Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 342 of 352
Found at i:109485265 original size:285 final size:286
Alignment explanation
Indices: 109484312--109485466 Score: 1585
Period size: 285 Copynumber: 4.0 Consensus size: 286
109484302 TATTTTGGTA
*
109484312 TTTATTTTATTTTCGAATTTTATTTTTTAAAATATATTATTTTCGTATTTTA--TTTTTATATTA
1 TTTATTTTATTTTCG-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTA
*
109484375 TTTTAGTACATAATGTTTCAAATGTATTATTTTTGTATTTTTTTATATTAATTTA-ATAAAAAAC
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAG--TTTTTTTATATTAATTTAGA-AAAAAAC
* * * * * *
109484439 TCTAATTTTGACCGTTTGTTTTTCTATTTTATTCTCGGATTTTACTTTTTAAAATAAACTATTTT
127 TCTGATTTTGGCC---T-TTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* *
109484504 CATATTTTATTTTTTATATTATTTTAGTACATAATGTTCCAAATGTATTATTTTAG-TTTTTTAT
188 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTC-AATGTATTATTTTAGTTTTTTTAT
* *
109484568 ATTAATTTAATAAAAA-CTCTGATTTTGGCCGTTT
252 ATTAATTTAGTAAAAATCTCTGATTTTGGCCTTTT
*
109484602 ATT-TTTTATTTT--A---T-TTTTTTAAAATATACTATTTTCGTATTTTATGTTTTTTATATTA
1 TTTATTTTATTTTCGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT-TTTTTTATATTA
* * * *
109484660 TTTTAGTACATAATATTTAAAATGTATTATTTTAGTTTTTTTATATGAATATAGAAAAAAACTCT
65 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCT
* *
109484725 GATTTTGGCCCTTTTTATTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTTCGTATT
130 GATTTTGGCCTTTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTA-TTTTCGTATT
* *
109484790 TTATTTTTTATATTATTATAGTACATAATGTTTC-ATTTATTATTTTAGTTTTTTCTATATTAAT
194 TTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTT-TATATTAAT
*
109484854 TTAGTAAAAATCTGTGATTTTGGCCGTTTT
258 TTAGTAAAAATCTCTGATTTTGGCC-TTTT
* *
109484884 ATTTATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATCTTATTTTTTCATATT
1 -TTTATTTTATTTTC-GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
109484949 ACTTTAGTATATAATGTTTTAAATGTATTATTTTAGTTTTTTTTATATTAATTTAGAAAAAAACT
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTTATATTAATTTAGAAAAAAACT
* * *
109485014 CTGATTTTAGCCTTTTTTAT-TTTTATTTTCAGG-TTTTATTTTTTAAGATATATTATTTTCGTA
128 CTGATTTTGGCCTTTTTTATATTTTATTTTC-GGATTTTATTTTTTAAAATATACTATTTTCGTA
*
109485077 TTTTGTTTTTTATATTATTTTAGTACATAATGTTTC-ATGTATTATTTTAGTTTTTTTATATTAA
192 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAA
* *
109485141 TTTAGTAAAAATCTGTGGTTTTGGCC-TTT
257 TTTAGTAAAAATCTCTGATTTTGGCCTTTT
*
109485170 TTTATTTTGTTTTCAGATTTT-TTATTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 TTTATTTTATTTTC-GATTTTATT-TTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* * *
109485234 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-TTTTTTATATTAATTTAGTAAAAAATTA
64 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTC
* * *
109485298 TGATTTTGGCGTTTGTTTTTTATTTTATTTTCGGATTTTATTTTTCAAAATATACTATTTTCGTA
129 TGATTTTGGC-CTT-TTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTA
*
109485363 TTTTATTTTTT-TATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTTTATTTATATTA
192 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCA-ATGTATTATTTTAGTTTTTTTATATTA
*
109485427 ATTTAGTAAAAAAACTCTGATTTTGGCCTTTT
256 ATTTAGT-AAAAATCTCTGATTTTGGCCTTTT
109485459 TTTATTTT
1 TTTATTTT
109485467 CGAATTTCTT
Statistics
Matches: 776, Mismatches: 60, Indels: 59
0.87 0.07 0.07
Matches are distributed among these distances:
278 13 0.02
279 43 0.06
280 59 0.08
281 13 0.02
282 32 0.04
283 71 0.09
284 14 0.02
285 164 0.21
286 51 0.07
287 34 0.04
288 50 0.06
289 81 0.10
290 75 0.10
291 76 0.10
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (286 bp):
TTTATTTTATTTTCGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAAAAACTCTG
ATTTTGGCCTTTTTTATATTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTT
ATTTTTTATATTATTTTAGTACATAATGTTTCAATGTATTATTTTAGTTTTTTTATATTAATTTA
GTAAAAATCTCTGATTTTGGCCTTTT
Found at i:109485941 original size:3 final size:3
Alignment explanation
Indices: 109485935--109485990 Score: 55
Period size: 3 Copynumber: 19.7 Consensus size: 3
109485925 CTTCCCTCCC
* * * *
109485935 TCT TCT TCT TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
109485982 T-T T-T TCT TC
1 TCT TCT TCT TC
109485991 CCTCACCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:109492099 original size:35 final size:35
Alignment explanation
Indices: 109492053--109492121 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
109492043 ACTTGCCTCT
109492053 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
*
109492088 TCCCACTCTCCCATGCTGTTTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
109492122 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:109492971 original size:3 final size:3
Alignment explanation
Indices: 109492956--109492996 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
109492946 GTTATTTTCA
*
109492956 TAT TAT TAA TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
109492997 GTACATTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:109493209 original size:22 final size:23
Alignment explanation
Indices: 109493181--109493235 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
109493171 AATTTTTTTA
109493181 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
109493203 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
109493227 -TA-ATATTAT
1 ATATATATTAT
109493236 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:109494642 original size:34 final size:34
Alignment explanation
Indices: 109494587--109494652 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 34
109494577 AAACACCAGA
*
109494587 AAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAATATTTTCCAGAAAATCATTTTACAGAAAAGT
109494621 AAATCATTTTCCA-AAAATCATTTTACAGAAAA
1 AAAT-ATTTTCCAGAAAATCATTTTACAGAAAA
109494653 TATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (34 bp):
AAATATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:109494659 original size:14 final size:15
Alignment explanation
Indices: 109494583--109494660 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 15
109494573 AATCAAACAC
*
109494583 CAGAAAAT-ATTTTC
1 CAGAAAATCATTTTA
*
109494597 CAGTAAATCATTTTA
1 CAGAAAATCATTTTA
*
109494612 CAGAAAAGTAAATCATTTTC
1 CAG---A--AAATCATTTTA
109494632 CA-AAAATCATTTTA
