Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 2 of 18
Found at i:181627 original size:42 final size:43
Alignment explanation
Indices: 181563--181645 Score: 132
Period size: 42 Copynumber: 1.9 Consensus size: 43
181553 GGAGATAATC
*
181563 GTTTAAGGGGGAGAATTTTTTTTTTTAAGGGGAGAAAAACGAAAT
1 GTTTAAGGGGGAGAA--TTTTTTTTTAAGGCGAGAAAAACGAAAT
181608 GTTTAAGGGGGAGAA-TTTTTTTTAAGGCGAGAAAAACG
1 GTTTAAGGGGGAGAATTTTTTTTTAAGGCGAGAAAAACG
181646 GAAACTTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 22 0.59
45 15 0.41
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.31
Consensus pattern (43 bp):
GTTTAAGGGGGAGAATTTTTTTTTAAGGCGAGAAAAACGAAAT
Found at i:182189 original size:20 final size:20
Alignment explanation
Indices: 182166--182238 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
182156 CACACCCAGA
*
182166 TGTATTGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
182186 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
* * *
182206 TGTATCGATACAT-ATTCAT
1 TGTATCGATACATGCTGCTT
182225 TGTATCGATACATG
1 TGTATCGATACATG
182239 GACAAAGTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.33
20 32 0.67
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATGCTGCTT
Found at i:182314 original size:20 final size:20
Alignment explanation
Indices: 182289--182341 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
182279 TATCACTATT
** *
182289 TGTATCGATACATGGTGCAA
1 TGTATCGATACATGAAGAAA
182309 TGTATCGATACATGAAGAAA
1 TGTATCGATACATGAAGAAA
182329 TGTATCGATACAT
1 TGTATCGATACAT
182342 AGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:188010 original size:20 final size:20
Alignment explanation
Indices: 187985--188059 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
187975 TATTGTCGCT
*
187985 TTCATGTATTGATACATTTG
1 TTCATGTATCGATACATTTG
*
188005 TTCATGTATCGATACA-ATG
1 TTCATGTATCGATACATTTG
** *
188024 AACATGTATTGATACATTTG
1 TTCATGTATCGATACATTTG
*
188044 TTCATTTATCGATACA
1 TTCATGTATCGATACA
188060 ATGTATCGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
19 15 0.34
20 29 0.66
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:188031 original size:19 final size:19
Alignment explanation
Indices: 188007--188062 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
187997 TACATTTGTT
188007 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* * **
188026 CATGTATTGATACATTTGTT
1 CATGTATCGATACA-ATGAA
*
188046 CATTTATCGATACAATG
1 CATGTATCGATACAATG
188063 TATCGATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:188036 original size:39 final size:39
Alignment explanation
Indices: 187987--188062 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
187977 TTGTCGCTTT
187987 CATGTATTGATACATTTGTTCATGTATCGATACAATGAA
1 CATGTATTGATACATTTGTTCATGTATCGATACAATGAA
*
188026 CATGTATTGATACATTTGTTCATTTATCGATACAATG
1 CATGTATTGATACATTTGTTCATGTATCGATACAATG
188063 TATCGATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (39 bp):
CATGTATTGATACATTTGTTCATGTATCGATACAATGAA
Found at i:188071 original size:33 final size:35
Alignment explanation
Indices: 187987--188072 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 35
187977 TTGTCGCTTT
187987 CATGTATTGATACATTTGTTCATGTATCGATACAATGAA
1 CATGTATTGATACATTTGTTCATGTATCGATAC----AA
*
188026 CATGTATTGATACATTTGTTCATTTATCGATAC-A
1 CATGTATTGATACATTTGTTCATGTATCGATACAA
*
188060 -ATGTATCGATACA
1 CATGTATTGATACA
188073 AAGCATAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 12 0.27
34 1 0.02
39 32 0.71
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (35 bp):
CATGTATTGATACATTTGTTCATGTATCGATACAA
Found at i:196788 original size:13 final size:13
Alignment explanation
Indices: 196770--196795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
196760 CAATTTTTTG
196770 TGTATCGATACAT
1 TGTATCGATACAT
196783 TGTATCGATACAT
1 TGTATCGATACAT
196796 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:196810 original size:32 final size:33
Alignment explanation
Indices: 196750--196813 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
196740 TACAAGCCAA
** *
196750 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
196783 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
196814 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:201320 original size:15 final size:15
Alignment explanation
Indices: 201300--201330 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
201290 ATTTCGTTTG
*
201300 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
201315 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
201330 G
1 G
201331 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:205385 original size:20 final size:20
Alignment explanation
Indices: 205360--205411 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
205350 TAAAAGCCAA
** *
205360 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
205380 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
205399 TGTATCGATACAA
1 TGTATCGATACAA
205412 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:205417 original size:19 final size:18
Alignment explanation
Indices: 205360--205417 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
205350 TAAAAGCCAA
*
205360 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
205380 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
205399 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
205418 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:208043 original size:41 final size:42
Alignment explanation
Indices: 207995--208084 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
207985 ATTTTGAAAT
* *
207995 AAATTTG-TTTTTAAAAAGGGAGATTTTATGGAAGTTTTGTA
1 AAATTTGTTTTTTAAAAAGGGAGATTTTATAGAAGTTTGGTA
* ** *
208036 AAATTTGTTTTTTAGAGGGGGAGATTTTGTAGAAGTTTGGTA
1 AAATTTGTTTTTTAAAAAGGGAGATTTTATAGAAGTTTGGTA
208078 AAATTTG
1 AAATTTG
208085 GGAGATAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 7 0.17
42 35 0.83
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (42 bp):
AAATTTGTTTTTTAAAAAGGGAGATTTTATAGAAGTTTGGTA
Found at i:208841 original size:19 final size:20
Alignment explanation
Indices: 208799--208848 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
208789 ACCTAGATGC
208799 ATTGATACATATTGCTCTGT
1 ATTGATACATATTGCTCTGT
*
208819 ATTGATACATGTT-CT-TGGT
1 ATTGATACATATTGCTCT-GT
208838 ATTGATACATA
1 ATTGATACATA
208849 GTGAATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
ATTGATACATATTGCTCTGT
Found at i:211209 original size:28 final size:28
Alignment explanation
Indices: 211169--211235 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
211159 AAAATCAGGA
** * *
211169 TTGGAGTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
*
211197 TTGGAGTATCCCCGATGAAATAACGAGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
211225 TTGGAGTATCC
1 TTGGAGTATCC
211236 TCGATTGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCGAGGAAATAACGAGG
Found at i:211286 original size:52 final size:50
Alignment explanation
Indices: 211223--211393 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 50
211213 GAAATAACGA
* *
211223 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTAGAAATAAAACCG
** * **
211274 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTT-GAAAATAAAACCG
1 G-GTTGGAGTATCCCCGATT-GTGAAAAATTGGTTTTTTAG-AAATAAAACCG
* * **
211326 GGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCGATAAAACCGG
1 GG-TTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTAGAAATAAAACC-G
211379 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
211394 TCGGAAATAA
Statistics
Matches: 99, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
51 3 0.03
52 83 0.84
53 13 0.13
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTAGAAATAAAACCG
Found at i:211365 original size:104 final size:102
Alignment explanation
Indices: 211225--211560 Score: 277
Period size: 104 Copynumber: 3.2 Consensus size: 102
211215 AATAACGAGG
* *
211225 TTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTAGAAATAAAATCGGAGTTGGAGTATCCCC
*
211290 GATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
65 GATTAAAGGAAAATTGGAGTTTTGAAAATAAAA-CGGGA
* ** * *
211329 TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTAT-CCC
* * ** ** ** * *
211394 TCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT-TAACGGGG
64 -C-G-ATTAAAGGAAAATTGGAGT-T--TTGAAAATAAAACGGGA
* *
211436 TTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTAGAAATAAAATCGGAGTTGGAGTATCC
* * * *
211501 CCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATC-GAA
63 CCGATTAAAGGAAAATTGGAGTTTTGAAAATAAAA-CGGGA
*
211540 GTTGGAATATCCCCGATTGTG
1 -TTGGAGTATCCCCGATTGTG
211561 GAGAATTGAG
Statistics
Matches: 176, Mismatches: 40, Indels: 31
0.71 0.16 0.13
Matches are distributed among these distances:
103 4 0.02
104 47 0.27
105 37 0.21
106 16 0.09
107 34 0.19
108 11 0.06
109 27 0.15
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCG
ATTAAAGGAAAATTGGAGTTTTGAAAATAAAACGGGA
Found at i:211439 original size:27 final size:28
Alignment explanation
Indices: 211376--211451 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
211366 GCGATAAAAC
***
211376 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
211404 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
211431 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
211452 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:211516 original size:212 final size:212
Alignment explanation
Indices: 211169--211562 Score: 623
Period size: 212 Copynumber: 1.9 Consensus size: 212
211159 AAAATCAGGA
*
211169 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTAT
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTAT
* *
211234 CCTCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
66 CCCCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGG
* * *
211299 AAAATTGGCGTTTTGAAAATAAAACCG-GGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTT
131 AAAATTAGCGTTTTGAAAATAAAACCGAAG-TTGGAATATCCCCGATTGTGGAAAAATTAGTGTT
211363 TTAGCGATAAAACCGGGG
195 TTAGCGATAAAACCGGGG
* *
211381 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTAT
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTAT
* * *
211445 CCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATA
66 CCCCGATTGTGAA-AAATTGGT-ATTTTTAGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA
* *
211510 -GAAAATTAGTGTTTTGAAAATAAAATCGAAGTTGGAATATCCCCGATTGTGGA
129 GGAAAATTAGCGTTTTGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGA
211563 GAATTGAGAA
Statistics
Matches: 166, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 29 0.17
212 98 0.59
213 39 0.23
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTAT
CCCCGATTGTGAAAAATTGGTATTTTTAGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGG
AAAATTAGCGTTTTGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTT
TAGCGATAAAACCGGGG
Found at i:211535 original size:51 final size:53
Alignment explanation
Indices: 211439--211557 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
211429 AACGGGGTTG
* * * *
211439 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGAAGTTA
*
211493 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGAAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGAAGTTA
*
211544 GAATATCCCCGATT
1 GAGTATCCCCGATT
211558 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGAAGTTA
Found at i:213893 original size:13 final size:13
Alignment explanation
Indices: 213875--213900 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
213865 ACAAAGATCC
213875 ATGTATCGATACA
1 ATGTATCGATACA
213888 ATGTATCGATACA
1 ATGTATCGATACA
213901 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:213896 original size:33 final size:33
Alignment explanation
Indices: 213854--213920 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
213844 AAAATTTCCA
***
213854 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
213887 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
213920 A
1 A
213921 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:214065 original size:7 final size:7
Alignment explanation
Indices: 214055--214081 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
214045 TTTTTTTAAT
214055 TTTTTTA
1 TTTTTTA
214062 TTTTTTA
1 TTTTTTA
214069 TTTTTTA
1 TTTTTTA
214076 TTTTTT
1 TTTTTT
214082 TTTCAAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:214082 original size:8 final size:8
Alignment explanation
Indices: 214045--214082 Score: 53
Period size: 7 Copynumber: 4.9 Consensus size: 8
214035 ATTTGGAAAT
214045 TTTTTTTAA
1 TTTTTTT-A
214054 TTTTTTTA
1 TTTTTTTA
214062 -TTTTTTA
1 TTTTTTTA
214069 -TTTTTTA
1 TTTTTTTA
214076 TTTTTTT
1 TTTTTTT
214083 TTCAAACACT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.50
8 7 0.25
9 7 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:219981 original size:20 final size:20
Alignment explanation
Indices: 219952--220043 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
219942 AAACATAATA
*
219952 TATCGATATATTGAAAAATG
1 TATCGATACATTGAAAAATG
* * * *
219972 TATTGATATATTTG-TACATG
1 TATCGATACA-TTGAAAAATG
219992 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
*
220012 TATCGATACACTGAAAAATG
1 TATCGATACATTGAAAAATG
220032 TATCGATACATT
1 TATCGATACATT
220044 TAGGTAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
19 3 0.05
20 55 0.90
21 3 0.05
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:221416 original size:12 final size:11
Alignment explanation
