Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_pilon, whole genome shotgun sequence
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: 2156694
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 1 of 11
Found at i:16 original size:3 final size:3
Alignment explanation
Indices: 2--509 Score: 743
Period size: 3 Copynumber: 173.3 Consensus size: 3
1 C
*
2 GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
50 GAA GAAA GGA GAA GAA GAA GAA GAA GAA -AA GAA GAA -AGA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
95 GAA GAA GAA GAA GAA -AGA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA GAA
140 G-A GAA G-A GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA G-A GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
184 GAA G-A GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA TAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
229 GAA GAA GAAA GAA GAA GAAA GAA GAA GAA GAA GAA GAGA GAA GAA GAA
1 GAA GAA G-AA GAA GAA G-AA GAA GAA GAA GAA GAA GA-A GAA GAA GAA
*
277 GAA TAA GAA GAA GAA GAA -AA G-A GAA G-A GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
322 GAA GAAA GAA GAA -AA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
366 -AA GAA GAA G-A GAA GAA -AA -AA GAA GAA GAA GAAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA
*
408 AAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA
454 GAA GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
501 GAA G-A GAA G
1 GAA GAA GAA G
510 GGAATATATA
Statistics
Matches: 466, Mismatches: 10, Indels: 58
0.87 0.02 0.11
Matches are distributed among these distances:
2 40 0.09
3 403 0.86
4 23 0.05
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:908 original size:20 final size:20
Alignment explanation
Indices: 874--911 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
864 TAAAATTTTT
**
874 TATTTTTATTTAAAAAATCA
1 TATTTTTATACAAAAAATCA
894 TATTTTTATACAAAAAAT
1 TATTTTTATACAAAAAAT
912 TCCCTCCTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTTTATACAAAAAATCA
Found at i:6152 original size:39 final size:40
Alignment explanation
Indices: 6022--6156 Score: 236
Period size: 40 Copynumber: 3.4 Consensus size: 40
6012 CTCAAGCCTC
6022 AAACCACAATATTAAGTTTAGAACAATAAAATCCATAAAT
1 AAACCACAATATTAAGTTTAGAACAATAAAATCCATAAAT
* *
6062 AAACCATAATATTACGTTTAGAACAATAAAATCCATAAAT
1 AAACCACAATATTAAGTTTAGAACAATAAAATCCATAAAT
*
6102 AAACCATAATATTAAGTTTAGAACAATAAAAT-CATAAAT
1 AAACCACAATATTAAGTTTAGAACAATAAAATCCATAAAT
6141 AAACCACAATATTAAG
1 AAACCACAATATTAAG
6157 ATGTCAAATC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 22 0.24
40 69 0.76
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (40 bp):
AAACCACAATATTAAGTTTAGAACAATAAAATCCATAAAT
Found at i:6230 original size:75 final size:74
Alignment explanation
Indices: 6102--6306 Score: 241
Period size: 75 Copynumber: 2.7 Consensus size: 74
6092 ATCCATAAAT
* * * * *
6102 AAACCATAATATTAAGTTTAGAACAATAAAATCATAAATAAACCA-CAATATTAAGATGTCAAAT
1 AAACCACAATATTAAATCTAGAATAACAAAATCATAAATAAACCATC-ATATTAAGATGTCAAAT
6166 CTCAAGACTC
65 CTCAAGACTC
* * * *
6176 AAATCACAATATTAAATCTAGAATGACAAAATCCATAAACAAACCATCATATTAAAATGTCAAAT
1 AAACCACAATATTAAATCTAGAATAACAAAAT-CATAAATAAACCATCATATTAAGATGTCAAAT
*
6241 CTCAAGATTC
65 CTCAAGACTC
* * * * *
6251 AAACCACAATATTAACTCTAGAATAATAAAATATATAAATAAATCATAATATTAAG
1 AAACCACAATATTAAATCTAGAATAACAAAAT-CATAAATAAACCATCATATTAAG
6307 TCTAAAACAA
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
74 25 0.23
75 83 0.76
76 1 0.01
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (74 bp):
AAACCACAATATTAAATCTAGAATAACAAAATCATAAATAAACCATCATATTAAGATGTCAAATC
TCAAGACTC
Found at i:6319 original size:40 final size:40
Alignment explanation
Indices: 6250--6345 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
6240 TCTCAAGATT
* * * *
6250 CAAACCACAATATTAACTCTAGAATAATAAAATATATAAA
1 CAAACCATAATATTAACTCTAAAACAATAAAATACATAAA
* * * *
6290 TAAATCATAATATTAAGTCTAAAACAATAAAATCCATAAA
1 CAAACCATAATATTAACTCTAAAACAATAAAATACATAAA
6330 CAAACCATAATATTAA
1 CAAACCATAATATTAA
6346 AGTGTTAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (40 bp):
CAAACCATAATATTAACTCTAAAACAATAAAATACATAAA
Found at i:6328 original size:115 final size:115
Alignment explanation
Indices: 6176--6385 Score: 321
Period size: 115 Copynumber: 1.8 Consensus size: 115
6166 CTCAAGACTC
* ** *
6176 AAATCACAATATTAAATCTAGAATGACAAAATCCATAAACAAACCATCATATTAAAATGTCAAAT
1 AAATCACAATATTAAATCTAAAACAACAAAATCCATAAACAAACCATAATATTAAAATGTCAAAT
*
6241 CTCAAGATTCAAACCACAATATTAACTCTAGAATAATAAAATATATAAAT
66 CTCAAGACTCAAACCACAATATTAACTCTAGAATAATAAAATATATAAAT
* * * * *
6291 AAATCATAATATTAAGTCTAAAACAATAAAATCCATAAACAAACCATAATATTAAAGTGTTAAAT
1 AAATCACAATATTAAATCTAAAACAACAAAATCCATAAACAAACCATAATATTAAAATGTCAAAT
*
6356 CTCAAGACTCAAACCACAATATTAAGTCTA
66 CTCAAGACTCAAACCACAATATTAACTCTA
6386 TAACAATATT
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
115 84 1.00
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (115 bp):
AAATCACAATATTAAATCTAAAACAACAAAATCCATAAACAAACCATAATATTAAAATGTCAAAT
CTCAAGACTCAAACCACAATATTAACTCTAGAATAATAAAATATATAAAT
Found at i:10162 original size:18 final size:18
Alignment explanation
Indices: 10139--10173 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10129 GAACCTCAAA
*
10139 ATGGTATTGATACCATGC
1 ATGGTATCGATACCATGC
10157 ATGGTATCGATACCATG
1 ATGGTATCGATACCATG
10174 TTAATATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (18 bp):
ATGGTATCGATACCATGC
Found at i:12300 original size:2 final size:2
Alignment explanation
Indices: 12293--12317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12283 TATTGTACAT
12293 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12318 CAGCCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12512 original size:29 final size:29
Alignment explanation
Indices: 12455--12515 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
12445 AGTCTATTAT
* * * **
12455 TCTTTTATTCAACAGTGTTTGACTTTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
12484 TCTTTTACTCAACAGTATTTAACCGTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
12513 TCT
1 TCT
12516 AATTGAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (29 bp):
TCTTTTACTCAACAGTATTTAACCGTTCA
Found at i:12635 original size:81 final size:81
Alignment explanation
Indices: 12484--12813 Score: 421
Period size: 81 Copynumber: 4.1 Consensus size: 81
12474 TGACTTTTCA
* * * * *
12484 TCTTTTACTCAACAGTATTTAACCGTTCATCTAATTGA-AAAATTGACACATTTTTGCCAATTGC
1 TCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGACATAATTGACACATTTATGCCAATTGC
*
12548 AGAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
** * * * *
12564 TCTTTTACTCAATTGTCTTTAACCATTCACCTAACTGGCATATTTGACACCTTTATGCCAATTGC
1 TCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGACATAATTGACACATTTATGCCAATTGC
12629 ACAGTTAGGCCATTAT
66 ACAGTTAGGCCATTAT
** * **
12645 TCTTTTACTCAACAGTCTTTAAATATTCATCTAACTGACATAATTGACACATTTCTATCAATT-C
1 TCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGACATAATTGACACATTTATGCCAATTGC
*
12709 TACAGTTAGGCCTTTAT
66 -ACAGTTAGGCCATTAT
* * ** *
12726 TCTTTTACTCAACGGTCTTTAACCATTCATTTAACTTTCATAATTGACACATTTATGCCAATTAC
1 TCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGACATAATTGACACATTTATGCCAATTGC
*
12791 ACAGTTAGGTCATTAT
66 ACAGTTAGGCCATTAT
12807 TCTTTTA
1 TCTTTTA
12814 TTTTGGACTA
Statistics
Matches: 212, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
80 32 0.15
81 179 0.84
82 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (81 bp):
TCTTTTACTCAACAGTCTTTAACCATTCATCTAACTGACATAATTGACACATTTATGCCAATTGC
ACAGTTAGGCCATTAT
Found at i:13026 original size:55 final size:55
Alignment explanation
Indices: 12950--13351 Score: 522
Period size: 55 Copynumber: 7.3 Consensus size: 55
12940 TTTATTAAGA
* * *
12950 TGCACACGTAGTGCATATACGG-TAGTTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * * **
13005 TGTACACATAGTGTCTGTACGGGTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
13060 TGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
13115 TGAACACATTGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCTTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * **
13170 TGAACACATTGTGCCTATACGGTTATTCATCAACTCATGATGAATTCC-TTGAAA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
13224 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCATGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * **
13279 TGCACACATAGTGACTGTACGGTTTTTCATCAACTCATGATGAATTTCGT-GAAA
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* *
13333 TGCACACTTAGTGCATGTA
1 TGCACACATAGTGCCTGTA
13352 TGGTATGAAT
Statistics
Matches: 307, Mismatches: 38, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
54 65 0.21
55 240 0.78
56 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:13423 original size:93 final size:93
Alignment explanation
Indices: 13263--13444 Score: 285
Period size: 93 Copynumber: 2.0 Consensus size: 93
13253 TCAACTCATG
* * * *
13263 ATGAATTCCATGGATTTGCACACATAGTGACTGTACGGTTTTTCATCAACTCATGATGAATTTCG
1 ATGAATTCCATGGATTTACACACATAGTGACTGTACGGTTATTCATCAACGCATGATGAATTCCG
13328 TGAAATGCACACTTAGTGCATGTATGGT
66 TGAAATGCACACTTAGTGCATGTATGGT
* *
13356 ATGAATTTCGTGGATTTACACACATAGTG-CTTGTACGGTTATTCATCAACGCATGATGAATTCC
1 ATGAATTCCATGGATTTACACACATAGTGAC-TGTACGGTTATTCATCAACGCATGATGAATTCC
*
13420 GTGAAATGCACACTTAGTGCCTGTA
65 GTGAAATGCACACTTAGTGCATGTA
13445 CGGTTATTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 1 0.01
93 80 0.99
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (93 bp):
ATGAATTCCATGGATTTACACACATAGTGACTGTACGGTTATTCATCAACGCATGATGAATTCCG
TGAAATGCACACTTAGTGCATGTATGGT
Found at i:13439 original size:54 final size:54
Alignment explanation
Indices: 13374--13602 Score: 332
Period size: 54 Copynumber: 4.2 Consensus size: 54
13364 CGTGGATTTA
* * * *
13374 CACACATAGTGCTTGTACGGTTATTCATCAACGCATGATGAATTCCGTGAAATG
1 CACACTTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
* * *
13428 CACACTTAGTGCCTGTACGGTTATTCATCTACTCATGATGAATTCCATGAAATG
1 CACACTTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
* * *
13482 CACACTTAGTGCCTATATGGATATTCATCAACTCATGATGAATTCTGTGAAATG
1 CACACTTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
* * * *
13536 CATATTTAATGCATATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
1 CACACTTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
13590 CACACTTAGTGCC
1 CACACTTAGTGCC
13603 AATTTGGTAA
Statistics
Matches: 153, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 153 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (54 bp):
CACACTTAGTGCCTATACGGTTATTCATCAACTCATGATGAATTCCGTGAAATG
Found at i:13479 original size:147 final size:148
Alignment explanation
Indices: 13226--13493 Score: 430
Period size: 147 Copynumber: 1.8 Consensus size: 148
13216 CCTTGAAATG
* **
13226 CACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCATGGATTTGCACACATAGT
1 CACACATAGTGCATGTACGGTTATTCATCAACGCATGATGAATTCCATGGAAATGCACACATAGT
* * *
13291 GACTGTACGGTTTTTCATCAACTCATGATGAATTTCGTGAAATGCACACTTAGTGCATGTATGGT
66 GACTGTACGGTTATTCATCAACTCATGATGAATTCCATGAAATGCACACTTAGTGCATGTATGGT
13356 ATGAATTTCGTGGATTTA
131 ATGAATTTCGTGGATTTA
* * *
13374 CACACATAGTGCTTGTACGGTTATTCATCAACGCATGATGAATTCCGT-GAAATGCACACTTAGT
1 CACACATAGTGCATGTACGGTTATTCATCAACGCATGATGAATTCCATGGAAATGCACACATAGT
* *
13438 GCCTGTACGGTTATTCATCTACTCATGATGAATTCCATGAAATGCACACTTAGTGC
66 GACTGTACGGTTATTCATCAACTCATGATGAATTCCATGAAATGCACACTTAGTGC
13494 CTATATGGAT
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
147 64 0.59
148 45 0.41
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (148 bp):
CACACATAGTGCATGTACGGTTATTCATCAACGCATGATGAATTCCATGGAAATGCACACATAGT
GACTGTACGGTTATTCATCAACTCATGATGAATTCCATGAAATGCACACTTAGTGCATGTATGGT
ATGAATTTCGTGGATTTA
Found at i:14119 original size:94 final size:95
Alignment explanation
Indices: 13921--14138 Score: 298
Period size: 94 Copynumber: 2.3 Consensus size: 95
13911 AAGCTCAATA
* * * *
13921 GTATCGATACTAC-TACCATAGTACCGATACTTCTATACTATAGTACCGATACCCCTTTTTGGTA
1 GTATCGATAC-CCTTACCATAGTATCGATACTACCATACTATAGTACCGATACCCCTTTTTGGTA
* *
13985 TCGATACCCATTTTAGGTTTGATGTTGCCTG
65 TCGATACCAATTTTAGATTTGATGTTGCCTG
* *
14016 GTATTGATACCCTTACCATGGTATCGATACTACCATACTAT-GATACCGATACCCC-TTTTGGTA
1 GTATCGATACCCTTACCATAGTATCGATACTACCATACTATAG-TACCGATACCCCTTTTTGGTA
*
14079 TCGATACCAATTTTAGATTTGATGTTTCCTG
65 TCGATACCAATTTTAGATTTGATGTTGCCTG
* *
14110 GTATCGATACCCTTTCCATTGTATCGATA
1 GTATCGATACCCTTACCATAGTATCGATA
14139 GTACTCAGCT
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
94 64 0.59
95 45 0.41
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (95 bp):
GTATCGATACCCTTACCATAGTATCGATACTACCATACTATAGTACCGATACCCCTTTTTGGTAT
CGATACCAATTTTAGATTTGATGTTGCCTG
Found at i:17041 original size:18 final size:18
Alignment explanation
Indices: 17018--17052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17008 GAACCTCTAA
17018 ATGGTACCGATACCATGC
1 ATGGTACCGATACCATGC
**
17036 ATGGTATTGATACCATG
1 ATGGTACCGATACCATG
17053 TTAATATAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (18 bp):
ATGGTACCGATACCATGC
Found at i:24430 original size:21 final size:22
Alignment explanation
Indices: 24404--24444 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
24394 CCCAGAATAT
*
24404 TGAGTATCAGTACT-CCTTTCG
1 TGAGTATCAATACTACCTTTCG
24425 TGAGTATCAATACTACCTTT
1 TGAGTATCAATACTACCTTT
24445 GTAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (22 bp):
TGAGTATCAATACTACCTTTCG
Found at i:24642 original size:20 final size:20
Alignment explanation
Indices: 24617--24667 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
24607 ATAACTGGTT
24617 GTATCGATACTACCTAGAGA
1 GTATCGATACTACCTAGAGA
24637 GTATCGATACTACCTAGAGA
1 GTATCGATACTACCTAGAGA
24657 GTATCGATACT
1 GTATCGATACT
24668 TCTTCTACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
GTATCGATACTACCTAGAGA
Found at i:26224 original size:43 final size:43
Alignment explanation
Indices: 26167--26250 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
26157 GTTTGTGAAT
*
26167 AAAAAAGCCGCAAAAAGTCCAACTCTATAGCGGCGTTTTTCAG
1 AAAAAAGCAGCAAAAAGTCCAACTCTATAGCGGCGTTTTTCAG
* *
26210 AAAAATGCAGCAAAAAGTCTAACTCTATAGCGGCGTTTTTC
1 AAAAAAGCAGCAAAAAGTCCAACTCTATAGCGGCGTTTTTC
26251 TTTAAAACAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (43 bp):
AAAAAAGCAGCAAAAAGTCCAACTCTATAGCGGCGTTTTTCAG
Found at i:28453 original size:13 final size:13
Alignment explanation
Indices: 28435--28510 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
28425 GTCACAACCC
28435 GACCCGACCCGTT
1 GACCCGACCCGTT
28448 GACCCGAACCGACCCGTT
1 GA-CC---C-GACCCGTT
*
28466 TACCCGACCCGTT
1 GACCCGACCCGTT
28479 GACCCGACCCGTT
1 GACCCGACCCGTT
*
28492 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
28507 GACC
1 GACC
28511 GTTGACCGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 26 0.49
14 3 0.06
15 12 0.23
17 3 0.06
18 9 0.17
ACGTcount: A:0.17, C:0.43, G:0.22, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:28482 original size:8 final size:8
Alignment explanation
Indices: 28471--28517 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
28461 CCGTTTACCC
28471 GACCCGTT
1 GACCCGTT
28479 GACCC---
1 GACCCGTT
28484 GACCCGTT
1 GACCCGTT
28492 GA-CCGTT
1 GACCCGTT
28499 GACCCGTT
1 GACCCGTT
28507 GA-CCGTT
1 GACCCGTT
28514 GACC
1 GACC
28518 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:28489 original size:18 final size:18
Alignment explanation
Indices: 28431--28476 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
28421 ACCAGTCACA
28431 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
28449 ACCCGAACCGACCCGTTT
1 ACCCGACCCGACCCGTTG
28467 ACCCGACCCG
1 ACCCGACCCG
28477 TTGACCCGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.20, C:0.50, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:28499 original size:7 final size:7
Alignment explanation
Indices: 28487--28518 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
28477 TTGACCCGAC
28487 CCGTTGA
1 CCGTTGA
28494 CCGTTGA
1 CCGTTGA
28501 CCCGTTGA
1 -CCGTTGA
28509 CCGTTGA
1 CCGTTGA
28516 CCG
1 CCG
28519 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:28504 original size:15 final size:15
Alignment explanation
Indices: 28471--28517 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
28461 CCGTTTACCC
*
28471 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
28484 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
28499 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
28514 GACC
1 GACC
28518 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:29854 original size:18 final size:18
Alignment explanation
Indices: 29828--29863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29818 TCGAAAGGAC
*
29828 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
29846 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
29864 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:31093 original size:24 final size:24
Alignment explanation
Indices: 30972--31086 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
30962 TCGATTTGAT
30972 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
30996 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
31020 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
31044 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
* *
31067 TTTCTTATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
31087 CTGATTTATA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:34443 original size:41 final size:41
Alignment explanation
Indices: 34391--34895 Score: 337
Period size: 41 Copynumber: 12.4 Consensus size: 41
34381 CATTTATTCA
* * * *
34391 AAAAACTCCACTAAAGTACGAGTCTTTGGCGGCGTTTGTAA
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* * * * * **
34432 AAAAACACCACTAAAGTACGGGTCTTTGGTGATGTTTGTAT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* ** *
34473 -AAAACGCCACTAAAGTATG-GATATTTAGCAACATTTGTAT
1 AAAAACGCCACTAAAGTACGAG-TATTTAGCGGCGTTTGTAT
* * *
34513 AGAAACGCCACTAAAGTA-TAGGTATTTAACGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACGA-GTATTTAGCGGCGTTTGTAT
* * * * * *
34554 AGAAACGCCACTAAAGTACAACTCTTTGGCGGCGTTTGTGCT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGT-AT
* * * * * *
34596 TAAAACGCCACTAAAGTA-TAATATTTAGCGGTGTTTATAC
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* * * *
34636 AAAAACACCACTAAAATACAAGCATTTAGCGGCGTTTGTGCAT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGT--AT
* * * *
34679 -AAAATGCCATTAAAGTAC-AATATTTAGCGGCGTTTATAT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* * * *
34718 AGAAACGCCACTAAAGTA-GAGCATTTAGCGGCTTTTGTGCT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGT-AT
* * * * * * *
34759 TAAAATGCCACTAAAGTAC-ATTGTTTAGCGACGTTTATAC
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* * *
34799 AAAAATGCCACTAAAGTAC-AGTATTTAGCGACGTTTATAT
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
* * * * * *
34839 AATAACACCACTAAAGCAC-AGTATTTACCGGTGTTTGTTCAA
1 AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTG-T-AT
*
34881 AAAAACGCCTCTAAA
1 AAAAACGCCACTAAA
34896 AGTGCCGCTA
Statistics
Matches: 362, Mismatches: 87, Indels: 29
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.01
40 139 0.38
41 173 0.48
42 46 0.13
43 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTAT
Found at i:34592 original size:82 final size:81
Alignment explanation
Indices: 34393--34874 Score: 339
Period size: 81 Copynumber: 5.9 Consensus size: 81
34383 TTTATTCAAA
* * * * * * * * ** *
34393 AAACTCCACTAAAGTACGAGTCTTTGGCGGCGTTTGTAAAAAAACACCACTAAAGTACGGGTCTT
1 AAACGCCACTAAAGTACAACTATTTAGCGGCGTTTGTCATAAAACGCCACTAAAGTAC-AATATT
* * ** *
34458 TGGTGATGTTTGTATA-
65 TAGCGGCGTTTATATAG
** ** * * *
34474 AAACGCCACTAAAGTATGGA-TATTTAGCAACATTTGT-ATAGAAACGCCACTAAAGTATAGGTA
1 AAACGCCACTAAAGTA-CAACTATTTAGCGGCGTTTGTCATA-AAACGCCACTAAAGTACA-ATA
* *
34537 TTTAACGGCGTTTGTATAG
63 TTTAGCGGCGTTTATATAG
* * * *
34556 AAACGCCACTAAAGTACAACTCTTTGGCGGCGTTTGTGCTTAAAACGCCACTAAAGTATAATATT
1 AAACGCCACTAAAGTACAACTATTTAGCGGCGTTTGT-CATAAAACGCCACTAAAGTACAATATT
* * *
34621 TAGCGGTGTTTATACAA
65 TAGCGGCGTTTATATAG
* * * *
34638 AAACACCACTAAAATACAAGC-ATTTAGCGGCGTTTGTGCATAAAATGCCATTAAAGTACAATAT
1 AAACGCCACTAAAGTACAA-CTATTTAGCGGCGTTTGT-CATAAAACGCCACTAAAGTACAATAT
34702 TTAGCGGCGTTTATATAG
64 TTAGCGGCGTTTATATAG
* * * * * * *
34720 AAACGCCACTAAAGTAGAGC-ATTTAGCGGCTTTTGTGCTTAAAATGCCACTAAAGTACATTGTT
1 AAACGCCACTAAAGTACAACTATTTAGCGGCGTTTGT-CATAAAACGCCACTAAAGTACAATATT
* * *
34784 TAGCGACGTTTATACAA
65 TAGCGGCGTTTATATAG
* * * * * * *
34801 AAATGCCACTAAAGTAC-AGTATTTAGCGACGTTTAT-ATAATAACACCACTAAAGCACAGTATT
1 AAACGCCACTAAAGTACAACTATTTAGCGGCGTTTGTCATAA-AACGCCACTAAAGTACAATATT
* *
34864 TACCGGTGTTT
65 TAGCGGCGTTT
34875 GTTCAAAAAA
Statistics
Matches: 321, Mismatches: 70, Indels: 21
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.01
80 27 0.08
81 140 0.44
82 130 0.40
83 19 0.06
84 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (81 bp):
AAACGCCACTAAAGTACAACTATTTAGCGGCGTTTGTCATAAAACGCCACTAAAGTACAATATTT
AGCGGCGTTTATATAG
Found at i:34964 original size:20 final size:20
Alignment explanation
Indices: 34939--34981 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
34929 TCGAAATCAT
*
34939 TTTTCAAAATTTC-ATTTTGC
1 TTTTCAAAA-TCCAATTTTGC
34959 TTTTCAAAATCCAATTTTGC
1 TTTTCAAAATCCAATTTTGC
34979 TTT
1 TTT
34982 CTAGAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (20 bp):
TTTTCAAAATCCAATTTTGC
Found at i:39068 original size:17 final size:17
Alignment explanation
Indices: 39020--39068 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
39010 ATGACTTTAC
39020 ATGTATCCCAAAACCCG
1 ATGTATCCCAAAACCCG
* *
39037 ATATAGATACCAAAACCCG
1 ATGT--ATCCCAAAACCCG
39056 ATGTATCCCAAAA
1 ATGTATCCCAAAA
39069 ACTCTCTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (17 bp):
ATGTATCCCAAAACCCG