1 CAGAAAATCATTTTA
109494646 CAGAAAAT-ATTTTA
1 CAGAAAATCATTTTA
109494660 C
1 C
109494661 TGGCAATCAA
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.50
15 13 0.25
16 1 0.02
20 12 0.23
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (15 bp):
CAGAAAATCATTTTA
Found at i:109495476 original size:18 final size:19
Alignment explanation
Indices: 109495453--109495490 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
109495443 ATTTTCTCTA
109495453 TTTTTAATAATTT-TTTAT
1 TTTTTAATAATTTATTTAT
*
109495471 TTTTTAATGATTTATTTAT
1 TTTTTAATAATTTATTTAT
109495490 T
1 T
109495491 AAACTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TTTTTAATAATTTATTTAT
Found at i:109495887 original size:51 final size:51
Alignment explanation
Indices: 109495818--109495958 Score: 142
Period size: 51 Copynumber: 2.8 Consensus size: 51
109495808 TTGTGTAAAT
* * **
109495818 ATTGAC-AGAATGTGTAAATTTTGCAAGTTAAATTTGTTAAATCAGGACCAA
1 ATTGACAAG-ATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* ** * *
109495869 ATTGACAAGATGTATAAATATTGTGAGCTAAATTTGTTCAATTAAAACCAA
1 ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
* * *
109495920 ATTGACAAAATGTATAAACTTTG-AGGGCTAAATTTGTTA
1 ATTGACAAGATGTATAAATTTTGCA-AGCTAAATTTGTTA
109495959 TTATATAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
51 71 0.97
52 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (51 bp):
ATTGACAAGATGTATAAATTTTGCAAGCTAAATTTGTTAAATCAAAACCAA
Found at i:109502480 original size:15 final size:17
Alignment explanation
Indices: 109502448--109502485 Score: 53
Period size: 15 Copynumber: 2.3 Consensus size: 17
109502438 TTTTTTAAAA
109502448 ATTATAAATGTATAGATT
1 ATTA-AAATGTATAGATT
109502466 ATTAAAATG-AT-GATT
1 ATTAAAATGTATAGATT
109502481 ATTAA
1 ATTAA
109502486 TAAATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 5 0.25
18 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (17 bp):
ATTAAAATGTATAGATT
Found at i:109516051 original size:7 final size:7
Alignment explanation
Indices: 109516038--109516068 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
109516028 TCTAGTTCAG
109516038 GAAAAAA
1 GAAAAAA
*
109516045 AAAAAAA
1 GAAAAAA
109516052 GAAAAAA
1 GAAAAAA
109516059 GAAAAAA
1 GAAAAAA
109516066 GAA
1 GAA
109516069 GAAGAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:109516080 original size:17 final size:17
Alignment explanation
Indices: 109516039--109516071 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109516029 CTAGTTCAGG
109516039 AAAA-AAAAAAAAAGAA
1 AAAAGAAAAAAAAAGAA
*
109516055 AAAAGAAAAAAGAAGAA
1 AAAAGAAAAAAAAAGAA
109516072 GAGAGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAAAAAGAA
Found at i:109531493 original size:15 final size:16
Alignment explanation
Indices: 109531469--109531510 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
109531459 TCTAGTTCAG
109531469 GAAAAA-AAAAAA-AA
1 GAAAAAGAAAAAAGAA
109531483 GAAAAAGAAAAAAGAA
1 GAAAAAGAAAAAAGAA
109531499 GAAAAGAGAAAA
1 GAAAA-AGAAAA
109531511 TAGGATGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.24
15 6 0.24
16 7 0.28
17 6 0.24
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAAAAAGAA
Found at i:109531496 original size:7 final size:7
Alignment explanation
Indices: 109531469--109531510 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
109531459 TCTAGTTCAG
109531469 GAAAAAA
1 GAAAAAA
*
109531476 AAAAAAA
1 GAAAAAA
109531483 G-AAAAA
1 GAAAAAA
109531489 GAAAAAA
1 GAAAAAA
109531496 GAAGAAAA
1 GAA-AAAA
109531504 GAGAAAA
1 GA-AAAA
109531511 TAGGATGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.20
7 14 0.47
8 9 0.30
9 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:109562170 original size:6 final size:6
Alignment explanation
Indices: 109562151--109562185 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
109562141 ATTTTATCTT
* *
109562151 TATGTA TGTATA TATGTA TATGTA TATGTA TATGT
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
109562186 TTTTTGTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:109563458 original size:22 final size:20
Alignment explanation
Indices: 109563433--109563472 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
109563423 TTAAAAAATT
*
109563433 GTTAAGATACATATATATATAA
1 GTTAA-ATAAATA-ATATATAA
109563455 GTTAAATAAATAATATAT
1 GTTAAATAAATAATATAT
109563473 TAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (20 bp):
GTTAAATAAATAATATATAA
Found at i:109565864 original size:42 final size:42
Alignment explanation
Indices: 109565818--109565979 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
109565808 GCACATGAGT
* * *
109565818 GCTAAAC-AGAAACCCGTAAGGGTTGAATGGAAGCTC-ATAAGA
1 GCTAAACGA-AAACCCATAAGGGTTAAATAGAAGCTCAAT-AGA
* * *
109565860 GCTAAACGAAAACCCATAAGGGTTAAACAAAAGTTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
*
109565902 GCTGAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
* * * * * *
109565944 GCTAAACGGAAACTCATATGAGTTAAACAAAAGCTC
1 GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTC
109565980 GTGAGAGATA
Statistics
Matches: 101, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 98 0.97
43 3 0.03
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTAAATAGAAGCTCAATAGA
Found at i:109565877 original size:21 final size:21
Alignment explanation
Indices: 109565853--109565921 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
109565843 AATGGAAGCT
109565853 CATAAGAGCTAAACGAAAACC
1 CATAAGAGCTAAACGAAAACC
* * **
109565874 CATAAGGGTTAAAC-AAAAGTT
1 CATAAGAGCTAAACGAAAA-CC
*
109565895 CA-ATAGAGCTGAACGAAAACC
1 CATA-AGAGCTAAACGAAAACC
109565916 CATAAG
1 CATAAG
109565922 GGTTAAATAG
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 5 0.14
21 25 0.71
22 5 0.14
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (21 bp):
CATAAGAGCTAAACGAAAACC
Found at i:109570490 original size:19 final size:19
Alignment explanation
Indices: 109570466--109570503 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
109570456 TTTAGGGTTC
109570466 AGAATTCAAGTTCAAGATT
1 AGAATTCAAGTTCAAGATT
**
109570485 AGAATTCTGGTTCAAGATT
1 AGAATTCAAGTTCAAGATT
109570504 TTAGGTTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
AGAATTCAAGTTCAAGATT
Found at i:109572248 original size:20 final size:19
Alignment explanation