Indices: 221395--221446 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
221385 TTTTCGGCAC
221395 AAAAACAAAAAT
1 AAAAA-AAAAAT
*
221407 GAAAAAAAAAT
1 AAAAAAAAAAT
*
221418 AACAAAAAAAAC
1 AA-AAAAAAAAT
221430 AAAAAACAAAA-
1 AAAAAA-AAAAT
221441 AAAAAA
1 AAAAAA
221447 GAATCAGCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 17 0.49
12 18 0.51
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:221427 original size:16 final size:15
Alignment explanation
Indices: 221408--221446 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
221398 AACAAAAATG
*
221408 AAAAAAAAATAACAA
1 AAAAAAAAAAAACAA
221423 AAAAAACAAAAAACAA
1 AAAAAA-AAAAAACAA
221439 AAAAAAAA
1 AAAAAAAA
221447 GAATCAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAAAACAA
Found at i:222647 original size:73 final size:71
Alignment explanation
Indices: 222428--223187 Score: 558
Period size: 72 Copynumber: 10.8 Consensus size: 71
222418 CAAGACATTT
* * * * * *
222428 TTTTTAAAGCCTACATAAGCTAGTGGCA-CC-TTTTA---TTTTAGTCCTTAAAAAGTAGGAC-A
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACGC
222487 TTTTTC
66 TTTTTC
* * * * * * *
222493 ATTTTAAAGCCTAA-ACAAGCTGCTGGCACCCTTCTTATCCTTTTAGTCTTCAAAGAGCAAGATG
1 TTTTTAAAGCC-AACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACG
222557 TCTTTTTC
65 -CTTTTTC
* * * *
222565 TTTTTAAAGCCAACAGAAGTTGGTGGCACCCTTTTTTTCCTTTTCAGTCCTCAAACAGTAGGACG
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTT-AGTCCTCAAAGAGTAGGACG
222630 TCTTTTTC
65 -CTTTTTC
* ** * ** * * *
222638 TTTTTAAAGCCTACACAAAATGGTGGCACCCTTTTTCTCCTTTATAGTTTTTAAAAAGCTA-GAA
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTT-TAGTCCTCAAAGAG-TAGGAC
222702 GC-TTTTC
64 GCTTTTTC
* * * ** * ** *
222709 TTTTTTAAAGCCCATACAAACTGGTGGCACCC-----ATGATTTTAGTCCTCAAAGAGCAAAATG
1 -TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACG
*
222769 CCTTTTC
65 CTTTTTC
* * * * * **
222776 TTTTTAAAGCCCACACAAGTTCGTGCCACCCTTTTTATCCTTTTAGTCCTTAAAGAGTAGGATAC
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACGC
*
222841 -CTTT-
66 TTTTTC
* * *
222845 TTTTT-AAGTCTACACAAGTTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACTG
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGAC-G
222909 CCTTTTTTC
65 -C-TTTTTC
* * * * *
222918 TTTTTAAAGCC-ACAAAAGATGGTGGTACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACG
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGTAGGACG
*
222982 C-CTTT-
65 CTTTTTC
* * * * * *
222987 TTTTTAAAGCCAACACAAGCTAGTGGAACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGGACA
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGTAGGACG
*
223052 CCTTTTC
65 CTTTTTC
* * * * * * *
223059 TTTTTAAAGCCCATACGAGCTGGTGGCACCCTTTTTATCCTTTTAATCCTTAAAGAGCAAGTCAC
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAG-TAG-GAC
223124 -CTTTTTC
64 GCTTTTTC
* * * ** * * *
223131 TTTTTAATGCCCACAGAAGCTAATGGTACCC--TTTATCCTTTTTGTCCTTAAAGAGTA
1 TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTA
223188 ATACCTTTTT
Statistics
Matches: 560, Mismatches: 103, Indels: 60
0.77 0.14 0.08
Matches are distributed among these distances:
65 22 0.04
66 42 0.08
67 13 0.02
68 51 0.09
69 17 0.03
70 94 0.17
71 47 0.08
72 140 0.25
73 105 0.19
74 29 0.05
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (71 bp):
TTTTTAAAGCCAACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGTAGGACGC
TTTTTC
Found at i:223036 original size:70 final size:72
Alignment explanation
Indices: 222428--223296 Score: 473
Period size: 68 Copynumber: 12.4 Consensus size: 72
222418 CAAGACATTT
* * * * *
222428 TTTTTAAAGCCTACATAAGCTAGTGGCA--CCTTTTA----TTTTAGTCCTTAAAAAGTAGGACA
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
*
222487 -TTTTTC
66 CCTTTTC
* * * * * * *
222493 ATTTTAAAGCCTAAACAAGCT-GCTGGCA-CCCTTCTTATCC-TTTTAGTCTTCAAAGAGCAAGA
1 TTTTTAAAGCCCACACAAGCTAG-TGGCACCCCTT-TTATCCTTTTTAATCCTCAAAGAGTAGGA
** *
222555 TGTCTTTTTC
64 -CACCTTTTC
* * * * * * * * *
222565 TTTTTAAAGCCAACAGAAGTTGGTGGCACCCTTTTTTTCCTTTTCAGTCCTCAAACAGTAGGACG
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGAC-
* *
222630 TCTTTTTC
65 ACCTTTTC
* ** * * * * * ** * *
222638 TTTTTAAAGCCTACACAAAATGGTGGCACCCTTTTTCTCCTTTATAGTTTTTAAAAAGCTA-GA-
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAG-TAGGAC
*
222701 AGCTTTTC
65 ACCTTTTC
* * * ** * * ** *
222709 TTTTTTAAAGCCCATACAAACTGGTGGCA-CCC----AT-GATTTTAGTCCTCAAAGAGCAAAAT
1 -TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGAC
*
222768 GCCTTTTC
65 ACCTTTTC
* * * * * * *
222776 TTTTTAAAGCCCACACAAGTTCGTGCCACCCTTTTTATCC-TTTTAGTCCTTAAAGAGTAGGATA
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
222840 CC-TTT-
66 CCTTTTC
* * * * * *
222845 TTTTT-AAGTCTACACAAGTTGGTGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGTAGGACT
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGAC-
*
222908 GCCTTTTTTC
65 ACC--TTTTC
* * * * *
222918 TTTTTAAAG-CCACAAAAGATGGTGGTACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACG
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
222982 CC-TTT-
66 CCTTTTC
* * *
222987 TTTTTAAAGCCAACACAAGCTAGTGGAACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGGACA
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
223052 CCTTTTC
66 CCTTTTC
* * * * * * * *
223059 TTTTTAAAGCCCATACGAGCTGGTGGCACCCTTTTTATCC-TTTTAATCCTTAAAGAGCAAGTCA
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
223123 CCTTTTTC
66 CC-TTTTC
* * * * * * *
223131 TTTTTAATGCCCACAGAAGCTAATGGTA-CCC-TTTATCCTTTTT-GTCCTTAAAGAGTA--ATA
1 TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
223191 CCTTTT-
66 CCTTTTC
* * * * * * *
223197 TTTTCTCAATGCCCATACAAGCTAGTGGTA-TCC-TTTATCCTTTTT-ATCTTCAAAGAGCAAGA
1 TTTT-T-AAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGA
*
223259 C-TC-TTTC
64 CACCTTTTC
* *
223266 TTTCTCAAAGCCCACACAAGTTAGTGGCACC
1 TTT-TTAAAGCCCACACAAGCTAGTGGCACC
223297 TATCTACTTC
Statistics
Matches: 639, Mismatches: 124, Indels: 78
0.76 0.15 0.09
Matches are distributed among these distances:
64 1 0.00
65 24 0.04
66 44 0.07
67 17 0.03
68 120 0.19
69 20 0.03
70 94 0.15
71 60 0.09
72 120 0.19
73 112 0.18
74 27 0.04
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (72 bp):
TTTTTAAAGCCCACACAAGCTAGTGGCACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGGACA
CCTTTTC
Found at i:223040 original size:283 final size:282
Alignment explanation
Indices: 222488--223137 Score: 667
Period size: 283 Copynumber: 2.3 Consensus size: 282
222478 AGTAGGACAT
* * *
222488 TTTTCATTTTAAAGCCTAAACAAGCTGCTGGCACCCTTCTTATCCTTTTAGT-CTTCAAAGAGCA
1 TTTTCTTTTTAAAGCCCAAACAAGCTG-TGGCACCCTTTTTATCCTTTTAGTCCTT-AAAGAGCA
* * * *
222552 AGATGTCTTTTTCTTTTTAAAGCCAACAGAAGTTGGTGGCACCCTTTTTTTCCTTTTCAGTCCTC
64 AGATGACTCTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACCCTTTTTATCCTTTTCAGTCCTC
* * *
222617 AAACAGTAGGACGTCTTTTTCTTTTTAAAGCCTACACAAAATGGTGGCACCCTTTTTCTCCTTTA
129 AAACAGTAGGACGCCTTTTTCTTTTTAAAGCCTACACAAAATGGTGGCACCCCTTTTATCCTTTA
* ** * * * * * * *
222682 TAGTTTTTAAAAAGCTAGAAGCTTTTCTTTTTTAAAGCCCATACAAACTGGTGGCACCCATGATT
194 TAATCCTCAAAAAGCTAGAAGCTCTTCTTTTTTAAAGCCAACACAAACTAGTGGAACCCATCATT
* * **
222747 TTAGTCCTCAAAGAGCAAAATGCC
259 TTAATCCTCAAAAAGCAAAACACC
* * * * *
222771 TTTTCTTTTTAAAGCCCACACAAGTTCGTGCCACCCTTTTTATCCTTTTAGTCCTTAAAGAGTAG
1 TTTTCTTTTTAAAGCCCAAACAAGCT-GTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAGCAA
* *
222836 GAT-AC-CTTT-TTTTT-AAGTCTACACAAGTTGGTGGCACCCTTTTTATCCTTTT-AGTCCTCA
65 GATGACTCTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACCCTTTTTATCCTTTTCAGTCCTCA
* *
222896 AAGAGTAGGACTGCCTTTTTTCTTTTTAAAGCC-ACA-AAAGATGGTGGTACCCCTTTTATCCTT
130 AACAGTAGGAC-GCC-TTTTTCTTTTTAAAGCCTACACAAA-ATGGTGGCACCCCTTTTATCCTT
* * * *
222959 TTTAATCCTCAAAGAG-TAGGACGC-CTT-TTTTTTAAAGCCAACACAAGCTAGTGGAACCCCTT
192 TATAATCCTCAAAAAGCTA-GAAGCTCTTCTTTTTTAAAGCCAACACAAACTAGTGGAA-CCC--
* * **
223021 TTATCCTTTTTAATCCTCAAAAAGTAGGACACC
253 --AT-CATTTTAATCCTCAAAAAGCAAAACACC
* * *
223054 TTTTCTTTTTAAAGCCCATACGAGCTGGTGGCACCCTTTTTATCCTTTTAATCCTTAAAGAGCAA
1 TTTTCTTTTTAAAGCCCAAACAAGCT-GTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAGCAA
* *
223119 G-TCACCTTTTTCTTTTTAA
65 GATGA-CTCTTTCTTTTTAA
223138 TGCCCACAGA
Statistics
Matches: 300, Mismatches: 50, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
277 24 0.08
278 28 0.09
279 73 0.24
280 22 0.07
281 3 0.01
282 4 0.01
283 132 0.44
284 5 0.02
285 3 0.01
286 5 0.02
287 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (282 bp):
TTTTCTTTTTAAAGCCCAAACAAGCTGTGGCACCCTTTTTATCCTTTTAGTCCTTAAAGAGCAAG
ATGACTCTTTCTTTTTAAAGCCAACACAAGTTGGTGGCACCCTTTTTATCCTTTTCAGTCCTCAA
ACAGTAGGACGCCTTTTTCTTTTTAAAGCCTACACAAAATGGTGGCACCCCTTTTATCCTTTATA
ATCCTCAAAAAGCTAGAAGCTCTTCTTTTTTAAAGCCAACACAAACTAGTGGAACCCATCATTTT
AATCCTCAAAAAGCAAAACACC
Found at i:223056 original size:35 final size:35
Alignment explanation
Indices: 222871--223057 Score: 95
Period size: 35 Copynumber: 5.3 Consensus size: 35
222861 AGTTGGTGGC
* * *
222871 ACCCTTTTTATCC-TTTTAGTCCTCAAAGAGTAGG
1 ACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGG
* * * *
222905 ACTGCCTTTT-TTCTTTTTAAAGCCACAAAAGATGGT-GG
1 AC-CCCTTTTATCCTTTTT-AATCCTCAAAA-A--GTAGG
*
222943 TACCCCTTTTATCCTTTTTAATCCTCAAAGAGTAGG
1 -ACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGG
* **
222979 ACGCC--TT-T--TTTTTAAAGC-CAACACAAGCTAGTGG
1 ACCCCTTTTATCCTTTTTAATCCTCAA-A-AAG-TA--GG
223013 AACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGG
1 -ACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGG
*
223049 ACACCTTTT
1 ACCCCTTTT
223058 CTTTTTAAAG
Statistics
Matches: 112, Mismatches: 20, Indels: 41
0.65 0.12 0.24
Matches are distributed among these distances:
29 3 0.03
30 9 0.08
31 2 0.02
32 3 0.03
33 2 0.02
34 6 0.05
35 27 0.24
36 11 0.10
37 4 0.04
38 19 0.17
39 14 0.12
40 9 0.08
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (35 bp):
ACCCCTTTTATCCTTTTTAATCCTCAAAAAGTAGG
Found at i:223938 original size:51 final size:52
Alignment explanation
Indices: 223819--223954 Score: 202
Period size: 52 Copynumber: 2.6 Consensus size: 52
223809 TCTGGAAAGA
* *
223819 AAATGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCAATACATTATTCATTGTATTGATACATTCTAGGTTTTTGACCC
* *
223871 AAATGTATCAATACATTATTCATTATATTGATACATTCTAGG-TTTTGACCT
1 AAATGTATCAATACATTATTCATTGTATTGATACATTCTAGGTTTTTGACCC
* * *
223922 AAATGTATTAATACATTCTTCAATGTATTGATA
1 AAATGTATCAATACATTATTCATTGTATTGATA
223955 TATGTAGGCA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
51 37 0.49
52 39 0.51
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (52 bp):
AAATGTATCAATACATTATTCATTGTATTGATACATTCTAGGTTTTTGACCC
Found at i:227024 original size:20 final size:20
Alignment explanation
Indices: 226988--227047 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
226978 GTTGGACACA
226988 TTAAAATGCATGGAACATGGC
1 TTAAAATGCA-GGAACATGGC
227009 TTAAAATGCAGGAACATGGC
1 TTAAAATGCAGGAACATGGC
*
227029 TTAAACTGCAGGAACATGG
1 TTAAAATGCAGGAACATGG
227048 GCTATTTAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 28 0.74
21 10 0.26
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (20 bp):
TTAAAATGCAGGAACATGGC
Found at i:228143 original size:20 final size:21
Alignment explanation
Indices: 228104--228154 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
228094 CACATGGTCC
228104 TGTATCGATACATTCACTTA-
1 TGTATCGATACATTCACTTAT
228124 TGTATCGATACATTGC-CTTAT
1 TGTATCGATACATT-CACTTAT
*
228145 TATATCGATA
1 TGTATCGATA
228155 TAAATTGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTCACTTAT
Found at i:229715 original size:11 final size:11
Alignment explanation
Indices: 229699--229723 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
229689 AAATTTTTGA
229699 AAAAAAAAAAG
1 AAAAAAAAAAG
229710 AAAAAAAAAAG
1 AAAAAAAAAAG
229721 AAA
1 AAA
229724 GAAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:229718 original size:15 final size:15
Alignment explanation
Indices: 229698--229734 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
229688 CAAATTTTTG
229698 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
*
229713 AAAAAAAGAAAGAAA
1 AAAAAAAAAAAGAAA
*
229728 GAAAAAA
1 AAAAAAA
229735 TTGAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:230423 original size:17 final size:16
Alignment explanation
Indices: 230401--230432 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
230391 TGGGGCAGTT
230401 AAAAAAAAAGGAAAAGC
1 AAAAAAAAA-GAAAAGC
230418 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
230433 AATGAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGC
Found at i:234332 original size:20 final size:21
Alignment explanation
Indices: 234304--234344 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
234294 TTCCTAGATG
*
234304 TATCGATACAAAG-ATCAATA
1 TATCAATACAAAGTATCAATA
*
234324 TATCAATACAATGTATCAATA
1 TATCAATACAAAGTATCAATA
234345 CATTAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (21 bp):
TATCAATACAAAGTATCAATA
Found at i:234838 original size:101 final size:101
Alignment explanation
Indices: 234710--234945 Score: 262
Period size: 101 Copynumber: 2.3 Consensus size: 101
234700 TAAACTTGAA
* * ** *
234710 GAAGATTGCCAATGTGCTGAGAT-AAGGCCAGCGACATTGGGT-TT-AGGAATGTTAAAGATGCC
1 GAAGA-TGCCAATGTGCTGA-TTCAAGGCCAGCGACATT-GGTCTTAAAG-ATGACAAAGACGCC
* * *
234772 AATATGCTGATTCAAGGTCAACGATATCGAACTTGAAGCT
62 AATATGCTGATTCAAGGCCAACGATATCGAACTTAAAGAT
* *
234812 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGACGCCAATA
* * * *