Found at i:44224 original size:23 final size:23
Alignment explanation
Indices: 44194--44296 Score: 129
Period size: 23 Copynumber: 4.6 Consensus size: 23
44184 TAGAGGATTT
*
44194 TATGTGGTCCTTCGGGTCAAACC
1 TATGTGGTCCTTCGGGACAAACC
* **
44217 TATGTGGTCCTTCAGGACAAATA
1 TATGTGGTCCTTCGGGACAAACC
* *
44240 TATGTGGTCCTTCGAGACAATCC
1 TATGTGGTCCTTCGGGACAAACC
44263 TATGTGGTCCTTCGGGACAAA--
1 TATGTGGTCCTTCGGGACAAACC
*
44284 TATGTGGTACTTC
1 TATGTGGTCCTTC
44297 AGTGCAAATT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
21 12 0.18
23 56 0.82
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
TATGTGGTCCTTCGGGACAAACC
Found at i:44265 original size:46 final size:46
Alignment explanation
Indices: 44194--44286 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
44184 TAGAGGATTT
* *
44194 TATGTGGTCCTTCGGGTCAAACCTATGTGGTCCTTCAGGACAAATA
1 TATGTGGTCCTTCGAGACAAACCTATGTGGTCCTTCAGGACAAATA
* *
44240 TATGTGGTCCTTCGAGACAATCCTATGTGGTCCTTCGGGACAAATA
1 TATGTGGTCCTTCGAGACAAACCTATGTGGTCCTTCAGGACAAATA
44286 T
1 T
44287 GTGGTACTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (46 bp):
TATGTGGTCCTTCGAGACAAACCTATGTGGTCCTTCAGGACAAATA
Found at i:44304 original size:21 final size:22
Alignment explanation
Indices: 44193--44311 Score: 91
Period size: 23 Copynumber: 5.3 Consensus size: 22
44183 GTAGAGGATT
* *
44193 TTATGTGGTCCTTCGGGTCAAA
1 TTATGTGGTACTTCGGGACAAA
* * *
44215 CCTATGTGGTCCTTCAGGACAAA
1 -TTATGTGGTACTTCGGGACAAA
* *
44238 TATATGTGGTCCTTCGAGAC-AA
1 T-TATGTGGTACTTCGGGACAAA
*
44260 TCCTATGTGGTCCTTCGGGACAAA
1 T--TATGTGGTACTTCGGGACAAA
*
44284 -TATGTGGTACTTCAGTG-CAAA
1 TTATGTGGTACTTC-GGGACAAA
44305 TTATGTG
1 TTATGTG
44312 AGTTGTGATG
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
21 16 0.20
22 11 0.14
23 52 0.64
24 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (22 bp):
TTATGTGGTACTTCGGGACAAA
Found at i:44454 original size:26 final size:23
Alignment explanation
Indices: 44425--44474 Score: 55
Period size: 23 Copynumber: 2.0 Consensus size: 23
44415 CAAGATATTA
44425 GAGTATACATTCTTATTATGAAATGT
1 GAGT-TACA-TCTT-TTATGAAATGT
**
44451 GAGTTGTATCTTTTATGAAATGT
1 GAGTTACATCTTTTATGAAATGT
44474 G
1 G
44475 TTCTACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 12 0.55
24 4 0.18
25 2 0.09
26 4 0.18
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (23 bp):
GAGTTACATCTTTTATGAAATGT
Found at i:51205 original size:23 final size:23
Alignment explanation
Indices: 51170--51260 Score: 118
Period size: 23 Copynumber: 4.0 Consensus size: 23
51160 GTTTTTTGTA
51170 GTCCTTCTGGACAAACCTATGTG
1 GTCCTTCTGGACAAACCTATGTG
*
51193 GTCCTT-TGTGACAAACCTATGTC
1 GTCCTTCTG-GACAAACCTATGTG
*
51216 GTCCTTCAGGACAAACCTATGTG
1 GTCCTTCTGGACAAACCTATGTG
51239 GTCCTT-TGGGACAAA--TATGTG
1 GTCCTTCT-GGACAAACCTATGTG
51260 G
1 G
51261 CACTTCGGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.11
22 2 0.03
23 51 0.84
24 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (23 bp):
GTCCTTCTGGACAAACCTATGTG
Found at i:56343 original size:28 final size:28
Alignment explanation
Indices: 56312--56378 Score: 111
Period size: 26 Copynumber: 2.5 Consensus size: 28
56302 TATAGTATAT
*
56312 TTTATATAGTATATGGTATTATATAGTA
1 TTTATATAGTATATGGTATAATATAGTA
56340 TTTATATA-T-TATGGTATAATATAGTA
1 TTTATATAGTATATGGTATAATATAGTA
56366 TTTATATAGTATA
1 TTTATATAGTATA
56379 GTATATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 24 0.67
27 2 0.06
28 10 0.28
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (28 bp):
TTTATATAGTATATGGTATAATATAGTA
Found at i:56382 original size:26 final size:26
Alignment explanation
Indices: 56288--56388 Score: 109
Period size: 26 Copynumber: 3.8 Consensus size: 26
56278 TATACTTATA
56288 TTATATA-TATAGTAT-ATAGTA-TATT
1 TTATATAGTATAGTATAATA-TAGTA-T
*
56313 TTATATAGTATATGGTATTATATAGTAT
1 TTATATAGTATA--GTATAATATAGTAT
* *
56341 TTATATATTATGGTATAATATAGTAT
1 TTATATAGTATAGTATAATATAGTAT
56367 TTATATAGTATAGTATATATAT
1 TTATATAGTATAGTATA-ATAT
56389 TATATAGTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
25 7 0.11
26 32 0.49
27 4 0.06
28 17 0.26
29 5 0.08
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (26 bp):
TTATATAGTATAGTATAATATAGTAT
Found at i:56399 original size:26 final size:24
Alignment explanation
Indices: 56284--56468 Score: 104
Period size: 26 Copynumber: 7.7 Consensus size: 24
56274 TATTTATACT
56284 TATATTATATATATAGTATATAGTA
1 TATATTATATATATAGTATATA-TA
*
56309 TATTTTATATAGTATATGGTAT-TATA
1 TATATTATATA-TATA--GTATATATA
*
56335 TAGTATTTATATATTATGGTATA-ATA
1 TA-TA-TTATATA-TATAGTATATATA
*
56361 TAGTA-T-T-TATATAGTATA-GTA
1 TA-TATTATATATATAGTATATATA
*
56382 TATA-TAT-TATATAGTATATATT
1 TATATTATATATATAGTATATATA
* *
56404 TATATTACATAGTATA-TA-ACATA
1 TATATTATATA-TATAGTATATATA
* *
56427 TA-ATTATATATTATAATATATTTA
1 TATATTATATA-TATAGTATATATA
* *
56451 TTATATTGTTTATATAGT
1 -TATATTATATATATAGT
56469 GTTTTTATAA
Statistics
Matches: 127, Mismatches: 18, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.02
21 24 0.19
22 18 0.14
23 10 0.08
24 8 0.06
25 21 0.17
26 26 0.20
27 3 0.02
28 14 0.11
ACGTcount: A:0.40, C:0.01, G:0.08, T:0.51
Consensus pattern (24 bp):
TATATTATATATATAGTATATATA
Found at i:56439 original size:7 final size:7
Alignment explanation
Indices: 56274--56590 Score: 96
Period size: 7 Copynumber: 42.9 Consensus size: 7
56264 TCGGGACTTT
56274 TATT-TA
1 TATTATA
56280 TACTTATA
1 TA-TTATA
56288 TTATATATA
1 -TAT-TATA
*
56297 TAGTATA
1 TATTATA
*
56304 TAGTATA
1 TATTATA
*
56311 TTTTATA
1 TATTATA
*
56318 TAGTATA
1 TATTATA
**
56325 TGGTAT-
1 TATTATA
56331 TA-TATA
1 TATTATA
56337 GTATTTATA
1 -TA-TTATA
56346 TATTATGGTA
1 TATTA---TA
*
56356 TAATATA
1 TATTATA
56363 GTATTTATA
1 -TA-TTATA
*
56372 TAGTATA
1 TATTATA
56379 GTA-TATA
1 -TATTATA
56386 TATTATA
1 TATTATA
*
56393 TAGTATA
1 TATTATA
56400 TATT-TA
1 TATTATA
*
56406 TATTACA
1 TATTATA
*
56413 TAGTATA
1 TATTATA
**
56420 TAACATA
1 TATTATA
56427 TAATTATA
1 T-ATTATA
56435 TATTATA
1 TATTATA
*
56442 -ATATATT
1 TAT-TATA
56449 TATTATA
1 TATTATA
*
56456 TTGTTTATA
1 -T-ATTATA
* *
56465 TAGTGTTTT
1 TA-T-TATA
*
56474 TATAATA
1 TATTATA
*
56481 TATTTGGTA
1 TA-TT-ATA
*
56490 TTTTATCA
1 TATTAT-A
56498 TACTTATA
1 TA-TTATA
**
56506 TATGGTA
1 TATTATA
56513 -A-TATA
1 TATTATA
56518 TATTATA
1 TATTATA
*
56525 TAATATA
1 TATTATA
*
56532 TTTTA-A
1 TATTATA
56538 TTATTATA
1 -TATTATA
56546 TTATTATTA
1 -TATTA-TA
56555 TATTATA
1 TATTATA
56562 TATTATTTA
1 TATTA--TA
*
56571 TATTACA
1 TATTATA
56578 TTATTA-A
1 -TATTATA
56585 TATTAT
1 TATTAT
56591 TTTTGGCTTT
Statistics
Matches: 233, Mismatches: 42, Indels: 71
0.67 0.12 0.21
Matches are distributed among these distances:
5 5 0.02
6 21 0.09
7 113 0.48
8 49 0.21
9 39 0.17
10 6 0.03
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (7 bp):
TATTATA
Found at i:56466 original size:2 final size:2
Alignment explanation
Indices: 56284--56456 Score: 75
Period size: 2 Copynumber: 87.5 Consensus size: 2
56274 TATTTATACT
*
56284 TA TA T- TA TA TA TA TA GTA TA TA GTA TA T- TT TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA
* * *
56325 TGG TA T- TA TA TA GTA TT TA TA TA T- TA TGG TA TA -A TA TA GTA
1 T-A TA TA TA TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA
* *
56366 TT TA TA TA GTA TA GTA TA TA TA T- TA TA TA GTA TA TA TT TA TA
1 TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* *
56408 T- TA CA TA GTA TA TA -A CA TA TA -A T- TA TA TA T- TA TA -A TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
56445 TA TT TA T- TA TA T
1 TA TA TA TA TA TA T
56457 TGTTTATATA
Statistics
Matches: 131, Mismatches: 16, Indels: 48
0.67 0.08 0.25
Matches are distributed among these distances:
1 13 0.10
2 98 0.75
3 20 0.15
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56528 original size:14 final size:13
Alignment explanation
Indices: 56511--56573 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 13
56501 TTATATATGG
56511 TAATATATATTATA
1 TAAT-TATATTATA
*
56525 TAA-TATATTTTAA
1 TAATTATATTAT-A
*
56538 TTATTATATTAT-
1 TAATTATATTATA
56550 T-ATTATATTATA
1 TAATTATATTATA
56562 T-ATTAT-TTATA
1 TAATTATATTATA
56573 T
1 T
56574 TACATTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
11 16 0.37
12 14 0.33
13 3 0.07
14 10 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATTATATTATA
Found at i:56555 original size:32 final size:32
Alignment explanation
Indices: 56518--56583 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
56508 TGGTAATATA
*
56518 TATTATATAATATATT-TTAATTATTATATTAT
1 TATTATATAATATATTATTAA-TATTACATTAT
* *
56550 TATTATATTATATATTATTTATATTACATTAT
1 TATTATATAATATATTATTAATATTACATTAT
56582 TA
1 TA
56584 ATATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 27 0.90
33 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (32 bp):
TATTATATAATATATTATTAATATTACATTAT
Found at i:56571 original size:16 final size:16
Alignment explanation
Indices: 56520--56575 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
56510 GTAATATATA
*
56520 TTATATAATATATT-T
1 TTATATTATATATTAT
*
56535 TAATTATTATATTATTA-
1 TTA-TATTATA-TATTAT
56552 TTATATTATATATTAT
1 TTATATTATATATTAT
56568 TTATATTA
1 TTATATTA
56576 CATTATTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 7 0.21
16 21 0.62
17 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATATTATATATTAT
Found at i:58664 original size:3 final size:3
Alignment explanation
Indices: 58651--58715 Score: 62
Period size: 3 Copynumber: 21.7 Consensus size: 3
58641 CGGGTCTTTT
** **
58651 TTA TATA TTA TTA TTA TCG TTA TT- TTAA TTA TTA TTA TTA TTA GCA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
58697 TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TT
58716 TACATATTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.08
3 41 0.82
4 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60793 original size:2 final size:2
Alignment explanation
Indices: 60786--60810 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60776 GTCCTTTAGG
60786 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
60811 TTCAAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66869 original size:105 final size:102
Alignment explanation
Indices: 66682--66920 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
66672 TGAGAATTTT
* * *
66682 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
*
66747 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
66787 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCAC-
* * *
66852 TT-AAATAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
66889 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
66921 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 77 0.65
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACT
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:66928 original size:36 final size:36
Alignment explanation
Indices: 66882--66985 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
66872 TTGAGATCGT
*
