11
Alignment explanation
Indices: 38440081--38440114 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
38440071 GAAGAGCCAT
38440081 ATGGTGTGAAC
1 ATGGTGTGAAC
*
38440092 ATGG-CTGAAC
1 ATGGTGTGAAC
38440102 ATGGTGTGAAC
1 ATGGTGTGAAC
38440113 AT
1 AT
38440115 CTTTATGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.26
Consensus pattern (11 bp):
ATGGTGTGAAC
Found at i:38443236 original size:15 final size:15
Alignment explanation
Indices: 38443216--38443244 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38443206 TCATAGATGC
38443216 CGAATATCAATAGGT
1 CGAATATCAATAGGT
38443231 CGAATATCAATAGG
1 CGAATATCAATAGG
38443245 CATATTAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (15 bp):
CGAATATCAATAGGT
Found at i:38447994 original size:45 final size:45
Alignment explanation
Indices: 38447907--38447996 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
38447897 ATTTTGTTCC
* * * *
38447907 ATGAAATTTCCAGCTAAAAGCTAAGTTCATTTTAGCTTATTAATT
1 ATGAAATTTCCAGCTAAAAGCTAAGTTCAATTCAACTCATTAATT
* *
38447952 ATGAAGTTTCTAGCTGAAAA-CTAAGTTCAATTCAACTCATTAATT
1 ATGAAATTTCCAGCT-AAAAGCTAAGTTCAATTCAACTCATTAATT
38447997 TGTAATCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 34 0.89
46 4 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (45 bp):
ATGAAATTTCCAGCTAAAAGCTAAGTTCAATTCAACTCATTAATT
Found at i:38452085 original size:27 final size:27
Alignment explanation
Indices: 38452044--38452097 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
38452034 ATCAAGAGAA
38452044 TAACAACTCACGCTTCCTTTCATAATG
1 TAACAACTCACGCTTCCTTTCATAATG
* *
38452071 TAACAACTCATGCTTCCTTTCGTAATG
1 TAACAACTCACGCTTCCTTTCATAATG
38452098 ACTTTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (27 bp):
TAACAACTCACGCTTCCTTTCATAATG
Found at i:38456876 original size:52 final size:51
Alignment explanation
Indices: 38456799--38456896 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
38456789 TATCGACGAG
38456799 CATCGAATATGAAAAGGGATAGTTTCAACTATCAACTATGAAAAGGGGGAC
1 CATCGAATATGAAAAGGGATAGTTTCAACTATCAACTATGAAAAGGGGGAC
* *
38456850 CATCGATTAATGAAAAGGGATAGTTTCGACTATCAACTATGAAAAGG
1 CATCGAAT-ATGAAAAGGGATAGTTTCAACTATCAACTATGAAAAGG
38456897 CATGGTGACG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 7 0.16
52 37 0.84
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (51 bp):
CATCGAATATGAAAAGGGATAGTTTCAACTATCAACTATGAAAAGGGGGAC
Found at i:38456908 original size:29 final size:29
Alignment explanation
Indices: 38456847--38456989 Score: 173
Period size: 29 Copynumber: 4.9 Consensus size: 29
38456837 TGAAAAGGGG
* * **
38456847 GACCATCGATTAATGAAAAGGGATAGTTTC
1 GACCATCGA-AAATGAAAAGGGATGGTGAC
* * *
38456877 GACTATC-AACTATGAAAAGGCATGGTGAC
1 GACCATCGAA-AATGAAAAGGGATGGTGAC
*
38456906 GACCATC-AACTATGAAAAGGGATGGTGAC
1 GACCATCGAA-AATGAAAAGGGATGGTGAC
38456935 GACCATCGAAAATGAAAAGGGATGGTGAC
1 GACCATCGAAAATGAAAAGGGATGGTGAC
38456964 GACCATCGAAAATGAAAAGGGATGGT
1 GACCATCGAAAATGAAAAGGGATGGT
38456990 TTTGACAATC
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
29 93 0.92
30 8 0.08
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (29 bp):
GACCATCGAAAATGAAAAGGGATGGTGAC
Found at i:38459284 original size:9 final size:9
Alignment explanation
Indices: 38459270--38459306 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
38459260 TATTGTTTGA
38459270 TATTCGAAT
1 TATTCGAAT
38459279 TATTCGAAT
1 TATTCGAAT
*
38459288 TATTCGAGT
1 TATTCGAAT
38459297 TATTCGAAT
1 TATTCGAAT
38459306 T
1 T
38459307 TGAAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38459784 original size:14 final size:14
Alignment explanation
Indices: 38459765--38459791 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38459755 GTGTTGAATT
38459765 GAATTTGGTCATTA
1 GAATTTGGTCATTA
38459779 GAATTTGGTCATT
1 GAATTTGGTCATT
38459792 TTATGCATGT
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:0.26, C:0.07, G:0.22, T:0.44
Consensus pattern (14 bp):
GAATTTGGTCATTA
Found at i:38460656 original size:15 final size:15
Alignment explanation
Indices: 38460636--38460665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38460626 TTCAATCCCT
*
38460636 TTTCTTGCTCGTTGA
1 TTTCTTGCCCGTTGA
38460651 TTTCTTGCCCGTTGA
1 TTTCTTGCCCGTTGA
38460666 ACCAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.23, G:0.20, T:0.50
Consensus pattern (15 bp):
TTTCTTGCCCGTTGA
Found at i:38464019 original size:27 final size:27
Alignment explanation
Indices: 38463947--38464332 Score: 354
Period size: 27 Copynumber: 14.3 Consensus size: 27
38463937 TTTGATTCAT
*
38463947 GGGT-AAATTATCGAAATACCCTC-AA
1 GGGTAAAATTATCAAAATACCCTCGAA
* * * *
38463972 TTGGGAAAAATTACCGAAATACCCTCAAA
1 --GGGTAAAATTATCAAAATACCCTCGAA
**
38464001 GGGTAAAATTATCGGAATACCCAT-GAA
1 GGGTAAAATTATCAAAATACCC-TCGAA
* * *
38464028 GGGTAAAATTACCAGAATACCTTCGAA
1 GGGTAAAATTATCAAAATACCCTCGAA
*
38464055 GGGTAAAATTA-CTAAAATACCCTCAAA
1 GGGTAAAATTATC-AAAATACCCTCGAA
* * *
38464082 GAGTAAAATTACCAGAATACCCTCGAA
1 GGGTAAAATTATCAAAATACCCTCGAA
*
38464109 GGGTAAAATTATCAAAATACCCTCGAT
1 GGGTAAAATTATCAAAATACCCTCGAA
*
38464136 GGGTAAAATTATCAAAATACCCTCGAT
1 GGGTAAAATTATCAAAATACCCTCGAA
* **
38464163 GGGTAAAATTAGCAAAATACCCTTAAA
1 GGGTAAAATTATCAAAATACCCTCGAA
* *
38464190 GGGTAAAATTA-CTAAATTACCCTCGAT
1 GGGTAAAATTATC-AAAATACCCTCGAA
* * **
38464217 GGGTAAAATTACCGAAAT-GTCTCGAA
1 GGGTAAAATTATCAAAATACCCTCGAA
* *
38464243 GGGTAAAATTATCAAAATGCCCTTGAA
1 GGGTAAAATTATCAAAATACCCTCGAA
* ** ** *
38464270 AGGTAAAATTATTGAAACGCCCTTGAA
1 GGGTAAAATTATCAAAATACCCTCGAA
* *
38464297 GGGTAAAATTAT-AGAAATACCCCCGAG
1 GGGTAAAATTATCA-AAATACCCTCGAA
38464324 GGGTAAAAT
1 GGGTAAAAT
38464333 AACCGTTATA
Statistics
Matches: 301, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 24 0.08
27 254 0.84
28 21 0.07
29 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCAAAATACCCTCGAA
Found at i:38464556 original size:26 final size:26
Alignment explanation
Indices: 38464527--38464633 Score: 124
Period size: 26 Copynumber: 4.1 Consensus size: 26
38464517 TTTGCCACAA
*
38464527 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
38464553 ATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGCG
38464579 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * ** * *
38464605 TTAGTAATACTAGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
38464631 ATA
1 ATA
38464634 TTGGTGTGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:38464615 original size:52 final size:52
Alignment explanation
Indices: 38464527--38464633 Score: 142
Period size: 52 Copynumber: 2.1 Consensus size: 52
38464517 TTTGCCACAA
* * * *
38464527 ATACTGTTACTGGCAGCTTTGTTGCGATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGCGATACTAATACTAGCAGCTCTGCTGCG
* * * *
38464579 ATACTGTTACTGGCAGCTTTGCTGCGTTAGTAATACTAGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCGATACTAATACTAGCAGCTCTGCTGCG
38464631 ATA
1 ATA
38464634 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (52 bp):
ATACTGTTACTGGCAGCTTTGCTGCGATACTAATACTAGCAGCTCTGCTGCG
Found at i:38464782 original size:30 final size:30
Alignment explanation
Indices: 38464741--38464821 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
38464731 ATTTATACTG
*
38464741 GTTACTGTATTGGGCTAAGGCCCACACTCT
1 GTTACTGTATTGGGCTAAGGCCCACACACT
* *
38464771 GTTATTGTATTGAGCTATA-GCCCACACACT
1 GTTACTGTATTGGGCTA-AGGCCCACACACT
* * *
38464801 GCTACTGTATAGGGCTCAGGC
1 GTTACTGTATTGGGCTAAGGC
38464822 TCAGACTGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.02
30 39 0.95
31 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (30 bp):
GTTACTGTATTGGGCTAAGGCCCACACACT
Found at i:38465066 original size:19 final size:18
Alignment explanation
Indices: 38465042--38465088 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
38465032 TAATAAAGCA
38465042 TTTTAATTTGGTTTTAAGT
1 TTTTAATTTGGTTTTAA-T
* *
38465061 TTTTAATTGGGTTTTTAT
1 TTTTAATTTGGTTTTAAT
38465079 TTTTATATTT
1 TTTTA-ATTT
38465089 TATACTGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (18 bp):
TTTTAATTTGGTTTTAAT
Found at i:38466698 original size:30 final size:30
Alignment explanation
Indices: 38466662--38466724 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
38466652 GTGTTGGAAG
*
38466662 AAGATTGGGGCGTGTTTCAGATGTGGGTCT
1 AAGATTGGGGCATGTTTCAGATGTGGGTCT
38466692 AAGATTGGGGCATGTTTCAGATGTGGGTCT
1 AAGATTGGGGCATGTTTCAGATGTGGGTCT
38466722 AAG
1 AAG
38466725 GAACATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.10, G:0.38, T:0.32
Consensus pattern (30 bp):
AAGATTGGGGCATGTTTCAGATGTGGGTCT
Found at i:38471823 original size:27 final size:27
Alignment explanation
Indices: 38471792--38472150 Score: 330
Period size: 27 Copynumber: 13.3 Consensus size: 27
38471782 ATTCGTGGGC
*
38471792 AAATTACCGAAATACCCTCGATGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
38471819 AAATTA-CTAGAATACCCTCGAAGGGTG
1 AAATTACCGA-AATACCCTCGAAGGGTA
* *
38471846 AAATTATCTG-AATACCCACGAAGGGTA
1 AAATTA-CCGAAATACCCTCGAAGGGTA
* * *
38471873 AAATTACCAAAATACCCCCGAAGGATA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
38471900 AAATTATCGAAATA-CTTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
38471926 AAATTACCGAAATACTCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
** * * *
38471953 AAATTACAAAAATTCCCTCAAAGGTTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
38471980 AAATTATCGAAATGCCCTCAAAAGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
38472007 AAATTATCGAAATACCCTTGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
38472034 AAATTACCAAAAAACCCTTGATGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
** * * *
38472061 AAATTATTGAAATGCCCTCAAAGAGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
38472088 AAATTACCAAAATGCCCCCAAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
38472115 AAATTACCGAAATACTCC-CGAGGGGTA
1 AAATTACCGAAATAC-CCTCGAAGGGTA
*
38472142 AAATAACCG
1 AAATTACCG
38472151 TTATACCCCT
Statistics
Matches: 268, Mismatches: 58, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.09
27 241 0.90
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGAAGGGTA
Found at i:38472403 original size:52 final size:52
Alignment explanation
Indices: 38472340--38472446 Score: 144
Period size: 52 Copynumber: 2.1 Consensus size: 52
38472330 ATGGCCACAA
* * *
38472340 ATACTGTTACTGGT-AGCTTTGCTGCAATACTGATATTGGCAGCTCTGCTGTG
1 ATACTATTACT-GTCAGCTTTGCTGCAATACTGATACTGGCAGCTCTGCTGCG
** *
38472392 ATACTATTACTGTCAGCTTTGCTGCGTTACTGATACTGGCAGCTTTGCTGCG
1 ATACTATTACTGTCAGCTTTGCTGCAATACTGATACTGGCAGCTCTGCTGCG
38472444 ATA
1 ATA
38472447 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 2 0.04
52 46 0.96
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (52 bp):
ATACTATTACTGTCAGCTTTGCTGCAATACTGATACTGGCAGCTCTGCTGCG
Found at i:38472443 original size:26 final size:26
Alignment explanation
Indices: 38472340--38472446 Score: 126
Period size: 26 Copynumber: 4.1 Consensus size: 26
38472330 ATGGCCACAA
* * *
38472340 ATACTGTTACTGGTAGCTTTGCTGCA
1 ATACTGATACTGGCAGCTTTGCTGCG
* * *
38472366 ATACTGATATTGGCAGCTCTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
38472392 ATACT-ATTACTGTCAGCTTTGCTGCG
1 ATACTGA-TACTGGCAGCTTTGCTGCG
*
38472418 TTACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
38472444 ATA
1 ATA
38472447 TTGGTGTGTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
25 1 0.02
26 64 0.97
27 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:38477955 original size:28 final size:28
Alignment explanation
Indices: 38477915--38477970 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
38477905 ATACTCTATA
38477915 CTATCAATTTAATTAGTATGCTTTCTCT
1 CTATCAATTTAATTAGTATGCTTTCTCT
* *
38477943 CTATCGATTTAATTAGTATGTTTTCTCT
1 CTATCAATTTAATTAGTATGCTTTCTCT
38477971 TTATATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (28 bp):
CTATCAATTTAATTAGTATGCTTTCTCT
Found at i:38484896 original size:2 final size:2
Alignment explanation
Indices: 38484889--38484946 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
38484879 GGAGATGGAA
38484889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38484931 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