234877 TGGTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAACGATATCGAACTTAAAGAT
* **
234913 GAAGGTGCCAATGTATTGATTCAAGGCCAGCGA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
234946 ATTCGTCCCC
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 4 0.04
101 103 0.90
102 7 0.06
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.24
Consensus pattern (101 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGACGCCAATA
TGCTGATTCAAGGCCAACGATATCGAACTTAAAGAT
Found at i:234936 original size:49 final size:49
Alignment explanation
Indices: 234768--234945 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 49
234758 ATGTTAAAGA
* * * * * * * *
234768 TGCCAATATGCTGATTCAAGGTCAACGATATCGAACTTGAAGCTGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
234817 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGG
* * *
234869 CGCCAATATGGTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
**
234918 TGCCAATGTATTGATTCAAGGCCAGCGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGA
234946 ATTCGTCCCC
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
49 64 0.60
52 43 0.40
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:235657 original size:49 final size:49
Alignment explanation
Indices: 235592--235771 Score: 189
Period size: 49 Copynumber: 3.6 Consensus size: 49
235582 AGGAATGTTA
* * *
235592 AAGATGCCAATATGCTGATTCAAGGTCAACGATATCGGACTTAAAGCTG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
* ** * *
235641 AAGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGTCTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
** * * *
235690 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAAATG
1 ---AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
* * *
235742 AAGGTGCCAATGTACTGATTCAAGGCCAAC
1 AAGATGCCAATATGCTGATTCAAGGCCAAC
235772 AAATTCGTCC
Statistics
Matches: 108, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 67 0.62
52 41 0.38
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATG
Found at i:235673 original size:101 final size:101
Alignment explanation
Indices: 235538--235769 Score: 268
Period size: 101 Copynumber: 2.3 Consensus size: 101
235528 TAGACTTCAA
** * * ** *
235538 GAAGAATGCCAATGTGCTGAGACAATGCCAGCGACAATGGGCTT-AGGAATGTTAAAGATGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACAATGGGCTTAAAG-ATGACAAAGACGCCAA
* * **
235602 TATGCTGATTCAAGGTCAACGATATCGGACTTAAAGCT
64 TATGCTGATTCAAGGCCAACGATATCAGACTTAAAAAT
* * * *
235640 GAAGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACAATGGGCTTAAAGATGACAAAGACGCCAATA
* *
235705 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAAAT
66 TGCTGATTCAAGGCCAACGATATCAGACTTAAAAAT
* *
235741 GAAGGTGCCAATGTACTGATTCAAGGCCA
1 GAAGATGCCAATGTGCTGATTCAAGGCCA
235770 ACAAATTCGT
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
101 103 0.94
102 6 0.06
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (101 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACAATGGGCTTAAAGATGACAAAGACGCCAATA
TGCTGATTCAAGGCCAACGATATCAGACTTAAAAAT
Found at i:235714 original size:52 final size:49
Alignment explanation
Indices: 235500--235769 Score: 168
Period size: 52 Copynumber: 5.4 Consensus size: 49
235490 CGAAGAATGG
* * * *
235500 CAATGTGTTGATTCATGGCCAGCGACATTAGACTTCAAGAA-GAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTT-AAAAATGAAGGCGC
** * * * * ** **
235547 CAATGTGCTGAGACAATGCCAGCGACAATGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATG---AAGGCGC
* * * * ** ** **
235599 CAATATGCTGATTCAAGGTCAACGATATCGGACTTAAAGCTGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATGAAGGCGC
* * * *
235648 CAATGTGCTGATTCAAGGCCGGCGACATTGGTCTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATG---AAGGCGC
* * *
235700 CAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAAATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATGAAGGCGC
*
235749 CAATGTACTGATTCAAGGCCA
1 CAATGTGCTGATTCAAGGCCA
235770 ACAAATTCGT
Statistics
Matches: 172, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
46 4 0.02
47 28 0.16
49 66 0.38
50 2 0.01
52 72 0.42
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAAATGAAGGCGC
Found at i:236433 original size:829 final size:828
Alignment explanation
Indices: 234661--239042 Score: 6954
Period size: 829 Copynumber: 5.3 Consensus size: 828
234651 GAATGCCAAA
* * * * *
234661 GCGAAGAATGATAATGTACTGATTCATGGCCAGCAACATTAAACTTGAAGAAGATTGCCAATGTG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
* *
234726 CTGAGATAAGGCCAGCGACATTGGGTTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
* *
234791 AACGATATCGAACTTGAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
131 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
*
234856 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
196 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
* * * * * *
234921 CAATGTATTGATTCAAGGCCAGCGAATTCGTCCCCACGTTTGTCCAATCCTTCACCAGATTAGCT
261 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
* * *
234986 AGACCTCAAGTTGTCGAACATTGGCCCGGACAAAATGAGGTGTCTACAGCTACCCCTCTTTGGCC
326 AGACCTCAAGTTGTCAAAAATTGGCCC-GACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCC
* * * * *
235051 GTTTCTGAGTATCAAGAATAGGGCAAAGATAAATAGACACCATTTTGTCCGCGGTCGCATGTTGT
390 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTCGT
*
235116 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCACCGTGATGAACAGTGTATTGGCGG
455 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGCGG
235181 CGGTTCCGATGG-AAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
520 CGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
*
235245 GCTTGACCTCCGTAGATAGGTGTAGATT-GATGTAGAGTTTGGAAGGGATTTGGAAGAATATGGT
585 GCTTGACCTCCTTAGATAGGTGTAGATTAG-TGTAGAGTTTGGAAGGGATTTGGAAGAATATGGT
* * *
235309 CAGTGTTTTGTAATGTGCCATTGCGCAGATTCAAGGCCTGTAACACTAGACTTAAAAATGATGAG
649 CAGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAG
* *
235374 GATGAGGAGTGATAAAAAGACCAATACGCTAATTCATGGCCAACGATATTGGGCTTAAAGATGAG
714 GATGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAG
* *
235439 AAAAAGGATAAAGGAGCAAATATGCGGGTAGTGATATTGGGCTCGAAGAT
779 AAAAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
* * *
235489 GCGAAGAATGGCAATGTGTTGATTCATGGCCAGCGACATTAGACTTCAAGAAGAATGCCAATGTG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
* *
235554 CTGAGACAATGCCAGCGACAATGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
*
235619 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCGGCGACATTGGTCTTA
131 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* * *
235684 AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAAATGAAGGTGC
196 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
* *
235749 CAATGTACTGATTCAAGGCCAACAAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
261 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
* * * * *
235814 AGACCCCAAGTTATCAAAAATTGGCCCAGACAAAATGAGGTGTCTACAGCTGCCCTTTTTTTGCC
326 AGACCTCAAGTTGTCAAAAATTGGCCC-GACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCC
* * *
235879 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTGTGTCTGTGGCCGCATGTCGT
390 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTCGT
* *
235944 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTTGCTGTGATGAACAGTGTATTGGCGG
455 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGCGG
* *
236009 CGGTTCCGATGGATATATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
520 CGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
* * * * *
236074 GCTTGACCTGCTTAGATATGTGTAGATTAGTGTGGAGTTTGGAAAGGATTTGGAAGAAAATGGTC
585 GCTTGACCTCCTTAGATAGGTGTAGATTAGTGTAGAGTTTGGAAGGGATTTGGAAGAATATGGTC
236139 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
650 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
* * *
236204 ATGAGGAGTGATAAAGGGACCAATATGCTAATTCATGGCCAACGATATTGGGCTTAAAGATGAGA
715 ATGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGA
* * *
236269 AAGAGGATAAAGAAGCTAATATGCGGGTAGCGATATTGGACTCGAAGAT
780 AAAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
* * *
236318 GCGAAGAATGACAATGTGTTGATTCATGGCCAACGACATTAGACTTCAAGAAGAATGCCAATGTG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
*
236383 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTAATTCAAGGTC
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
* * *
236448 AACGATATCGGTCTTAAACCTGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTA
131 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* *
236513 AAGATGACGATGGTGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
196 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
* *
236578 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACTTACTTAGCT
261 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
* * * * *
236643 AGACCCCAAGTTATCAAAAATTGGCCCGGACAAAATGAGGTGTCTACAGCTGCCCTTTTTTTGCC
326 AGACCTCAAGTTGTCAAAAATTGGCCC-GACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCC
* * *
236708 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTGTGTCTGTGGCCGCATGTCGT
390 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTCGT
* **
236773 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTTGCTATGATGAACAGTGTATTGGCGG
455 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGCGG
* *
236838 CGGTTCCGATGGATATATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
520 CGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
* * * * *
236903 GCTTGACCTGCTTAGATATGTGTAGATTAGTGTGGAGTTTGGAAAGGATTTGGAAGAAAATGGTC
585 GCTTGACCTCCTTAGATAGGTGTAGATTAGTGTAGAGTTTGGAAGGGATTTGGAAGAATATGGTC
236968 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
650 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
* *
237033 ATGAGGAGTGATAAAGGGACCAATATGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGA
715 ATGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGA
* * *
237098 AAGAGGATAAAGAAGCTAATATGCGGGTAGCGATATTGGACTCGAAGAT
780 AAAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
* *
237147 GCGAAGAATGACAATGTGTTGATTCATGGCCAACGACATTAGACTTGAAGAAGAATGCCAATGTG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
* *
237212 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGGTTGCCAATTTGCTGATTCAAGGT
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAA-GATGCCAATATGCTGATTCAAGGT
* * * **
237277 CAACGATATCGGACTTAAAGCTGAAGATGCTAATGTGCTGATTTAAGGCTAATGACATTGGTCTT
130 CAACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* * * * *
237342 AAAGATGACGATGGCGCCGATATGCTGATTCACGGCCAGCGATATTGGACTTAAAGATGAAGGTG
195 AAAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTG
*
237407 CCAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAGTCCTCCA-CTAGCTTAG
260 CCAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCT-GCTTAG
**
237471 CTAGACCTCAAGTTGTCAAAAATTGGCCCGCACAAAATGAGGTGTCTACAGCCACCCCTCTTTGG
324 CTAGACCTCAAGTTGTCAAAAATTGGCCCG-ACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGG
* * * *
237536 TCGTTTTTGAGTATCAGGAACAAGGAAAAGATAAATGGACACCATTTTGTCCGCGGCCGCATGTC
388 CCGTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTC
* *
237601 GTGACCTTGGAGTGATTAAGCAAGAGGTTTGATTAATGCTTCGCCGTGATGAAGAGTGTATTGGC
453 GTGACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGC
* * *
237666 GGCGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCCACTAAGTTTTGAAATTTTCTA
518 GGCGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTA
* * *
237731 AGGCTTGACCTCTTTAGATAGGTGTAGATTGGTGTAAAGTTTGGAAGGGATTTGGAAGAATATGG
583 AGGCTTGACCTCCTTAGATAGGTGTAGATTAGTGTAGAGTTTGGAAGGGATTTGGAAGAATATGG
* *
237796 TCAGTGTTTTGTAATGTGCCATTGTGCAAATTCAAGGCCTGCAACACTAGACTTAAAAATGATGA
648 TCAGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGA
* *
237861 GGATGAGGAGTGATAAAAGGACCAATACGCCGATTCATGGCCAACGATATTGGGATTAAAGATGA
713 GGATGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGA
* * ** *
237926 GAAAAAAAGATAAAGGAGCTAACATATGGCTAGCGATATTGGGCTCGAAGAT
778 G-AAAAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
* ** *
237978 GTGAAGAATGACAATGTGCTGATTCATGGCCAGTAACATTAGACTTGAAGAAGAATGCCAATATG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
* * *
238043 CTGAGACAAGGCTAGCGACAATGGGCTTAGGAATGTTAAAGATGCCAATATGCTAATTCAAGGTC
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
* * *
238108 AACGATATCGGTCTTAAACCTGAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTA
131 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* *
238173 AAGATGACGATGGTGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
196 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
* *
238238 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACTTACTTAGCT
261 CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
* *
238303 AGACCTCAAGTTGTCAAAAATTGGCCCGCACAAACTGAGGTGTCTACAGTTGCCCCTCTTTGGCC
326 AGACCTCAAGTTGTCAAAAATTGGCCCG-ACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCC
* * **
238368 GTTTCTGAGTATCAGGAACAGGGCAAAGAAAAATAGACACCATTTTGTCCGCGGTTGCATGTCGT
390 GTTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTCGT
* * *
238433 GACCTTGGAGTGATTAAGCAAGAGGTTTGATTAATGCTTCGCCGTGATGAAGAGTGTATTTGCGG
455 GACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGCGG
* * *
238498 TGGTCCCGATGGAAAAATGAATTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
520 CGGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAG
*
238563 GCTTGACCTCCGTAGATA-G-GT-G--TA---T--AGTTTGGAAGGGATTTGGAAGAATATGGTC
585 GCTTGACCTCCTTAGATAGGTGTAGATTAGTGTAGAGTTTGGAAGGGATTTGGAAGAATATGGTC
238618 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