66882 TTTCTC-AAAAACAAACTTTGTCTCGCTTGAGACAA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
** *
66917 TTTCTCTAAAAACAAATTTTGTCTCATTTGAGACTA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
* *
66953 TATCT-TAAAGA-AAATTTTGTCTCGCTTGAGACA
1 TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
66986 TCATTTTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 19 0.32
35 11 0.19
36 29 0.49
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (36 bp):
TTTCTCTAAAAACAAATTTTGTCTCGCTTGAGACAA
Found at i:67267 original size:30 final size:29
Alignment explanation
Indices: 67233--67395 Score: 127
Period size: 29 Copynumber: 5.4 Consensus size: 29
67223 CAATTTTGTG
67233 AAAAAAATCTTTGAGAT-TGTTTCTTTTGA
1 AAAAAAATCTTTGAG-TCTGTTTCTTTTGA
*
67262 AAAAAAATCTTTGAGTCTATTTCTTTTGA
1 AAAAAAATCTTTGAGTCTGTTTCTTTTGA
* * ** * * *
67291 AACAAAGT-TTTGTCTCTCTTGAGACAATTTTGTG
1 AAAAAAATCTTTGAGTCTGTT---TC--TTTTG-A
67325 AAAAAAATCTTTGAGAT-TGTTTCTTTTGA
1 AAAAAAATCTTTGAG-TCTGTTTCTTTTGA
*
67354 AACAAAAATCTTTGAGTCTGTTTCTTTGGA
1 AA-AAAAATCTTTGAGTCTGTTTCTTTTGA
*
67384 AACAAAAT-TTTG
1 AAAAAAATCTTTG
67396 TCTCTCTTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 23
0.73 0.12 0.16
Matches are distributed among these distances:
28 14 0.13
29 40 0.38
30 31 0.29
31 1 0.01
32 1 0.01
33 5 0.05
34 6 0.06
35 7 0.07
36 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.42
Consensus pattern (29 bp):
AAAAAAATCTTTGAGTCTGTTTCTTTTGA
Found at i:67395 original size:93 final size:93
Alignment explanation
Indices: 67198--67457 Score: 389
Period size: 92 Copynumber: 2.8 Consensus size: 93
67188 GAATCTTTTA
67198 AAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
*
67263 A-AAAAATCTTTGAGTCTATTTCTTTTG
66 ACAAAAATCTTTGAGTCTATTTCTTTGG
67290 AAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
*
67355 ACAAAAATCTTTGAGTCTGTTTCTTTGG
66 ACAAAAATCTTTGAGTCTATTTCTTTGG
* * * * *
67383 AAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACAAAAATCTTTG-GGTATGTTTCTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAA-TT-TTGTG-AA-AAAAATCTTTGAGAT-TGTTTCTT
*
67447 TGGAAACAAAA
61 TTGAAACAAAA
67458 TTTTGTCTCT
Statistics
Matches: 154, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
92 66 0.43
93 49 0.32
94 2 0.01
95 4 0.03
96 4 0.03
97 29 0.19
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.42
Consensus pattern (93 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTGAAAAAAATCTTTGAGATTGTTTCTTTTGAA
ACAAAAATCTTTGAGTCTATTTCTTTGG
Found at i:67424 original size:37 final size:37
Alignment explanation
Indices: 67374--67494 Score: 105
Period size: 37 Copynumber: 3.5 Consensus size: 37
67364 TTTGAGTCTG
67374 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* * * * *
67411 TTTCTTTTGAAACAAAA------ATCT-TT-GGGTATG
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA-A
*
67441 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAT
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
* *
67478 TTTCTTTTGAAAAAAAA
1 TTTCTTTGGAAACAAAA
67495 AATCTTTGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
29 3 0.05
30 18 0.29
31 3 0.05
36 3 0.05
37 33 0.52
38 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (37 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
Found at i:67452 original size:67 final size:67
Alignment explanation
Indices: 67344--67513 Score: 277
Period size: 67 Copynumber: 2.5 Consensus size: 67
67334 TTTGAGATTG
*
67344 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
67409 AA
66 AA
*
67411 TTTCTTTTGAAACAAAAATCTTTGGGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
1 TTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
*
67476 AT
66 AA
* * *
67478 TTTCTTTTGAAAAAAAAAATCTTTGAATCTGTTTCT
1 TTTCTTTTG-AAACAAAAATCTTTGAGTATGTTTCT
67514 CTTAAAATGA
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
67 73 0.77
68 22 0.23
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (67 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT
AA
Found at i:67549 original size:67 final size:66
Alignment explanation
Indices: 67338--67555 Score: 269
Period size: 67 Copynumber: 3.3 Consensus size: 66
67328 AAAATCTTTG
*
67338 AGATTGTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTT-GAAACAAAATTTTGTCTCTCT
67403 TA
65 TA
* * *
67405 AGATAATTTCTTTTGAAACAAAAATCTTTGGGTATGTTTCTTTGGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTT-GAAACAAAATTTTGTCTCTCT
67470 TA
65 TA
* * * * *
67472 AGATATTTTCTTTTGAAAAAAAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCT
1 AGATAGTTTCTTTTG-AAACAAAAATCTTTGAGTCTGTTTCT-TTGAAACA-AAATTTTGTCTCT
*
67535 CTTG
63 CTTA
* *
67539 AGACAGTTTCTCTTGAA
1 AGATAGTTTCTTTTGAA
67556 GTAAATCTTT
Statistics
Matches: 133, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
66 3 0.02
67 106 0.80
68 22 0.17
69 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (66 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGAAACAAAATTTTGTCTCTCTT
A
Found at i:68524 original size:28 final size:28
Alignment explanation
Indices: 68478--68554 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 28
68468 GAGACAGTTG
68478 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
68509 -TTCTTGAAACAAATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
68537 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
68555 AATTTGGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
28 29 0.67
29 3 0.07
30 3 0.07
31 8 0.19
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.47
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:68564 original size:28 final size:28
Alignment explanation
Indices: 68504--68574 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
68494 TCTTTGAGCT
* *
68504 TGTTTTTCTTGAAACAAATCTTTGAGTC
1 TGTTTCTCTTGAAACAAATCTTTGAATC
* *
68532 TGTTTCTTTTGAAACAAATCTTT-AATT
1 TGTTTCTCTTGAAACAAATCTTTGAATC
68559 TGGTTTCTCTTGAAAC
1 T-GTTTCTCTTGAAAC
68575 CATAACTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 3 0.08
28 34 0.92
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (28 bp):
TGTTTCTCTTGAAACAAATCTTTGAATC
Found at i:68655 original size:40 final size:40
Alignment explanation
Indices: 68600--68791 Score: 145
Period size: 40 Copynumber: 4.6 Consensus size: 40
68590 TGGCCAGCCG
*
68600 TCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
* * * ** *
68640 TCCTCATCACGTAGGAGCCATGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGATC
* * *
68682 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGATC
* * *
68729 TCTTCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCA-TCCCCAGACCAGATC
*
68769 TCTTCATCACGTAGGAACCGTGT
1 TCCTCATCACGTAGGAACCGTGT
68792 TATCACTCTT
Statistics
Matches: 119, Mismatches: 21, Indels: 24
0.73 0.13 0.15
Matches are distributed among these distances:
40 53 0.45
42 1 0.01
43 31 0.26
44 1 0.01
46 30 0.25
47 3 0.03
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGATC
Found at i:68837 original size:91 final size:89
Alignment explanation
Indices: 68674--68933 Score: 332
Period size: 91 Copynumber: 2.9 Consensus size: 89
68664 AACCATAGAT
*
68674 AACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCAC-CTT--TAGATGGCCAGAACTCTTCAT
1 AACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACTCTTCCTAGATGGCCAGAACTCTTCAT
68736 CACGTATGAGCCGTGTCATTCC-CC
66 CACGTATGAGCCGTGTCA-TCCACC
* *
68760 GACCAGATC-TCTTCATCACGTAGGAACCGTGTTATCACTCTTCCTAAAGATGGCCAGAACTCTT
1 AACCAG-TCGTCCTCATCACGTAGGAACCGTGTTATCACTCTTCCT--AGATGGCCAGAACTCTT
*
68824 CATCACGTATGAGCCATGTCATCCACC
63 CATCACGTATGAGCCGTGTCATCCACC
* * ** * * *
68851 AACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCATTCACCCTTAGACGACCAGACCTCTTCA
1 AACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACTCTTCC-TAGATGGCCAGAACTCTTCA
*
68916 TCACGTATGAGCAGTGTC
65 TCACGTATGAGCCGTGTC
68934 GTCCCCACCA
Statistics
Matches: 150, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
86 33 0.22
87 4 0.03
89 1 0.01
90 37 0.25
91 74 0.49
92 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (89 bp):
AACCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACTCTTCCTAGATGGCCAGAACTCTTCAT
CACGTATGAGCCGTGTCATCCACC
Found at i:69096 original size:3 final size:3
Alignment explanation
Indices: 69083--69144 Score: 65
Period size: 3 Copynumber: 20.7 Consensus size: 3
69073 CGGGTCTTTT
* **
69083 TTA TATA TTA TTA TTA TTG TTA TT- TTAA TTA TTA TTA TTA TTA GCA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
69129 TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TT
69145 TACATATTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:70469 original size:29 final size:29
Alignment explanation
Indices: 70402--70459 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
70392 GTTTAATTAC
70402 ATTGTAAGGGTCCCCGTGTTTTGTAAGTT
1 ATTGTAAGGGTCCCCGTGTTTTGTAAGTT
70431 ATTGTAAGGGTCCCCGTGTTTTGTAAGTT
1 ATTGTAAGGGTCCCCGTGTTTTGTAAGTT
70460 TGTTTAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (29 bp):
ATTGTAAGGGTCCCCGTGTTTTGTAAGTT
Found at i:73685 original size:23 final size:25
Alignment explanation
Indices: 73658--73716 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
73648 TACTAAACAT
*
73658 ATAATTATAAATTAGTTAAAA-AT-
1 ATAATTATAAATTAATTAAAATATA
* * *
73681 TTAATTGTAATTTAATTAAAATATA
1 ATAATTATAAATTAATTAAAATATA
73706 ATAATTATAAA
1 ATAATTATAAA
73717 ATATTTTTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 17 0.63
24 2 0.07
25 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
ATAATTATAAATTAATTAAAATATA
Found at i:74288 original size:2 final size:2
Alignment explanation
Indices: 74281--74374 Score: 188
Period size: 2 Copynumber: 47.0 Consensus size: 2
74271 TATGAAAATA
74281 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
74323 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
74365 AT AT AT AT AT
1 AT AT AT AT AT
74375 TTAATATTAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 92 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74702 original size:5 final size:6
Alignment explanation
Indices: 74690--74715 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
74680 TATATTAAAA
74690 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
74716 CATTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:75432 original size:29 final size:28
Alignment explanation
Indices: 75372--75456 Score: 73
Period size: 31 Copynumber: 2.8 Consensus size: 28
75362 CTAAAAACTA
* *
75372 ATAATTTATAAATATTATATTTTAATTAAATT
1 ATAATTTA-AAATTTTATAATTT-A-T-AATT
75404 AT-ATTTAAAATTTTAACTAATTTATAATT
1 ATAATTTAAAATTTT-A-TAATTTATAATT
*
75433 ATACATTTAATATTTTATAATTTA
1 ATA-ATTTAAAATTTTATAATTTA
75457 ACATTTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
29 13 0.28
30 8 0.17
31 18 0.39
32 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
ATAATTTAAAATTTTATAATTTATAATT
Found at i:75446 original size:38 final size:35
Alignment explanation
Indices: 75393--75479 Score: 84
Period size: 37 Copynumber: 2.3 Consensus size: 35