Indices: 109572187--109572262 Score: 84
Period size: 19 Copynumber: 4.0 Consensus size: 19
109572177 AAAATTATTT
**
109572187 TTTTAGAAAATTTTTAAAA
1 TTTTAGAATTTTTTTAAAA
*
109572206 TTTTA-AATTTTTTT-ATA
1 TTTTAGAATTTTTTTAAAA
109572223 TGTTTAGAATTTTTTTAAAAA
1 T-TTTAGAATTTTTTT-AAAA
*
109572244 TTTTATAATTTTTTTAAAA
1 TTTTAGAATTTTTTTAAAA
109572263 ATATAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.06
18 11 0.23
19 18 0.38
20 13 0.27
21 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTAGAATTTTTTTAAAA
Found at i:109572263 original size:20 final size:18
Alignment explanation
Indices: 109572197--109572273 Score: 84
Period size: 19 Copynumber: 4.1 Consensus size: 18
109572187 TTTTAGAAAA
109572197 TTTTTAAAATTTTAAATT
1 TTTTTAAAATTTTAAATT
*
109572215 TTTTT-ATATGTTTAGAATT
1 TTTTTAAAAT-TTTA-AATT
109572234 TTTTTAAAAATTTTATAATT
1 TTTTT-AAAATTTTA-AATT
* *
109572254 TTTTTAAAAATATAAATT
1 TTTTTAAAATTTTAAATT
109572272 TT
1 TT
109572274 GTAATTTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 3 0.06
18 15 0.30
19 16 0.32
20 13 0.26
21 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATTTTAAATT
Found at i:109572300 original size:19 final size:20
Alignment explanation
Indices: 109572269--109572322 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
109572259 AAAAATATAA
109572269 ATTTTGTAA-TTTTTATAAA-T
1 ATTTTG-AATTTTTTA-AAATT
109572289 ATTTTGAATTTTTTAAAATT
1 ATTTTGAATTTTTTAAAATT
109572309 ATTTTGAATTTTTT
1 ATTTTGAATTTTTT
109572323 TTGTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (20 bp):
ATTTTGAATTTTTTAAAATT
Found at i:109572300 original size:65 final size:63
Alignment explanation
Indices: 109572203--109572323 Score: 145
Period size: 65 Copynumber: 1.9 Consensus size: 63
109572193 AAAATTTTTA
* * * *
109572203 AAATTTTAAATTTTTTTATATGTTTAGAATTTTTTTAAAA-ATTTTATAATTTTTTTAAAAATAT
1 AAATTTTAAATTTTTATAAATATTTAGAA-TTTTTTAAAATATTTT-GAATTTTTTTAAAAATAT
* *
109572267 AAATTTTGTAATTTTTATAAATATTTTGAATTTTTTAAAATTATTTTGAATTTTTTT
1 AAATTTT-AAATTTTTATAAATATTTAGAATTTTTTAAAA-TATTTTGAATTTTTTT
109572324 TGTAATTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
64 17 0.35
65 26 0.54
66 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (63 bp):
AAATTTTAAATTTTTATAAATATTTAGAATTTTTTAAAATATTTTGAATTTTTTTAAAAATAT
Found at i:109573380 original size:21 final size:21
Alignment explanation
Indices: 109573359--109573438 Score: 83
Period size: 21 Copynumber: 3.9 Consensus size: 21
109573349 CTTTCTATTT
* *
109573359 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTACGAGCTTCTGTTC
* * *
109573380 AACTCATACGAGTTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
109573401 AGCTCTCACGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTC
109573422 AGCT-TT-CGAGCTTCTGT
1 AGCTCTTACGAGCTTCTGT
109573439 GAACGATGCA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.21
20 1 0.02
21 36 0.77
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:109573936 original size:20 final size:22
Alignment explanation
Indices: 109573907--109573947 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
109573897 GGTTGAATGA
*
109573907 TATGCTTAT-GAATG-GTGTGT
1 TATGCATATGGAATGAGTGTGT
109573927 TATGCATATGGAATGAGTGTG
1 TATGCATATGGAATGAGTGTG
109573948 GAAAGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.24, C:0.05, G:0.32, T:0.39
Consensus pattern (22 bp):
TATGCATATGGAATGAGTGTGT
Found at i:109574634 original size:19 final size:19
Alignment explanation
Indices: 109574612--109574650 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
109574602 TGGGCATGTG
* *
109574612 GCTTGGCCATGTGACTCAA
1 GCTTAGCCATGTGACGCAA
*
109574631 GCTTAGCCGTGTGACGCAA
1 GCTTAGCCATGTGACGCAA
109574650 G
1 G
109574651 TCAGAAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.23
Consensus pattern (19 bp):
GCTTAGCCATGTGACGCAA
Found at i:109576178 original size:19 final size:18
Alignment explanation
Indices: 109576156--109576191 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
109576146 ATTTCAACTT
*
109576156 TTTTTATATGTTTAAAATC
1 TTTTTAAAT-TTTAAAATC
109576175 TTTTTAAATTTTAAAAT
1 TTTTTAAATTTTAAAAT
109576192 ATAAAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTTTAAATTTTAAAATC
Found at i:109576234 original size:19 final size:20
Alignment explanation
Indices: 109576196--109576245 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
109576186 TAAAATATAA
109576196 AATTTGAAATTTTTATAAA-T
1 AATTTG-AATTTTTATAAATT
*
109576216 ATTTTGAATTTTTGA-AAATT
1 AATTTGAATTTTT-ATAAATT
109576236 AATTTGAATT
1 AATTTGAATT
109576246 CTTTTTGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (20 bp):
AATTTGAATTTTTATAAATT
Found at i:109583732 original size:25 final size:25
Alignment explanation
Indices: 109583686--109583733 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
109583676 TAATACGGTG
* *
109583686 TTAAAAATACATACTCATATAGTTA
1 TTAAAAATACATACTAAGATAGTTA
109583711 TTAAAATATACATA-TAAGATAGT
1 TTAAAA-ATACATACTAAGATAGT
109583734 ACAAAAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATACTAAGATAGTTA
Found at i:109583867 original size:27 final size:26
Alignment explanation
Indices: 109583837--109583904 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
109583827 GGATAGGTAT
109583837 ATAATATAATATGAAA-AATATATGTAC
1 ATAATATAATATGAAAGAATATA--TAC
* *
109583864 ATAAGATAATGT-AAAGAATATATAC
1 ATAATATAATATGAAAGAATATATAC
109583889 ATAACTAATAATATGA
1 ATAA-T-ATAATATGA
109583905 GAAGTACGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 7 0.21
26 3 0.09
27 22 0.67
28 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (26 bp):
ATAATATAATATGAAAGAATATATAC
Found at i:109583945 original size:31 final size:31
Alignment explanation
Indices: 109583907--109583969 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
109583897 TAATATGAGA
109583907 AGTACGTACATAATATATGAGATTGTGATAT
1 AGTACGTACATAATATATGAGATTGTGATAT
109583938 AGTACGTACATAATATATGAGATTGTGATAT
1 AGTACGTACATAATATATGAGATTGTGATAT
109583969 A
1 A
109583970 CAATATAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (31 bp):
AGTACGTACATAATATATGAGATTGTGATAT
Found at i:109584307 original size:3 final size:3
Alignment explanation
Indices: 109584293--109584343 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
109584283 AAACATAAAC