650 AGTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGG
* * * * * *
238683 ATAAAGAGTGATAAACGGACTAATACGCTGATTCATGGCCAACGATATTGGGTTTAAAGTTGAGA
715 ATGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGA
* * *
238748 AAAAGGATAAAGGAGCTAATATGCGGCTAGCAATTTTGGGCTCGAAGAT
780 AAAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
* * * *
238797 GCGAAGAACGATAATGTGCTGATTCATGGCCAGCGACATTAAACTTGAAGAAAAATGCCAATGTG
1 GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
238862 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
66 CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
*
238927 AATGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
131 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
* *
238992 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAACGATATTGGACTT
196 AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTT
239043 GTGCCAATAT
Statistics
Matches: 3311, Mismatches: 236, Indels: 23
0.93 0.07 0.01
Matches are distributed among these distances:
819 271 0.08
820 150 0.05
822 1 0.00
825 1 0.00
827 1 0.00
828 487 0.15
829 1190 0.36
830 1070 0.32
831 140 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (828 bp):
GCGAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGAAGAATGCCAATGTG
CTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA
AAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
CAATGTACTGATTCAAGGCCAGCGAATTCGTCCCCACATATGTCCAATCCTCCACCTGCTTAGCT
AGACCTCAAGTTGTCAAAAATTGGCCCGACAAAATGAGGTGTCTACAGCTGCCCCTCTTTGGCCG
TTTCTGAGTATCAGGAACAAGGCAAAGATAAATAGACACCATTTTGTCCGCGGCCGCATGTCGTG
ACCTTGGAGTGATTAAACAAGAGGTTTGATTAATGCTTCGCCGTGATGAACAGTGTATTGGCGGC
GGTTCCGATGGAAAAATGAGTTTGTAGGGTTTGTCCTCCCTACTAGGTTTTGGAATTTTCTAAGG
CTTGACCTCCTTAGATAGGTGTAGATTAGTGTAGAGTTTGGAAGGGATTTGGAAGAATATGGTCA
GTGTTTTGTAATGTGCCATTGTGCAGATTCAAGGCCTGCAACACTGGACTTAAAAATGATGAGGA
TGAGGAGTGATAAAAGGACCAATACGCTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAA
AAAGGATAAAGGAGCTAATATGCGGGTAGCGATATTGGGCTCGAAGAT
Found at i:236491 original size:49 final size:49
Alignment explanation
Indices: 236367--236602 Score: 193
Period size: 52 Copynumber: 4.7 Consensus size: 49
236357 TAGACTTCAA
* ** * * * *
236367 GAAGAATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTT
1 GAAG-ATGCCAATATGCTGATTCAAGGTCAGCGATATTGGTCTTA--AA-GAT
* * * * **
236420 AAAGATGCCAATATGCTAATTCAAGGTCAACGATATCGGTCTTAAACCT
1 GAAGATGCCAATATGCTGATTCAAGGTCAGCGATATTGGTCTTAAAGAT
* *
236469 GAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGAT
1 GAAGATGCCAATATGCTGATTCAAGGTCAGCGATATTGGTCTTAAAGAT
* * * * *
236518 GACGATGGTGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGAT
1 GA--A-GATGCCAATATGCTGATTCAAGGTCAGCGATATTGGTCTTAAAGAT
* * * *
236570 GAAGGTGCCAATGTACTGATTCAAGGCCAGCGA
1 GAAGATGCCAATATGCTGATTCAAGGTCAGCGA
236603 ATTCGTCCCC
Statistics
Matches: 150, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 71 0.47
50 3 0.02
51 1 0.01
52 72 0.48
53 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
GAAGATGCCAATATGCTGATTCAAGGTCAGCGATATTGGTCTTAAAGAT
Found at i:236500 original size:101 final size:101
Alignment explanation
Indices: 236367--236602 Score: 258
Period size: 101 Copynumber: 2.3 Consensus size: 101
236357 TAGACTTCAA
** * **
236367 GAAGAATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTT-AGGAATGTTAAAGATGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAG-ATGACAAAGATGCCAA
* * * *
236431 TATGCTAATTCAAGGTCAACGATATCGGTCTTAAACCT
64 TATGCTAATTCAAGGCCAACGATATCAGACTTAAACAT
* * * * *
236469 GAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATGACGATGGTGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGACAAAGATGCCAATA
* * * * *
236534 TGGTGATTCAAGGCCAGCGATATTAGACTTAAAGAT
66 TGCTAATTCAAGGCCAACGATATCAGACTTAAACAT
* *
236570 GAAGGTGCCAATGTACTGATTCAAGGCCAGCGA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGA
236603 ATTCGTCCCC
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
101 105 0.95
102 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (101 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGACAAAGATGCCAATA
TGCTAATTCAAGGCCAACGATATCAGACTTAAACAT
Found at i:236546 original size:52 final size:49
Alignment explanation
Indices: 236373--236602 Score: 199
Period size: 49 Copynumber: 4.6 Consensus size: 49
236363 TCAAGAAGAA
* ** * * * * *
236373 TGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTA--AA-GATGAAGG
* * * * ** *
236425 TGCCAATATGCTAATTCAAGGTCAACGATATCGGTCTTAAACCTGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
236474 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATGACGATGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGA--A-GG
* * *
236526 TGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
236575 TGCCAATGTACTGATTCAAGGCCAGCGA
1 TGCCAATATGCTGATTCAAGGCCAGCGA
236603 ATTCGTCCCC
Statistics
Matches: 146, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
49 71 0.49
50 3 0.02
51 1 0.01
52 71 0.49
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
Found at i:237432 original size:49 final size:49
Alignment explanation
Indices: 237158--237428 Score: 204
Period size: 49 Copynumber: 5.4 Consensus size: 49
237148 CGAAGAATGA
* * * * *
237158 CAATGTGTTGATTCATGGCCAACGACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
** * * * *
237205 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGGTTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGG-TGC
* * * * * *
237258 CAATTTGCTGATTCAAGGTCAACGATATCGGACTTAAAGCTGAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
237307 TAATGTGCTGATTTAAGGCTAATGACATTGGTCTTAAAGATGACGATGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGA--A-GGTGC
* * * * *
237359 CGATATGCTGATTCACGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
*
237408 CAATGTACTGATTCAAGGCCA
1 CAATGTGCTGATTCAAGGCCA
237429 GCGAATTCGT
Statistics
Matches: 166, Mismatches: 49, Indels: 16
0.72 0.21 0.07
Matches are distributed among these distances:
47 28 0.17
49 59 0.36
50 9 0.05
51 3 0.02
52 36 0.22
53 31 0.19
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGGTGC
Found at i:238161 original size:101 final size:100
Alignment explanation
Indices: 238027--238262 Score: 222
Period size: 101 Copynumber: 2.3 Consensus size: 100
238017 TAGACTTGAA
* ** * **
238027 GAAGAATGCCAATATGCTGAGACAAGGCTAGCGACAATGGGCTT-AGGAATGTTAAAGATGCCAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGC-AGCGACAATGGGCTTAAAG-ATGACAAAGATGCCAA
* * * *
238091 TATGCTAATTCAAGGTCAACGATATCGGTCTTAAACCT
63 TATGCTAATTCAAGGCCAACGATATCAGACTTAAACAT
* * * * *
238129 GAAGATGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATGACGATGGTGCCAATA
1 GAAGATGCCAATGTGCTGATTCAAGG-CAGCGACAATGGGCTTAAAGATGACAAAGATGCCAATA
* * * * *
238194 TGGTGATTCAAGGCCAGCGATATTAGACTTAAAGAT
65 TGCTAATTCAAGGCCAACGATATCAGACTTAAACAT
* *
238230 GAAGGTGCCAATGTACTGATTCAAGGCCAGCGA
1 GAAGATGCCAATGTGCTGATTCAAGG-CAGCGA
238263 ATTCGTCCCC
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
101 102 0.94
102 7 0.06
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (100 bp):
GAAGATGCCAATGTGCTGATTCAAGGCAGCGACAATGGGCTTAAAGATGACAAAGATGCCAATAT
GCTAATTCAAGGCCAACGATATCAGACTTAAACAT
Found at i:238206 original size:52 final size:49
Alignment explanation
Indices: 238085--238262 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 49
238075 ATGTTAAAGA
* * * * ** *
238085 TGCCAATATGCTAATTCAAGGTCAACGATATCGGTCTTAAACCTGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* * *
238134 TGCCAATGTGCTGATTCAAGGTCAGCGACATTGGTCTTAAAGATGACGATGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGA--A-GG
* * *
238186 TGCCAATATGGTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
* *
238235 TGCCAATGTACTGATTCAAGGCCAGCGA
1 TGCCAATATGCTGATTCAAGGCCAGCGA
238263 ATTCGTCCCC
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
49 66 0.61
50 1 0.01
51 1 0.01
52 41 0.38
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGG
Found at i:238992 original size:49 final size:48
Alignment explanation
Indices: 238813--239720 Score: 476
Period size: 49 Copynumber: 19.7 Consensus size: 48
238803 AACGATAATG
* *** * ** *
238813 TGCTGATTCATGGCCAGCGACATTAAACTTGAAGA-AAAATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
** * * *
238860 TGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GAT-AAGGTGCCAATA
* ** * * * * * *
238912 TGCTGATTCAAGGTCAATGATATCGGACTTAAAGCTGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
*
238961 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT----AAGGTGCCAATA
* * * *
239013 TGGTGATTCAAGGCCAACGATATTGGAC-T-----T---GTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
* *
239052 TGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGACAAGGTG-CTATA
1 TGCTGATTCAAGGCCAG-CGACATTGGTCTTAAAGATAAGGTGCCAATA
* * * *
239099 TGCTAATTCAAGGCCAGCGATATTGGGC-T-----T---GTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
* * *
239138 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* *
239187 TGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
** * * *
239235 TGCCAATTCAAGGCCAGCGATATTGGGC-T-----T-A--TGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
* * * *
239274 TGCTAATTCATGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* * *
239323 TACTGATTCAAGGCCAGCGATATTAGG-C-T-----T---GTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATAAGGTGCCAATA
* ** *
239362 TGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGTGGTGCGAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* * * * * * *
239411 TGCTGATTTAAGGCTAGCGATATTGGAC-T-----T---CTGCTAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
* * * * *
239450 TGTTGATTCAAGGTCAGCGTCGTTGGTCGTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* * * *
239499 TGCTGATTCAAGGCTAGCGATATTGGAC-T-----T---GTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
* * *
239538 TGCTAATTCAAGCCCAGCGACATTTGTCTTAAAGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* * * *
239587 TGTTGATTCAAGGCCAGCGATATTGGACTTGAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAGGTGCCAATA
* * * *
239636 TGCTGATTCTAGGCCAGCGATATTAGACTTGAAA-ATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTT-AAAGAT-AAGGTGCCAATA
* *
239685 TGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
239721 AGACGCTGCC
Statistics
Matches: 654, Mismatches: 132, Indels: 147
0.70 0.14 0.16
Matches are distributed among these distances:
38 5 0.01
39 173 0.26
40 6 0.01
41 1 0.00
43 3 0.00
45 5 0.01
46 2 0.00
47 53 0.08
48 41 0.06
49 289 0.44
50 8 0.01
51 1 0.00
52 67 0.10
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
TGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATA
Found at i:239035 original size:101 final size:101
Alignment explanation
Indices: 238851--239042 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 101
238841 TTGAAGAAAA
* ** *
238851 ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCT
1 ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAAGAATGACAAAGACGCCAATATGCT
* *
238916 GATTCAAGGTCAATGATATCGGACTTAAAGCTGAAG
66 GATTCAAGGCCAACGATATCGGACTTAAAGCTGAAG
** * * * *
238952 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAA-AGATGACGAAGGCGCCAATATGG
1 ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAAGA-ATGACAAAGACGCCAATATGC
*
239016 TGATTCAAGGCCAACGATATTGGACTT
65 TGATTCAAGGCCAACGATATCGGACTT
239043 GTGCCAATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 1 0.01
101 76 0.99
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (101 bp):
ATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAAGAATGACAAAGACGCCAATATGCT
GATTCAAGGCCAACGATATCGGACTTAAAGCTGAAG
Found at i:239060 original size:39 final size:39
Alignment explanation
Indices: 239006--239163 Score: 138
Period size: 39 Copynumber: 3.8 Consensus size: 39
238996 TGACGAAGGC
* *
239006 GCCAATATGGTGATTCAAGGCCAACGATATTGGACTTGT
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTGT
* *
239045 GCCAATATGCTGATTCAAGGCCGACGACATTGGTCTTAAAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTT---------GT
* * * * *
239093 G-CTATATGCTAATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTGT
*
239131 GCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 GCCAATATGCTGATTCAAGGCCAACGACATTGG
239164 TCTTAAAGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
38 3 0.03
39 59 0.63
47 29 0.31
48 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAACGACATTGGACTTGT
Found at i:239142 original size:86 final size:85
Alignment explanation
Indices: 238953--239212 Score: 331
Period size: 86 Copynumber: 2.9 Consensus size: 85
238943 AAGCTGAAGA
* *
238953 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGGTG
1 TGCCAATGTGCTGATTCAAGGCCA-CGACATTGGTCTT-AA-A-GAC-AAGGTG-CAATATGCTG
*
239018 ATTCAAGGCCAACGATATTGGACTTG
60 ATTCAAGGCCAGCGATATTGGACTTG
* * *
239044 TGCCAATATGCTGATTCAAGGCCGACGACATTGGTCTTAAAGACAAGGTGCTATATGCTAATTCA
1 TGCCAATGTGCTGATTCAAGGCC-ACGACATTGGTCTTAAAGACAAGGTGCAATATGCTGATTCA
*
239109 AGGCCAGCGATATTGGGCTTG
65 AGGCCAGCGATATTGGACTTG
* *
239130 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCC-ACGACATTGGTCTTAAAGA-CAAGGTGC-AATATGCTGATT
* *
239195 CAAGGCCAGTGACATTGG
63 CAAGGCCAGCGATATTGG
239213 TCTTAAAGAC
Statistics
Matches: 151, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
86 72 0.48
87 12 0.08
88 28 0.19
89 1 0.01
90 2 0.01
91 35 0.23
92 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (85 bp):
TGCCAATGTGCTGATTCAAGGCCACGACATTGGTCTTAAAGACAAGGTGCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTG
Found at i:239213 original size:135 final size:137
Alignment explanation
Indices: 239043--239659 Score: 476
Period size: 137 Copynumber: 4.6 Consensus size: 137
239033 TATTGGACTT
* *
239043 GTGCCAATATGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGACAAGGTG-CTATATGCTAAT
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTGCCAATATGCCAAT
* *
239106 TCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAA
*
239171 GATGAAG
131 GATAAAG
* * *
239178 GTGCAAATGTGCTGATTCAAGGCCAG-TGACATTGGTCTTAAAGACAAGGTGCCAATATGCCAAT
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTGCCAATATGCCAAT
* *
239242 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCATGGCTAACGACATTGGTCTTAAA
66 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAA
239307 GATAAAG
131 GATAAAG
* * * **
239314 GTGCCAATATACTGATTCAAGGCCAG-CGATATTAGG-CTT---------GTGCCAATGTGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATT-GGTCTTAAAGACAAGGTGCCAATATGCCAA
* * * * * * * * * *
239368 TTCAAGGCCAACGACATTGGTCTTAAAGATGGTGGTGCGAATATGCTGATTTAAGGCTAGCGATA
65 TTCAAGGCCAGCGATATTGGGCTT----A------TGCCAATGTGCTAATTCAAGGCCAACGACA
*
239433 TTGGAC-T-----T----
120 TTGGTCTTAAAGATAAAG
* * * * * * * * * **
239441 CTGCTAATGTGTTGATTCAAGGTCAG-CGTCGTTGGTCGTAAAGATAAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCCAA
* * * * * *
239505 TTCAAGGCTAGCGATATTGGACTTGTGCCAATGTGCTAATTCAAGCCCAGCGACATTTGTCTTAA
65 TTCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAA
239570 AGATAAAG
130 AGATAAAG
* * * * * **
239578 GTGCCAATATGTTGATTCAAGGCCAG-CGATATTGGACTTGAAGATGAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCCAA
*
239642 TTCTAGGCCAGCGATATT
65 TTCAAGGCCAGCGATATT
239660 AGACTTGAAA
Statistics
Matches: 381, Mismatches: 67, Indels: 66
0.74 0.13 0.13
Matches are distributed among these distances:
126 2 0.01
127 86 0.23
128 1 0.00
131 2 0.01
133 1 0.00
135 46 0.12
136 110 0.29
137 133 0.35
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (137 bp):
GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTGCCAATATGCCAAT
TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAA
GATAAAG
Found at i:239282 original size:39 final size:39
Alignment explanation
Indices: 239227--239392 Score: 98
Period size: 39 Copynumber: 4.0 Consensus size: 39
239217 AAAGACAAGG
* * *
239227 TGCCAATATGCCAATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
* * * *
239266 TGCCAATGTGCTAATTCATGGCTAACGACATTGGTCTTAAAGATAAA
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGGC-T-----T--A
* * * * * *
239313 GGTGCCAATATACTGATTCAAGGCCAGCGATATTAGGCTTG
1 --TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
* * *
239354 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA
1 TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
239393 AAGATGGTGG
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
39 61 0.66
40 1 0.01
43 1 0.01
45 1 0.01
47 1 0.01
48 1 0.01
49 27 0.29
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTAATTCAAGGCCAACGACATTGGGCTTA
Found at i:239295 original size:136 final size:136
Alignment explanation
Indices: 239043--239339 Score: 472
Period size: 136 Copynumber: 2.2 Consensus size: 136
239033 TATTGGACTT
* *
239043 GTGCCAATATGCTGATTCAAGGCC-GACGACATTGGTCTTAAAGACAAGGTGCTATATGCTAATT
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTGCAATATGCCAATT
* *
239107 CAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAG
66 CAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAG
*
239172 ATGAAG
131 ATAAAG
* * *
239178 GTGCAAATGTGCTGATTCAAGGCCAG-TGACATTGGTCTTAAAGACAAGGTGCCAATATGCCAAT
1 GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTG-CAATATGCCAAT
* *
239242 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCATGGCTAACGACATTGGTCTTAAA
65 TCAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAA
239307 GATAAAG
130 GATAAAG
*
239314 GTGCCAATATACTGATTCAAGGCCAG
1 GTGCCAATATGCTGATTCAAGGCCAG
239340 CGATATTAGG
Statistics
Matches: 147, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
135 46 0.31
136 101 0.69
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (136 bp):
GTGCCAATATGCTGATTCAAGGCCAGACGACATTGGTCTTAAAGACAAGGTGCAATATGCCAATT
CAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAG
ATAAAG
Found at i:239344 original size:88 final size:88
Alignment explanation
Indices: 239178--239714 Score: 576
Period size: 88 Copynumber: 6.0 Consensus size: 88
239168 AAAGATGAAG
* * ** * **
239178 GTGCAAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCCAAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
239242 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCCAGCGATATTGGACTT
* * * *
239265 ATGCCAATGTGCTAATTCATGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAATATACTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
239330 TCAAGGCCAGCGATATTAGG-CTT
66 TCAAGGCCAGCGATATT-GGACTT
* *** *
239353 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGTGGTGCGAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
* *
239418 TTAAGGCTAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGACTT
* * * * * * * * *
239441 CTGCTAATGTGTTGATTCAAGGTCAGCGTCGTTGGTCGTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
*
239506 TCAAGGCTAGCGATATTGGACTT
66 TCAAGGCCAGCGATATTGGACTT
* * * *
239529 GTGCCAATGTGCTAATTCAAGCCCAGCGACATTTGTCTTAAAGATAAAGGTGCCAATATGTTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
239594 TCAAGGCCAGCGATATTGGACTTGAAGAT
66 TCAAGGCCAGCGATATTGGAC-T-----T
* * * * * * * *
239623 GAAGGTGCCAATATGCTGATTCTAGGCCAGCGATATTAGACTTGAAA-ATGAAGGTGCCAATATG
1 ----GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTT-AAAGATAAAGGTGCCAATATG
239687 CTGATTCAAGGCCAGCGATATTGGACTT
61 CTGATTCAAGGCCAGCGATATTGGACTT
239715 AGAAGAAGAC
Statistics
Matches: 380, Mismatches: 56, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
87 39 0.10
88 259 0.68
89 3 0.01
92 1 0.00
94 1 0.00
97 1 0.00
98 73 0.19
99 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTGGACTT
Found at i:239383 original size:224 final size:226
Alignment explanation
Indices: 238904--239436 Score: 714
Period size: 224 Copynumber: 2.4 Consensus size: 226
238894 ATGTTAAAGA
* * * * * * * * *
238904 TGCCAATATGCTGATTCAAGGTCAATGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
***
238969 CAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGGTGATTCAAGGCCAACGAT
66 CAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGCCAATTCAAGGCCAACGAT
* * * * *
239034 ATTGGACTTGTGCCAATATGCTGATTCAAGGCCGACGACATTGGTCTTAAAGACAAGGTGCTATA
131 ATTGGACTTATGCCAATATGCTAATTCAAGGCCAACGACATTGGTCTTAAAGAAAAGGTGCAATA
* *
239099 TGCTAATTCAAGGCCAGCGATATTGGGCTTG
196 TACTAATTCAAGGCCAGCGATATTAGGCTTG
239130 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
* * *
239195 CAAGGCCAGTGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCCAATTCAAGGCCAGCGAT
66 CAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGCCAATTCAAGGCCAACGAT
* * * *
239256 ATTGGGCTTATGCCAATGTGCTAATTCATGGCTAACGACATTGGTCTTAAAGATAAAGGTGCCAA
131 ATTGGACTTATGCCAATATGCTAATTCAAGGCCAACGACATTGGTCTTAAAGA-AAAGGTG-CAA
*
239321 TATACTGATTCAAGGCCAGCGATATTAGGCTTG
194 TATACTAATTCAAGGCCAGCGATATTAGGCTTG
** * *
239354 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGGTGGTGCGAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
* * *
239419 TAAGGCTAGCGATATTGG
66 CAAGGCCAGCGACATTGG
239437 ACTTCTGCTA
Statistics
Matches: 270, Mismatches: 35, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
222 74 0.27
223 9 0.03
224 108 0.40
225 2 0.01
226 77 0.29
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (226 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCAAATGTGCTGATT
CAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGCCAATTCAAGGCCAACGAT
ATTGGACTTATGCCAATATGCTAATTCAAGGCCAACGACATTGGTCTTAAAGAAAAGGTGCAATA
TACTAATTCAAGGCCAGCGATATTAGGCTTG
Found at i:239778 original size:29 final size:30
Alignment explanation
Indices: 239737--239861 Score: 125
Period size: 29 Copynumber: 4.3 Consensus size: 30
239727 TGCCAACTTG
239737 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGTTGCCACCAACT
* *
239766 TGTGTGCTTTTG-AA-GGTTGCCACTAACT
1 TGTGGGCTTTTGAAAGGGTTGCCACCAACT
* * *
239794 TGTGGGC-TTTAAAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGTTGCCACCAACT
* * **
239823 TATGGGCTTTTGAAAAGGG-TGTCACTGACT
1 TGTGGGCTTTTG-AAAGGGTTGCCACCAACT
239853 TGTGGGCTT
1 TGTGGGCTT
239862 AAAAGGAGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
27 8 0.10
28 17 0.22
29 28 0.35
30 20 0.25
31 6 0.08
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGTTGCCACCAACT
Found at i:239832 original size:57 final size:57
Alignment explanation
Indices: 239737--239867 Score: 149
Period size: 57 Copynumber: 2.3 Consensus size: 57
239727 TGCCAACTTG
* * * * *
239737 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGC-TTTAAAAGGGGTGCACCAACTTATGGGCTTTTGAAAGGGTGCCACTAACT
* * *
239794 TGTGGGCTTTAAAAGGGGTGCCACCGACTTATGGGCTTTTGAAAAGGGTGTCACTGACT
1 TGTGGGCTTTAAAAGGGGTG-CACCAACTTATGGGCTTTTG-AAAGGGTGCCACTAACT
239853 TGTGGGC-TTAAAAGG
1 TGTGGGCTTTAAAAGG
239868 AGAAAGATGC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
56 11 0.17
57 24 0.38
58 8 0.13
59 20 0.32
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.31
Consensus pattern (57 bp):
TGTGGGCTTTAAAAGGGGTGCACCAACTTATGGGCTTTTGAAAGGGTGCCACTAACT
Found at i:239913 original size:27 final size:27
Alignment explanation
Indices: 239882--240043 Score: 173
Period size: 27 Copynumber: 5.7 Consensus size: 27
239872 AGATGCCATG
*
239882 GAGTTATGGACTTAAAAGGGTGCCAC-
1 GAGTTGTGGACTTAAAAGGGTGCCACA
**
239908 GAAGTTGTGGACTTAAAAGGGTGCCATG
1 G-AGTTGTGGACTTAAAAGGGTGCCACA
* *
239936 GAGTTGTGGGCTTTAAAAGAGTGCCACA
1 GAGTTGTGGAC-TTAAAAGGGTGCCACA
*
239964 GAGTTGTGGATTTAAAAGGGTGCCACA
1 GAGTTGTGGACTTAAAAGGGTGCCACA
*
239991 GAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACG
1 GAGTTGTGGAC-TT-AAAA-G----GGTGCCACA
240025 GAGTTGTGGACTTAAAAGG
1 GAGTTGTGGACTTAAAAGG
240044 AACAGGGTGC
Statistics
Matches: 115, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
26 1 0.01
27 58 0.50
28 25 0.22
29 4 0.03
30 1 0.01
31 1 0.01
32 4 0.03
33 2 0.02
34 19 0.17
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (27 bp):
GAGTTGTGGACTTAAAAGGGTGCCACA
Found at i:239969 original size:55 final size:54
Alignment explanation
Indices: 239875--240043 Score: 196
Period size: 55 Copynumber: 3.0 Consensus size: 54
239865 AGGAGAAAGA
* *
239875 TGCCATGGAGTTATGGAC-TTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCATGGAGTTGTGGACTTTAAAAGAGTGCCACG-AGTTGTGGACTTAAAAGGG
* *
239929 TGCCATGGAGTTGTGGGCTTTAAAAGAGTGCCACAGAGTTGTGGATTTAAAAGGG
1 TGCCATGGAGTTGTGGACTTTAAAAGAGTGCCAC-GAGTTGTGGACTTAAAAGGG
**
239984 TGCCACAGAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 TGCCATGGAGTTGTGGACTTT-AAAA-G---A-GTGCCAC-GAGTTGTGGACTTAAAAGG
240044 AACAGGGTGC
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
54 16 0.16
55 50 0.51
56 5 0.05
57 1 0.01
60 1 0.01
61 25 0.26
ACGTcount: A:0.30, C:0.12, G:0.34, T:0.24
Consensus pattern (54 bp):
TGCCATGGAGTTGTGGACTTTAAAAGAGTGCCACGAGTTGTGGACTTAAAAGGG
Found at i:240060 original size:33 final size:33
Alignment explanation
Indices: 239978--240104 Score: 148
Period size: 34 Copynumber: 3.8 Consensus size: 33
239968 TGTGGATTTA
*
239978 AAAGGGTGCCACAGAGTTGTGGACTTTGAAAAGG
1 AAAGGGTGCCACGGAGTTGTGGAC-TTGAAAAGG
*
240012 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAGG
1 AAAGGGTGCCACGGAGTTGTGGACTTGAAAAGG
* *
240044 AACAGGGTGCCGCGGAGTTGTGGACTTTGAAAAGA
1 AA-AGGGTGCCACGGAGTTGTGGAC-TTGAAAAGG
* ** *
240079 AAAAGGTGCCATAGAGTCGTGGACTT
1 AAAGGGTGCCACGGAGTTGTGGACTT
240105 TGAAGAAAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
32 8 0.10
33 24 0.30
34 41 0.51
35 7 0.09
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.20
Consensus pattern (33 bp):
AAAGGGTGCCACGGAGTTGTGGACTTGAAAAGG
Found at i:240120 original size:31 final size:31
Alignment explanation
Indices: 239984--240425 Score: 423
Period size: 31 Copynumber: 14.0 Consensus size: 31
239974 TTTAAAAGGG
* * *
239984 TGCCACAGAGTTGTGGACTTTGAAAAGGAAAAGG
1 TGCCACTGAGTCGTGGACTTTG--AA-GAAAAGA
* * ** * *
240018 TGCCACGGAGTTGTGGACTTAAAAGGAACAGGG
1 TGCCACTGAGTCGTGGACTTTGAA-GAA-AAGA
* * * *
240051 TGCCGCGGAGTTGTGGACTTTGAAAAGAAAAAGG
1 TGCCACTGAGTCGTGGACTTTG--AAG-AAAAGA
240085 TGCCA-TAGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACT-GAGTCGTGGACTTTGAAGAAAAGA
* *
240116 TGCCACTAAGTCATGGACTTTG--GAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAA-AGA
*
240146 TGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
240177 TGCCACTGAGTCGTGGACTTTGAAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
240208 TGGCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * * *
240239 TGCCACAGAGTCGTGGACTTAGAA-AAGATA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
240269 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
* *
240302 TGCCACTGAGTCATGGA-TATGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACT-TTGAAGAAAA-GA
*
240334 TGCCACTGAGTCATGGACTTTG-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAG-AAA-AGA
* * *
240366 TGCCACTAAGTTGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
240396 TGCCACTGAGTCGTGGACTTTG-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
240426 GATGTGAAGA
Statistics
Matches: 351, Mismatches: 40, Indels: 38
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.01
30 80 0.23
31 111 0.32
32 62 0.18
33 49 0.14