38484947 GAATATTCAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38488850 original size:30 final size:30
Alignment explanation
Indices: 38488810--38488868 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
38488800 CCTATAGGGG
* **
38488810 ACACATGGGCATGTTTCATAGCCATGTGTC
1 ACACACGGGCATGTCGCATAGCCATGTGTC
*
38488840 ACACACGGGCATGTCGCATAGCCGTGTGT
1 ACACACGGGCATGTCGCATAGCCATGTGT
38488869 GAGTCACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (30 bp):
ACACACGGGCATGTCGCATAGCCATGTGTC
Found at i:38493713 original size:6 final size:6
Alignment explanation
Indices: 38493691--38493763 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
38493681 TTCAACAATA
* * *
38493691 TTTTTC TTCTT- TTTTTC TTTTTC TTTTTC TTTTTC CTTTTC CTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
38493738 -CTTTC -TGTTC TCTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTT
38493764 CTCTCAAACT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
5 11 0.20
6 45 0.80
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:38501308 original size:11 final size:12
Alignment explanation
Indices: 38501292--38501320 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
38501282 AACACACTTA
38501292 TTTTCTC-ATTT
1 TTTTCTCTATTT
38501303 TTTTCTCTATTT
1 TTTTCTCTATTT
38501315 TTTTCT
1 TTTTCT
38501321 TCTCTTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTCTATTT
Found at i:38509777 original size:2 final size:2
Alignment explanation
Indices: 38509770--38509796 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38509760 CATTTTCCTT
38509770 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
38509797 TTTTAAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:38519387 original size:30 final size:30
Alignment explanation
Indices: 38519351--38519690 Score: 225
Period size: 30 Copynumber: 11.4 Consensus size: 30
38519341 TCATCGACCA
* *
38519351 ATGAAAAGGGATAGCTTCGGCTGTCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * *
38519381 ATGAAAAGGGAT-GGTGACGACCATCAACA--
1 ATGAAAAGGGATAGCT-TCGACTATCAA-ATT
* * * *
38519410 ATGAAAAAGGAT-GGTGACGACCATCAAATT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* * *
38519440 ATGAAAAAGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* *
38519470 ATGAAAAGGGATAGCTCCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * *
38519500 ATGAAAACGAATAACTT-TAGCTATTGAAA-T
1 ATGAAAAGGGATAGCTTCGA-CTA-TCAAATT
* *
38519530 ATGAAAAGGGATAGCTTCGCCTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * **
38519560 ATGAAAAGGGAT-GGTGGT-GACCATC-AACG
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* * *
38519589 ATGAAAAGGGAT-GGTGAT-GACCATCAAAGT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* *
38519619 ATGAAAATGGATAGCTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* *
38519649 ATGAAAAGGGATAGCTTCGACTATCGAACT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
*
38519679 ATGAAAAAGGAT
1 ATGAAAAGGGAT
38519691 GGTGACAACC
Statistics
Matches: 248, Mismatches: 48, Indels: 28
0.77 0.15 0.09
Matches are distributed among these distances:
28 1 0.00
29 61 0.25
30 177 0.71
31 9 0.04
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:38519423 original size:29 final size:29
Alignment explanation
Indices: 38519374--38519451 Score: 113
Period size: 29 Copynumber: 2.6 Consensus size: 29
38519364 GCTTCGGCTG
*
38519374 TCAAATTATGAAAAGGGATGGTGACGACCA
1 TCAAA-TATGAAAAAGGATGGTGACGACCA
38519404 TCAACA-ATGAAAAAGGATGGTGACGACCA
1 TCAA-ATATGAAAAAGGATGGTGACGACCA
38519433 TCAAATTATGAAAAAGGAT
1 TCAAA-TATGAAAAAGGAT
38519452 AGCTTTGGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 1 0.02
29 26 0.59
30 16 0.36
31 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (29 bp):
TCAAATATGAAAAAGGATGGTGACGACCA
Found at i:38519593 original size:119 final size:119
Alignment explanation
Indices: 38519470--38519694 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 119
38519460 CTATCAAATT
* * * * * * *
38519470 ATGAAAAGGGATAGCT-CCGACTATCGAATTATGAAAACGAATAACTTTAGCTATTGAAA-TATG
1 ATGAAAAGGGAT-GCTGACGACCATCAAAGTATGAAAACGAATAACTTCAACTA-TCAAATTATG
* * *
38519533 AAAAGGGATAGCTTCGCCTATCGAATTATGAAAAGGGATGGTGGTGACCATCAACG
64 AAAAGGGATAGCTTCGACTATCGAACTATGAAAAAGGATGGTGGTGACCATCAACG
* * * * *
38519589 ATGAAAAGGGATGGTGATGACCATCAAAGTATGAAAATGGATAGCTTCAACTATCAAATTATGAA
1 ATGAAAAGGGATGCTGACGACCATCAAAGTATGAAAACGAATAACTTCAACTATCAAATTATGAA
38519654 AAGGGATAGCTTCGACTATCGAACTATGAAAAAGGATGGTG
66 AAGGGATAGCTTCGACTATCGAACTATGAAAAAGGATGGTG
38519695 ACAACCATCG
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
118 6 0.07
119 83 0.93
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (119 bp):
ATGAAAAGGGATGCTGACGACCATCAAAGTATGAAAACGAATAACTTCAACTATCAAATTATGAA
AAGGGATAGCTTCGACTATCGAACTATGAAAAAGGATGGTGGTGACCATCAACG
Found at i:38519602 original size:29 final size:30
Alignment explanation
Indices: 38519559--38519630 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
38519549 CCTATCGAAT
* *
38519559 TATGAAAAGGGATGGTGGTGACCATCAACG
1 TATGAAAAGGGATGGTGATGACCATCAAAG
38519589 -ATGAAAAGGGATGGTGATGACCATCAAAG
1 TATGAAAAGGGATGGTGATGACCATCAAAG
*
38519618 TATGAAAATGGAT
1 TATGAAAAGGGAT
38519631 AGCTTCAACT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.21
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGATGACCATCAAAG
Found at i:38519636 original size:89 final size:88
Alignment explanation
Indices: 38519351--38519695 Score: 320
Period size: 89 Copynumber: 3.9 Consensus size: 88
38519341 TCATCGACCA
*
38519351 ATGAAAAGGGATAGCTTCGGCTGTCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
*
38519416 AAGGATGGTGACGACCATCAAATT
66 AAGGATGGTGATGACCATCAAA-T
* * * * * **
38519440 ATGAAAAAGGATAGCTTTGGCTATCAAATTATGAAAAGGGATAGCT-CCGACTATCGAATTATGA
1 ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT-GGTGACGACCATC-AACAATGA
* * ** * * *
38519504 AAACGAATAACT--TTAGCTATTGAAAT
64 AAAAGGAT-GGTGATGA-CCA-TCAAAT
* * ** *
38519530 ATGAAAAGGGATAGCTTCGCCTATCGAATTATGAAAAGGGATGGTGGTGACCATCAACGATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
*
38519595 AGGGATGGTGATGACCATCAAAGT
66 AAGGATGGTGATGACCATCAAA-T
* ** * * * *
38519619 ATGAAAATGGATAGCTTCAACTATCAAATTATGAAAAGGGATAGCT-TCGACTATCGAACTATGA
1 ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGAT-GGTGACGACCATC-AACAATGA
38519683 AAAAGGATGGTGA
64 AAAAGGATGGTGA
38519696 CAACCATCGT
Statistics
Matches: 202, Mismatches: 43, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
88 5 0.02
89 108 0.53
90 84 0.42
91 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (88 bp):
ATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AAGGATGGTGATGACCATCAAAT
Found at i:38519651 original size:179 final size:179
Alignment explanation
Indices: 38519351--38519685 Score: 535
Period size: 179 Copynumber: 1.9 Consensus size: 179
38519341 TCATCGACCA
* *
38519351 ATGAAAAGGGATAGCTTCGGCTGTCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
1 ATGAAAAGGGATAGCTTCGCCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* ***
38519416 AAGGATGGTGACGACCATCAAATTATGAAAAAGGATAGCTTTGGCTATCAAATTATGAAAAGGGA
66 AAGGATGGTGACGACCATCAAAGTATGAAAAAGGATAGCTTCAACTATCAAATTATGAAAAGGGA
*
38519481 TAGCTCCGACTATCGAATTATGAAAACGAATAACTTTAGCTATTGAAAT
131 TAGCTCCGACTATCGAACTATGAAAACGAATAACTTTAGCTATTGAAAT
* ** *
38519530 ATGAAAAGGGATAGCTTCGCCTATCGAATTATGAAAAGGGATGGTGGTGACCATCAACGATGAAA
1 ATGAAAAGGGATAGCTTCGCCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
* * *
38519595 AGGGATGGTGATGACCATCAAAGTATGAAAATGGATAGCTTCAACTATCAAATTATGAAAAGGGA
66 AAGGATGGTGACGACCATCAAAGTATGAAAAAGGATAGCTTCAACTATCAAATTATGAAAAGGGA
*
38519660 TAGCTTCGACTATCGAACTATGAAAA
131 TAGCTCCGACTATCGAACTATGAAAA
38519686 AGGATGGTGA
Statistics
Matches: 141, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
179 141 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (179 bp):
ATGAAAAGGGATAGCTTCGCCTATCAAATTATGAAAAGGGATGGTGACGACCATCAACAATGAAA
AAGGATGGTGACGACCATCAAAGTATGAAAAAGGATAGCTTCAACTATCAAATTATGAAAAGGGA
TAGCTCCGACTATCGAACTATGAAAACGAATAACTTTAGCTATTGAAAT
Found at i:38520601 original size:50 final size:50
Alignment explanation
Indices: 38520486--38520734 Score: 318
Period size: 50 Copynumber: 4.8 Consensus size: 50
38520476 GATAAAAACA
* * ** *
38520486 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* **
38520537 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
38520587 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
38520637 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG
* *
38520692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
38520735 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
50 95 0.55
51 32 0.18
53 5 0.03
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:38520662 original size:100 final size:103
Alignment explanation
Indices: 38520485--38520734 Score: 371
Period size: 100 Copynumber: 2.4 Consensus size: 103
38520475 TGATAAAAAC
** *
38520485 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
**
38520550 TCCCAGACATGGTCTTATGGGGGACCTCTC-ATCTC-GG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
*
38520587 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
38520651 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTC-AGG
* *
38520692 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38520735 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
100 51 0.38
101 36 0.27
103 5 0.04
105 2 0.01
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAGG
Found at i:38525920 original size:100 final size:104
Alignment explanation
Indices: 38525740--38525989 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 104
38525730 TGATAAAAAC
** * *
38525740 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGATGCCCATGCCATG
*
38525805 TCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-A-G
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAAGG
* *
38525842 -TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
38525906 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
66 CCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTCAAGG
* *
38525947 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38525990 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 35 0.27
103 5 0.04
104 1 0.01
105 1 0.01
106 39 0.30
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.25
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTCAAGG
Found at i:38525950 original size:56 final size:51
Alignment explanation
Indices: 38525740--38525989 Score: 299
Period size: 50 Copynumber: 4.8 Consensus size: 51
38525730 TGATAAAAAC
* * ** *
38525740 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTC-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCAG
* * *
38525791 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
* * *
38525842 -TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTC-G
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
*
38525891 ATGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTCAAGG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC-A-G
* *
38525947 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
38525990 TTACCCAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.53
51 34 0.20
53 5 0.03
56 41 0.24
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.25
Consensus pattern (51 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
Found at i:38536965 original size:24 final size:24
Alignment explanation
Indices: 38536920--38536965 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
38536910 TTCTCTTTTG
*
38536920 TACATCTATTTTTTTTCTCGAGTA
1 TACATCTATTTTTTTTCACGAGTA
*
38536944 TACATGCTCTTTTTTTT-ACGAG
1 TACAT-CTATTTTTTTTCACGAG
38536966 CATTTTGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (24 bp):
TACATCTATTTTTTTTCACGAGTA
Found at i:38541367 original size:16 final size:16
Alignment explanation
Indices: 38541326--38541368 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
38541316 AAAGTTGATA
*
38541326 ATAATTAATATACATT
1 ATAATTAATATAAATT