* *
109584293 TAA TACA TAA TAA TAT TAA TAA TAA TAA -AA TTAA TAA T-A TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
109584338 TAA TAA
1 TAA TAA
109584344 GAGTATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:109584325 original size:15 final size:15
Alignment explanation
Indices: 109584293--109584343 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
109584283 AAACATAAAC
*
109584293 TAATACATAATAATAT
1 TAATA-ATAATAAAAT
109584309 TAATAATAATAAAAT
1 TAATAATAATAAAAT
*
109584324 TAATAAT-ATAAAAA
1 TAATAATAATAAAAT
109584338 TAATAA
1 TAATAA
109584344 GAGTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.36
15 16 0.48
16 5 0.15
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATAATAAAAT
Found at i:109584812 original size:6 final size:6
Alignment explanation
Indices: 109584803--109584830 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
109584793 AGAAAAAGAA
109584803 AGGGAG AGGGAG AGGGAG AGGGAG AGGG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGG
109584831 CGATTTCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:109585451 original size:16 final size:16
Alignment explanation
Indices: 109585430--109585461 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109585420 TTTTGTGTAA
*
109585430 TGGGCTGTTAGTTTAG
1 TGGGCTGGTAGTTTAG
109585446 TGGGCTGGTAGTTTAG
1 TGGGCTGGTAGTTTAG
109585462 GTTATTGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.06, G:0.41, T:0.41
Consensus pattern (16 bp):
TGGGCTGGTAGTTTAG
Found at i:109597989 original size:29 final size:30
Alignment explanation
Indices: 109597937--109597996 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
109597927 ACGTGGGCTA
109597937 GAATAAAATAAAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
109597967 GAATAAAAT-AAAAATAAATTATAAATTAT
1 GAATAAAATAAAAAATAAATTATAAATTAT
109597996 G
1 G
109597997 TATTGAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.70
30 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (30 bp):
GAATAAAATAAAAAATAAATTATAAATTAT
Found at i:109606102 original size:26 final size:26
Alignment explanation
Indices: 109606066--109606149 Score: 143
Period size: 26 Copynumber: 3.2 Consensus size: 26
109606056 TATGAAATTC
109606066 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAAACCA
*
109606092 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCA
109606118 TTATCATGAAACATTTACCT-AACCTA
1 TTATCATGAAACATTTACCTAAACC-A
109606144 TTATCA
1 TTATCA
109606150 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 3 0.05
26 52 0.95
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAAACCA
Found at i:109616095 original size:30 final size:31
Alignment explanation
Indices: 109616061--109616118 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
109616051 GTTTATGGTT
*
109616061 AAATTTCAG-TTTAATCCTTATATTTTATTC
1 AAATTTCAGATTTAATCCTTATACTTTATTC
* *
109616091 AAATTTGAGATTTAATCTTTATACTTTA
1 AAATTTCAGATTTAATCCTTATACTTTA
109616119 CTTTTAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (31 bp):
AAATTTCAGATTTAATCCTTATACTTTATTC
Found at i:109620207 original size:14 final size:15
Alignment explanation
Indices: 109620188--109620217 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
109620178 TTGGCTCTCC
109620188 ACTTA-TTAATTACA
1 ACTTATTTAATTACA
109620202 ACTTATTTAATTACA
1 ACTTATTTAATTACA
109620217 A
1 A
109620218 AGTCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ACTTATTTAATTACA
Found at i:109623061 original size:35 final size:35
Alignment explanation
Indices: 109623015--109623087 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
109623005 TATACTAGGT
109623015 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
109623050 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
1 CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
109623085 CAT
1 CAT
109623088 GTATTGAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (35 bp):
CATAAGATGTAAGTTGTACTTGTTTGAATGATGTA
Found at i:109630767 original size:81 final size:81
Alignment explanation
Indices: 109630657--109631190 Score: 590
Period size: 81 Copynumber: 6.6 Consensus size: 81
109630647 TGTCATCATA
* * * * *
109630657 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
* **
109630722 TTTTAATGTCATTGTG
66 TTTAAACATCATTGTG
* * ** * *
109630738 AAGAGAGAAGCTCCGAGAGGTCCAAATCCTCTTCATATTTCTAATCTTCCGTTGGCACCTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
109630803 TTTAAACATCATTGTG
66 TTTAAACATCATTGTG
* * * * * *
109630819 AAGAGATAAACT-CTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCACATGGTG
1 AAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
* *
109630883 GTTTTAATATCATTGTG
65 GTTTAAACATCATTGTG
* * * * *
109630900 AAGAGAGAAACCCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCTCTGTTGGCACCTAGTG
1 AAGAGAGAAACTCCGAGAGGA-CCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
**
109630964 GTTTAAACATCATCATG
65 GTTTAAACATCATTGTG
* * ** * * * *
109630981 AAGAGAGAAACT-CTAGGAGGATCAAATCCAATTCGTAATTCTAATCCTCTGCTAGCACCTAGTG
1 AAGAGAGAAACTCCGA-GAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTG
* **
109631045 GTTTTAATGTCATTGTG
65 GTTTAAACATCATTGTG
* * **
109631062 AAGAGAGAAACTCCGGGAGGACCAAATCCTATTCATAACTCTAATCCTCCATTGGCACCTAGTGG
1 AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
109631127 TTTAAACATCATTGTG
66 TTTAAACATCATTGTG
* *
109631143 AAAAGAGAAACTCCG-GAAGGACCAAATCCTCTTCACAACTCTAATCCT
1 AAGAGAGAAACTCCGAG-AGGACCAAATCCTCTTCATAACTCTAATCCT
109631191 TTGCTAGCTC
Statistics
Matches: 375, Mismatches: 71, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
80 6 0.02
81 365 0.97
82 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (81 bp):
AAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCATAACTCTAATCCTCCGCTGGCACCTAGTGG
TTTAAACATCATTGTG
Found at i:109630944 original size:162 final size:162
Alignment explanation
Indices: 109630657--109631198 Score: 755
Period size: 162 Copynumber: 3.3 Consensus size: 162
109630647 TGTCATCATA
* ** ** *
109630657 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* * * * *
109630722 TTTTAATGTCATTGTGAAGAGAGAAGCTCCGAGAGGTCCAAATCCTCTTCATATTTCTAATCTTC
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
109630787 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