75383 ATATTATATT
* *
75393 TTAATTAAATTATATTTAAAATTTTAACTAATTTATAAT
1 TTAATTTAA-TAT-TTTAAAA-TTTAAC-AATTTATAAA
* *
75432 TATACATTTAATATTTTATAATTTAACATTTTATAAA
1 T-TA-ATTTAATATTTTAAAATTTAACAATTTATAAA
75469 TTAATTTAATA
1 TTAATTTAATA
75480 ATACTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
35 8 0.19
36 2 0.05
37 9 0.21
38 6 0.14
39 7 0.17
40 5 0.12
41 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (35 bp):
TTAATTTAATATTTTAAAATTTAACAATTTATAAA
Found at i:75457 original size:15 final size:15
Alignment explanation
Indices: 75402--75473 Score: 60
Period size: 15 Copynumber: 4.8 Consensus size: 15
75392 TTTAATTAAA
*
75402 TTAT-ATTTAAAATT
1 TTATAATTTAATATT
*
75416 TTAACTAATTT-ATA-A
1 TT-A-TAATTTAATATT
75431 TTATACATTTAATATT
1 TTATA-ATTTAATATT
*
75447 TTATAATTTAACATT
1 TTATAATTTAATATT
*
75462 TTATAAATTAAT
1 TTATAATTTAAT
75474 TTAATAATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.04
14 7 0.15
15 25 0.54
16 8 0.17
17 4 0.09
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTTAATATT
Found at i:75464 original size:23 final size:24
Alignment explanation
Indices: 75373--75464 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 24
75363 TAAAAACTAA
* *
75373 TAATTTATAAATATT-ATATTTTAAT
1 TAATTTAT-AAT-TTAACATTTTAAC
* *
75398 TAAATTAT-ATTTAAAATTTTAAC
1 TAATTTATAATTTAACATTTTAAC
75421 TAATTTATAA-TTATACA-TTTAA-
1 TAATTTATAATTTA-ACATTTTAAC
*
75443 TATTTTATAATTTAACATTTTA
1 TAATTTATAATTTAACATTTTA
75465 TAAATTAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
22 14 0.25
23 32 0.57
24 3 0.05
25 7 0.12
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (24 bp):
TAATTTATAATTTAACATTTTAAC
Found at i:76157 original size:32 final size:32
Alignment explanation
Indices: 76112--76179 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
76102 GTTGTGCATA
* *
76112 TCATCTTCAATCTCTTACATAACATACTCCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
* *
76144 TCATCTTCTATCTCTTACACAACAAACTTCTT
1 TCATCTTCAATCTCTTACACAACAAACTCCTT
76176 TCAT
1 TCAT
76180 ATAACCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (32 bp):
TCATCTTCAATCTCTTACACAACAAACTCCTT
Found at i:77780 original size:79 final size:79
Alignment explanation
Indices: 77649--78003 Score: 496
Period size: 79 Copynumber: 4.5 Consensus size: 79
77639 GTAAAATATA
* * * * * * * * **
77649 CTTTTATGTTGATAATGCACCCATATGCATTTCAGCGATGACATCTTTTCATGTCAATAATGTGC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
77714 CCATATGCATTATT
66 CCATATGCATTATT
* *
77728 CTTTTGTGCTGACAATGTACCCATATACATTTCAGCTA-GGTCATCCATTCATGCCAATAATGCA
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGG-CATCCTTTCATGCCAATAATGCA
77792 CCCATATGCATTATT
65 CCCATATGCATTATT
* * * * *
77807 CTTTTATGCTGGCAATGTATCCATATACATTTCAACTATGGCATCTTTTTATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
77872 CCATATACATTATT
66 CCATATGCATTATT
*
77886 TTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
77951 CCATATGCATTATT
66 CCATATGCATTATT
* * *
77965 CTTTTATACTGACAATGTACTCATATACATTTCATCTAT
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTAT
78004 TTTCATTCGT
Statistics
Matches: 243, Mismatches: 31, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
78 1 0.00
79 240 0.99
80 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (79 bp):
CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:77876 original size:45 final size:44
Alignment explanation
Indices: 77827--77961 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 44
77817 GGCAATGTAT
77827 CCATATACATTTCAACTATGGCATCTTTTTATGCCAATAATGCAC
1 CCATATACATTTC-ACTATGGCATCTTTTTATGCCAATAATGCAC
** * *
77872 CCATATACA--T---TAT----T-TTTTTATGCTGACAATGTAC
1 CCATATACATTTCACTATGGCATCTTTTTATGCCAATAATGCAC
* *
77906 CCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
1 CCATATACATTTCA-CTATGGCATCTTTTTATGCCAATAATGCAC
*
77951 CCATATGCATT
1 CCATATACATT
77962 ATTCTTTTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
34 25 0.37
35 1 0.01
36 1 0.01
39 3 0.04
40 3 0.04
43 1 0.01
44 1 0.01
45 33 0.49
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (44 bp):
CCATATACATTTCACTATGGCATCTTTTTATGCCAATAATGCAC
Found at i:77893 original size:34 final size:34
Alignment explanation
Indices: 77852--77916 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
77842 CTATGGCATC
*
77852 TTTTTATGCCAATAATGCACCCATATACATTATT
1 TTTTTATGCCAACAATGCACCCATATACATTATT
** *
77886 TTTTTATGCTGACAATGTACCCATATACATT
1 TTTTTATGCCAACAATGCACCCATATACATT
77917 TCAGCTATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.42
Consensus pattern (34 bp):
TTTTTATGCCAACAATGCACCCATATACATTATT
Found at i:78444 original size:19 final size:20
Alignment explanation
Indices: 78409--78449 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
78399 CTGATTCCAA
78409 AGTATCGATATTACTAC-CT
1 AGTATCGATATTACTACACT
78428 AGTATCGATACTT-CTACACT
1 AGTATCGATA-TTACTACACT
78448 AG
1 AG
78450 GGTACCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
AGTATCGATATTACTACACT
Found at i:78550 original size:22 final size:21
Alignment explanation
Indices: 78501--78562 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 21
78491 TCGATGTTTC
*
78501 ATGGTATCGATAC-CCTTTAT
1 ATGGTATCGATACTCCCTTAT
* *
78521 GTGGTATCGATACTACCCTTCT
1 ATGGTATCGATACT-CCCTTAT
78543 ATGGTATCGATACTCCCTTA
1 ATGGTATCGATACTCCCTTA
78563 CGATATCGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 12 0.34
21 5 0.14
22 18 0.51
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (21 bp):
ATGGTATCGATACTCCCTTAT
Found at i:78644 original size:20 final size:20
Alignment explanation
Indices: 78621--78733 Score: 95
Period size: 20 Copynumber: 5.5 Consensus size: 20
78611 CTTTTAATGG
*
78621 TATCGATATTGCCTCAACGA
1 TATCGATACTGCCTCAACGA
* ** *
78641 TATCGATATTGATTGAATC-A
1 TATCGATACTGCCTCAA-CGA
*
78661 GTATCGATACTGCCTCAACGG
1 -TATCGATACTGCCTCAACGA
** *
78682 TATCGATACTGATTGAATC-A
1 TATCGATACTGCCTCAA-CGA
78702 GTATCGATACTGCCTCAACGA
1 -TATCGATACTGCCTCAACGA
78723 TATCGATACTG
1 TATCGATACTG
78734 ATTGAATCAG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
20 42 0.58
21 30 0.42
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACTGCCTCAACGA
Found at i:78667 original size:21 final size:21
Alignment explanation
Indices: 78641--78753 Score: 115
Period size: 21 Copynumber: 5.5 Consensus size: 21
78631 GCCTCAACGA
*
78641 TATCGATATTGATTGAATCAG
1 TATCGATACTGATTGAATCAG
** * *
78662 TATCGATACTGCCTCAA-CGG
1 TATCGATACTGATTGAATCAG
78682 TATCGATACTGATTGAATCAG
1 TATCGATACTGATTGAATCAG
** *
78703 TATCGATACTGCCTCAA-C-G
1 TATCGATACTGATTGAATCAG
78722 ATATCGATACTGATTGAATCAG
1 -TATCGATACTGATTGAATCAG
*
78744 TATCTATACT
1 TATCGATACT
78754 ACCCAGCAAA
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 1 0.01
20 31 0.43
21 39 0.54
22 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (21 bp):
TATCGATACTGATTGAATCAG
Found at i:78668 original size:41 final size:41
Alignment explanation
Indices: 78620--78753 Score: 232
Period size: 41 Copynumber: 3.3 Consensus size: 41
78610 CCTTTTAATG
* *
78620 GTATCGATATTGCCTCAACGATATCGATATTGATTGAATCA
1 GTATCGATACTGCCTCAACGATATCGATACTGATTGAATCA
*
78661 GTATCGATACTGCCTCAACGGTATCGATACTGATTGAATCA
1 GTATCGATACTGCCTCAACGATATCGATACTGATTGAATCA
78702 GTATCGATACTGCCTCAACGATATCGATACTGATTGAATCA
1 GTATCGATACTGCCTCAACGATATCGATACTGATTGAATCA
*
78743 GTATCTATACT
1 GTATCGATACT
78754 ACCCAGCAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 88 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (41 bp):
GTATCGATACTGCCTCAACGATATCGATACTGATTGAATCA
Found at i:82152 original size:13 final size:15
Alignment explanation
Indices: 82124--82156 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
82114 TACATGTGAA
82124 AATATCATATTTAAT
1 AATATCATATTTAAT
82139 AATAT-ATA-TTAAT
1 AATATCATATTTAAT
82152 AATAT
1 AATAT
82157 TCAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATCATATTTAAT
Found at i:84535 original size:47 final size:45
Alignment explanation
Indices: 84437--84544 Score: 108
Period size: 47 Copynumber: 2.4 Consensus size: 45
84427 TTGGGGCATG
* * * * * * *
84437 CTTTCATGCCTATTAAGTATTGTTTACGTTTTTCTTTATGACATT
1 CTTTCATACCAATTATGCATTGTTTACATTTTTCTATATGACATC
*
84482 CATTCATACCAATTATGCATTGTTGTACATTTTATCTATATGACATC
1 CTTTCATACCAATTATGCATTGTT-TACATTTT-TCTATATGACATC
* *
84529 CTTTCATTCCACTTAT
1 CTTTCATACCAATTAT
84545 ACGCCGTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
45 19 0.38
46 7 0.14
47 24 0.48
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (45 bp):
CTTTCATACCAATTATGCATTGTTTACATTTTTCTATATGACATC
Found at i:85210 original size:45 final size:45
Alignment explanation
Indices: 85097--85465 Score: 526
Period size: 45 Copynumber: 8.1 Consensus size: 45
85087 CGTTAATTTC
* ** *
85097 ATTTATGGCATCCTTTCATGCC-TTAATGCATCCGTTCATGCATTTTT
1 ATTT-TGGCATCCTTTCATGCCAATAATGCA-CCCAT-ATGCATTATT
* * *
85144 AGTTGTGACATCCTTTCATGCCAATAATACACCCATATGCATTATT
1 A-TTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
*
85190 ATTTTGGCATCCTTTCATGCCTATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
* *
85235 ATTTTGACATCCTTTCATGCCGATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
* *
85280 ATTTTGGCATCTTTTCATGCCTATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
* * *
85325 ATTTTGGTATTCTTTCATGCCGATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
85370 ATTTTGGCATCCTTTCATG-CATATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCA-ATAATGCACCCATATGCATTATT
* *
85415 ATTTCGACATCCTTTCATGCCAATAATGCACCCATATGCATTATT
1 ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
85460 ATTTTG
1 ATTTTG
85466 TTCATTCGTT
Statistics
Matches: 292, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.00
45 251 0.86
46 12 0.04
47 20 0.07
48 8 0.03
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.40
Consensus pattern (45 bp):
ATTTTGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATT
Found at i:86053 original size:95 final size:94
Alignment explanation
Indices: 85894--86072 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 94
85884 TACTACTCTG
* *
85894 GTATCGATACTTCTATACTATGGCATCGATACCCCCTTTCGATATCGATACCATCTCTATATTCT
1 GTATCGATACTACTATACTATGGCATCGATACCCCCTTTCGATATCGATACCATCTCTACATTCT
* * *
85959 GTGTTGCATGGTATCGATACCCTTCTTTCA
66 -AGATCCATGGTATCGATACCCTTCTTTCA
* * *
85989 GTATCGATACTACTATACTATGGTATCGATACTCCCTTTC-AGTATCGATACCAT-TTTGACATT
1 GTATCGATACTACTATACTATGGCATCGATACCCCCTTTCGA-TATCGATACCATCTCT-ACATT
86052 CTAGATCCATGGTATCGATAC
64 CTAGATCCATGGTATCGATAC
86073 TTTCCTTTGT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 19 0.26
95 55 0.74
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (94 bp):
GTATCGATACTACTATACTATGGCATCGATACCCCCTTTCGATATCGATACCATCTCTACATTCT
AGATCCATGGTATCGATACCCTTCTTTCA
Found at i:88894 original size:3 final size:3
Alignment explanation
Indices: 88882--88926 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
88872 ATATTTGTAT
88882 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