34 41 0.12
35 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:241724 original size:17 final size:17
Alignment explanation
Indices: 241702--241742 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
241692 GCACTCTCTC
241702 TTTTTTTTGTGTTTTTT-
1 TTTTTTTTGT-TTTTTTG
241719 TTTTTTTTGTTTTTTTG
1 TTTTTTTTGTTTTTTTG
241736 TTTTTTT
1 TTTTTTT
241743 CTTCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTG
Found at i:241742 original size:9 final size:9
Alignment explanation
Indices: 241702--241777 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 9
241692 GCACTCTCTC
241702 TTTTTTTTG
1 TTTTTTTTG
*
241711 TGTTTTTT-
1 TTTTTTTTG
241719 TTTTTTTTG
1 TTTTTTTTG
241728 -TTTTTTTG
1 TTTTTTTTG
241736 TTTTTTTCT-
1 TTTTTTT-TG
*
241745 TCTTTCTTTTC
1 T-TTT-TTTTG
*
241756 TTTCTTTT-
1 TTTTTTTTG
*
241764 TTTTTTGTG
1 TTTTTTTTG
241773 TTTTT
1 TTTTT
241778 ACTTGTGACT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 21 0.38
9 23 0.42
10 7 0.13
11 4 0.07
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:241777 original size:1 final size:1
Alignment explanation
Indices: 241702--241769 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
241692 GCACTCTCTC
* * * * * * * * *
241702 TTTTTTTTGTGTTTTTTTTTTTTTTGTTTTTTTGTTTTTTTCTTCTTTCTTTTCTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
241767 TTT
1 TTT
241770 GTGTTTTTAC
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.07, G:0.06, T:0.87
Consensus pattern (1 bp):
T
Found at i:248887 original size:32 final size:32
Alignment explanation
Indices: 248841--248915 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
248831 GCAGTAGCTT
* * *
248841 TGTAGCGATACATTGTATCGATACAACATTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
*
248873 TGTATCGATACATTGTATCAATACAATACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
248905 TGTATCGATAC
1 TGTATCGATAC
248916 GTTTACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATTGTATCAATACAACACTTA
Found at i:249799 original size:49 final size:49
Alignment explanation
Indices: 249610--249915 Score: 202
Period size: 52 Copynumber: 6.1 Consensus size: 49
249600 ATATGCGGCT
* ** * * *
249610 AGCGATATTGGGCTCGAAGATGCGAAGAATGACAATGTGCTGATTCATGGCC
1 AGCGATATTGGACTTAAAGAT--GAAG-ATGCCAATATGCTGATTCAAGGCC
* * * * * * * **
249662 AGTGACATTAGACTTGAAGAAG-A-ATGCCAATGTACTGAGACAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * * * * *
249709 AACGACATTGGTCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGTC
1 AGCGATATTGGACTTA--AA-GATGAAGATGCCAATATGCTGATTCAAGGCC
* * * *
249761 AACGATATCGGACTTAAAGCTGAAGATGCCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * ** *
249810 AGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATATGGTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGAT---GAAGATGCCAATATGCTGATTCAAGGCC
* ** * *
249862 AGCGATATTGGACTTAAAGATGAAGGTGCTGATGTACTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
249911 AGCGA
1 AGCGA
249916 ATTCGTCCCC
Statistics
Matches: 198, Mismatches: 48, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
47 30 0.15
49 73 0.37
50 4 0.02
51 1 0.01
52 90 0.45
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (49 bp):
AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
Found at i:249816 original size:101 final size:101
Alignment explanation
Indices: 249680--249915 Score: 285
Period size: 101 Copynumber: 2.3 Consensus size: 101
249670 TAGACTTGAA
** * * ** *
249680 GAAGAATGCCAATGTACTGAGACAAGGCCAACGACATTGGTCTT-AGGAATGTTAAAGATGCCAA
1 GAAG-ATGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAG-ATGACAAAGACGCCAA
* *
249744 TATGCTGATTCAAGGTCAACGATATCGGACTTAAAGCT
64 TATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
* * *
249782 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGCGCCAATA
1 GAAGATGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGACGCCAATA
* * *
249847 TGGTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
66 TGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
* **
249883 GAAGGTGCTGATGTACTGATTCAAGGCCAGCGA
1 GAAGATGCCAATGTACTGATTCAAGGCCAGCGA
249916 ATTCGTCCCC
Statistics
Matches: 114, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
101 108 0.95
102 6 0.05
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (101 bp):
GAAGATGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGACGCCAATA
TGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
Found at i:250397 original size:84 final size:83
Alignment explanation
Indices: 250281--250504 Score: 236
Period size: 84 Copynumber: 2.7 Consensus size: 83
250271 CAATCTGGTT
* * ** *
250281 AACCTTTTCATCCTTTGTTTACTTATCGACTTAGTCTTGGTAAATCATTTTATCCTTTGTTAACT
1 AACCTTTTCATCC-TTATCTACCCATCGACTTAGTCTAGGTAAATCATTTTATCCTTTGTTAACT
* *
250346 TGTTGGTTGAATCCCGATC
65 TGTCGGTTCAATCCCGATC
** * * * * *
250365 AA-CTTTTTTTCCCTTTGTCTACCGATCGACTTAGTCCTAGGTAAATCCTTTTATACTTTGTTGA
1 AACCTTTTCAT-CC-TTATCTACCCATCGACTTAGT-CTAGGTAAATCATTTTATCCTTTGTTAA
250429 CTTGTCGGTTCAATCCCGATC
63 CTTGTCGGTTCAATCCCGATC
* *
250450 AACCTTTTCATCCTTATCTACCCATC-AGCTTAGTCTCGGCTAAATCTTTTTATCC
1 AACCTTTTCATCCTTATCTACCCATCGA-CTTAGTCTAGG-TAAATCATTTTATCC
250505 CCTATTGATT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
83 11 0.09
84 53 0.45
85 47 0.40
86 6 0.05
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (83 bp):
AACCTTTTCATCCTTATCTACCCATCGACTTAGTCTAGGTAAATCATTTTATCCTTTGTTAACTT
GTCGGTTCAATCCCGATC
Found at i:251946 original size:164 final size:166
Alignment explanation
Indices: 251694--252037 Score: 412
Period size: 164 Copynumber: 2.1 Consensus size: 166
251684 AGTTTATAAG
* * * * * *
251694 TTTTTAAAATTTATCAAATATCATCATTTAATTCATAATAAATTAGTTTTAAAAATTCATTTTTT
1 TTTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCAGTTTTAAAAATTCATTTATT
* *
251759 TCATGAGTTTTTCAATTTTTTTCCTTAAAATTTTGTT-TTTTCAAAAAA-TCGAGTTTTCTATTC
66 TCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTCTTATTTTCAAAAAACT-GAGTTTTCTATTC
251822 CATAAATGTTTTCG-AGAGAGTTTTCTCGATTCAAAA
130 CATAAATGTTTTCGCAGAGAGTTTTCTCGATTCAAAA
* * *
251858 TTTTTAATATTCATCAAATATCACCATTTAAATCATAGCAAATCAGTTTTGAAAGATTCATTTAA
1 TTTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCAGTTTT-AAAAATTCATTT-A
* * **
251923 TTTCATGGGTTTTTC-A-GTTTTTCCTTGAAATTTTCTTATTTTTGAAAAACTGAGTTTTCTATT
64 TTTCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTCTTATTTTCAAAAAACTGAGTTTTCTATT
*** * * * *
251986 TTGTAAATGTTTTCGCAGAGATTTTTCTTGGTTTAAAA
129 CCATAAATGTTTTCGCAGAGAGTTTTCTCGATTCAAAA
*
252024 -TTCTAAAATTCATC
1 TTTTTAAAATTCATC
252038 TAATGTTGTC
Statistics
Matches: 151, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
164 61 0.40
165 57 0.38
166 33 0.22
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (166 bp):
TTTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCAGTTTTAAAAATTCATTTATT
TCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTCTTATTTTCAAAAAACTGAGTTTTCTATTCC
ATAAATGTTTTCGCAGAGAGTTTTCTCGATTCAAAA
Found at i:252037 original size:165 final size:163
Alignment explanation
Indices: 251674--252037 Score: 410
Period size: 165 Copynumber: 2.2 Consensus size: 163
251664 TTTTTAGGGG
* * * * * * *
251674 GATTTTTCTTAGTTTATAAGTTTTTAAAATTTATCAAATATCATCATTTAATTCATAATAAATTA
1 GATTTTTCTTGGTTTA-AA-ATTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCA
* *
251739 GTTTTAAAAATTCATTTTTTTCATGAGTTTTTCAATTTTTTTCCTTAAAATTTTGTTTTTTCAAA
64 GTTTTAAAAATTCATTTATTTCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTGTTTTTTCAAA
251804 AAATCGAGTTTTCTATTCCATAAATGTTTTCGAGA
129 AAATCGAGTTTTCTATTCCATAAATGTTTTCGAGA
* * * * * *
251839 GAGTTTTCTCGATTCAAAATTTTTAATATTCATCAAATATCACCATTTAAATCATAGCAAATCAG
1 GATTTTTCTTGGTTTAAAA-TTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCAG
* * * * **
251904 TTTTGAAAGATTCATTTAATTTCATGGGTTTTTC-A-GTTTTTCCTTGAAATTTTCTTATTTTTG
65 TTTT-AAAAATTCATTT-ATTTCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTGTT-TTTTCA
***
251967 AAAAA-CTGAGTTTTCTATTTTGTAAATGTTTTCGCAGA
127 AAAAATC-GAGTTTTCTATTCCATAAATGTTTTCG-AGA
*
252005 GATTTTTCTTGGTTTAAAATTCTAAAATTCATC
1 GATTTTTCTTGGTTTAAAATTTTAAAATTCATC
252038 TAATGTTGTC
Statistics
Matches: 163, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
164 63 0.39
165 68 0.42
166 32 0.20
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.48
Consensus pattern (163 bp):
GATTTTTCTTGGTTTAAAATTTTAAAATTCATCAAATATCACCATTTAAATCATAACAAATCAGT
TTTAAAAATTCATTTATTTCATGAGTTTTTCAATGTTTTTCCTTAAAATTTTGTTTTTTCAAAAA
ATCGAGTTTTCTATTCCATAAATGTTTTCGAGA
Found at i:252093 original size:165 final size:164
Alignment explanation
Indices: 251698--252100 Score: 402
Period size: 165 Copynumber: 2.4 Consensus size: 164
251688 TATAAGTTTT
* * * *
251698 TAAAATTTATCAAATATCATCATTTAATTCATAATAAATTAGTTTTAAAAATTCATTTTTTTCAT
1 TAAAATTCATCAAATATCATCATTAAATTCATAATAAATTAGTTTAAAAAATTCATTTATTTCAT
*
251763 GAGTTTTTCAATTTTTTTCCTTAAAATTTTGTTTTTTCAAAAAATCGAGTTTTCTATTCCATAAA
66 GAGTTTTTCAATGTTTTTCCTTAAAATTTTGTTTTTTCAAAAAATCGAGTTTTCTATTCCATAAA
*
251828 TGTTTTCGAGAGAGTTTTCTCGATTCAAAATTTT
131 TGTTTTCGAGAGAGTTTTCTCGATTCAAAATTTC
* * ** * * *
251862 TAATATTCATCAAATATCACCATTTAAA-TCATAGCAAATCAGTTTTGAAAGATTCATTTAATTT
1 TAAAATTCATCAAATATCATCA-TTAAATTCATAATAAATTAG-TTTAAAAAATTCATTT-ATTT
* * * ** **
251926 CATGGGTTTTTC-A-GTTTTTCCTTGAAATTTTCTTATTTTTGAAAAA-CTGAGTTTTCTATTTT
63 CATGAGTTTTTCAATGTTTTTCCTTAAAATTTTGTT-TTTTCAAAAAATC-GAGTTTTCTATTCC
* * * * *
251988 GTAAATGTTTTCGCAGAGATTTTTCTTGGTTTAAAA-TTC
126 ATAAATGTTTTCG-AGAGAGTTTTCTCGATTCAAAATTTC
* * ** * * *
252027 TAAAATTCATCTAATGTTGTCATTAAATTCACATTAAATTAGTGTTAAAAAATTCAAATTATTTC
1 TAAAATTCATCAAATATCATCATTAAATTCATAATAAATTAGT-TTAAAAAATTC-ATTTATTTC
*
252092 ATGAATTTT
64 ATGAGTTTT
252101 GAAGTTTTTG
Statistics
Matches: 191, Mismatches: 39, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
164 55 0.29
165 101 0.53
166 35 0.18
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (164 bp):
TAAAATTCATCAAATATCATCATTAAATTCATAATAAATTAGTTTAAAAAATTCATTTATTTCAT
GAGTTTTTCAATGTTTTTCCTTAAAATTTTGTTTTTTCAAAAAATCGAGTTTTCTATTCCATAAA
TGTTTTCGAGAGAGTTTTCTCGATTCAAAATTTC
Found at i:252473 original size:18 final size:18
Alignment explanation
Indices: 252426--252473 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
252416 CTAGAACAGT
*
252426 AAATGAAAATAGCATGGAA
1 AAATGAAAA-AACATGGAA
*
252445 AAATGGAAAAACATGGAA
1 AAATGAAAAAACATGGAA
252463 AAATGAAAAAA
1 AAATGAAAAAA
252474 AAAGGAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.65, C:0.04, G:0.19, T:0.12
Consensus pattern (18 bp):
AAATGAAAAAACATGGAA
Found at i:252480 original size:18 final size:18
Alignment explanation
Indices: 252441--252480 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
252431 AAAATAGCAT
* * *
252441 GGAAAAATGGAAAAACAT
1 GGAAAAATGAAAAAAAAA
252459 GGAAAAATGAAAAAAAAA
1 GGAAAAATGAAAAAAAAA
252477 GGAA
1 GGAA
252481 TCAGCCAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.23, T:0.07
Consensus pattern (18 bp):
GGAAAAATGAAAAAAAAA
Found at i:252758 original size:20 final size:20
Alignment explanation
Indices: 252710--252758 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
252700 CAAGTTAATC
*
252710 TATCAATACATAAGTGAATA
1 TATCGATACATAAGTGAATA
*
252730 TAT-GAATACATAAGTGAATG
1 TATCG-ATACATAAGTGAATA
252750 TATCGATAC
1 TATCGATAC
252759 TGGACCTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTGAATA
Found at i:253641 original size:157 final size:152
Alignment explanation
Indices: 253322--253817 Score: 547
Period size: 157 Copynumber: 3.2 Consensus size: 152
253312 AACATTCACA
* * * *
253322 TTTAATT-ATCATTAAATCAGTTTCAAAAATTTCATCTTATTTTATAATTTTTTAG-ATTTTTT-
1 TTTAATTCAT-ATTAAATCAATTTGAAAAATTT-AACTTATTTTATAA-GTTTTAGAATTTTTTC
* * * *
253384 TAGTTTTCAAAATACAGAGTTTTCTT-CTCTATAAATTTCTTTGGTAGA-ATTTTTCTAAGTTTA
63 TA-TTTTCAAAATA-AAAGTTTTTTTACTCTATAAA-TTCTCTGGTA-ATATTTTTCTGAGTTTA
253447 TAATTTTCAAAATTCTTCAAATATTATTG
124 TAATTTTCAAAATTCTTCAAATATTATTG
* * *
253476 TTTTATTCATGTTAAATCCACTTTGAAAAATTTAACTTATTTTATAAGTTTTAGAATTTTTTCTA
1 TTTAATTCATATTAAAT-CAATTTGAAAAATTTAACTTATTTTATAAGTTTTAGAATTTTTTCTA
* ** * *
253541 TTTTCAAAATATGAAGTTTTTTTACTCTATGAAATTCTCCAGTAATATATTTTTTTGAGTTTGTA
65 TTTTCAAAATA-AAAGTTTTTTTACTCTAT-AAATTCTCTGGT-A-ATATTTTTCTGAGTTTATA
*
253606 ATTTTCAAAATTCTTCAAAAATTATTG
126 ATTTTCAAAATTCTTCAAATATTATTG
* * * * * * * *
253633 TTTAATTCATATTGAATTAGTTTTGAAAATTTTAA-TTATTTTATGAGATTTAAAATTTTTCCTA
1 TTTAATTCATATTAAATCA-ATTTGAAAAATTTAACTTATTTTATAAGTTTTAGAATTTTTTCTA
* *
253697 TTTTCAAAGTACAAAGTTTTTTTTACTCTGTAAA-TCTCTGGTAATATTTTTCTGAGTTTATAAT
65 TTTTCAAAATA-AAAG-TTTTTTTACTCTATAAATTCTCTGGTAATATTTTTCTGAGTTTATAAT
*
253761 CTTCAAAATTCTTCAAATATTATTG
128 TTTCAAAATTCTTCAAATATTATTG
253786 TTTAATTCATATTAAATCAATTATGAAAAATT
1 TTTAATTCATATTAAATCAATT-TGAAAAATT
253818 CTTTTGTGAG
Statistics
Matches: 289, Mismatches: 42, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
152 2 0.01
153 73 0.25
154 52 0.18
155 35 0.12
156 47 0.16
157 80 0.28
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.50
Consensus pattern (152 bp):
TTTAATTCATATTAAATCAATTTGAAAAATTTAACTTATTTTATAAGTTTTAGAATTTTTTCTAT
TTTCAAAATAAAAGTTTTTTTACTCTATAAATTCTCTGGTAATATTTTTCTGAGTTTATAATTTT
CAAAATTCTTCAAATATTATTG
Found at i:254834 original size:13 final size:13
Alignment explanation
Indices: 254816--254841 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
254806 ACATTTTGGG
254816 ATGTATCGATACA
1 ATGTATCGATACA
254829 ATGTATCGATACA
1 ATGTATCGATACA
254842 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:254836 original size:33 final size:32