*
38541342 ATAATAAATATAAA-T
1 ATAATTAATATAAATT
38541357 ATATATTAATAT
1 ATA-ATTAATAT
38541369 TATCACCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTAATATAAATT
Found at i:38557516 original size:149 final size:149
Alignment explanation
Indices: 38557246--38557542 Score: 486
Period size: 149 Copynumber: 2.0 Consensus size: 149
38557236 ATTTACAGAA
* * *
38557246 ACCTCAAGAAAGGACCAACCTAAATGACCATACTGTATGTGGTTAATGACTGCATCGAATCGAGG
1 ACCTCAAGAAAGGACCAACCTAAATGACCATACTGTATATGGTCAATGACTGCATCGAATCAAGG
* * * *
38557311 GATAGAAGTAGTCAATACGAGCTGAAGTGAAATAGATGCAGTCTGAGTGCACCTAAAACATTAAC
66 GAGAGAAGCAGTCAACACGAGCTGAAGTGAAATAGATGCAGTCTAAGTGCACCTAAAACATTAAC
38557376 TAAACATGAAGATCAAATG
131 TAAACATGAAGATCAAATG
* * *
38557395 ACCTCAAGAAAGGACCAACCTAAATGACCATACTGTATATGGTCAATGACTGGATCGGATTAAGG
1 ACCTCAAGAAAGGACCAACCTAAATGACCATACTGTATATGGTCAATGACTGCATCGAATCAAGG
* *
38557460 GAGAGAAGCAGTCAACACGAGCTGAAGTGAAATAGGTGCAGTCTAAGTGCACCTAAAACATTGAC
66 GAGAGAAGCAGTCAACACGAGCTGAAGTGAAATAGATGCAGTCTAAGTGCACCTAAAACATTAAC
38557525 TAAACATGAAGATCAAAT
131 TAAACATGAAGATCAAAT
38557543 AAGCCAATTA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
149 136 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (149 bp):
ACCTCAAGAAAGGACCAACCTAAATGACCATACTGTATATGGTCAATGACTGCATCGAATCAAGG
GAGAGAAGCAGTCAACACGAGCTGAAGTGAAATAGATGCAGTCTAAGTGCACCTAAAACATTAAC
TAAACATGAAGATCAAATG
Found at i:38558671 original size:54 final size:54
Alignment explanation
Indices: 38558603--38558743 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 54
38558593 ATCGAACAAA
** * *
38558603 GGGACACACAGCTGTGTCCCAGCCCATGT-CTCA-ACCCATGTAACTCACTGAGTT
1 GGGACACATGGCTGTGTCACAGCCCATGTGC-CAGA-CCATGTAACTCACTGAGCT
* * *
38558657 GGGACACATGGCTGTGTCACAGGCCGTGTGCCAGACCGTGTAACTCACTGAGCT
1 GGGACACATGGCTGTGTCACAGCCCATGTGCCAGACCATGTAACTCACTGAGCT
* * * * * *
38558711 AGGTCACATGGCCGTGTCGCAGGCCGTGTGCCA
1 GGGACACATGGCTGTGTCACAGCCCATGTGCCA
38558744 AACTGTGTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
54 72 0.97
55 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.28, T:0.21
Consensus pattern (54 bp):
GGGACACATGGCTGTGTCACAGCCCATGTGCCAGACCATGTAACTCACTGAGCT
Found at i:38558752 original size:54 final size:54
Alignment explanation
Indices: 38558641--38558754 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
38558631 TCTCAACCCA
* * * *
38558641 TGTAACTCACTGAGTTGGGACACATGGCTGTGTCACAGGCCGTGTGCCAGACCG
1 TGTAACTCACTGAGCTAGGACACATGGCCGTGTCACAGGCCGTGTGCCAAACCG
* * *
38558695 TGTAACTCACTGAGCTAGGTCACATGGCCGTGTCGCAGGCCGTGTGCCAAACTG
1 TGTAACTCACTGAGCTAGGACACATGGCCGTGTCACAGGCCGTGTGCCAAACCG
38558749 TGTAAC
1 TGTAAC
38558755 ACTCTAACTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (54 bp):
TGTAACTCACTGAGCTAGGACACATGGCCGTGTCACAGGCCGTGTGCCAAACCG
Found at i:38564102 original size:19 final size:20
Alignment explanation
Indices: 38564063--38564103 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
38564053 AAGCCAAAAC
* *
38564063 AGCAAGAACTAACTTAAATA
1 AGCAAGAAATAACTAAAATA
38564083 AGCAAGAAATAA-TAAAATA
1 AGCAAGAAATAACTAAAATA
38564102 AG
1 AG
38564104 GATAGAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.17
Consensus pattern (20 bp):
AGCAAGAAATAACTAAAATA
Found at i:38581968 original size:15 final size:15
Alignment explanation
Indices: 38581950--38581979 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38581940 AAACATTCAA
38581950 ACTTTGTGGATTCGC
1 ACTTTGTGGATTCGC
38581965 ACTTTGTGGATTCGC
1 ACTTTGTGGATTCGC
38581980 GATTAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (15 bp):
ACTTTGTGGATTCGC
Found at i:38592638 original size:54 final size:54
Alignment explanation
Indices: 38592574--38592684 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
38592564 CAAAAGTGTT
38592574 ATTTTGCAAGAGTATGAATTTTGGACTGAATTGAATAGTATGAATATTAAATGG
1 ATTTTGCAAGAGTATGAATTTTGGACTGAATTGAATAGTATGAATATTAAATGG
38592628 ATTTTGCAAGAGTATGAATTTTGGACTGAATTGAATAGTATGAATATTAAATGG
1 ATTTTGCAAGAGTATGAATTTTGGACTGAATTGAATAGTATGAATATTAAATGG
38592682 ATT
1 ATT
38592685 GAATTTGCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (54 bp):
ATTTTGCAAGAGTATGAATTTTGGACTGAATTGAATAGTATGAATATTAAATGG
Found at i:38592672 original size:26 final size:26
Alignment explanation
Indices: 38592584--38592672 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 26
38592574 ATTTTGCAAG
38592584 AGTATGAATTTTGGACTGAATTGAAT
1 AGTATGAATTTTGGACTGAATTGAAT
* * * * *
38592610 AGTATGAATATT-AAATGGATTTTGCAAG
1 AGTATGAATTTTGGACT-GA-ATTG-AAT
38592638 AGTATGAATTTTGGACTGAATTGAAT
1 AGTATGAATTTTGGACTGAATTGAAT
38592664 AGTATGAAT
1 AGTATGAAT
38592673 ATTAAATGGA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.04
26 24 0.49
27 6 0.12
28 15 0.31
29 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (26 bp):
AGTATGAATTTTGGACTGAATTGAAT
Found at i:38594135 original size:12 final size:12
Alignment explanation
Indices: 38594118--38594143 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38594108 GTAGTTACAT
38594118 GGCCTAGCACAC
1 GGCCTAGCACAC
38594130 GGCCTAGCACAC
1 GGCCTAGCACAC
38594142 GG
1 GG
38594144 GCTCGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:38607627 original size:50 final size:51
Alignment explanation
Indices: 38607565--38607688 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 51
38607555 CAATGCCTTA
* * * *
38607565 TCCCAGATATGGTCTTACATGGGAG-TTCTCATAACGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGACTCTCATAACGGTGCCAACGCCATG
* ***
38607615 TCCTAGACATGGTCTT--ATGGGAGACCTCTCATCTTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGA-CTCTCATAACGGTGCCAACGCCATG
38607665 TCCCAGACATGGTCTTACATGGGA
1 TCCCAGACATGGTCTTACATGGGA
38607689 CCTCTTTCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 7 0.11
50 48 0.79
52 6 0.10
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (51 bp):
TCCCAGACATGGTCTTACATGGGAGACTCTCATAACGGTGCCAACGCCATG
Found at i:38610231 original size:46 final size:46
Alignment explanation
Indices: 38610175--38610305 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
38610165 AGTTTATAAT
* *
38610175 TTATTATTTATAAATAAATTTAGTATTATAATTTTGTGTATAATGA
1 TTATGATTTATAAATAAATTTAGTACTATAATTTTGTGTATAATGA
* * *
38610221 TTATGATTTATGAATAAATTTATTACTATAATTTTGTGTATAATGT
1 TTATGATTTATAAATAAATTTAGTACTATAATTTTGTGTATAATGA
* * *
38610267 TTATGATTTATAAATAAATTTATTGCTATAATTTAGTGT
1 TTATGATTTATAAATAAATTTAGTACTATAATTTTGTGT
38610306 TTTTCTTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (46 bp):
TTATGATTTATAAATAAATTTAGTACTATAATTTTGTGTATAATGA
Found at i:38612295 original size:41 final size:42
Alignment explanation
Indices: 38612232--38612322 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
38612222 TACATGTAAG
* * *
38612232 CATGTCACTAATTGTTACCGTACATACTGATTGCATAT-AAT
1 CATGCCACTAATTATTACCGTACATACTGATTGCATATAAAC
* *
38612273 CATGCCACTAATTATTATCGTACATACTGATTGCATGTAAAC
1 CATGCCACTAATTATTACCGTACATACTGATTGCATATAAAC
38612315 CATGCCAC
1 CATGCCAC
38612323 GATACTAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 34 0.77
42 10 0.23
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (42 bp):
CATGCCACTAATTATTACCGTACATACTGATTGCATATAAAC
Found at i:38613571 original size:25 final size:24
Alignment explanation
Indices: 38613489--38613951 Score: 192
Period size: 23 Copynumber: 19.6 Consensus size: 24
38613479 ATCTACCCTG
* *
38613489 TTTGGACAGC-TCTTTTACATC-AA
1 TTTGGACAGCAT-TTATACACCAAA
*
38613512 TTTGGACAGCATTTATATACCAAA
1 TTTGGACAGCATTTATACACCAAA
* *
38613536 -CTAGACAGCATTT-TCACACCAAAA
1 TTTGGACAGCATTTAT-ACACC-AAA
* *
38613560 TTTGGACAGCATATATACAAC-AA
1 TTTGGACAGCATTTATACACCAAA
* * * *
38613583 TTTGGGCACCATATATACAACAAA
1 TTTGGACAGCATTTATACACCAAA
* *
38613607 -TT-GAGCAGCATTTTTACACTAAAA
1 TTTGGA-CAGCATTTATACAC-CAAA
* * * *
38613631 ATTGGACAGCATATGTACAACAAA
1 TTTGGACAGCATTTATACACCAAA
* * *
38613655 -TTGGGCAGCATATATATACCAAA
1 TTTGGACAGCATTTATACACCAAA
* *
38613678 -TT-GAGCAGCATTTTTACATCAAA
1 TTTGGA-CAGCATTTATACACCAAA
* * *
38613701 ATTGGACAGCATATATACAAC-AA
1 TTTGGACAGCATTTATACACCAAA
** ** *
38613724 TTTGGGTAGCATAAATACAACAAA
1 TTTGGACAGCATTTATACACCAAA
*
38613748 -TT-GAGCAGCATTTTTACACCAAAA
1 TTTGGA-CAGCATTTATACACC-AAA
* * * * *
38613772 ATTAGACAACATATATACAACAAA
1 TTTGGACAGCATTTATACACCAAA
** * *
38613796 -TTGGGTAGCATATATATACCAAA
1 TTTGGACAGCATTTATACACCAAA
* *
38613819 -TT-GAGCAGCATTTTTACATCAAA
1 TTTGGA-CAGCATTTATACACCAAA
* * *
38613842 ATTGGACAGCATATATACAAC-AA
1 TTTGGACAGCATTTATACACCAAA
* ** *
38613865 TTTGGATAGCATAAATACAACAAA
1 TTTGGACAGCATTTATACACCAAA
*
38613889 -TT-GAGCAGCATTTTTACACCAAAAA
1 TTTGGA-CAGCATTTATACACC--AAA
* * *
38613914 TTTGGACAGCATATATATAAC-AA
1 TTTGGACAGCATTTATACACCAAA
*
38613937 TTTGGGCAGCATTTA
1 TTTGGACAGCATTTA
38613952 AGCATCAAAA
Statistics
Matches: 335, Mismatches: 77, Indels: 56
0.72 0.16 0.12
Matches are distributed among these distances:
22 7 0.02
23 209 0.62
24 52 0.16
25 47 0.14
26 18 0.05
27 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (24 bp):
TTTGGACAGCATTTATACACCAAA
Found at i:38613595 original size:23 final size:23
Alignment explanation
Indices: 38613561--38613948 Score: 290
Period size: 23 Copynumber: 16.5 Consensus size: 23
38613551 ACACCAAAAT
* *
38613561 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
*
38613584 TTGGGCACCATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
38613607 TTGAGCAGCATTTTTACACTAAAAA
1 TTGGGCAGCATATATACA--ACAAA
* *
38613632 TTGGACAGCATATGTACAACAAA
1 TTGGGCAGCATATATACAACAAA
* *
38613655 TTGGGCAGCATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
38613678 TTGAGCAGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
38613702 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* *
38613725 TTGGGTAGCATAAATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
38613748 TTGAGCAGCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
* * *
38613773 TTAGACAACATATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * *
38613796 TTGGGTAGCATATATATACCAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
38613819 TTGAGCAGCATTTTTACATCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
38613843 TTGGACAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
** *
38613866 TTGGATAGCATAAATACAACAAA
1 TTGGGCAGCATATATACAACAAA
* * * *
38613889 TTGAGCAGCATTTTTACACCAAAAA
1 TTGGGCAGCATATATACA--ACAAA
* * *
38613914 TTTGGACAGCATATATATAACAAT
1 -TTGGGCAGCATATATACAACAAA
38613938 TTGGGCAGCAT
1 TTGGGCAGCAT
38613949 TTAAGCATCA
Statistics
Matches: 275, Mismatches: 81, Indels: 18
0.74 0.22 0.05
Matches are distributed among these distances:
23 185 0.67
24 39 0.14
25 38 0.14
26 13 0.05
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:38613616 original size:71 final size:70
Alignment explanation
Indices: 38613504--38613948 Score: 586
Period size: 71 Copynumber: 6.3 Consensus size: 70
38613494 ACAGCTCTTT
* * * * * * *
38613504 TACATCAATTTGGACAGCATTTATATACCAAACT-AGACAGCATTTTCACACCAAAATTTGGACA
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAG-CAGCATTTTTACACCAAAA-TTGGACA
38613568 GCATATA
64 GCATATA
* *
38613575 TACAACAATTTGGGCACCATATATACAACAAATTGAGCAGCATTTTTACACTAAAAATTGGACAG
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACAC-CAAAATTGGACAG
*
38613640 CATATG
65 CATATA
* * * *
38613646 TACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAATTGGACAGC
38613711 ATATA
66 ATATA
* * * *
38613716 TACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTAGACAA
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACACC-AAAATTGGACAG
38613781 CATATA
65 CATATA
* * * * *
38613787 TACAACAAATTGGGTAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAATTGGACAGC
38613852 ATATA
66 ATATA
** *
38613857 TACAACAATTTGGATAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTTGGACA
1 TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACACC-AAAA-TTGGACA
38613922 GCATATA
64 GCATATA
*
38613929 TATAACAATTTGGGCAGCAT
1 TACAACAATTTGGGCAGCAT
38613949 TTAAGCATCA
Statistics
Matches: 328, Mismatches: 41, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
70 125 0.38
71 166 0.51
72 37 0.11