88927 AATTAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:88933 original size:22 final size:22
Alignment explanation
Indices: 88882--88926 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
88872 ATATTTGTAT
88882 TAATATAATAATAATAATAATAA
1 TAATA-AATAATAATAATAATAA
88905 TAATAAATAATAATAATAATAA
1 TAATAAATAATAATAATAATAA
88927 AATTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAATAAATAATAATAATAATAA
Found at i:89157 original size:43 final size:43
Alignment explanation
Indices: 89096--89309 Score: 170
Period size: 43 Copynumber: 4.9 Consensus size: 43
89086 TGTTGGGAAC
* *
89096 GACACTGCTCATACGTGATGAAGAGTTCGGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTAAGGGT
*
89139 GACACGGCTCATACGTGATGAAGAGATCTGG---TC--AGGGTAT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTAAGGG--T
*
89179 GACACGACTCATACGTGATGAAGAGTTCTGGTCATCTTTAGGAGGGGT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGTCATC--TA--A-GGGT
* * * * * * *
89227 GATAACTCGGTTCCTACGTGATGAGGACG-ACTGGTTATCTAGGGGT
1 G---ACACGGCTCATACGTGATGAAGA-GTTCTGGTCATCTAAGGGT
* *
89273 GACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCT
1 GACACGGCTCATACGTGATGAAGAGTTCTGGTCATCT
89310 TTAGGTAGGG
Statistics
Matches: 135, Mismatches: 19, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
38 4 0.03
40 32 0.24
42 1 0.01
43 58 0.43
46 5 0.04
48 2 0.01
49 3 0.02
50 3 0.02
51 26 0.19
52 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (43 bp):
GACACGGCTCATACGTGATGAAGAGTTCTGGTCATCTAAGGGT
Found at i:89291 original size:94 final size:94
Alignment explanation
Indices: 89178--89400 Score: 349
Period size: 94 Copynumber: 2.4 Consensus size: 94
89168 GGTCAGGGTA
* * * *
89178 TGACACGACTCATACGTGATGAAGAGTTCTGGTCATCTTTAGG-AGGGGTGATAACTCGGTTCCT
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGTCATCTTTAGGTA-GGGCGATAACACGGTTCCT
89242 ACGTGATGAGGACGACTGGTTATCTAGGGG
65 ACGTGATGAGGACGACTGGTTATCTAGGGG
*
89272 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTTTAGGTAGGGCGATAACACGGTTCCTA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGTCATCTTTAGGTAGGGCGATAACACGGTTCCTA
* *
89337 CGTGATGAGGACGACTGGTTATCTATGGT
66 CGTGATGAGGACGACTGGTTATCTAGGGG
* *
89366 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGTCA
89401 GGGATGACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
94 117 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (94 bp):
TGACACGGCTCCTACGTGATGAAGAGTTCTGGTCATCTTTAGGTAGGGCGATAACACGGTTCCTA
CGTGATGAGGACGACTGGTTATCTAGGGG
Found at i:89340 original size:51 final size:49
Alignment explanation
Indices: 89190--89344 Score: 137
Period size: 51 Copynumber: 3.2 Consensus size: 49
89180 ACACGACTCA
*
89190 TACGTGATGAAGAGTTCTGGTCATCTTTAGG-AGGGGTGATAACTCGGTTCC
1 TACGTGATGAAGAGTTCTGG-CATCTTTAGGTA-GGG-GATAACACGGTTCC
* * ** * *
89241 TACGTGATGAGGACG-ACTGG-----TTATCTAGGGG-TGACACGGCTCC
1 TACGTGATGAAGA-GTTCTGGCATCTTTAGGTAGGGGATAACACGGTTCC
89284 TACGTGATGAAGAGTTCTGGCCATCTTTAGGTAGGGCGATAACACGGTTCC
1 TACGTGATGAAGAGTTCTGG-CATCTTTAGGTAGGG-GATAACACGGTTCC
89335 TACGTGATGA
1 TACGTGATGA
89345 GGACGACTGG
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 25 0.31
44 1 0.01
45 6 0.08
46 1 0.01
49 8 0.10
50 1 0.01
51 36 0.45
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (49 bp):
TACGTGATGAAGAGTTCTGGCATCTTTAGGTAGGGGATAACACGGTTCC
Found at i:89386 original size:43 final size:39
Alignment explanation
Indices: 89325--89436 Score: 127
Period size: 39 Copynumber: 2.8 Consensus size: 39
89315 TAGGGCGATA
* *
89325 ACACGGTTCCTACGTGATGAGGACGACTGGTTATCTATGGTTG
1 ACACGGTTCCTACGTGATGAGGACGACTGG---TC-AGGGATG
*
89368 ACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGGGATG
1 ACACGGTTCCTACGTGATGAGGACGA-CTGGTCAGGGATG
* *
89407 ACATGATTCCTACGTGATGAGGACGACTGG
1 ACACGGTTCCTACGTGATGAGGACGACTGG
89437 CCATCTCTAG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
39 29 0.48
40 4 0.07
42 2 0.03
43 26 0.43
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
ACACGGTTCCTACGTGATGAGGACGACTGGTCAGGGATG
Found at i:90453 original size:30 final size:30
Alignment explanation
Indices: 90419--90549 Score: 115
Period size: 30 Copynumber: 4.1 Consensus size: 30
90409 AGAGACAAAA
*
90419 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
**
90449 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-
1 TTTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGAT
*
90486 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
90516 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGA-CTCAAAGAT
90546 TTTT
1 TTTT
90550 TTCACAAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:90474 original size:67 final size:67
Alignment explanation
Indices: 90365--90532 Score: 302
Period size: 67 Copynumber: 2.5 Consensus size: 67
90355 TCATTTTAAG
* *
90365 AGAAACAGATTCAAAG-TTTTTTTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
90429 AA
66 AA
*
90431 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
90496 AA
66 AA
90498 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
1 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAA
90533 CAATCTCAAA
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 15 0.15
67 83 0.85
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (67 bp):
AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCC
AA
Found at i:90558 original size:30 final size:29
Alignment explanation
Indices: 90481--90558 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 29
90471 TTAAGAGAGA
90481 CAAA-ATTTTGTTTCC-AAAGAAACAGACT
1 CAAAGATTTT-TTTCCAAAAGAAACAGACT
*
90509 CAAAGATTTTTGTTTCAAAAGAAACA-ATCT
1 CAAAGATTTTT-TTCCAAAAGAAACAGA-CT
90539 CAAAGATTTTTTTCACAAAA
1 CAAAGATTTTTTTC-CAAAA
90559 TTGTCTCAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 5 0.12
29 11 0.26
30 27 0.63
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (29 bp):
CAAAGATTTTTTTCCAAAAGAAACAGACT
Found at i:90611 original size:52 final size:53
Alignment explanation
Indices: 90537--90640 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 53
90527 AAGAAACAAT
90537 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTATTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTATTTCAGA
* *
90591 CTCAAAGA-TTTTTCACAAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTATTTCA
90641 AAAGAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 40 0.83
54 8 0.17
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTATTTCAGA
Found at i:90666 original size:30 final size:30
Alignment explanation
Indices: 90632--90716 Score: 124
Period size: 30 Copynumber: 3.0 Consensus size: 30
90622 GAGACAAAAC
*
90632 TTTGTTTCAAAAGAAATAGACTCAAAGATA
1 TTTGTTTCAAAAGAAACAGACTCAAAGATA
90662 TTTGTTTCAAAAGAAACA-ACTCAAAG--A
1 TTTGTTTCAAAAGAAACAGACTCAAAGATA
*
90689 -TTGTTTCAAAAGGAACAGACTCAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
90717 TTATCTCAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
26 16 0.32
27 9 0.18
29 8 0.16
30 17 0.34
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGATA
Found at i:90698 original size:26 final size:27
Alignment explanation
Indices: 90633--90717 Score: 118
Period size: 26 Copynumber: 3.1 Consensus size: 27
90623 AGACAAAACT
*
90633 TTGTTTCAAAAGAAATAGACTCAAAGATA
1 TTGTTTCAAAAGAAACAGACTCAAAG--A
90662 TTTGTTTCAAAAGAAACA-ACTCAAAGA
1 -TTGTTTCAAAAGAAACAGACTCAAAGA
*
90689 TTGTTTCAAAAGGAACAGACTCAAAGA
1 TTGTTTCAAAAGAAACAGACTCAAAGA
90716 TT
1 TT
90718 TATCTCAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
26 16 0.31
27 12 0.23
29 8 0.15
30 16 0.31
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (27 bp):
TTGTTTCAAAAGAAACAGACTCAAAGA
Found at i:91062 original size:36 final size:36
Alignment explanation
Indices: 90978--91081 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
90968 GAGAAAATGA
* *
90978 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
91012 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
91048 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
91082 ACGATCTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.34
35 10 0.17
36 29 0.49
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:91109 original size:36 final size:36
Alignment explanation
Indices: 90979--91097 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
90969 AGAAAATGAT
* * *
90979 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
91013 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
91049 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
91084 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
91098 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 12 0.17
36 38 0.54
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:91236 original size:105 final size:101
Alignment explanation
Indices: 91049--91281 Score: 285
Period size: 105 Copynumber: 2.3 Consensus size: 101
91039 TAGAGAAATT
*
91049 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
91113 GTGCAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 GTGCAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
91151 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* *
91215 TAA-GTG-AATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGCAA-CAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
91256 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
91282 AAAATTCTCA
Statistics
Matches: 115, Mismatches: 8, Indels: 13
0.85 0.06 0.10
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 6 0.05
105 76 0.66
106 5 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GCAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:91384 original size:156 final size:157
Alignment explanation
Indices: 91146--91437 Score: 428
Period size: 156 Copynumber: 1.9 Consensus size: 157
91136 TCTCAAAGGG
* * *
91146 AAAAGGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTT
1 AAAAGGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
* * * *
91211 GTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATT
66 GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATT
91276 TGTTTTAAAATTCTCAAAATTTGTGGA
131 TGTTTTAAAATTCTCAAAATTTGTGGA
* * * *
91303 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAACTT
1 AAAAGGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGATGAGATCAACTT
* *
91366 TG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAA
65 TGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAA
91430 TTTGTTTT
129 TTTGTTTT
91438 GAAAGAAACA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
155 5 0.04
156 76 0.63
157 39 0.32
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (157 bp):
AAAAGGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATT
TGTTTTAAAATTCTCAAAATTTGTGGA
Found at i:91426 original size:104 final size:105
Alignment explanation
Indices: 91300--91547 Score: 340
Period size: 105 Copynumber: 2.4 Consensus size: 105
91290 CAAAATTTGT
* *
91300 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAA
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCT-AAGATGAGATCAA
*
91363 CTTTG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAA
65 CTTTGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAA
** * * * *
91404 GGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAAT
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAAC
* *
91469 TTTGTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAA
66 TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAA
* *
91509 GGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAAT
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAAT
91548 TCTCAAAATT
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 41 0.33
105 79 0.63
106 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (105 bp):
GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAAC
TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAA
Found at i:91546 original size:261 final size:261
Alignment explanation
Indices: 91048--92227 Score: 2244
Period size: 261 Copynumber: 4.5 Consensus size: 261
91038 TTAGAGAAAT
* *
91048 TGTCTCAAGCGAGAC-AAAGTTTGTTTTTG--AGAAA-ACGATCTCAAGTGAGATCAACTTTGTT
1 TGTCTCAAGCGAGACGAAA-TTTG-TTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTT
* * * **
91109 TAATGTGCAACAAATTCGAAATTTGGATCTCAAAGGGAAAAGGTCTCAAGCGAGACGAAATTTGT
64 TAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGT
91174 TTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTG
129 TTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTG
91239 TATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAA
194 TATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAA
91304 AAA
259 AAA
91307 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
91372 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
91437 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
131 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
91502 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
196 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
91567 A
261 A
91568 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
91633 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
91698 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
131 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
91763 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGG-AAA
196 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
91827 A
261 A
91828 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
91893 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
91958 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
131 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
92023 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
196 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
92088 A
261 A
92089 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
92154 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
92219 TGAAAGAAA
131 TGAAAGAAA
92228 TTGTCTCAAG
Statistics
Matches: 909, Mismatches: 7, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
258 5 0.01
259 19 0.02
260 267 0.29
261 618 0.68
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (261 bp):
TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
A
Found at i:91654 original size:156 final size:157
Alignment explanation
Indices: 91404--91698 Score: 425
Period size: 156 Copynumber: 1.9 Consensus size: 157
91394 GGATCTCAAA
* * * *
91404 GGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAAT
1 GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAAC
* * * *
91469 TTTGTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCA
66 TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAA
91534 ATTTGTTTTAAAATTCTCAAAATTTGT
131 ATTTGTTTTAAAATTCTCAAAATTTGT
* * * *
91561 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAA
1 GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGATGAGATCAA
* *
91624 CTTTG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACG
65 CTTTGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACG
91688 AAATTTGTTTT
129 AAATTTGTTTT
91699 GAAAGAAACA
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
155 5 0.04
156 76 0.62
157 41 0.34
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (157 bp):
GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAAC
TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAA
ATTTGTTTTAAAATTCTCAAAATTTGT
Found at i:91687 original size:104 final size:105
Alignment explanation
Indices: 91561--91808 Score: 340
Period size: 105 Copynumber: 2.4 Consensus size: 105
91551 CAAAATTTGT
* *
91561 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAA
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCT-AAGATGAGATCAA
*
91624 CTTTG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAA
65 CTTTGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAA
** * * * *
91665 GGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAAT
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAAC
* *
91730 TTTGTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAA
66 TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAA
* *
91770 GGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAAT
1 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAAT
91809 TCTCAAAATT
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
104 41 0.33
105 79 0.63
106 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (105 bp):
GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAAC
TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAA
Found at i:91913 original size:155 final size:156
Alignment explanation
Indices: 91668--91958 Score: 417
Period size: 155 Copynumber: 1.9 Consensus size: 156
91658 TCTCAAAGGA
* * * *
91668 AAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTT
1 AAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
* * * *
91733 GTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATT
66 GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATT
91798 TGTTTTAAAATTCTCAAAATTTGTGG
131 TGTTTTAAAATTCTCAAAATTTGTGG
* * * *
91824 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAACTT
1 AAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGATGAGATCAACTT
* *
91887 TG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAA
65 TGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAA
91951 TTTGTTTT
129 TTTGTTTT
91959 GAAAGAAACA
Statistics
Matches: 119, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
154 5 0.04
155 76 0.64
156 38 0.32
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (156 bp):
AAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAACTTT
GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAAATT
TGTTTTAAAATTCTCAAAATTTGTGG
Found at i:91946 original size:104 final size:105
Alignment explanation
Indices: 91824--92068 Score: 334
Period size: 105 Copynumber: 2.3 Consensus size: 105
91814 AAATTTGTGG
* *
91824 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAACTT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCT-AAGATGAGATCAACTT
*
91887 TG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGA
65 TGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGA
** * * * *
91928 AAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAACTTT
* *
91993 GTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGA
66 GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGA
* *
92033 AAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAAT
1 AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAAT
92069 TCTCAAAATT
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
104 38 0.31
105 79 0.65
106 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (105 bp):
AAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAACAACAATCTAAGATGAGATCAACTTT
GTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGA
Found at i:92064 original size:521 final size:522
Alignment explanation
Indices: 91048--92227 Score: 2244
Period size: 521 Copynumber: 2.3 Consensus size: 522
91038 TTAGAGAAAT
* *
91048 TGTCTCAAGCGAGAC-AAAGTTTGTTTTTG--AGAAA-ACGATCTCAAGTGAGATCAACTTTGTT
1 TGTCTCAAGCGAGACGAAA-TTTG-TTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTT
* * * **
91109 TAATGTGCAACAAATTCGAAATTTGGATCTCAAAGGGAAAAGGTCTCAAGCGAGACGAAATTTGT
64 TAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGT
91174 TTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTG
129 TTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTG
91239 TATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAA
194 TATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAA
91304 AAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGT
259 AAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGT
91369 TTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTG
324 TTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTG
91434 TTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTT
389 TTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTT
91499 GTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGA
454 GTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGA
91564 AAAA
519 AAAA
91568 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
91633 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
91698 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
131 TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
91763 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGG-AAA
196 TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
91827 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTT
261 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTT
91892 AATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTT
326 AATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTT
91957 TTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGT
391 TTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGT
92022 ATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAA
456 ATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAA
92087 AA
521 AA
92089 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
1 TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
92154 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
66 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
92219 TGAAAGAAA
131 TGAAAGAAA
92228 TTGTCTCAAG
Statistics
Matches: 649, Mismatches: 7, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
519 5 0.01
520 19 0.03
521 411 0.63
522 214 0.33
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (522 bp):
TGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTTA
ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTT
TGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGTA
TCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAAA
ATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAATACGATCTCAAATGAGATCAACTTTGTTT
AATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACGAAATTTGTT
TTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTTAAGTGAATCAAATTCAAAATTTGT
ATCTCAAAGGAAAAATGTCTCAAGCGAGACGCAATTTGTTTTAAAATTCTCAAAATTTGTGGAAA
AA
Found at i:92175 original size:156 final size:157
Alignment explanation
Indices: 91925--92219 Score: 425
Period size: 156 Copynumber: 1.9 Consensus size: 157
91915 GGATCTCAAA
* * * *
91925 GGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAAT
1 GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAAC
* * * *
91990 TTTGTTTTAAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATGTCTCAAGCGAGACGCA
66 TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAA
92055 ATTTGTTTTAAAATTCTCAAAATTTGT
131 ATTTGTTTTAAAATTCTCAAAATTTGT
* * * *
92082 GGAAAAATGTCTCAAGCGAGACGAAATTTGTTTTGAAATAAA-TACGATCTCAA-ATGAGATCAA
1 GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGATGAGATCAA
* *
92145 CTTTG-TTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGAAAAATGTCTCAAATGAGACG
65 CTTTGTTTTAA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACG
92209 AAATTTGTTTT
129 AAATTTGTTTT
92220 GAAAGAAATT
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
155 5 0.04
156 76 0.62
157 41 0.34
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (157 bp):
GGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAACAACAATCTAAGATGAGATCAAC
TTTGTTTTAAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATGTCTCAAACGAGACGAA
ATTTGTTTTAAAATTCTCAAAATTTGT
Found at i:92596 original size:4 final size:4
Alignment explanation
Indices: 92587--93362 Score: 1499
Period size: 4 Copynumber: 195.0 Consensus size: 4
92577 TTTATGTATC
*
92587 ATGT ATGT ATG- -TGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92633 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92681 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92729 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92777 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT-GT ATGT
92826 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92874 A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92921 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
92969 ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93015 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93063 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93111 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93159 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93207 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93255 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93303 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
93351 ATGT ATGT ATGT
1 ATGT ATGT ATGT
93363 GTTGACGTAT
Statistics
Matches: 764, Mismatches: 2, Indels: 12
0.98 0.00 0.02
Matches are distributed among these distances:
2 4 0.01
3 3 0.00
4 753 0.99
5 4 0.01
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:96682 original size:31 final size:33
Alignment explanation
Indices: 96625--96687 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 33
96615 TGACAAAATG
96625 ACACAAACAAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAAGAGAAGAAATAAGTTAGTAT
96658 ACACAAAC-AAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAAGAGAAGAAATAAGTTAGTA
96688 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 13 0.43
32 9 0.30
33 8 0.27
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (33 bp):
ACACAAACAAAAAGAGAAGAAATAAGTTAGTAT
Found at i:100343 original size:3 final size:3
Alignment explanation
Indices: 100331--100387 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
100321 ATATTTGTAT
100331 TAA T-A TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
100376 TAA TAA TAA TAA
1 TAA TAA TAA TAA
100388 AATTAAAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:100394 original size:6 final size:5
Alignment explanation
Indices: 100332--100404 Score: 51
Period size: 6 Copynumber: 13.4 Consensus size: 5
100322 TATTTGTATT
*
100332 AATAT AATAA TAAT-A AATAA TAATAA TAATAA TAATAA TAATAA TAATAA
1 AATAA AATAA -AATAA AATAA -AATAA -AATAA -AATAA -AATAA -AATAA
100382 TAATAA AATTAA AATAA AA-AA AA
1 -AATAA AA-TAA AATAA AATAA AA
100405 GAGGACCCGG
Statistics
Matches: 63, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
4 7 0.11
5 13 0.21
6 43 0.68
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (5 bp):
AATAA
Found at i:101501 original size:30 final size:29
Alignment explanation
Indices: 101419--101509 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
101409 TCAATTTGAT
*
101419 CACCGAACTTTCAATTGAATCAATCAAAC
1 CACCAAACTTTCAATTGAATCAATCAAAC
*
101448 CACCAAACTTTCAATTGAATCAATCAGAC
1 CACCAAACTTTCAATTGAATCAATCAAAC
* * * *
101477 TACTAAACTTTTTAATTGATTCAATCAAAC
1 CACCAAAC-TTTCAATTGAATCAATCAAAC
101507 CAC
1 CAC
101510 TCTCCATTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 33 0.62
30 20 0.38
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (29 bp):
CACCAAACTTTCAATTGAATCAATCAAAC
Found at i:104988 original size:37 final size:38
Alignment explanation
Indices: 104945--105027 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
104935 TAATTTAATT
* * * * *
104945 AATATTATCTATAATTTTATTAAAATTAGAATATT-AA
1 AATATTATATAAAATTTTATGAAAATGAAAATATTGAA
*
104982 AATATTAAATAAAATTTTATGAAAATGAAAATATTGAA
1 AATATTATATAAAATTTTATGAAAATGAAAATATTGAA
105020 AAT-TTATA
1 AATATTATA
105028 AAATAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 33 0.87
38 5 0.13
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (38 bp):
AATATTATATAAAATTTTATGAAAATGAAAATATTGAA
Found at i:105048 original size:21 final size:21
Alignment explanation
Indices: 105024--105065 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
105014 ATTGAAAATT
*
105024 TATAAAATAA-TAAATTATAAA
1 TATAAAA-AACTAAAATATAAA
105045 TATAAAAAACTAAAATATAAA
1 TATAAAAAACTAAAATATAAA
105066 AATGTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TATAAAAAACTAAAATATAAA
Found at i:110557 original size:10 final size:10
Alignment explanation
Indices: 110552--110590 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
110542 GCTTTTTGTT
110552 TTTTTTTTTG
1 TTTTTTTTTG
**
110562 CCTTTTTTTG
1 TTTTTTTTTG
110572 TTTTTTTTT-
1 TTTTTTTTTG
110581 TTTTTTTTTG
1 TTTTTTTTTG
110591 AAAAAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:113862 original size:18 final size:18
Alignment explanation
Indices: 113835--113871 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
113825 ATATAACACA
* *
113835 TATGTTCCGAATGACCAC
1 TATGTCCCGAAGGACCAC
113853 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
113871 T
1 T
113872 CCTTAATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:114124 original size:30 final size:29
Alignment explanation
Indices: 114049--114125 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
114039 TTTATGTCAT
* * **
114049 TTCACATATTCACATAGTCATATGGTTTAC
1 TTCACATA-TCACATATTCATATGATCCAC
**
114079 TTGCACATAGAACATATTCATATGATCCAC
1 TT-CACATATCACATATTCATATGATCCAC
114109 ATTCACATATCACATAT
1 -TTCACATATCACATAT
114126 ACACTATTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 29 0.78
31 8 0.22
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (29 bp):
TTCACATATCACATATTCATATGATCCAC
Found at i:115347 original size:35 final size:35
Alignment explanation
Indices: 115300--115399 Score: 173
Period size: 35 Copynumber: 2.9 Consensus size: 35
115290 CGTCAAGTCC
*
115300 AGTAAGGCCCTGAGCACAAAGCAGAGGAGCTGGTA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCTGGTA
* *
115335 AGTAAGGTCCTGAGCACAAACCCGAGGAGCTGGTA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCTGGTA
115370 AGTAAGGCCCTGAGCACAAAGCCGAGGAGC
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGC
115400 CTCCAGGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 60 1.00
ACGTcount: A:0.33, C:0.23, G:0.33, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCTGGTA
Found at i:115507 original size:24 final size:24
Alignment explanation
Indices: 115480--115543 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
115470 ATCAAAATAT
115480 AATCCAGGTCAAGTA-CCAGATCAA
1 AATCCAGGTCAAGTATCC-GATCAA
*
115504 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATCCGATCAA
* *
115528 AATCCAAGTCAGGTAT
1 AATCCAGGTCAAGTAT
115544 TATAACAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 34 0.94
25 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (24 bp):
AATCCAGGTCAAGTATCCGATCAA
Found at i:120060 original size:24 final size:24
Alignment explanation
Indices: 120033--120106 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 24
120023 TTTATCAAAA
* * *
120033 ATCAAAACATAATTCAGGTTAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* *
120057 ATCAGATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
** * * *
120081 ATCCGATCAGAATCCAGGTCAGGT
1 ATCAAAACAAAATCCAGGTCAAGT
120105 AT
1 AT
120107 TATAACAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:127050 original size:23 final size:23
Alignment explanation
Indices: 127024--127085 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
127014 ACTTAGACTT
*
127024 TGTCCCGAATGACCATGTAGAAA
1 TGTCCCGAATGACCACGTAGAAA
* * *
127047 TGTCCCAAAGGACCGCGTAGAAA
1 TGTCCCGAATGACCACGTAGAAA
127070 TGTCCCGAATGACCAC
1 TGTCCCGAATGACCAC
127086 ATATAACGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.18
Consensus pattern (23 bp):
TGTCCCGAATGACCACGTAGAAA
Found at i:127119 original size:18 final size:18
Alignment explanation
Indices: 127096--127132 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
127086 ATATAACGCA
*
127096 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAAGACCAC
*
127114 TATGTCCTGAAAGACCAC
1 TATGTCCCGAAAGACCAC
127132 T
1 T
127133 CCTTAAGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (18 bp):
TATGTCCCGAAAGACCAC
Found at i:134827 original size:21 final size:20
Alignment explanation
Indices: 134788--134826 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134778 CTCAAAATCA
* *
134788 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATCTAATTTTG
134808 TTTTTCAAAATCTAATTTT
1 TTTTTCAAAATCTAATTTT
134827 TCTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTTCAAAATCTAATTTTG
Found at i:135843 original size:30 final size:30
Alignment explanation
Indices: 135808--135867 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
135798 ATCATCCATC
*
135808 TCATCAGTTGGAATGGAGTATCCTTTCATA
1 TCATCAGTTGGAATGGAGTATACTTTCATA
135838 TCATCAGTTGGAATGGAGTATACTTTCATA
1 TCATCAGTTGGAATGGAGTATACTTTCATA
135868 ATTGAGTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (30 bp):
TCATCAGTTGGAATGGAGTATACTTTCATA
Found at i:138174 original size:13 final size:13
Alignment explanation
Indices: 138156--138180 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138146 TTTATACGAG
138156 TGTATGTGTTATA
1 TGTATGTGTTATA
138169 TGTATGTGTTAT
1 TGTATGTGTTAT
138181 GAATTGTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TGTATGTGTTATA
Done.