Alignment explanation
Indices: 254794--254861 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
254784 CGTTATAAGC
*
254794 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
254827 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
254859 CAA
1 CAA
254862 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:254999 original size:20 final size:20
Alignment explanation
Indices: 254976--255016 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
254966 CTGTGCAATC
*
254976 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
254996 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
255016 T
1 T
255017 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:255546 original size:20 final size:22
Alignment explanation
Indices: 255521--255563 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
255511 TTTTCTTTTC
255521 TCTCCCCCTTAA-AAAA-AATT
1 TCTCCCCCTTAATAAAATAATT
255541 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
255563 T
1 T
255564 AACAATTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:256970 original size:21 final size:21
Alignment explanation
Indices: 256939--256990 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
256929 GCTGCTAGTG
**
256939 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCACGACC
256961 TGGGGGTG-CCGGTCACGACC
1 TGGGGGTGCCCGGTCACGACC
256981 TGGTGGGTGC
1 TGG-GGGTGC
256991 TGCTTAGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.06, C:0.27, G:0.48, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCACGACC
Found at i:257289 original size:20 final size:19
Alignment explanation
Indices: 257252--257290 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
257242 TGTTTTTGTT
*
257252 GATGATTTTGATGAAAAAC
1 GATGATTTTGAAGAAAAAC
257271 GATGTATTTTGAAGTAAAAA
1 GATG-ATTTTGAAG-AAAAA
257291 ACAAGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (19 bp):
GATGATTTTGAAGAAAAAC
Found at i:257442 original size:13 final size:13
Alignment explanation
Indices: 257424--257461 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
257414 ATAAACCCTT
*
257424 TGTATCGATACAC
1 TGTATCGATACAA
257437 TGTATCGATACAA
1 TGTATCGATACAA
257450 TGTATCGATACA
1 TGTATCGATACA
257462 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:263636 original size:13 final size:13
Alignment explanation
Indices: 263618--263643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263608 ACATTTTGGG
263618 ATGTATCGATACA
1 ATGTATCGATACA
263631 ATGTATCGATACA
1 ATGTATCGATACA
263644 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:263660 original size:32 final size:33
Alignment explanation
Indices: 263600--263663 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
263590 ACAAGCCAAC
*
263600 GTATCGATACATTTTGGGATGTATCGATACAAT
1 GTATCGATACATATTGGGATGTATCGATACAAT
*
263633 GTATCGATACATATTGTG-TGTATCGATACAA
1 GTATCGATACATATTGGGATGTATCGATACAA
263664 ACAGTTAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.36
Consensus pattern (33 bp):
GTATCGATACATATTGGGATGTATCGATACAAT
Found at i:263762 original size:13 final size:13
Alignment explanation
Indices: 263744--263769 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
263734 ACATTTGGTC
263744 ATGTATCGATACA
1 ATGTATCGATACA
263757 ATGTATCGATACA
1 ATGTATCGATACA
263770 TTTGAAGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:263782 original size:33 final size:33
Alignment explanation
Indices: 263726--263788 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
263716 TTCTTTTGAA
**
263726 GTATCGATACATTTGGTCATGTATCGATACAAT
1 GTATCGATACATTTGAACATGTATCGATACAAT
**
263759 GTATCGATACATTTGAAGGTGTATCGATAC
1 GTATCGATACATTTGAACATGTATCGATAC
263789 TTTTCAAGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (33 bp):
GTATCGATACATTTGAACATGTATCGATACAAT
Found at i:263783 original size:20 final size:20
Alignment explanation
Indices: 263758--263798 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
263748 ATCGATACAA
*
263758 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
263778 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
263798 T
1 T
263799 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:266362 original size:42 final size:42
Alignment explanation
Indices: 266303--266402 Score: 191
Period size: 42 Copynumber: 2.4 Consensus size: 42
266293 AATATAATTC
*
266303 ATAATGTATCGATACATGCATTTGAAATTATAGTCGTTTGAG
1 ATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTGAG
266345 ATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTGAG
1 ATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTGAG
266387 ATAATGTATCGATACA
1 ATAATGTATCGATACA
266403 ATGTACCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (42 bp):
ATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTGAG
Found at i:276049 original size:156 final size:155
Alignment explanation
Indices: 275856--276530 Score: 580
Period size: 156 Copynumber: 4.3 Consensus size: 155
275846 GTGATCAAGT
* * * * * ** * * *
275856 TGCTTTTATACCAAAGGTCTATATATAGGATAGGTTCATCCTTTTTTTGATC-CTTTAGTGTCTG
1 TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCACTTTA-AGTCTT
* * ** *
275920 TTAAGGTCACCAAGATACTTTTATGTCGAAA-GTATACCATTAGAGGCATTTTTGTAATTTTTCT
65 TTAAGGTTACCAAGATACTTTTATATCGAAAGGTATACC--TAGAGGCATTTTCATAATTTTCCT
*
275984 AGAACCAAGTCCTAAGTTGTCACCGAGA
128 AGAACCAAGTCCTAGGTTGTCACCGAGA
* ** *
276012 TGCCTTTATGCCAAAGGTGTGTATTTAGGATAAGTTCATCCCATTTATGATCATTTTTAAGTCTT
1 TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCA-CTTTAAGTCTT
* * * * * **
276077 TTAGGGTTACTAAGATA-TTTTCATGTC-AAAGGCGTAT-TCTAGAGGTATTTTTGTAATTTTCC
65 TTAAGGTTACCAAGATACTTTT-ATATCGAAA-G-GTATACCTAGAGGCATTTTCATAATTTTCC
* ** **
276139 TACAACCAAGTTTTAGGTTGTCA-TTAGGA
127 TAGAACCAAGTCCTAGGTTGTCACCGA-GA
* * * * *
276168 TGCTTTTATGCCAAAGATGTGCATTTTGGATAGGTTCATCCCATTTATGATCATTTTAA-TCTAT
1 TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCACTTTAAGTCT-T
* * * * *
276232 ATTAGGGTTATCGACATACTTTTATATCGGAAGGTATACCTAGAGGCATTTTCATAATTTTCCTA
65 -TTAAGGTTACCAAGATACTTTTATATCGAAAGGTATACCTAGAGGCATTTTCATAATTTTCCTA
* * * * * *
276297 GAATCGAGTCCTAGGTAGTTATCG-GG
129 GAACCAAGTCCTAGGTTGTCACCGAGA
* * *** *
276323 TCGCTTTTATGCC-AAGGTCTACATATAGGATAAGTTCATCTTTTTTATGAT-TCTTTCAAGTCT
1 T-GCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCACTTT-AAGTCT
* * * * *
276386 TTTAAGGTTACTAAGATACTTTTATAT-TAAAGGTATACCCCAAAGGTATTTTCATAATTTTCCT
64 TTTAAGGTTACCAAGATACTTTTATATCGAAAGGTATA-CCTAGAGGCATTTTCATAATTTTCCT
* * * *
276450 AGAACCAAGTCTTAGGTTATCTCCAAGA
128 AGAACCAAGTCCTAGGTTGTCACCGAGA
*
276478 TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATAATCA
1 TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCA
276531 TTTTTATGTC
Statistics
Matches: 412, Mismatches: 87, Indels: 40
0.76 0.16 0.07
Matches are distributed among these distances:
153 8 0.02
154 77 0.19
155 80 0.19
156 209 0.51
157 29 0.07
158 5 0.01
159 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (155 bp):
TGCTTTTATGCCAAAGGTGTACATTTAGGATAAGTTCATCCCATTTATGATCACTTTAAGTCTTT
TAAGGTTACCAAGATACTTTTATATCGAAAGGTATACCTAGAGGCATTTTCATAATTTTCCTAGA
ACCAAGTCCTAGGTTGTCACCGAGA
Found at i:276482 original size:310 final size:311
Alignment explanation
Indices: 275934--276534 Score: 719
Period size: 310 Copynumber: 1.9 Consensus size: 311
275924 GGTCACCAAG
* ** *
275934 ATACTTTTATGTCGAAAGTATACCATTAGAGGCATTTTTGTAATTTTTCTAGAACCAAGTCCTAA
1 ATACTTTTATATCGAAAGTATACCA-TAGAGGCATTTTCATAATTTTCCTAGAACCAAGTCCTAA
* * ** *
275999 GTTGTCACCGAGATGCCTTTATGCCAAAGGTGTGTATTTAGGATAAGTTCATCCCATTTATGATC
65 GTAGTCACCGAGATGCCTTTATGCCAAAGGTCTACATATAGGATAAGTTCATCCCATTTATGATC
* * * * ** * * *
276064 ATTTTTAAGTCTTTTAGGGTTACTAAGATATTTTCATGTCAAAGGCGTATTCTAGAGGTATTTTT
130 A-TTTCAAGTCTTTTAAGGTTACTAAGATATTTTCATATCAAAGGCATACCCCAAAGGTATTTTC
* * * * * *
276129 GTAATTTTCCTACAACCAAGTTTTAGGTTGTCATTAGGATGCTTTTATGCCAAAGATGTGCATTT
194 ATAATTTTCCTACAACCAAGTCTTAGGTTATCATCAAGATGCTTTTATGCCAAAGATGTACATTT
* * *
276194 TGGATAGGTTCATCCCATTTATGATCATTTTAATCTATATTAGGGTTATCGAC
259 AGGATAAGTTCATCCCATTTATAATCATTTTAATCTATATTAGGGTTATCGAC
* * * *
276247 ATACTTTTATATCGGAAGGTATACC-TAGAGGCATTTTCATAATTTTCCTAGAATCGAGTCCTAG
1 ATACTTTTATATC-GAAAGTATACCATAGAGGCATTTTCATAATTTTCCTAGAACCAAGTCCTAA
* * * * ***
276311 GTAGTTATCG-GGTCGCTTTTATGCC-AAGGTCTACATATAGGATAAGTTCATCTTTTTTATGAT
65 GTAGTCACCGAGAT-GCCTTTATGCCAAAGGTCTACATATAGGATAAGTTCATCCCATTTATGA-
* *
276374 TC-TTTCAAGTCTTTTAAGGTTACTAAGATACTTTT-ATATTAAAGGTATACCCCAAAGGTATTT
128 TCATTTCAAGTCTTTTAAGGTTACTAAGATA-TTTTCATATCAAAGGCATACCCCAAAGGTATTT
* *
276437 TCATAATTTTCCTAGAACCAAGTCTTAGGTTATC-TCCAAGATGCTTTTATGCCAAAGGTGTACA
192 TCATAATTTTCCTACAACCAAGTCTTAGGTTATCAT-CAAGATGCTTTTATGCCAAAGATGTACA
276501 TTTAGGATAAGTTCATCCCATTTATAATCATTTT
256 TTTAGGATAAGTTCATCCCATTTATAATCATTTT
276535 TATGTCCTTG
Statistics
Matches: 241, Mismatches: 42, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
309 1 0.00
310 130 0.54
311 36 0.15
312 52 0.22
313 12 0.05
314 10 0.04
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (311 bp):
ATACTTTTATATCGAAAGTATACCATAGAGGCATTTTCATAATTTTCCTAGAACCAAGTCCTAAG
TAGTCACCGAGATGCCTTTATGCCAAAGGTCTACATATAGGATAAGTTCATCCCATTTATGATCA
TTTCAAGTCTTTTAAGGTTACTAAGATATTTTCATATCAAAGGCATACCCCAAAGGTATTTTCAT
AATTTTCCTACAACCAAGTCTTAGGTTATCATCAAGATGCTTTTATGCCAAAGATGTACATTTAG
GATAAGTTCATCCCATTTATAATCATTTTAATCTATATTAGGGTTATCGAC
Found at i:281207 original size:52 final size:52
Alignment explanation
Indices: 281137--281257 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
281127 GAAAATTTAT
*
281137 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
281189 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
281241 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
281258 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:281270 original size:52 final size:51
Alignment explanation
Indices: 281137--281277 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
281127 GAAAATTTAT
281137 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
281189 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
281241 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
281278 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:281284 original size:13 final size:13
Alignment explanation
Indices: 281266--281290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281256 CAAAGATCAG
281266 TGTATCGATACAA
1 TGTATCGATACAA
281279 TGTATCGATACA
1 TGTATCGATACA
281291 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:281373 original size:13 final size:13
Alignment explanation
Indices: 281355--281379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
281345 CAAAAAAATA
281355 TGTATCGATACAT
1 TGTATCGATACAT
281368 TGTATCGATACA
1 TGTATCGATACA
281380 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:281375 original size:33 final size:33
Alignment explanation
Indices: 281333--281399 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
281323 AGTAGCTTAA
281333 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
281366 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
281399 A
1 A
281400 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:282320 original size:49 final size:49
Alignment explanation
Indices: 282144--284083 Score: 2496
Period size: 49 Copynumber: 39.8 Consensus size: 49
282134 GTGATAAAGA
* * * * *
282144 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-GATG---AAGG
* * * *
282199 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
282252 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
282301 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
282350 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * * *
282398 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
282447 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
282496 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
282545 TGCCAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTGCAA-G
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAGG
* * * *
282593 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAAAATG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGG
*
282645 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A-G-AGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
282688 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
282737 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
282786 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
282835 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
282884 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
282933 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
282982 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
283031 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
283083 TGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
283132 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
283181 TGCCAATATGCTGACTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * * *
283230 TGCCAATGTGTTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
283279 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * * *
283328 TGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTGAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
283377 TGCCAATATGCAGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
283426 TGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
283475 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