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (70 bp):
TACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTTTACACCAAAATTGGACAGC
ATATA
Found at i:38613751 original size:141 final size:141
Alignment explanation
Indices: 38613504--38613948 Score: 694
Period size: 141 Copynumber: 3.1 Consensus size: 141
38613494 ACAGCTCTTT
* * * * * * *
38613504 TACATCAATTTGGACAGCATTTATATACCAAACT-AGACAGCATTTTCACACCAAAATTTGGACA
1 TACAACAAATTGGGCAGCATATATATACCAAATTGAG-CAGCATTTTTACATCAAAA-TTGGACA
* * * *
38613568 GCATATATACAACAATTTGGGCACCATATATACAACAAATTGAGCAGCATTTTTACACTAAAAAT
64 GCATATATACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAAT
*
38613633 TGGACAGCATATG
129 TGGACAGCATATA
38613646 TACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
1 TACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
*
38613711 ATATATACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTA
66 ATATATACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTG
*
38613776 GACAACATATA
131 GACAGCATATA
*
38613787 TACAACAAATTGGGTAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
1 TACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
*
38613852 ATATATACAACAATTTGGATAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTT
66 ATATATACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAA-TT
38613917 GGACAGCATATA
130 GGACAGCATATA
* *
38613929 TATAACAATTTGGGCAGCAT
1 TACAACAAATTGGGCAGCAT
38613949 TTAAGCATCA
Statistics
Matches: 280, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
141 203 0.73
142 75 0.27
143 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (141 bp):
TACAACAAATTGGGCAGCATATATATACCAAATTGAGCAGCATTTTTACATCAAAATTGGACAGC
ATATATACAACAATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAAAATTG
GACAGCATATA
Found at i:38613961 original size:49 final size:49
Alignment explanation
Indices: 38613581--38613950 Score: 168
Period size: 48 Copynumber: 7.8 Consensus size: 49
38613571 TATATACAAC
* * * * *
38613581 AATTTGGGCACCATATATACAACAAATTGAGCAGCATTTTTACACTAAA
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTAACACCAAA
** * * *
38613630 AA-TTGGACAGCATATGTACAACAAATTGGGCAGCA-TATATATACC--A
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTA-ACACCAAA
*** * * * *
38613676 AA-TT-GAGCAGCATTTTTACATCAAAATTG-GACAGCA-TAT-ATA-CAAC
1 AATTTGGA-CAGCATAAATACAAC-AAATTGAG-CAGCATTTTAACACCAAA
** *
38613722 AATTTGGGTAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAA
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTAACACCAAA
* * * * * * *
38613771 AA-TTAGACAACATATATACAACAAATTGGGTAGCA-TATATATACC--A
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTA-ACACCAAA
*** * * * *
38613817 AA-TT-GAGCAGCATTTTTACATCAAAATTG-GACAGCA-TAT-ATA-CAAC
1 AATTTGGA-CAGCATAAATACAAC-AAATTGAG-CAGCATTTTAACACCAAA
* *
38613863 AATTTGGATAGCATAAATACAACAAATTGAGCAGCATTTTTACACCAAA
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTAACACCAAA
* * * *
38613912 AATTTGGACAGCATATATATAACAATTTGGGCAGCATTT
1 AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTT
38613951 AAGCATCAAA
Statistics
Matches: 247, Mismatches: 50, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
44 2 0.01
45 10 0.04
46 61 0.25
47 61 0.25
48 69 0.28
49 44 0.18
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (49 bp):
AATTTGGACAGCATAAATACAACAAATTGAGCAGCATTTTAACACCAAA
Found at i:38614706 original size:28 final size:28
Alignment explanation
Indices: 38614674--38614771 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
38614664 TAATAAGTTT
*
38614674 GCACACCTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
38614702 GCACACTTAGTGCTTAATAATCAATCTC
1 GCACACTTAGTGCTTAATAATCAATCTC
* * * * * *
38614730 GCATACTTAGTGATTTACAATTAAACTC
1 GCACACTTAGTGCTTAATAATCAATCTC
38614758 GCACACTTAGTGCT
1 GCACACTTAGTGCT
38614772 AATCTCATTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTTAATAATCAATCTC
Found at i:38616382 original size:235 final size:234
Alignment explanation
Indices: 38615946--38616383 Score: 716
Period size: 235 Copynumber: 1.9 Consensus size: 234
38615936 AACTGTTACA
* *
38615946 GAGGATTGGGTGGAGTCCACCACCCAATAAAGAACACTCATTTTCAGTGAGTAGGGAGTTAATTT
1 GAGGATTGGGTGGAGTCCACCACCCAATAAAGAACACTCAGTTTCAGTGAGAAGGGAGTTAATTT
* *
38616011 ATATTTATGTTATTTTACATTTATTACCTCATGAGATATGGTTTGATTATGGTGCTGTGAAGACA
66 ATATTTATGTTATTTTACATTTATTACCTCATGAGATATGGTTTAATTATGGTGCAGTGAAGACA
* * * *
38616076 CTCAATGAGTTCATTTGAAATTTCAAGAGTTTGTCTAATGTTCGTAGGATTTGCAAGGTTGATCG
131 CTCAATAAGTTCATTTGAAATTTCAAGAGTTTGTCTAATGTTCGCAAGATCTGCAAGGTTGATCG
38616141 AGGACTCAAAACAATATTTATAGTAAGCCGAGAAGCTTT
196 AGGACTCAAAACAATATTTATAGTAAGCCGAGAAGCTTT
*
38616180 GAGGATTGGGTGGAGTCCACCGCCCTAATAAAGAACACTC-GTTTCAAGTGAGAAGGGAGTTAAT
1 GAGGATTGGGTGGAGTCCACCACCC-AATAAAGAACACTCAGTTTC-AGTGAGAAGGGAGTTAAT
*
38616244 TTATGTTTATGTTATTTTACATTTATTACCTCATGAGATATGGTTTAATTATGGTGCAGTGAAGA
64 TTATATTTATGTTATTTTACATTTATTACCTCATGAGATATGGTTTAATTATGGTGCAGTGAAGA
* * * *
38616309 GACTCAATAAGTTCATTTTAACTTTCAAGAGTTTGTCTGATGTTCGCAAGATCTGCAAGGTTGAT
129 CACTCAATAAGTTCATTTGAAATTTCAAGAGTTTGTCTAATGTTCGCAAGATCTGCAAGGTTGAT
*
38616374 TGAGGACTCA
194 CGAGGACTCA
38616384 GAGGAGGGAC
Statistics
Matches: 187, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
234 28 0.15
235 159 0.85
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (234 bp):
GAGGATTGGGTGGAGTCCACCACCCAATAAAGAACACTCAGTTTCAGTGAGAAGGGAGTTAATTT
ATATTTATGTTATTTTACATTTATTACCTCATGAGATATGGTTTAATTATGGTGCAGTGAAGACA
CTCAATAAGTTCATTTGAAATTTCAAGAGTTTGTCTAATGTTCGCAAGATCTGCAAGGTTGATCG
AGGACTCAAAACAATATTTATAGTAAGCCGAGAAGCTTT
Found at i:38619989 original size:13 final size:13
Alignment explanation
Indices: 38619971--38620005 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
38619961 AGGGGTGAAG
*
38619971 GAGAAAGGACAGA
1 GAGAAAAGACAGA
38619984 GAGAAAAGACAGA
1 GAGAAAAGACAGA
38619997 GAGAAAAGA
1 GAGAAAAGA
38620006 GGCTAGTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.60, C:0.06, G:0.34, T:0.00
Consensus pattern (13 bp):
GAGAAAAGACAGA
Found at i:38621362 original size:33 final size:34
Alignment explanation
Indices: 38621325--38621396 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
38621315 GAGTTAGTTT
*
38621325 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
38621358 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
38621392 ATTAA
1 ATTAA
38621397 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:38624503 original size:27 final size:27
Alignment explanation
Indices: 38624489--38624777 Score: 330
Period size: 27 Copynumber: 10.7 Consensus size: 27
38624479 ACTGAACTAC
*
38624489 CCCT-AAAGGGTAAAATGACCAAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* * *
38624515 CCTTCGAAGGGTAAAATGACTGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* *
38624542 CCCTCGAAGGGTAAAATGACCAAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* *
38624569 TCCTCGAAGGGTAAAATGACCGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* * * **
38624596 CCCTCGAAGGATAAAATAATTGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* * * *
38624623 CCCTCAAAGGTTAAAGTGACCAAAATG
1 CCCTCAAAGGGTAAAATGACCGAAATA
38624650 CCC-CTAAAGGGTAAAATGACCGAAATA
1 CCCTC-AAAGGGTAAAATGACCGAAATA
* *
38624677 CCCCCAAAGGGTAAAATGATCGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* *
38624704 CCCTCGAAGGGTAAAATGATCGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
*
38624731 CCCCCAAAGGGTAAAATGACCGAAATA
1 CCCTCAAAGGGTAAAATGACCGAAATA
* * *
38624758 CCCCCATAGTGTAAAATGAC
1 CCCTCAAAGGGTAAAATGAC
38624778 TGTTATACTT
Statistics
Matches: 226, Mismatches: 34, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 4 0.02
27 221 0.98
28 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
CCCTCAAAGGGTAAAATGACCGAAATA
Found at i:38624611 original size:81 final size:80
Alignment explanation
Indices: 38624486--38624760 Score: 370
Period size: 81 Copynumber: 3.4 Consensus size: 80
38624476 ATAACTGAAC
* * *
38624486 TACCCCTAAAGGGTAAAATGACCAAAATACCTTCGAAGGGTAAAATGACTGAAATACCCTCGAAG
1 TACCCCCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGA-TGAAATACCCTCGAAG
38624551 GGTAAAATGACCAAAA
65 GGTAAAATGACCAAAA
* * * * * *
38624567 TATCCTCGAAGGGTAAAATGACCGAAATACCCTCGAAGGATAAAATAATTGAAATACCCTCAAAG
1 TACCCCCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGA-TGAAATACCCTCGAAG
* *
38624632 GTTAAAGTGACCAAAA
65 GGTAAAATGACCAAAA
* * * *
38624648 TGCCCCTAAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCGAAATACCCTCGAAG
1 TACCCCCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGAT-GAAATACCCTCGAAG
* *
38624713 GGTAAAATGATCGAAA
65 GGTAAAATGACCAAAA
38624729 TACCCCCAAAGGGTAAAATGACCGAAATACCC
1 TACCCCCAAAGGGTAAAATGACCGAAATACCC
38624761 CCATAGTGTA
Statistics
Matches: 165, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 1 0.01
81 164 0.99
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (80 bp):
TACCCCCAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATGAAATACCCTCGAAGG
GTAAAATGACCAAAA
Found at i:38625001 original size:26 final size:26
Alignment explanation
Indices: 38624972--38625023 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
38624962 GATAGCCTTA
* *
38624972 CTGCGTTACTGTTCCTGGCAGCTTTG
1 CTGCGTTACTATTACTGGCAGCTTTG
*
38624998 CTGCGTTATTATTACTGGCAGCTTTG
1 CTGCGTTACTATTACTGGCAGCTTTG
38625024 ATGTGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (26 bp):
CTGCGTTACTATTACTGGCAGCTTTG
Found at i:38625178 original size:28 final size:28
Alignment explanation
Indices: 38625138--38625223 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
38625128 CATTCTACTG
*
38625138 ATTACCGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* *
38625166 ATTATTGTATTGGGCTAACGCCCACACACT
1 ATTACTGTATTGGGCTAA-GGCC-CACACT
* *
38625196 GTTACTGTAATGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
38625224 GTACTGATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
28 22 0.45
29 6 0.12
30 21 0.43
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:38625244 original size:33 final size:31
Alignment explanation
Indices: 38625132--38625252 Score: 108
Period size: 28 Copynumber: 3.9 Consensus size: 31
38625122 TTACTGCATT
* *
38625132 CTACTGATTACCGTATTGGGCTAAGGCCCACA
1 CTACTGA-TACTGTATAGGGCTAAGGCCCACA
* * *
38625164 CTA-T--TATTGTATTGGGCTAACGCCCACA
1 CTACTGATACTGTATAGGGCTAAGGCCCACA
*
38625192 C-ACTGTTACTGTA-ATGGGCTAAGGCCCACA
1 CTACTGATACTGTATA-GGGCTAAGGCCCACA
*
38625222 CTGTACTGATACTGTATAGGGCTCAGGCCCA
1 C--TACTGATACTGTATAGGGCTAAGGCCCA
38625253 GACTGATTCT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.01
28 23 0.32
30 21 0.29
31 1 0.01
32 3 0.04
33 23 0.32
34 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (31 bp):
CTACTGATACTGTATAGGGCTAAGGCCCACA
Found at i:38630622 original size:20 final size:20
Alignment explanation
Indices: 38630597--38630636 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38630587 AAACTTGGGT
38630597 TTCAAGGAACGTTTCACTAA
1 TTCAAGGAACGTTTCACTAA
38630617 TTCAAGGAACGTTTCACTAA
1 TTCAAGGAACGTTTCACTAA
38630637 CACTTAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
TTCAAGGAACGTTTCACTAA
Found at i:38631138 original size:15 final size:15
Alignment explanation
Indices: 38631105--38631138 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38631095 ATACCTCACA
*
38631105 CACCTTGTTATCAAT
1 CACCTTGTTATCAAG
*
38631120 CACCTTGTTATTAAG
1 CACCTTGTTATCAAG
38631135 CACC
1 CACC
38631139 AATACACTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.35
Consensus pattern (15 bp):
CACCTTGTTATCAAG
Found at i:38632665 original size:162 final size:161
Alignment explanation
Indices: 38632386--38632709 Score: 569
Period size: 162 Copynumber: 2.0 Consensus size: 161
38632376 AAAGATACCT
38632386 TACTGGATTTGTACATCAAGTCGAAAACTCGATTCCTCACAAAATCGATCTCTCCAGCCCTCCTA
1 TACTGGATTTGTACATCAAGTCGAAAACTCGATTCCTCACAAAATCGATCTCTCCAGCCCTCCTA
* *
38632451 AACAGTTTCAATCATCAATATTAGACTAAATACACTTATACTAAGCATCAATTTCATCTTTAAAT
66 AACACTTTCAATCATCAATATTAGACTAAATACACTTATACTAAGCATCAATTTCATATTTAAAT
38632516 CAATTTCATAAAATTCTAGAAAATCGATTCA