131 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
* * * *
109630819 AAGAGATAAACTCTAGGAGGACTAAATCCTCTTCATAACTCTAATCCTCTGCTGGCACATGGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* *
109630884 TTTTAATATCATTGTGAAGAGAGAAACCCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
* **
109630949 TGTTGGCACCTAGTGGTTTAAACATCATCATG
131 CGTTGGCACCTAGTGGTTTAAACATCATTGTG
* ** * * *
109630981 AAGAGAGAAACTCTAGGAGGATCAAATCCAATTCGTAATTCTAATCCTCTGCTAGCACCTAGTGG
1 AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
* *
109631046 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGA-CCAAATCCTATTCATAACTCTAATCCT
66 TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCT
*
109631110 CCATTGGCACCTAGTGGTTTAAACATCATTGTG
130 CCGTTGGCACCTAGTGGTTTAAACATCATTGTG
* * * *
109631143 AAAAGAGAAACTC-CGGAAGGACCAAATCCTCTTCACAACTCTAATCCTTTGCTAGC
1 AAGAGAGAAACTCTAGG-AGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGC
109631199 TCTGGGCATA
Statistics
Matches: 331, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
161 2 0.01
162 327 0.99
163 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (162 bp):
AAGAGAGAAACTCTAGGAGGACCAAATCCTCTTCATAACTCTAATCCTCTGCTAGCACATAGTGG
TTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGATCCAAATCCTCTTCATAATTCTAATCCTC
CGTTGGCACCTAGTGGTTTAAACATCATTGTG
Found at i:109631099 original size:243 final size:243
Alignment explanation
Indices: 109630657--109631190 Score: 651
Period size: 243 Copynumber: 2.2 Consensus size: 243
109630647 TGTCATCATA
* *
109630657 AAGAAAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACTTAGTGG
1 AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTGG
* ** ** * * ** * *
109630722 TTTTAATGTCATTGTGAAGAGAGAAGCTCCGAGAGGTCCAAATCCTCTTCATATTTCTAATCTTC
66 TTTAAACATCATCATGAAGAGAGAAACTCAGAGAGGTCCAAATCCAATTCATAATTCTAATCCTC
* * * * * *
109630787 CGTTGGCACCTAGTGGTTTAAACATCATTGTGAAGAGATAAACTCTAGGAGGACTAAATCCTCTT
131 CGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATT
** * * *
109630852 CATAACTCTAATCCTCTGCTGGCACATGGTGGTTTTAATATCATTGTG
196 CATAACTCTAATCCTCCACTGGCACATAGTGGTTTAAACATCATTGTG
* * *** *
109630900 AAGAGAGAAACCCCGGGA-GATCCAAATCCTCTTCATAATTCTAATCCTCTGTTGGCACCTAGTG
1 AAGAGAGAAACTCCGGGAGGA-CCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTG
*
109630964 GTTTAAACATCATCATGAAGAGAGAAACTCTAG-GAGGAT-CAAATCCAATTCGTAATTCTAATC
65 GTTTAAACATCATCATGAAGAGAGAAACTC-AGAGAGG-TCCAAATCCAATTCATAATTCTAATC
* * ** *
109631027 CTCTGCTAGCACCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCT
128 CTCCGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCT
* *
109631092 ATTCATAACTCTAATCCTCCATTGGCACCTAGTGGTTTAAACATCATTGTG
193 ATTCATAACTCTAATCCTCCACTGGCACATAGTGGTTTAAACATCATTGTG
* * *
109631143 AAAAGAGAAACTCCGGAAGGACCAAATCCTCTTCACAACTCTAATCCT
1 AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCT
109631191 TTGCTAGCTC
Statistics
Matches: 244, Mismatches: 43, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
242 2 0.01
243 238 0.98
244 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (243 bp):
AAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCATAACTCTAATCCTCCACTAGCACCTAGTGG
TTTAAACATCATCATGAAGAGAGAAACTCAGAGAGGTCCAAATCCAATTCATAATTCTAATCCTC
CGCTAGCACCTAGTGGTTTAAACATCATTGTGAAGAGAGAAACTCCAGGAGGACCAAATCCTATT
CATAACTCTAATCCTCCACTGGCACATAGTGGTTTAAACATCATTGTG
Found at i:109632535 original size:27 final size:27
Alignment explanation
Indices: 109632503--109632554 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
109632493 ATCACTTAAA
109632503 ATAGTTTTAACAGTGTAGCTGAAAAAT
1 ATAGTTTTAACAGTGTAGCTGAAAAAT
109632530 ATAGTTTTAACAGTGTAGCTGAAAA
1 ATAGTTTTAACAGTGTAGCTGAAAA
109632555 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (27 bp):
ATAGTTTTAACAGTGTAGCTGAAAAAT
Found at i:109635276 original size:21 final size:21
Alignment explanation
Indices: 109635250--109635290 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
109635240 ATCTGCTCAA
* *
109635250 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
109635271 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
109635291 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:109637488 original size:15 final size:15
Alignment explanation
Indices: 109637468--109637501 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
109637458 TTTATTTTTG
* *
109637468 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
109637483 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
109637498 TTAT
1 TTAT
109637502 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:109644314 original size:81 final size:81
Alignment explanation
Indices: 109644212--109644658 Score: 641
Period size: 81 Copynumber: 5.5 Consensus size: 81
109644202 AAATGTAAAA
** * * *
109644212 AATGTCATCATGAAGAGAGAAACTCCGGGAGGATCAAATTCTCTTCACAATTCTAATCCTCTTCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
109644277 GGTACCTAGTGGTTTT
66 GGTACCTAGTGGTTTT
* * *
109644293 AATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTACATGATTCTAATCCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTT-C
* *
109644357 AGGCACTTAGTGGTTTT
65 AGGTACCTAGTGGTTTT
* *
109644374 AATGTCATTGTGAAGAGAGAAACTCCGGGAGAACCAAATCCTCTTCACGATTCTAATTCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTT-C
*
109644438 AGGCT-CCTAGTGGTTAT
65 AGG-TACCTAGTGGTTTT
** *
109644455 AATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
*
109644520 GGCACCTAGTGGTTTT
66 GGTACCTAGTGGTTTT
* *
109644536 AATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGCA
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
109644601 GGCT-CCTAGTGGTTTT
66 GG-TACCTAGTGGTTTT
* *
109644617 AATGTCATTGCGAAAAGAGAAACTCCGGGAGGACCAAATCCT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCT
109644659 TTGCAAGCAC
Statistics
Matches: 329, Mismatches: 32, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
80 2 0.01
81 326 0.99
82 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTTCA
GGTACCTAGTGGTTTT
Found at i:109644487 original size:162 final size:163
Alignment explanation
Indices: 109644212--109644898 Score: 810
Period size: 162 Copynumber: 4.3 Consensus size: 163
109644202 AAATGTAAAA
** * * *
109644212 AATGTCATCATGAAGAGAGAAACTCCGGGAGGATCAAATTCTCTTCACAATTCTAATCCT-CTTC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* *