283524 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
283573 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
283616 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
283665 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
283714 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
283757 TGCCAATGTGCTGAGTCAAGGCCAGCTACATGGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
283806 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
283855 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * ** *
283898 TGCCAATGTGCTGAGTCAAGGCCAGCTACCTTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
283947 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
283996 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
284045 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
284084 GAAGGGTTGC
Statistics
Matches: 1652, Mismatches: 196, Indels: 79
0.86 0.10 0.04
Matches are distributed among these distances:
43 157 0.10
45 3 0.00
47 5 0.00
48 82 0.05
49 1242 0.75
50 1 0.00
51 4 0.00
52 116 0.07
53 9 0.01
54 2 0.00
55 2 0.00
56 29 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:284166 original size:33 final size:33
Alignment explanation
Indices: 284124--284709 Score: 625
Period size: 34 Copynumber: 17.7 Consensus size: 33
284114 AGAAAGGGTG
* * *
284124 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
284156 ACAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG--A
**
284193 AAAGAGTGCCACGGAGTTGTGGGCTTGGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
* *
284227 AAAGAGTGCCACGAAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
284261 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
284295 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
284328 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
* *
284362 AAAGAATGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * *
284395 AAAGAGTGCTACGTAATTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
284428 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * *
284461 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
**
284494 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* * * *
284527 AAAGTGTGCCACAGAGTTGTGGGATTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGG-CTTAAAAGGA
* * *
284561 AAAGAATGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAA-AGGA
* *
284595 AAAAAGTGCCACGGAATTGTGGGCTTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGA
* *
284627 ---G-GTGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAA-AGGA
* * *
284657 AAAAAGTGCCACGGAATTGTGGGCTTTAAA-GA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
284689 AAA-AGTGCCACTGAGTCGTGG
1 AAAGAGTGCCACGGAGTTGTGG
284710 ACTTTGAGAC
Statistics
Matches: 474, Mismatches: 62, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
27 5 0.01
28 18 0.04
29 1 0.00
31 15 0.03
32 7 0.01
33 190 0.40
34 202 0.43
35 8 0.02
36 6 0.01
37 22 0.05
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:284465 original size:66 final size:66
Alignment explanation
Indices: 284124--284709 Score: 658
Period size: 66 Copynumber: 8.8 Consensus size: 66
284114 AGAAAGGGTG
* * * *
284124 AAAGA-TGCCAC-GAAGTTGTGGACTTAAAAAGAACAA-AGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGGAA-TTGTGGGCTTTAAAGGAA-AAGAGTGCCACGGAGTTGTGGGC-TTAGA
284186 AGGGAAA
63 A-GG--A
* ** *
284193 AAAGAGTGCCACGGAGTTGTGGGCTTGGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAGAAG
1 AAAGAGTGCCACGGAATTGTGGGCTTTAAAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
284258 GAA
65 G-A
*
284261 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
1 AAAGAGTGCCACGGAATTGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTAGAA
284325 GGA
64 GGA
* * * * *
284328 AAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAATGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGAGTGCCACGGAATTGTGGGCTTT-AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
284393 GA
65 GA
* *
284395 AAAGAGTGCTACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
1 AAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
284460 A
66 A
* *
284461 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAGG
1 AAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
284526 A
66 A
* * * * * * *
284527 AAAGTGTGCCACAGAGTTGTGGGATTTAAAAGAAAAAGAATGCCACGGAGTTGTGGACTTA-AAG
1 AAAGAGTGCCACGGAATTGTGGGCTTT-AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
284591 ATGA
65 --GA
* * *
284595 AAAAAGTGCCACGGAATTGTGGGCTTT-----AAAAGGGTGCCACGGAGTTGTGGACTTA-AAGA
1 AAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG-
284654 TGA
65 -GA
* * *
284657 AAAAAGTGCCACGGAATTGTGGGCTTTAAA-GAAAA-AGTGCCACTGAGTCGTGG
1 AAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGG
284710 ACTTTGAGAC
Statistics
Matches: 461, Mismatches: 42, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
62 60 0.13
65 15 0.03
66 130 0.28
67 108 0.23
68 92 0.20
69 8 0.02
70 25 0.05
71 23 0.05
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (66 bp):
AAAGAGTGCCACGGAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG
A
Found at i:284634 original size:28 final size:28
Alignment explanation
Indices: 284293--284686 Score: 104
Period size: 33 Copynumber: 12.1 Consensus size: 28
284283 GCTTAGAAGG
* *
284293 AAAAAGAGTGCCACGGAGTTGTGGGCTTAG
1 AAAAA-AGTGCCACGGAATTGTGGGCTT-T
* *
284323 AAGGAAAAGTGTGCCACAGAGTTGTGGGCTTT
1 AA--AAAA--GTGCCACGGAATTGTGGGCTTT
* *
284355 AAAAGAAAAAGAATGCCACGGAGTTGTGGGCTTAGA
1 ---A-AAAAAG--TGCCACGGAATTGTGGGCTT--T
* *
284391 AGGAAAAGAGTGCTACGTAATTGTGGGCTTT
1 A--AAAA-AGTGCCACGGAATTGTGGGCTTT
* *
284422 AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGA
1 --A--AAAA-AGTGCCACGGAATTGTGGGCTT--T
*
284457 AGGAAAAGAGTGCCACGTAATTGTGGGCTTT
1 A--AAAA-AGTGCCACGGAATTGTGGGCTTT
*
284488 AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 --A--AAAA-AGTGCCACGGAATTGTGGGCTTT
* * *
284521 GAAGGAAAAGTGTGCCACAGAGTTGTGGGATTT
1 -AA--AAAA--GTGCCACGGAATTGTGGGCTTT
* *
284554 AAAAGAAAAAGAATGCCACGGAGTTGTGGACTTAAAGAT
1 ---A-AAAAAG--TGCCACGGAATTGTGGGCTT-----T
284593 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAAAGTGCCACGGAATTGTGGGCTTT
** * *
284622 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAAAAAGTGCCACGGAATTGTGGGCTT-----T
284655 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAAAGTGCCACGGAATTGTGGGCTTT
284684 AAA
1 AAA
284687 GAAAAAGTGC
Statistics
Matches: 289, Mismatches: 35, Indels: 82
0.71 0.09 0.20
Matches are distributed among these distances:
28 26 0.09
29 2 0.01
30 3 0.01
31 2 0.01
32 9 0.03
33 143 0.49
34 90 0.31
35 4 0.01
36 8 0.03
37 1 0.00
39 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.22
Consensus pattern (28 bp):
AAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:285704 original size:14 final size:13
Alignment explanation
Indices: 285685--285717 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
285675 GTGAAAAGGG
285685 GTTTTTCTTTTTTT
1 GTTTTT-TTTTTTT
285699 GTTTTTTTTTTTT
1 GTTTTTTTTTTTT
285712 -TTTTTT
1 GTTTTTT
285718 GTGAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 7 0.37
14 6 0.32
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (13 bp):
GTTTTTTTTTTTT
Found at i:293063 original size:52 final size:52
Alignment explanation
Indices: 292993--293113 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
292983 GAAAATTTAT
*
292993 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
293045 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
293097 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
293114 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:293126 original size:52 final size:51
Alignment explanation
Indices: 292993--293133 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
292983 GAAAATTTAT
292993 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
293045 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
293097 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
293134 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:293140 original size:13 final size:13
Alignment explanation
Indices: 293122--293146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293112 CAAAGATCAG
293122 TGTATCGATACAA
1 TGTATCGATACAA
293135 TGTATCGATACA
1 TGTATCGATACA
293147 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:293229 original size:13 final size:13
Alignment explanation
Indices: 293211--293235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
293201 CAAAAAAATA
293211 TGTATCGATACAT
1 TGTATCGATACAT
293224 TGTATCGATACA
1 TGTATCGATACA
293236 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:293231 original size:33 final size:33
Alignment explanation
Indices: 293189--293255 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
293179 AGTAGCTTAA
293189 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
293222 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
293255 A
1 A
293256 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:299393 original size:29 final size:28
Alignment explanation
Indices: 299337--299445 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 28
299327 TAAAGCTAAG
* * *
299337 GAATTAAATGTCAAATAAATTACA-AAAAT
1 GAATTAAAAGTCAACTAAA--ACATAAAAA
* * *
299366 GAGTTAAAAGTCAACTAAAAGATTAAAA
1 GAATTAAAAGTCAACTAAAACATAAAAA
*
299394 GTAATTAATAGTCAACTAAAACATAAAAA
1 G-AATTAAAAGTCAACTAAAACATAAAAA
*
299423 GGAATTAAAAGTAAACTAAAACA
1 -GAATTAAAAGTCAACTAAAACA
299446 CTAGAATTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 58 0.89
30 1 0.02
ACGTcount: A:0.59, C:0.08, G:0.10, T:0.23
Consensus pattern (28 bp):
GAATTAAAAGTCAACTAAAACATAAAAA
Found at i:302732 original size:13 final size:13
Alignment explanation
Indices: 302711--302742 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
302701 TTGATACATT
*
302711 ATACTTTGTATCG
1 ATACATTGTATCG
302724 ATACATTGTATCG
1 ATACATTGTATCG
302737 ATACAT
1 ATACAT
302743 GCACAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (13 bp):
ATACATTGTATCG
Found at i:309036 original size:13 final size:13
Alignment explanation
Indices: 309018--309044 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
309008 ACAATATTTT
309018 TTGTATCGATACA
1 TTGTATCGATACA
309031 TTGTATCGATACA
1 TTGTATCGATACA
309044 T
1 T
309045 GGATTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:311018 original size:13 final size:13
Alignment explanation
Indices: 311000--311024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
310990 CATAAAGTGT
311000 TGTATCGATACAA
1 TGTATCGATACAA
311013 TGTATCGATACA
1 TGTATCGATACA
311025 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:311040 original size:32 final size:33
Alignment explanation
Indices: 310980--311043 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
310970 TTTCAACGTT
310980 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
311013 TGTATCGATACAT-AAGTTTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCGATACA
311044 GTATAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:311104 original size:13 final size:13
Alignment explanation
Indices: 311086--311110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
311076 ATTACTCAAA
311086 TGTATCGATACAT
1 TGTATCGATACAT
311099 TGTATCGATACA
1 TGTATCGATACA
311111 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:311164 original size:52 final size:52
Alignment explanation
Indices: 311119--311247 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
311109 CACTGATCTT
*
311119 TGTATCGATACATGCAGGAAAATTTGCCCAGATATATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
* * *
311171 TGTATCGATATATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
*
311223 TGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
311248 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
Found at i:314582 original size:30 final size:28
Alignment explanation
Indices: 314547--314604 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 28
314537 AAATAAATTT
314547 TTATCAAGGGGGAGAAAATCTTTTAAACGA
1 TTATCAAGGGGGAG-AAAT-TTTTAAACGA
314577 TTATCAAGGGGGAGAAATTTTTAAACGA
1 TTATCAAGGGGGAGAAATTTTTAAACGA
314605 GAGCCTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 10 0.36
29 4 0.14
30 14 0.50
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (28 bp):
TTATCAAGGGGGAGAAATTTTTAAACGA
Found at i:315200 original size:19 final size:19
Alignment explanation
Indices: 315157--315229 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
315147 CACACCCAGA
* * *
315157 TGTATCGATACATAATGCTT
1 TGTATCGATACAT-GTACAT
*
315177 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTACAT
*
315196 TGTATCGATACATGCACAAT
1 TGTATCGATACATGTAC-AT
315216 TGTATCGATACATG
1 TGTATCGATACATG
315230 AAACTGGCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGTACAT
Found at i:315229 original size:20 final size:19
Alignment explanation
Indices: 315176--315229 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
315166 ACATAATGCT
**
315176 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGCACA
315195 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCAC-A
315215 TTGTATCGATACATG
1 TTGTATCGATACATG
315230 AAACTGGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:321961 original size:2 final size:2
Alignment explanation
Indices: 321956--321981 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
321946 ATATATATAT
321956 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
321982 GGAGGACTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.