131 CAATTTCATAAAATTCTAGAAAATCGATTCA
* * *
38632547 TACTGGATTTGTAACATCAAGTCGAAAACTTGATTCCTCACAAAATCGATCTTTCTAGCCCTCCT
1 TACTGGATTTGT-ACATCAAGTCGAAAACTCGATTCCTCACAAAATCGATCTCTCCAGCCCTCCT
*
38632612 AAACACTTTCAATCATCAAT-TCTAGACTAAATACACTTCTACTAAGCATCAATTTCATATTTAA
65 AAACACTTTCAATCATCAATAT-TAGACTAAATACACTTATACTAAGCATCAATTTCATATTTAA
38632676 ATCAATTTCATAAAATTCTAGAAAATCGATTCA
129 ATCAATTTCATAAAATTCTAGAAAATCGATTCA
38632709 T
1 T
38632710 GAAGATGATG
Statistics
Matches: 155, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
161 13 0.08
162 142 0.92
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.33
Consensus pattern (161 bp):
TACTGGATTTGTACATCAAGTCGAAAACTCGATTCCTCACAAAATCGATCTCTCCAGCCCTCCTA
AACACTTTCAATCATCAATATTAGACTAAATACACTTATACTAAGCATCAATTTCATATTTAAAT
CAATTTCATAAAATTCTAGAAAATCGATTCA
Found at i:38634539 original size:41 final size:41
Alignment explanation
Indices: 38634493--38634587 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
38634483 TACTGTGTAT
* * *
38634493 TGATTGCATGTAAGCATGTCACTGATTATTACCGTACATAC
1 TGATTGCATGTAAGCATGCCACTAATTATTACCATACATAC
* *
38634534 TGATTGCATGTAAGCATGCCACTAATTGTTACCATAGATAC
1 TGATTGCATGTAAGCATGCCACTAATTATTACCATACATAC
*
38634575 TGATTACATGTAA
1 TGATTGCATGTAA
38634588 AGTATGACAC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
TGATTGCATGTAAGCATGCCACTAATTATTACCATACATAC
Found at i:38635930 original size:51 final size:51
Alignment explanation
Indices: 38635854--38635962 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
38635844 GCAATAGCAA
* *
38635854 AGAGGGAGAGAGAGAATGTCAGTGGTGAGGGAGGTCTAGTGTAGGAAGGGG
1 AGAGGGAGAGAGAAAATGTCAGTGGTGAGGGAGGTCTAGTGGAGGAAGGGG
* * *
38635905 AGAGGGAGAGAGAAAATGAT-GGTGGTGAGGGAGGTCTGGTGGGGGAAGGGG
1 AGAGGGAGAGAGAAAATG-TCAGTGGTGAGGGAGGTCTAGTGGAGGAAGGGG
*
38635956 ACAGGGA
1 AGAGGGA
38635963 TAAGGGTGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.53, T:0.14
Consensus pattern (51 bp):
AGAGGGAGAGAGAAAATGTCAGTGGTGAGGGAGGTCTAGTGGAGGAAGGGG
Found at i:38636056 original size:19 final size:19
Alignment explanation
Indices: 38636027--38636146 Score: 59
Period size: 19 Copynumber: 6.3 Consensus size: 19
38636017 AATTTAAATT
* *
38636027 TATTATTATATTTTTTGAA
1 TATTTTTATATTTTTTAAA
* *
38636046 TTTTTTTATATATTTTAAA
1 TATTTTTATATTTTTTAAA
* * **
38636065 TATTTATATATTATTT-CT
1 TATTTTTATATTTTTTAAA
***
38636083 TATCAATA-ATTTTTT--A
1 TATTTTTATATTTTTTAAA
38636099 TATTTTTATATTTTTTAAAA
1 TATTTTTATATTTTTT-AAA
*
38636119 TTTATTATTATATTTTTTGAAAA
1 --TATTTTTATATTTTTT--AAA
38636142 TATTT
1 TATTT
38636147 ATGTAATTTT
Statistics
Matches: 75, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
16 5 0.07
17 13 0.17
18 6 0.08
19 27 0.36
20 1 0.01
21 4 0.05
22 15 0.20
23 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTTTATATTTTTTAAA
Found at i:38636124 original size:22 final size:23
Alignment explanation
Indices: 38636099--38636142 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
38636089 TAATTTTTTA
*
38636099 TATTTTTATATTTTTT-AAAATT
1 TATTATTATATTTTTTGAAAATT
38636121 TATTATTATATTTTTTGAAAAT
1 TATTATTATATTTTTTGAAAAT
38636143 ATTTATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTTTTGAAAATT
Found at i:38636148 original size:22 final size:21
Alignment explanation
Indices: 38636098--38636156 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
38636088 ATAATTTTTT
38636098 ATATTT-TTATATTTTTTAAA
1 ATATTTATTATATTTTTTAAA
*
38636118 ATTTATTATTATATTTTTTGAAA
1 ATAT-TTATTATATTTTTT-AAA
38636141 ATATTTATGTA-ATTTT
1 ATATTTAT-TATATTTT
38636157 ATATATTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 3 0.09
21 2 0.06
22 20 0.61
23 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (21 bp):
ATATTTATTATATTTTTTAAA
Found at i:38636157 original size:51 final size:53
Alignment explanation
Indices: 38636049--38636164 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 53
38636039 TTTTGAATTT
* *
38636049 TTTTATATATTTTAAATATTTATATATTATTTCTTATCAATAATTTTTTATAT
1 TTTTATATATTTTAAATATTTATATATTATTTCTTATCAATAATTTTATATAA
* * * *
38636102 TTTTATATTTTTTAAA-ATTTAT-TATTATATT-TTTTGAA-AATATTTATGTAA
1 TTTTATATATTTTAAATATTTATATATTAT-TTCTTATCAATAAT-TTTATATAA
38636153 TTTTATATATTT
1 TTTTATATATTT
38636165 GTTAGAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 3 0.06
51 28 0.52
52 8 0.15
53 15 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (53 bp):
TTTTATATATTTTAAATATTTATATATTATTTCTTATCAATAATTTTATATAA
Found at i:38638635 original size:13 final size:13
Alignment explanation
Indices: 38638617--38638643 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38638607 ATTACTTTTT
38638617 AGGTATTTAATAA
1 AGGTATTTAATAA
38638630 AGGTATTTAATAA
1 AGGTATTTAATAA
38638643 A
1 A
38638644 TAGAAAGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
AGGTATTTAATAA
Found at i:38638882 original size:23 final size:23
Alignment explanation
Indices: 38638856--38638904 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
38638846 TATTTTACAT
* *
38638856 TTTCTAACAGAAAATCAATTCTC
1 TTTCTAACACAAAACCAATTCTC
38638879 TTTCTAACACAAAACCAATTCTC
1 TTTCTAACACAAAACCAATTCTC
38638902 TTT
1 TTT
38638905 AATAGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (23 bp):
TTTCTAACACAAAACCAATTCTC
Found at i:38640612 original size:6 final size:6
Alignment explanation
Indices: 38640598--38640637 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
38640588 AAGCGGGGAC
* *
38640598 GGTGAT GGTGGT GGTGGT GGTGAT GGTGAT GGTGAT GGTG
1 GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTG
38640638 TTGAATAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.10, C:0.00, G:0.57, T:0.33
Consensus pattern (6 bp):
GGTGAT
Found at i:38641029 original size:31 final size:31
Alignment explanation
Indices: 38640991--38641052 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
38640981 ATTGTTTCAA
38640991 ATATTGCCAAATATACAATTTATTGATTATG
1 ATATTGCCAAATATACAATTTATTGATTATG
38641022 ATATTGCCAAATATACAATTTATTGATTATG
1 ATATTGCCAAATATACAATTTATTGATTATG
38641053 GTTGGTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (31 bp):
ATATTGCCAAATATACAATTTATTGATTATG
Found at i:38643174 original size:563 final size:551
Alignment explanation
Indices: 38642240--38643729 Score: 1705
Period size: 575 Copynumber: 2.6 Consensus size: 551
38642230 TTTGGTGCCC
* * * * *
38642240 GGTTGACTCATGACACTAACTCAATTAGGGGCTTAAATAGTAGTATAAATATGTATATAAAAAAT
1 GGTTGACTCGTGACACTAACTCAATTA-GGGCTT-AATAATAATATAGATATGTATATAAAAATT
* ** *
38642305 GTTTAAATTATTT-TTTAAAAATAATTTAAAATTATTAAATATAATATTTATATAAATATTTGTT
64 GTTT-AATTTTTTATTTTTAAATAATTTAAAATTATTAAATATAATATTTATGTAAATATTT-TT
* * * ** *
38642369 GGTTAATAGAT---AAAATAAAGTATGATATCAAATGATATTTCATTTTCATTTTCTTACAATCT
127 GGTTAATAGATAAAAAAATTAAGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAAT-T
*
38642431 ATGTAATTATTTTTTTAATTAATAAAAATGAACAAATCCTTGAAATAAATAAACCTTTGAGCCAA
191 ATGT-A--ATTTTTTTAATTAATAAAAATTAAC-AATCCTTGAAATAAATAAACCTTTGAGCCAA
* * *
38642496 ACATAGTA-AAGCAAAAATGCAAGTTAACAATTGTTGATATAAGTTTTGGTGTTAAAGAGGTTTA
252 ACGTA--ACAAGCAAAAATG-AAGTTAATAATTGTTGATACAAGTTTTGGTGTTAAA-AGGTTTA
* ** * ** *
38642560 AGACAGA-TCATACGCTATGTTGAGAGCTATTAATGGTGGTGTGAGATGTTTGGAGAGGTATGAA
313 AGACA-ATTCACACGAGATGTTGAGAGCCATTAACCGTGGCGTGAGATGTTTGGAGAGGTATGAA
* * * * **
38642624 GATAGTTTGAC-AGTTTTGGTAATCTTTAGATTGCTTGGCTGTTATTGAAGATGCAAGGGTTTTA
377 GATACTTTGACAAGTTATGGTAATCCTTAGATTGCTTGGCTCTTATTGAAGATGCAAGGAATTTA
* * * * *
38642688 CATGTAGTAT-TCACGTCAAATTTTTTATTTTTTTAAGTATAAATATTAAAATATCCTCAAACAA
442 CATATAGTATCT-ACATCAAATTTTCTATTGTTTT---T-TAAATA--AAAATATCATCAAACAA
* * *
38642752 TATAATTTATTTTAATTATGAAACGATATTTTCGTAATTT-TTT-T-AATTCA
500 TATAACTTATTTTAATTACGAAACGACATTTTCGTAATTTCTTTATAAATT-A
* * * *
38642802 -GTTGACTCGTGATATTAATTCAATTAGGGACTTAATTAATAATATAGATATGTATATAACAATT
1 GGTTGACTCGTGACACTAACTCAATTAGGG-CTTAA-TAATAATATAGATATGTATATAAAAATT
* *
38642866 GTTTAATTTTTTAATTTTTAAATAATTTAAAATTATTAAATATAATACTTATGTAAATGCTCTTT
64 GTTTAATTTTTT-ATTTTTAAATAATTTAAAATTATTAAATATAATATTTATGTAAAT-AT-TTT
38642931 TGGTTAATAGATAAAAAGAATTAAGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAAC
126 TGGTTAATAGATAAAAA-AATTAAGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAA-
* *
38642996 TTATGT-ATTTGTTTTAATTAATAAAAATTAATAACTCCTTGAAATAAATAAACCTTGGAGCCAA
189 TTATGTAATTT-TTTTAATTAATAAAAATTAACAA-TCCTTGAAATAAATAAACCTTTGAGCCAA
38643060 ACGTAACAAGCAAAAATGAAGGTTAATAATTGTTGATACAAGTTTTGGTGTTAAAAGGTTTAAGA
252 ACGTAACAAGCAAAAATGAA-GTTAATAATTGTTGATACAAGTTTTGGTGTTAAAAGGTTTAAGA
* *
38643125 CAATTCACATGAGACGTTGAGAGCCATTAACCGTGGCGTGAGAATGTTTGGAGAGGTATGAAGAT
316 CAATTCACACGAGATGTTGAGAGCCATTAACCGTGGCGTGAG-ATGTTTGGAGAGGTATGAAGAT
* *
38643190 ACTTTGACAAAGTTATGGTAATCCTTAGATTGCTTGGCTCTTCTTGGAGATGCAAGGAATTTACA
380 ACTTTGAC-AAGTTATGGTAATCCTTAGATTGCTTGGCTCTTATTGAAGATGCAAGGAATTTACA
* * *
38643255 TATAGTATCTACATCAAATTTTCTATTGTTTTTTAAGTAAGAATATCATCAAATAATATAACTTA
444 TATAGTATCTACATCAAATTTTCTATTGTTTTTTAAATAAAAATATCATCAAACAATATAACTTA
*
38643320 TTTTAATTACGAAATGACATTTTCGTAATTTCTTTAACTAAATTA
509 TTTTAATTACGAAACGACATTTTCGTAATTTCTTT-A-TAAATTA
* * * * **
38643365 GTGTTCGATTAACTTGTGACACCAACTCAGTCAGAGGCTTGAATAATAATATAGATACATATATA
1 G-GTT-G----ACTCGTGACACTAACTCAATTAG-GGCTT-AATAATAATATAGATATGTATATA
*
38643430 ATAATTGTTTAACTTTTTTTATTTTTAAATAATTTAAAATTATTAAATATCATATATATTTATGT
58 AAAATTGTTTAA--TTTTTTATTTTTAAATAATTTAAAATTATT-AA-AT-ATA-ATATTTATGT
38643495 AAATATTTTTTGGTTAATAGATAAAAATAATTAAGTATTATATAAAATGATATTTTTGTATTCAT
117 AAATA-TTTTTGGTTAATAGATAAAAA-AATTAAGTATTATATAAAATGATA-TTTTGTATTCAT
* * * *
38643560 TTTCTTACAATTTATATAATATTTTTAATTAATAAAAATTAACATATCCTTAAAATAAATAAAGC
179 TTTCTTACAA-TTATGTAATTTTTTTAATTAATAAAAATTAACA-ATCCTTGAAATAAATAAACC
* *** *
38643625 TTTGAGCCAAATGTAACAAAGCAAAAATGAAGTTAATAATTGCCCATACAAGTTTTGGTGTTAAG
242 TTTGAGCCAAACGTAAC-AAGCAAAAATGAAGTTAATAATTGTTGATACAAGTTTTGGTGTTAAA
38643690 AGGTTTAAGACAATT-AGCACGAGATGTTGA-ATGCCATTAA
306 AGGTTTAAGACAATTCA-CACGAGATGTTGAGA-GCCATTAA
38643730 TGCTGGCACA
Statistics
Matches: 798, Mismatches: 83, Indels: 81
0.83 0.09 0.08
Matches are distributed among these distances:
559 50 0.06
560 15 0.02
561 58 0.07
562 85 0.11
563 94 0.12
564 57 0.07
565 77 0.10
566 4 0.01
567 45 0.06
568 1 0.00
570 50 0.06
571 28 0.04
572 8 0.01
573 2 0.00
574 49 0.06
575 158 0.20
576 17 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (551 bp):
GGTTGACTCGTGACACTAACTCAATTAGGGCTTAATAATAATATAGATATGTATATAAAAATTGT
TTAATTTTTTATTTTTAAATAATTTAAAATTATTAAATATAATATTTATGTAAATATTTTTGGTT
AATAGATAAAAAAATTAAGTATTATATAAAATGATATTTTGTATTCATTTTCTTACAATTATGTA
ATTTTTTTAATTAATAAAAATTAACAATCCTTGAAATAAATAAACCTTTGAGCCAAACGTAACAA
GCAAAAATGAAGTTAATAATTGTTGATACAAGTTTTGGTGTTAAAAGGTTTAAGACAATTCACAC
GAGATGTTGAGAGCCATTAACCGTGGCGTGAGATGTTTGGAGAGGTATGAAGATACTTTGACAAG
TTATGGTAATCCTTAGATTGCTTGGCTCTTATTGAAGATGCAAGGAATTTACATATAGTATCTAC
ATCAAATTTTCTATTGTTTTTTAAATAAAAATATCATCAAACAATATAACTTATTTTAATTACGA
AACGACATTTTCGTAATTTCTTTATAAATTA
Found at i:38645428 original size:16 final size:16
Alignment explanation
Indices: 38645407--38645438 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38645397 ATAAGTAAGC
38645407 ATAAAGCTTAGCAAGT
1 ATAAAGCTTAGCAAGT
*
38645423 ATAAAGCTTAGTAAGT
1 ATAAAGCTTAGCAAGT
38645439 TTACAAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (16 bp):
ATAAAGCTTAGCAAGT
Found at i:38645870 original size:50 final size:51
Alignment explanation
Indices: 38645806--38645938 Score: 164
Period size: 50 Copynumber: 2.6 Consensus size: 51
38645796 TTGTACTGCT
* * *
38645806 AATGCCATATCCCAGATATGGTCTTACATGGGA-A-TTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAC-TGGGAGACCTCTCATATCGGTGCC
* * *
38645856 CATGCCATGTCCCAGACATGGTCTTTC-GGGAGACCTCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACTGGGAGACCTCTCATATCGGTGCC
*
38645906 AACGCCATGTCCCAGACATGGTCTTACGTGGGA
1 AATGCCATGTCCCAGACATGGTCTTAC-TGGGA
38645939 TCTCATTCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.06
49 1 0.01
50 61 0.87
52 4 0.06
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (51 bp):
AATGCCATGTCCCAGACATGGTCTTACTGGGAGACCTCTCATATCGGTGCC