109644276 AGG-TACCTAGTGGTTTTAATATCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTACA
66 AGGCT-CCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCA
* *
109644340 TGATTCTAATCCTTTGCAGGCACTTAGTGGTTTT
130 CGATTCTAATCCTCTGCAGGCACTTAGTGGTTTT
* * * *
109644374 AATGTCATTGTGAAGAGAGAAACTCCGGGAGAACCAAATCCTCTTCACGATTCTAATTCT-TTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* **
109644438 AGGCTCCTAGTGGTTATAATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCAC
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
*
109644503 GATTCTAATCCTCTGCAGGCACCTAGTGGTTTT
131 GATTCTAATCCTCTGCAGGCACTTAGTGGTTTT
* *
109644536 AATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACGATTCTAATCCT-CTGC
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* *
109644600 AGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGGACCAAATCCT-TT---
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
* *
109644661 G---C--A--------A-GCACTTAGCGATTTT
131 GATTCTAATCCTCTGCAGGCACTTAGTGGTTTT
* ** * * *
109644680 AATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAAT-CTACCGT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
* * ** *
109644744 AGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCAC
66 AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
* * * * *
109644809 GATTCTAGTTCTCCGTAGGTA-TCTAGTGGTTTT
131 GATTCTAATCCTCTGCAGGCACT-TAGTGGTTTT
* * *
109644842 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATTCTCTTCATAACTCTAAT
1 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAAT
109644899 ACTCTAATAG
Statistics
Matches: 451, Mismatches: 53, Indels: 42
0.83 0.10 0.08
Matches are distributed among these distances:
143 2 0.00
144 117 0.26
145 3 0.01
148 1 0.00
151 1 0.00
153 1 0.00
155 1 0.00
158 1 0.00
161 4 0.01
162 319 0.71
163 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (163 bp):
AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCACAATTCTAATCCTACTGC
AGGCTCCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
GATTCTAATCCTCTGCAGGCACTTAGTGGTTTT
Found at i:109644780 original size:144 final size:144
Alignment explanation
Indices: 109644509--109644804 Score: 396
Period size: 144 Copynumber: 2.1 Consensus size: 144
109644499 TCACGATTCT
* * * * **
109644509 AATCCTCTGCAGGCACCTAGTGGTTTTAATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAA
1 AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
* * * * **
109644574 TCCTCTTCACGATTCTAATCCTCTGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAA
66 TCCTCTTCACAATTCTAATCCTCCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAAA
*
109644639 CTCCGGGAGGACCA
131 CTCCGAGAGGACCA
* * *
109644653 AATCCTTTGCAAGCACTTAGCGATTTTAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAA
1 AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
* * * *
109644718 TCCTCTTCATAATTCTAAT-CTACCGTAGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAA
66 TCCTCTTCACAATTCTAATCCT-CCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAA
109644782 ACTCCGAGAGGACCA
130 ACTCCGAGAGGACCA
109644797 AATCCTCT
1 AATCCTCT
109644805 TCACGATTCT
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
143 2 0.02
144 128 0.98
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (144 bp):
AATCCTCTGCAAGCACCTAGCGATTTTAATGTCATTGTAAAGAAAGAAACTCCAAGAGGACCAAA
TCCTCTTCACAATTCTAATCCTCCGCAGGCACCTAGTGGTTTCAATGTCATCACGAAAAGAGAAA
CTCCGAGAGGACCA
Found at i:109644815 original size:81 final size:81
Alignment explanation
Indices: 109644680--109644888 Score: 294
Period size: 81 Copynumber: 2.6 Consensus size: 81
109644670 TAGCGATTTT
* * *
109644680 AATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTA-ATCTACCGT
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCT-CCGT
109644744 AGGCACCTAGTGGTTTC
65 AGGCACCTAGTGGTTTC
** * *
109644761 AATGTCATCATGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACGATTCTAGTTCTCCGTA
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCTCCGTA
* * *
109644826 GGTATCTAGTGGTTTT
66 GGCACCTAGTGGTTTC
* *
109644842 AATGTCATTGTGAAGAGAGAAACTCCGGGAGGACCAAATTCTCTTCA
1 AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCA
109644889 TAACTCTAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
81 110 0.97
82 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (81 bp):
AATGTCATTGTGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCACAATTCTAGATCTCCGTA
GGCACCTAGTGGTTTC
Found at i:109644837 original size:225 final size:225
Alignment explanation
Indices: 109644454--109644880 Score: 633
Period size: 225 Copynumber: 1.9 Consensus size: 225
109644444 CTAGTGGTTA
* **** * *
109644454 TAATGTCATTGTGAAGAGAGAAACTTTGGGAGGACCAAATCCTCTTCACGATTCTAATCCTCTGC
1 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCTCCGC
* ** *
109644519 AGGCACCTAGTGGTTTTAATGTCATTGTAAAGAGAGAAACTCCGGGAGGACCAAATCCTCTTCAC
66 AGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCAC
*
109644584 GATTCTAATCCTCTGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
131 GATTCTAATCCTCCGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
109644649 ACCAAATCCTTTGCAAGCACTTAGCGATTT
196 ACCAAATCCTTTGCAAGCACTTAGCGATTT
*
109644679 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCATAATTCTAAT-CTACCG
1 TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCT-CCG
* *
109644743 TAGGCACCTAGTGGTTTCAATGTCATCATGAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCA
65 CAGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCA
* * * * * *
109644808 CGATTCTAGTTCTCCGTAGG-TATCTAGTGGTTTTAATGTCATTGTGAAGAGAGAAACTCCGGGA
130 CGATTCTAATCCTCCGCAGGCT-CCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGA
109644872 GGACCAAAT
194 GGACCAAAT
109644881 TCTCTTCATA
Statistics
Matches: 179, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
224 3 0.02
225 176 0.98
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (225 bp):
TAATGTCATTGTGAAGAAAGAAACTCCAAGAGGACCAAATCCTCTTCACAATTCTAATCCTCCGC
AGGCACCTAGTGGTTTCAATGTCATCATAAAGAGAGAAACTCCGAGAGGACCAAATCCTCTTCAC
GATTCTAATCCTCCGCAGGCTCCTAGTGGTTTTAATGTCATTGCGAAAAGAGAAACTCCGGGAGG
ACCAAATCCTTTGCAAGCACTTAGCGATTT
Found at i:109647703 original size:11 final size:11
Alignment explanation
Indices: 109647679--109647724 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