Found at i:38652194 original size:199 final size:199
Alignment explanation
Indices: 38651854--38652251 Score: 647
Period size: 199 Copynumber: 2.0 Consensus size: 199
38651844 TTCACATGCA
* * *
38651854 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATTTATCTGCTTATCAGGGGTCACACTTGTCAGC
1 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
* *
38651919 GTTTCGCACCATTGATATGCCTCCCCTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCCGA
66 GTTTCGCACCATTGATACGCCTCCACTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCCGA
* *
38651984 CATGCACTTTAACTTATTAATTACCCT-AAAAATGCGTGATAACCATTACACTGCTACTGTGGGG
131 CATGCACTTTAACTCATTAATTA-CCTAAAAAATGCGTGATAACCATTACACTGCTACCGTGGGG
38652048 TCATT
195 TCATT
* * *
38652053 TTTCTCTAAATTTCTCTAGATAGAATTCCCAATCTATCTACTCATCTGGGGTCACACTTGTTAGC
1 TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
38652118 GTTTCGCACCATTGATACGCCTCCACTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCC-A
66 GTTTCGCACCATTGATACGCCTCCACTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCCGA
* * *
38652182 GCATGCACTTTAACTCATTAATTACCTAAAAAATGCTTGATAACCATTACTCTGCTGCCGTGGGG
131 -CATGCACTTTAACTCATTAATTACCTAAAAAATGCGTGATAACCATTACACTGCTACCGTGGGG
38652247 TCATT
195 TCATT
38652252 GCCCTTATCC
Statistics
Matches: 184, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
198 4 0.02
199 180 0.98
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (199 bp):
TTTCTCTAAATTTCTCTAGAAAGAATTCCCAATCTATCTACTCATCAGGGGTCACACTTGTCAGC
GTTTCGCACCATTGATACGCCTCCACTACTAGCAAGGAGATTTCACACAAAAGACTGTCCGCCGA
CATGCACTTTAACTCATTAATTACCTAAAAAATGCGTGATAACCATTACACTGCTACCGTGGGGT
CATT
Found at i:38655706 original size:22 final size:22
Alignment explanation
Indices: 38655680--38655725 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
38655670 ATTATGTGTA
38655680 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
38655702 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
38655724 TT
1 TT
38655726 GGTTAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:38656030 original size:13 final size:13
Alignment explanation
Indices: 38656009--38656038 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
38655999 GGGGGGAGTC
*
38656009 TTTGGCTGCTTAT
1 TTTGACTGCTTAT
38656022 TTTGACTGCTTAT
1 TTTGACTGCTTAT
38656035 TTTG
1 TTTG
38656039 GCTATTTTTA
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:0.10, C:0.13, G:0.20, T:0.57
Consensus pattern (13 bp):
TTTGACTGCTTAT
Found at i:38686975 original size:52 final size:52
Alignment explanation
Indices: 38686914--38687014 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
38686904 CATGCACATA
* *
38686914 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
38686966 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
38687015 CGTTTCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:38692504 original size:17 final size:15
Alignment explanation
Indices: 38692470--38692529 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
38692460 ATGAGATCTA
38692470 CACATATATCAATAT
1 CACATATATCAATAT
*
38692485 CACATATATGCAATTTT
1 CACATATAT-CAA-TAT
* *
38692502 CACAAACATCACA-AT
1 CACATATATCA-ATAT
38692517 CACATAATATCAA
1 CACAT-ATATCAA
38692530 CACATCAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
15 15 0.43
16 10 0.29
17 10 0.29
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (15 bp):
CACATATATCAATAT
Found at i:38694112 original size:50 final size:50
Alignment explanation
Indices: 38693999--38694198 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 50
38693989 ACATTAAGGG
*
38693999 AATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 AATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA
* * ** *
38694050 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGTACATGGTGTTGGCACCGA
1 -A--ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* *
38694103 AATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGA
1 AATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * *
38694153 TATGAGAACTCCCACGTAAGACCATATCTGGGATATGGCATTGGCA
1 AATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
38694199 GTATAGAAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
50 81 0.64
52 2 0.02
53 2 0.02
54 6 0.05
55 1 0.01
56 34 0.27
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:38694197 original size:100 final size:104
Alignment explanation
Indices: 38694012--38694198 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 104
38694002 GAGATCCCAT
* ** *
38694012 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCA-T-AGATTATGAGAACTCCCACGTAAGACCA
* * **
38694077 TGTCTGGTACATGGTGTTGGCACCGAAATGAGAGGTCCCCC
64 TATCTGGGACATGGCATTGGCACCGAAATGAGAGGTCCCCC
38694118 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-T-GA-TATGAGAACTCCCACGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCACGTAAGACCATA
*
38694179 TCTGGGATATGGCATTGGCA
66 TCTGGGACATGGCATTGGCA
38694199 GTATAGAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 38 0.53
101 2 0.03
103 1 0.01
105 1 0.01
106 30 0.42
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCATAGATTATGAGAACTCCCACGTAAGACCATA
TCTGGGACATGGCATTGGCACCGAAATGAGAGGTCCCCC
Found at i:38694232 original size:49 final size:49
Alignment explanation
Indices: 38694062--38694257 Score: 162
Period size: 50 Copynumber: 3.9 Consensus size: 49
38694052 TTATGAGAGG
* * ** * * **
38694062 TCCCATGTAAGACCATGTCTGGTACATGGTGTTGGCACCG-AAATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--GTATATGAAAAC
* * * *
38694112 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGT-ATATGAAAAC
* *
38694162 TCCCACGTAAGACCATATCTGGGATATGGCATTGGCAGTATA-GAAAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTATATGAAAAC
* * * *
38694210 ATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCATGTATTATGA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-GTA-TATGA
38694258 GACAAGAGAC
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
48 5 0.04
49 34 0.29
50 75 0.64
51 2 0.02
52 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (49 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAGTATATGAAAAC
Found at i:38701796 original size:50 final size:50
Alignment explanation
Indices: 38701693--38701885 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
38701683 GGGAATGAGA
*
38701693 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
*
38701749 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
38701799 TCCCCCGTAAGACCATGCCTGGGACATGGCATGGGCACCGATATGAGAAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * **
38701849 TCCCATGTAAGACCATATATGGGGTATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38701886 GTACAGAAAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.66
53 3 0.03
55 1 0.01
56 36 0.30
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:38708738 original size:3 final size:3
Alignment explanation
Indices: 38708730--38708777 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
38708720 CATTTGTTAC
38708730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38708778 AATAAAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:38721116 original size:18 final size:18
Alignment explanation
Indices: 38721084--38721143 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
38721074 TTTTCCTGCA
*
38721084 AAAATAAAA-ATGAAAAT
1 AAAATAAAATAGGAAAAT
38721101 AAAATAAAATAGGAAAAT
1 AAAATAAAATAGGAAAAT
*
38721119 TAAATAATAATAGGAAAATT
1 AAAATAA-AATAGGAAAA-T
38721139 AAAAT
1 AAAAT
38721144 GTTTTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.24
18 13 0.35
19 10 0.27
20 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (18 bp):
AAAATAAAATAGGAAAAT
Found at i:38721130 original size:19 final size:18
Alignment explanation
Indices: 38721085--38721141 Score: 80
Period size: 19 Copynumber: 3.2 Consensus size: 18
38721075 TTTCCTGCAA
* *
38721085 AAATAAAA-ATGAAAATA
1 AAATAAAATAGGAAAATT
38721102 AAATAAAATAGGAAAATT
1 AAATAAAATAGGAAAATT
38721120 AAATAATAATAGGAAAATT
1 AAATAA-AATAGGAAAATT
38721139 AAA
1 AAA
38721142 ATGTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.22
18 13 0.36
19 15 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (18 bp):
AAATAAAATAGGAAAATT
Found at i:38726866 original size:45 final size:45
Alignment explanation
Indices: 38726747--38726855 Score: 137
Period size: 46 Copynumber: 2.4 Consensus size: 45
38726737 TGGCTTGAAG
* ** * *
38726747 AAAAATGATTAAGACCATAGTTGAAAGACATTATGGCACTATACT
1 AAAAATGAATAAGACCATAGTTGAAAGACACCATGGCACCATACC
* *
38726792 AGAGAATAAATAAGACCATAGTTGAAAGACACCATGGCACCATACC
1 A-AAAATGAATAAGACCATAGTTGAAAGACACCATGGCACCATACC
*
38726838 AAAAATGAGTAAGACCAT
1 AAAAATGAATAAGACCAT
38726856 GACTGAAAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 15 0.28
46 38 0.72
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (45 bp):
AAAAATGAATAAGACCATAGTTGAAAGACACCATGGCACCATACC
Found at i:38726893 original size:45 final size:45
Alignment explanation
Indices: 38726844--38727059 Score: 308
Period size: 45 Copynumber: 4.8 Consensus size: 45
38726834 TACCAAAAAT
* *
38726844 GAGTAAGACCATGACTGAAAGACGTTATGGAATCACGATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
*
38726889 GAGTAAGACCATGACTAAAAGACGTTATGGCATCACAATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
* * * *
38726934 AAGTAAGACCATGACTGAAAGTCGTTATGGCTTCACGATTCTATC
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
* *
38726979 GAGTAAGACCATGACTGAAAGACATTATGGCATCACAATTCTATT
1 GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
* * *
38727024 GAGTAAGACCAT-AGCTGAAAGATGCTATGACATCAC
1 GAGTAAGACCATGA-CTGAAAGACGTTATGGCATCAC
38727060 GAATAAAACG
Statistics
Matches: 152, Mismatches: 18, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
44 1 0.01
45 151 0.99
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (45 bp):
GAGTAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATC
Found at i:38727060 original size:90 final size:90
Alignment explanation
Indices: 38726843--38727098 Score: 320
Period size: 90 Copynumber: 2.8 Consensus size: 90
38726833 ATACCAAAAA
* *
38726843 TGAGTAAGACCATGACTGAAAGACGTTATGGA-ATCACGATTCTATCGAGTAAGACCATGACTAA
1 TGAGTAAGACCATGACTGAAAGATGTTAT-GACATCACGATTCTATCGAGTAAGACCATGACTGA
*
38726907 AAGACGTTATGGCATCACAATTCTAT
65 AAGACATTATGGCATCACAATTCTAT
** * *
38726933 CAAGTAAGACCATGACTGAAAG-TCGTTATGGCTTCACGATTCTATCGAGTAAGACCATGACTGA
1 TGAGTAAGACCATGACTGAAAGAT-GTTATGACATCACGATTCTATCGAGTAAGACCATGACTGA
38726997 AAGACATTATGGCATCACAATTCTAT
65 AAGACATTATGGCATCACAATTCTAT
* * ** * * **
38727023 TGAGTAAGACCAT-AGCTGAAAGATGCTATGACATCACGAATAAAACGAATAAGACCATGGTTGA
1 TGAGTAAGACCATGA-CTGAAAGATGTTATGACATCACGATTCTATCGAGTAAGACCATGACTGA
*
38727087 AAGACACTATGG
65 AAGACATTATGG
38727099 TAACATGACA
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
89 2 0.01
90 139 0.98
91 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (90 bp):
TGAGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTATCGAGTAAGACCATGACTGAA
AGACATTATGGCATCACAATTCTAT
Found at i:38727097 original size:45 final size:46
Alignment explanation
Indices: 38727027--38727138 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 46
38727017 TTCTATTGAG
* * ** * *
38727027 TAAGACCATAGCTGAAAGATGCTATGACATCACGA-ATAAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGACAACACGACAGAAAACGAA
** * *
38727072 TAAGACCATGGTTGAAAGACACTATGGTAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGACAACACGACAGAAAACGAA
38727118 TAAGACCATGGTTGAAAGACA
1 TAAGACCATGGTTGAAAGACA
38727139 TGGCACACTC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
45 27 0.48
46 29 0.52
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGACAACACGACAGAAAACGAA
Found at i:38727098 original size:135 final size:135
Alignment explanation
Indices: 38726844--38727098 Score: 318
Period size: 135 Copynumber: 1.9 Consensus size: 135
38726834 TACCAAAAAT
* *
38726844 GAGTAAGACCATGACTGAAAGACGTTATGGAATCACGATTCTATCGAGTAAGACCATGACTAAAA
1 GAGTAAGACCATGACTGAAAGACATTATGGAATCACAATTCTATCGAGTAAGACCATGACTAAAA
* * ** * * **
38726909 GACGTTATGGCATCACAATTCTATCAAGTAAGACCATGACTGAAAGTCGTTATGGCTTCACGATT
66 GACGCTATGACATCACAATTAAAACAAGTAAGACCATGACTGAAAGACACTATGGCTTCACGATT
38726974 CTATC
131 CTATC
* * *
38726979 GAGTAAGACCATGACTGAAAGACATTATGGCATCACAATTCTATTGAGTAAGACCAT-AGCTGAA
1 GAGTAAGACCATGACTGAAAGACATTATGGAATCACAATTCTATCGAGTAAGACCATGA-CTAAA
* **
38727043 AGATGCTATGACATCACGAA-TAAAACGAA-TAAGACCATGGTTGAAAGACACTATGG
65 AGACGCTATGACATCAC-AATTAAAAC-AAGTAAGACCATGACTGAAAGACACTATGG
38727099 TAACATGACA
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
134 1 0.01
135 96 0.95
136 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (135 bp):
GAGTAAGACCATGACTGAAAGACATTATGGAATCACAATTCTATCGAGTAAGACCATGACTAAAA
GACGCTATGACATCACAATTAAAACAAGTAAGACCATGACTGAAAGACACTATGGCTTCACGATT
CTATC
Found at i:38729792 original size:25 final size:25
Alignment explanation
Indices: 38729761--38729823 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
38729751 TTTTGAACTT
38729761 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATT-TTCAA
* * *
38729787 TA-ATTATTTATTTTAAGTTTTCCA
1 TATATTATTCATTTTAAATTTTCAA
38729811 TATATTA-TCATTT
1 TATATTATTCATTT
38729824 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTCAA
Found at i:38730028 original size:16 final size:16
Alignment explanation
Indices: 38730007--38730048 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
38729997 TAAATTATTT
38730007 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
38730023 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
38730039 TTTATT-TTAT
1 TTTATTATTAT
38730049 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:38733747 original size:18 final size:18
Alignment explanation
Indices: 38733724--38733763 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
38733714 TTTAGATTTT
38733724 CTTCCAAATCATTCTTTC
1 CTTCCAAATCATTCTTTC
38733742 CTTCCAAATCATTCTTTC
1 CTTCCAAATCATTCTTTC
38733760 CTTC
1 CTTC
38733764 ATTCATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (18 bp):
CTTCCAAATCATTCTTTC
Found at i:38735578 original size:47 final size:48
Alignment explanation
Indices: 38735489--38735583 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
38735479 AGGGAGAAGG
* * * **
38735489 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCTTAAAAA-AAAA
1 GACCAACGTGAAAACCCGAAAAAGGCGCTTTGAGTCCAAAAAATAAAA
38735536 GACCAACGTGAAAACCCGAAAAAGGCGCTTTGAGTCCAAAAAATAAAA
1 GACCAACGTGAAAACCCGAAAAAGGCGCTTTGAGTCCAAAAAATAAAA
38735584 ATATAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 38 0.90
48 4 0.10
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.14
Consensus pattern (48 bp):
GACCAACGTGAAAACCCGAAAAAGGCGCTTTGAGTCCAAAAAATAAAA
Found at i:38736472 original size:24 final size:24
Alignment explanation
Indices: 38736440--38736485 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
38736430 AAGTATAGTG
* *
38736440 GATTGAACCTTGAGGATTACAGCA
1 GATTAAACCTTGAAGATTACAGCA
38736464 GATTAAACCTTGAAGATTACAG
1 GATTAAACCTTGAAGATTACAG
38736486 TGGGAGGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (24 bp):
GATTAAACCTTGAAGATTACAGCA
Found at i:38736899 original size:44 final size:44
Alignment explanation
Indices: 38736828--38737667 Score: 274
Period size: 44 Copynumber: 17.9 Consensus size: 44
38736818 ATTACGGCGA
** *
38736828 TCTTATCTTACTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * * * * *
38736872 TCTTATCTCCCTGAAGTTGTAGCGGAGCAGACTGAAGACAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCA-CCAG
* ** ** * *
38736917 TCTTATTTCTTTGGCGTTGTAGTGGAACAGATTAAAGCTACAAATTACGGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC--C-----AC--CAG
*
38736970 ATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * * * * *
38737015 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * * *
38737059 ATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC--C-----A---CCAG
* *
38737114 TCTTATCTTCCTGAAGTTTCAGT-GAAGCAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAG
* ** * * * * *
38737158 -CTTTATCTCCATGAAGTTGCAACGGAGCATACTGAAGACAGCAG
1 TC-TTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * * * *
38737202 ATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAAATTATGACGG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-------CA--CCAG
* * * * *
38737256 ATCTTATCTTCCGGAAGTTACAGTGGAGCAGATTGAAGTCACCAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * ** * * *
38737301 CCTTATCTCCTTGAAGTTACAGCAGAGA-AGAATGAAGACAGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATTGAAGCCACCAG
* * *
38737345 ATCTTAT-TCCCTTGAAGTTGCAGTGGAATAGATTGAAGCTACAAATTATGGCGG
1 -TCTTATCTCCC-TGAAGTTGCAGTGGAACAGATTGAAGC--C-----A--CCAG
* * * * *
38737399 ATCTTATCTTCTTGAAGTTGCAGTGAAACAGATTAAAGCCACTAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * * * * * * *
38737444 CCTTAT-TCCCTGAAGTTGCAGCGGAGCACACTGAAGACAACGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
* * *
38737487 ATCTTAT-TCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTACGGCGAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC--C-----AC--C-AG
* *
38737541 TCTTATCTTCCTGAAGTTGCAGT-GAAGTAGATTGAAGCCACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAG
* * * * *
38737585 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACC-GCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-CCACCAG
* * *
38737629 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGC
1 -TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGC
38737668 TACAAATTAT
Statistics
Matches: 574, Mismatches: 156, Indels: 132
0.67 0.18 0.15
Matches are distributed among these distances:
43 26 0.05
44 205 0.36
45 156 0.27
46 2 0.00
47 10 0.02
51 2 0.00
52 8 0.01
53 14 0.02
54 149 0.26
55 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAG
Found at i:38736998 original size:54 final size:47
Alignment explanation
Indices: 38736966--38737754 Score: 278
Period size: 44 Copynumber: 16.7 Consensus size: 47
38736956 ACAAATTACG
38736966 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGC-CAC
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * * * *
38737012 -CAG-CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAG-ACA-
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * * *
38737055 GCGGATCTTAT-TTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATG
1 GCAGATCTTATCTT-CCTGAAGTTGCAGTGGAACAGATTGAAGC-AC-----A-C
*
38737109 GC-GAATCTTATCTTCCTGAAGTTTCAGT-GAAGCAGATTGAAGC-CAC
1 GCAG-ATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCACAC
* ** * * *
38737155 -CAGCT-TTATC-TCCATGAAGTTGCAACGGAGCATACTGAAG-ACA-
1 GCAGATCTTATCTTCC-TGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * * *
38737198 GCAGATCTTAT-TTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAAATTAT
1 GCAGATCTTATCTT-CCTGAAGTTGCAGTGGAACAGATTGAAGC-----A-CAC
* * * * *
38737251 GACGGATCTTATCTTCCGGAAGTTACAGTGGAGCAGATTGAAG-TCAC
1 G-CAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * ** *
38737298 -CAG-CCTTATC-TCCTTGAAGTTACAGCAGAGA-AGAATGAAG-ACA-
1 GCAGATCTTATCTTCC-TGAAGTTGCAGTGGA-ACAGATTGAAGCACAC
* * *
38737341 GCAGATCTTAT-TCCCTTGAAGTTGCAGTGGAATAGATTGAAGCTACAAATTATG
1 GCAGATCTTATCTTCC-TGAAGTTGCAGTGGAACAGATTGAAGC-AC-----A-C
* * * *
38737395 GCGGATCTTATCTTCTTGAAGTTGCAGTGAAACAGATTAAAGC-CAC
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * * * * * *
38737441 -TAG-CCTTAT-TCCCTGAAGTTGCAGCGGAGCACACTGAAG-ACAAC
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCAC-AC
* * *
38737485 G--GATCTTAT-TCCCTGAAGTTACAGTGGAACAGATTAAAGCTACAAGTTAC
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGC-AC-----AC
*
38737535 GGC-GAATCTTATCTTCCTGAAGTTGCAGT-GAAGTAGATTGAAGC-CAC
1 -GCAG-ATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCACAC
* * * * *
38737582 -CAG-CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG-AC-C
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
* * *
38737625 GCAGATCTTAT-TTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTATG
1 GCAGATCTTATCTT-CCTGAAGTTGCAGTGGAACAGATTGAAGC-AC-----A-C
* * *
38737679 GCGGATCTTATCTTCCTGAAGTTGCAG-CGAAGCAGATTGAAG-ATA-
1 GCAGATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCACAC
* * *
38737724 GTCA-ATCCTATCTCCCTGAAGTTGCAATGGA
1 G-CAGATCTTATCTTCCTGAAGTTGCAGTGGA
38737755 GTGGATTAAA
Statistics
Matches: 551, Mismatches: 108, Indels: 168
0.67 0.13 0.20
Matches are distributed among these distances:
43 31 0.06
44 166 0.30
45 144 0.26
46 9 0.02
47 12 0.02
50 2 0.00
51 2 0.00
52 8 0.01
53 18 0.03
54 151 0.27
55 8 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (47 bp):
GCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCACAC
Found at i:38737790 original size:427 final size:429
Alignment explanation
Indices: 38736826--38737746 Score: 1292
Period size: 427 Copynumber: 2.1 Consensus size: 429
38736816 TTATTACGGC
* * * * * * * * *
38736826 GATCTTATCTTACTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGTTG
1 GATCTTATCTTCCGGAAGTTACAGCGAAGCAGATTGAAGTCACAAGCCTTATCTCCCTGAAGTTA
* * * * * * * * ** *
38736891 TAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCTTTGGCGTTGTAGTGGAACAGATTAAAGCT
66 CAACAGAGAAGAATGAAGACAGCAGATCTTATTCCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
* *
38736956 ACAAATTACGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAACAGATTGAAGCCACCAGCCTTAT
131 ACAAATTACGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACCAGCCTTAT
* * *
38737021 CTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTAAAGTTGCAGTGGA
196 CTCCCTGAAGTTGCAGCGGAGCACACTGAAGACAACGGATCTTATTTCCCTAAAGTTACAGTGGA
* *
38737086 ACAGATTAAAGCTACAAATTATGGCGAATCTTATCTTCCTGAAGTTTCAGTGAAGCAGATTGAAG
261 ACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAG
* * *
38737151 CCACCAGCTTTATCTCCATGAAGTTGCAACGGAGCATACTGAAGACAGCAGATCTTATTTCCCTA
326 CCACCAGCCTTATCTCCATGAAGTTGCAACGGAGCAGACTAAAGACAGCAGATCTTATTTCCCTA
38737216 AAGTTGCAGTGGAACAGATTAAAGCTAAAAATTATGACG
391 AAGTTGCAGTGGAACAGATTAAAGCTAAAAATTATGACG
* * * *
38737255 GATCTTATCTTCCGGAAGTTACAGTGGAGCAGATTGAAGTCACCAGCCTTATCTCCTTGAAGTTA
1 GATCTTATCTTCCGGAAGTTACAGCGAAGCAGATTGAAGTCACAAGCCTTATCTCCCTGAAGTTA
* * *
38737320 CAGCAGAGAAGAATGAAGACAGCAGATCTTATTCCCTTGAAGTTGCAGTGGAATAGATTGAAGCT
66 CAACAGAGAAGAATGAAGACAGCAGATCTTATTCCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
* * * *
38737385 ACAAATTATGGCGGATCTTATCTTCTTGAAGTTGCAGTGAAACAGATTAAAGCCACTAGCCTTAT
131 ACAAATTACGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACCAGCCTTAT
*
38737450 -TCCCTGAAGTTGCAGCGGAGCACACTGAAGACAACGGATCTTA-TTCCCTGAAGTTACAGTGGA
196 CTCCCTGAAGTTGCAGCGGAGCACACTGAAGACAACGGATCTTATTTCCCTAAAGTTACAGTGGA
* *
38737513 ACAGATTAAAGCTACAAGTTACGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATTGAAG
261 ACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAG
* ** * *
38737578 CCACCAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACCGCAGATCTTATTTCCCTG
326 CCACCAGCCTTATCTCCATGAAGTTGCAACGGAGCAGACTAAAGACAGCAGATCTTATTTCCCTA
* * *
38737643 AAGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCG
391 AAGTTGCAGTGGAACAGATTAAAGCTAAAAATTATGACG
* * *
38737682 GATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAGAT-AGTCAATCC-TATCTCCCTGAAG
1 GATCTTATCTTCCGGAAGTTACAGCGAAGCAGATTGAAG-TCA--CAAGCCTTATCTCCCTGAAG
38737745 TT
63 TT
38737747 GCAATGGAGT
Statistics
Matches: 438, Mismatches: 51, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
427 208 0.47
428 56 0.13
429 174 0.40
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (429 bp):
GATCTTATCTTCCGGAAGTTACAGCGAAGCAGATTGAAGTCACAAGCCTTATCTCCCTGAAGTTA
CAACAGAGAAGAATGAAGACAGCAGATCTTATTCCCTTGAAGTTGCAGTGGAACAGATTAAAGCT
ACAAATTACGGCAGATCTTATCTTCCTGAAGTTGCAGTGAAACAGATTAAAGCCACCAGCCTTAT
CTCCCTGAAGTTGCAGCGGAGCACACTGAAGACAACGGATCTTATTTCCCTAAAGTTACAGTGGA
ACAGATTAAAGCTACAAATTACGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAG
CCACCAGCCTTATCTCCATGAAGTTGCAACGGAGCAGACTAAAGACAGCAGATCTTATTTCCCTA
AAGTTGCAGTGGAACAGATTAAAGCTAAAAATTATGACG
Found at i:38737804 original size:143 final size:143
Alignment explanation
Indices: 38736818--38737720 Score: 1285
Period size: 143 Copynumber: 6.3 Consensus size: 143