109647669 TTCTAATACG
*
109647679 TATATATATTA
1 TATATATTTTA
*
109647690 TATGTATTTTA
1 TATATATTTTA
109647701 TATATATTATGTA
1 TATATATT-T-TA
109647714 TATATATTTTA
1 TATATATTTTA
109647725 ATGCCATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 18 0.60
12 2 0.07
13 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (11 bp):
TATATATTTTA
Found at i:109649818 original size:132 final size:133
Alignment explanation
Indices: 109649580--109649836 Score: 367
Period size: 132 Copynumber: 1.9 Consensus size: 133
109649570 CAACTATTAG
* * *
109649580 GAATTCTTTAAAACGAAAGCGATATTCGATACTTGGTAATTCGTGAGAATCGTCCCCTAACGTGT
1 GAATTCTTTAAAACGAAAGCGATATGCGATACTTGGCAATTCGTGAGAATCGTCCCCTAACGTGC
*
109649645 TGGGTTACAATTTCTCGTTTACCCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGCCTTT
66 TGGGTTACAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGCCTTT
109649710 TGA
131 TGA
* * *
109649713 GAATTCTTTAAAA-TAAAGGCGATGTGCGATA-TTCGGCAATTCGTG-GAATCGTGCCCTAACGT
1 GAATTCTTTAAAACGAAA-GCGATATGCGATACTT-GGCAATTCGTGAGAATCGTCCCCTAACGT
* * ** *
109649775 GCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATATCCCTTCAAAATTTCATTCATG
64 GCTGGGTTACAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATG
109649837 TCTTCTAAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
132 76 0.69
133 34 0.31
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (133 bp):
GAATTCTTTAAAACGAAAGCGATATGCGATACTTGGCAATTCGTGAGAATCGTCCCCTAACGTGC
TGGGTTACAATTTCTCGTTTACCCAAAATAATCAAATATCCCTTCAAAATTTCACTCATGCCTTT
TGA
Found at i:109649885 original size:132 final size:132
Alignment explanation
Indices: 109649617--109649951 Score: 359
Period size: 132 Copynumber: 2.5 Consensus size: 132
109649607 GATACTTGGT
* * * * *
109649617 AATTCGTGAGAATCGTCCCCTAACGTGTTGGGTTACAATTTCTCGTTTACCCAAAATAATCGAAT
1 AATTCGTG-GAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAAT
* * * * * * * *
109649682 ATCCCTTCAAAATTTCACTCATGCCTTTTGAGAATTCTTTAAAATAAAGGCGATGTGCGATATTC
65 ATCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATCTTTAAAACAAAAGCAATATGCGACATTC
*
109649747 GGC
130 GAC
* *
109649750 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTTAAAATAATCAAATA
1 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
* * * * * *
109649815 TCCCTTCAAAATTTCATTCATGTCTTCT-AAAAATCGTTTAAAACAAAAGCAATATTCGGCGTTT
66 TCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATC-TTTAAAACAAAAGCAATATGCGACATTC
109649879 GAC
130 GAC
* * * ** * * *
109649882 AATTCG-AGAATCATGCCCTATCGTGCTGGGTTGTGATCTCTCATTTGCTCAAAACAATCGAATA
1 AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
*
109649946 TTCCTT
66 TCCCTT
109649952 TAGGTTTTCC
Statistics
Matches: 168, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
131 58 0.35
132 102 0.61
133 8 0.05
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (132 bp):
AATTCGTGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATA
TCCCTTCAAAATTTCACTCATGCCTTCTGAAAAATCTTTAAAACAAAAGCAATATGCGACATTCG
AC
Found at i:109662221 original size:12 final size:12
Alignment explanation
Indices: 109662206--109662253 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
109662196 TATTTATCTC
109662206 TTTATATTTATG
1 TTTATATTTATG
109662218 TTTATATTTTATG
1 TTTATA-TTTATG
** *
109662231 TATTATACCTATC
1 T-TTATATTTATG
109662244 TTTATATTTA
1 TTTATATTTA
109662254 CGCATGAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 13 0.45
13 11 0.38
14 5 0.17
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (12 bp):
TTTATATTTATG
Found at i:109662433 original size:22 final size:22
Alignment explanation
Indices: 109662405--109662446 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
109662395 TTTACTGTTA
* *
109662405 TTATTACTATTATTTTTATTTT
1 TTATTACCATTATTGTTATTTT
109662427 TTATTACCATTATTGTTATT
1 TTATTACCATTATTGTTATT
109662447 GTACTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTACCATTATTGTTATTTT
Found at i:109662636 original size:28 final size:30
Alignment explanation
Indices: 109662586--109662642 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
109662576 ACATATACGT
109662586 TATTATTTATATTATTACAATTAT-TATTG
1 TATTATTTATATTATTACAATTATGTATTG
* * *
109662615 TATT-TTTATATTCTTTCTATTATGTATT
1 TATTATTTATATTATTACAATTATGTATT
109662643 ATTCATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (30 bp):
TATTATTTATATTATTACAATTATGTATTG
Found at i:109664995 original size:22 final size:22
Alignment explanation
Indices: 109664970--109665011 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
109664960 ATATAATTAC
* *
109664970 AATAACAATAATGGTAATAAAA
1 AATAAAAATAATAGTAATAAAA
109664992 AATAAAAATAATAGTAATAA
1 AATAAAAATAATAGTAATAA
109665012 TAGCACGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (22 bp):
AATAAAAATAATAGTAATAAAA
Found at i:109665123 original size:35 final size:34
Alignment explanation
Indices: 109665058--109665124 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
109665048 CATGATAGTG
* **
109665058 AAATAATAATAGTAATAATGTTAATAAAGATACA
1 AAATAATAATAGTAAAAATGCCAATAAAGATACA
* *
109665092 AAATGATAATAAGTAAAAATGCCAATGAAGATA
1 AAATAATAAT-AGTAAAAATGCCAATAAAGATA
109665125 ATAAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 9 0.33
35 18 0.67
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.25
Consensus pattern (34 bp):
AAATAATAATAGTAAAAATGCCAATAAAGATACA
Found at i:109665211 original size:12 final size:12
Alignment explanation
Indices: 109665167--109665214 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
109665157 TGTTCATGCG
*
109665167 TAAATATAAAGA
1 TAAATATAAACA
**
109665179 TAGGTATAATACA
1 TAAATATAA-ACA
109665192 TAAAATATAAACA
1 T-AAATATAAACA
109665205 TAAATATAAA
1 TAAATATAAA
109665215 GAGATAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:109665278 original size:3 final size:3
Alignment explanation
Indices: 109665272--109665370 Score: 58
Period size: 3 Copynumber: 32.3 Consensus size: 3
109665262 CAATAATAGC
* * * * *
109665272 AAT AAT AAT AAAT ATT GAT AAT AAAC AAT AAT AA- AAGG AAT AAA AAT
1 AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT AAT
* * * * *
109665319 AAT AGT AAT AAT AAG AAT ATTT AAT AAT AAT AAT AAT AAC AAC AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
109665365 -AT AAT A
1 AAT AAT A
109665371 TATACATGAA
Statistics