38736808 GATTGAAGTT
* * * *
38736818 ATTACGGC-GATCTTATCTTACTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
* * ** ** *
38736882 CTGAAGTTGTAGCGGAGCAGACTGAAGACAGCAAATCTTATTTCTTTGGCGTTGTAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
38736947 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* *
38736960 ATTACGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAA-CAGATTGAAGCCACCAGCCTTATCTC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGT-GAAGCAGATTGAAGCCACCAGCCTTATCTC
* *
38737024 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGGATCTTATTTCCCTAAAGTTGCAGTGGAACA
65 CCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACA
38737089 GATTAAAGCTACAA
130 GATTAAAGCTACAA
* * *
38737103 ATTATGGCGAATCTTATCTTCCTGAAGTTTCAGTGAAGCAGATTGAAGCCACCAGCTTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
38737168 ATGAAGTTGCAACGGAGCATACTGAAGACAGCAGATCTTATTTCCCTAAAGTTGCAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
*
38737233 ATTAAAGCTAAAA
131 ATTAAAGCTACAA
* * * * *
38737246 ATTATGACGGATCTTATCTTCCGGAAGTTACAGTGGAGCAGATTGAAGTCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
38737311 TTGAAGTTACAGCAGAGAAGAATGAAGACAGCAGATCTTA-TTCCCTTGAAGTTGCAGTGGAATA
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCC-TGAAGTTGCAGTGGAACA
*
38737375 GATTGAAGCTACAA
130 GATTAAAGCTACAA
* * * *
38737389 ATTATGGCGGATCTTATCTTCTTGAAGTTGCAGTGAAACAGATTAAAGCCACTAGCCTTAT-TCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
38737453 CTGAAGTTGCAGCGGAGCACACTGAAGACAACGGATCTTA-TTCCCTGAAGTTACAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
38737517 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
38737530 GTTACGGCGAATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATTGAAGCCACCAGCCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * *
38737595 CTGAAGTTGCAGTGGAGCAGACTAAAGACCGCAGATCTTATTTCCCTGAAGTTGTAGTGGAACAG
66 CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
38737660 ATTAAAGCTACAA
131 ATTAAAGCTACAA
*
38737673 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGCGAAGCAGATTGAAG
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAG
38737721 ATAGTCAATC
Statistics
Matches: 674, Mismatches: 81, Indels: 11
0.88 0.11 0.01
Matches are distributed among these distances:
141 82 0.12
142 93 0.14
143 497 0.74
144 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCC
CTGAAGTTGCAGCGGAGCAGACTGAAGACAGCAGATCTTATTTCCCTGAAGTTGCAGTGGAACAG
ATTAAAGCTACAA
Found at i:38739661 original size:2 final size:2
Alignment explanation
Indices: 38739654--38739678 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38739644 AATTCATTTC
38739654 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
38739679 CAGTTTACAT
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:38739720 original size:16 final size:16
Alignment explanation
Indices: 38739699--38739740 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
38739689 TAAATTATTT
38739699 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
38739715 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
38739731 TTTATT-TTAT
1 TTTATTATTAT
38739741 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:38744432 original size:41 final size:41
Alignment explanation
Indices: 38744369--38744447 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
38744359 AAATATTTGT
* * *
38744369 GGCGTTTGAAACAGAAATGCCACTATTGCTCGACTTTTAGC
1 GGCGTTTGAAACAAAAACGCCACTATTGCTCAACTTTTAGC
*
38744410 GGCGTTTGGAACAAAAACGCCACTATTGCTCAACTTTT
1 GGCGTTTGAAACAAAAACGCCACTATTGCTCAACTTTT
38744448 TTTGCGTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
GGCGTTTGAAACAAAAACGCCACTATTGCTCAACTTTTAGC
Found at i:38744473 original size:43 final size:41
Alignment explanation
Indices: 38744369--38744482 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 41
38744359 AAATATTTGT
* * * *
38744369 GGCGTTTGAAACAGAAATGCCACTATTGCTCGACTTTTAGC
1 GGCGTTTGCAACAAAAACGCCACTATTGCTCAACTTTTAGC
* *
38744410 GGCGTTTGGAACAAAAACGCCACTATTGCTCAACTTTTTTTGC
1 GGCGTTTGCAACAAAAACGCCACTATTGCTCAAC--TTTTAGC
* * * *
38744453 GTCGTTTTCATCAAAAACGCCAGTATTGCT
1 GGCGTTTGCAACAAAAACGCCACTATTGCT
38744483 TACCTTTTGC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
41 30 0.49
43 31 0.51
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (41 bp):
GGCGTTTGCAACAAAAACGCCACTATTGCTCAACTTTTAGC
Found at i:38745006 original size:7 final size:7
Alignment explanation
Indices: 38744994--38745134 Score: 50
Period size: 7 Copynumber: 19.7 Consensus size: 7
38744984 ACTAATTAAT
38744994 CTAAACC
1 CTAAACC
38745001 CTAAACC
1 CTAAACC
* *
38745008 CTTATCC
1 CTAAACC
38745015 CTTAAACC
1 C-TAAACC
* *
38745023 ATAAATC
1 CTAAACC
* *
38745030 ATAAAAC
1 CTAAACC
* *
38745037 ATAACCC
1 CTAAACC
38745044 CTAAACC
1 CTAAACC
*
38745051 CTTAACCC
1 C-TAAACC
38745059 CTAAACC
1 CTAAACC
* *
38745066 TTAAA-T
1 CTAAACC
*
38745072 CTCAACC
1 CTAAACC
* *
38745079 TTTAAACA
1 -CTAAACC
*
38745087 ATAAACC
1 CTAAACC
*
38745094 ATAAACC
1 CTAAACC
* *
38745101 GTAATCC
1 CTAAACC
38745108 CTAAACC
1 CTAAACC
*
38745115 CATAATCC
1 C-TAAACC
*
38745123 ATAAACC
1 CTAAACC
*
38745130 TTAAA
1 CTAAA
38745135 ATAGTAACTC
Statistics
Matches: 98, Mismatches: 31, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
6 3 0.03
7 76 0.78
8 19 0.19
ACGTcount: A:0.44, C:0.33, G:0.01, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:38745058 original size:15 final size:14
Alignment explanation
Indices: 38745038--38745069 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
38745028 TCATAAAACA
38745038 TAACCCCTAAACCCT
1 TAACCCCTAAA-CCT
38745053 TAACCCCTAAACCT
1 TAACCCCTAAACCT
38745067 TAA
1 TAA
38745070 ATCTCAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (14 bp):
TAACCCCTAAACCT
Found at i:38745193 original size:14 final size:14
Alignment explanation
Indices: 38745148--38745197 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
38745138 GTAACTCTTA
38745148 AAACT-TAAACCCT
1 AAACTATAAACCCT
* * * *
38745161 ACACCATATACCAT
1 AAACTATAAACCCT
38745175 AAACTATAAACCCT
1 AAACTATAAACCCT
38745189 AAACTATAA
1 AAACTATAA
38745198 TCATAATTAA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
AAACTATAAACCCT
Found at i:38745674 original size:14 final size:15
Alignment explanation
Indices: 38745653--38745691 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
38745643 TCCCAACCCT
38745653 TAAA-CCATAATACC
1 TAAATCCATAATACC
*
38745667 T-AATCCATAATCCC
1 TAAATCCATAATACC
38745681 TAAATCCATAA
1 TAAATCCATAA
38745692 ATAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 11 0.50
15 9 0.41
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATACC
Found at i:38745935 original size:15 final size:14
Alignment explanation
Indices: 38745907--38746007 Score: 66
Period size: 14 Copynumber: 7.2 Consensus size: 14
38745897 CTAGTTAATC
38745907 TAAACCCTAAACCA
1 TAAACCCTAAACCA
38745921 TAAACCCTAAAACCA
1 TAAACCCT-AAACCA
* *
38745936 TAAACCCTTAACACG
1 TAAACCCTAAAC-CA
*
38745951 T-AA--CTAAACCT
1 TAAACCCTAAACCA
* * *
38745962 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
38745976 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
38745990 TAACCCCTAAACTCA
1 TAAACCCTAAAC-CA
38746005 TAA
1 TAA
38746008 TTCATAAACC
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
11 2 0.03
12 7 0.10
13 3 0.04
14 31 0.46
15 24 0.36
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:38746022 original size:22 final size:22
Alignment explanation
Indices: 38745975--38746066 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 22
38745965 ACCCCAGCCT
* *
38745975 TTAAAC-CATAAACCATAACCC
1 TTAAACTCATAAATCATAAACC
* *
38745996 CTAAACTCATAATTCATAAACC
1 TTAAACTCATAAATCATAAACC
* ** *
38746018 TTAAAATGGTAACA-CCTAAACC
1 TTAAACTCATAA-ATCATAAACC
*
38746040 TTAAACTC-TAAATCATATACC
1 TTAAACTCATAAATCATAAACC
*
38746061 CTAAAC
1 TTAAAC
38746067 CAAAAACCCT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 19 0.36
22 33 0.62
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.25
Consensus pattern (22 bp):
TTAAACTCATAAATCATAAACC
Found at i:38746366 original size:41 final size:41
Alignment explanation
Indices: 38746254--38746545 Score: 365
Period size: 41 Copynumber: 7.1 Consensus size: 41
38746244 TAAATTATTT
* * *
38746254 TAAATCCCTGAGCATTAGCGGCGCTTT-TTAGAAAACGCTGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCA-AAAACGCCGC
** * *
38746295 TAAA--AATAGAGAATTTGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCT-GAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
38746335 TAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * *
38746376 TAAAGCCATTAGCATTAGCGGCTCTTTATCAAAAATGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
38746417 TAAAGCCATGAGCATTAGCGGTGCTTTCTCAAAAATGACGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
38746458 TAAAGCCCTAAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* *
38746499 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
38746540 TAAAGC
1 TAAAGC
38746546 ACCCGAAAGC
Statistics
Matches: 217, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.00
40 29 0.13
41 186 0.86
42 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:38746702 original size:12 final size:12
Alignment explanation
Indices: 38746685--38746710 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38746675 TTTTTTATCC
38746685 AAATGCCGCTAA
1 AAATGCCGCTAA
38746697 AAATGCCGCTAA
1 AAATGCCGCTAA
38746709 AA
1 AA
38746711 GCCTGTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:38752156 original size:87 final size:87
Alignment explanation
Indices: 38752010--38752185 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
38752000 ATTAATTACG
**
38752010 ATAATGCAGATGTAGACAGTCTTTGATCACTGTAGAATTTCCTTATGTATGTTTAACAATTTCAA
1 ATAATGCAGATGTAGACAACCTTTGATCACTGTAGAATTTCCTTATGTATGTTTAACAATTTCAA
38752075 ACACTGATATTCTTACATTTTT
66 ACACTGATATTCTTACATTTTT
38752097 ATAATGCAGATGTAGACAACCTTTGATCACTGTAGAATTTCCTTATGTATGTTTAACAATTTCAA
1 ATAATGCAGATGTAGACAACCTTTGATCACTGTAGAATTTCCTTATGTATGTTTAACAATTTCAA
*
38752162 ACTCTGATATTCTTACATTTTT
66 ACACTGATATTCTTACATTTTT
38752184 AT
1 AT
38752186 GGTAAGGTCA
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (87 bp):
ATAATGCAGATGTAGACAACCTTTGATCACTGTAGAATTTCCTTATGTATGTTTAACAATTTCAA
ACACTGATATTCTTACATTTTT
Found at i:38756925 original size:2 final size:2
Alignment explanation
Indices: 38756918--38756950 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
38756908 CAGCACAACC
38756918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38756951 GGATTCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:38766486 original size:10 final size:11
Alignment explanation
Indices: 38766458--38766489 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38766448 AGTATACTTA
38766458 CTATTTTTAAT
1 CTATTTTTAAT
*
38766469 TTATTTTTAAT
1 CTATTTTTAAT
38766480 CTATTTTTAA
1 CTATTTTTAA
38766490 CTAAATAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (11 bp):
CTATTTTTAAT
Found at i:38767040 original size:32 final size:33
Alignment explanation
Indices: 38767001--38767076 Score: 118
Period size: 32 Copynumber: 2.3 Consensus size: 33
38766991 GTGAGGTTTT
38767001 TAATATATATATGCGTGCATGGGTGTTATA-TA
1 TAATATATATATGCGTGCATGGGTGTTATAGTA
* *
38767033 TAATATATATTTGGGTGCATGGGTGTTATATGTA
1 TAATATATATATGCGTGCATGGGTGTTATA-GTA
38767067 TAATATATAT
1 TAATATATAT
38767077 GTGTGGGTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 28 0.70
34 12 0.30
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (33 bp):
TAATATATATATGCGTGCATGGGTGTTATAGTA
Found at i:38767140 original size:28 final size:29
Alignment explanation
Indices: 38767105--38767170 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
38767095 CACAGTACAT
*
38767105 ATATATATGTGT-GGTTTTGCTACATATA
1 ATATATATGTGTAGGTTTTACTACATATA
* *
38767133 ATATATATGTGTAGGTTTTATTATATATA
1 ATATATATGTGTAGGTTTTACTACATATA
*
38767162 ATATGTATG
1 ATATATATG
38767171 CGTTATAGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.32, C:0.03, G:0.17, T:0.48
Consensus pattern (29 bp):
ATATATATGTGTAGGTTTTACTACATATA
Done.