Matches: 73, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
2 4 0.05
3 60 0.82
4 9 0.12
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:109673851 original size:30 final size:31
Alignment explanation
Indices: 109673790--109673852 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
109673780 ATACTTCAAA
109673790 TCTGGAACCACGCCACTCGTATAGCAACGCG
1 TCTGGAACCACGCCACTCGTATAGCAACGCG
109673821 TCTGGAACCACGCCACTCGTATAG-AACGCG
1 TCTGGAACCACGCCACTCGTATAGCAACGCG
109673851 TC
1 TC
109673853 GGCAAACTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.25, C:0.35, G:0.22, T:0.17
Consensus pattern (31 bp):
TCTGGAACCACGCCACTCGTATAGCAACGCG
Found at i:109682093 original size:16 final size:16
Alignment explanation
Indices: 109682072--109682102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109682062 CTGAGGTAAT
*
109682072 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
109682088 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
109682103 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:109682164 original size:89 final size:88
Alignment explanation
Indices: 109682003--109682428 Score: 502
Period size: 89 Copynumber: 4.9 Consensus size: 88
109681993 CTGATGTTTT
* *
109682003 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
1 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
109682068 TAATTTCAATTTCTGTTTTCTTCA
66 TAATTTCAATTTCTGTTTT-TTCA
* * *
109682092 ATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGG
1 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
109682157 TATTTTCAATTTCTG-CTTTTCA
66 TAATTTCAATTTCTGTTTTTTCA
* *
109682179 ATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
109682244 GGTAATTTCAATTTATG-TTTGTCA
64 GGTAATTTCAATTTCTGTTTTTTCA
* *
109682268 A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAGG
1 ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* ** * *
109682322 TATTTTTGATTTCTG-CTTTCCA
66 TAATTTCAATTTCTGTTTTTTCA
* * * *
109682344 ATTTCTGCTCTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTATGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
109682409 AGTAATTTCAATTTCTGTTT
64 GGTAATTTCAATTTCTGTTT
109682429 GTCGAAAATC
Statistics
Matches: 286, Mismatches: 35, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
76 66 0.23
87 15 0.05
88 2 0.01
89 202 0.71
90 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (88 bp):
ATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCAATTTCTGTTTTTTCA
Found at i:109682178 original size:14 final size:14
Alignment explanation
Indices: 109682159--109682193 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
109682149 CACTGAGGTA
109682159 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
109682173 TTTTCAATTTTTGC
1 TTTTCAATTTCTGC
109682187 TTTTCAA
1 TTTTCAA
109682194 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:109682299 original size:76 final size:75
Alignment explanation
Indices: 109682174--109682323 Score: 248
Period size: 76 Copynumber: 2.0 Consensus size: 75
109682164 AATTTCTGCT
*
109682174 TTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
109682239 GCTGAGGTAA
66 GCTGAGGTAA
* *
109682249 TTTCAATTTATG-TTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGC
1 TTTCAATTTATGCTTT-TC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
109682313 ACGCTGAGGTA
64 ACGCTGAGGTA
109682324 TTTTTGATTT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
74 3 0.04
75 13 0.19
76 54 0.77
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (75 bp):
TTTCAATTTATGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAA
Found at i:109682305 original size:165 final size:159
Alignment explanation
Indices: 109682088--109682732 Score: 683
Period size: 165 Copynumber: 3.9 Consensus size: 159
109682078 TTCTGTTTTC
* *
109682088 TTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACACT
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACACT
*
109682153 GAGGTATTTTCAATTTCTGCTTTTCAATTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAG
65 GAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAG
109682218 GTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
128 GTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
*
109682250 TTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCAC
1 TTCAATTTATGTTTGTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGCAC
* ** * * *
109682315 GCTGAGGTATTTTTGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGTGA
62 ACTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGA
*
109682380 GAGGTGAGTTGAGCCTCAGGACACGCTGAAGTAAT
125 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * *
109682415 TTCAATTTCTGTTTGTCGAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACA--
* ** *
109682480 CTGAGGT-CTTTCAATTTCTATTTTTCAATTTCTGTTCGTC--AAAATCAACTCATATTGCGAGA
63 CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTT-TTCAAAAAATCAACTCATATTGCGAGA
109682542 GGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATTTTCAATTAATGTTTT
127 GGTGAGTTGAGCCTC-AGGACACGCTGAGG----------TAA-----T
*
109682590 TTCAATTTATGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACA-
1 TTCAATTTATG-TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACAC
* ** * *
109682653 TGCCAAGGTATTTCCAAAATCTG-TTTGGCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGA
64 TG---AGGTATTTTCAATTTCTGCTTT-TCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGA
* *
109682717 TAAGTGAGTTGAGCCT
125 GAGGTGAGTTGAGCCT
109682733 TTGCTCACGT
Statistics
Matches: 408, Mismatches: 42, Indels: 51
0.81 0.08 0.10
Matches are distributed among these distances:
160 45 0.11
161 6 0.01
162 54 0.13
163 23 0.06
164 7 0.02
165 149 0.37
166 1 0.00
170 3 0.01
172 2 0.00
175 63 0.15
176 21 0.05
177 34 0.08
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (159 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACACTG
AGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:109682591 original size:87 final size:88
Alignment explanation
Indices: 109682414--109682732 Score: 339
Period size: 88 Copynumber: 3.6 Consensus size: 88
109682404 GCTGAAGTAA
* * *
109682414 TTTCAATTTCTGTTTGTCGAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTG-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACA-
*
109682479 GCTGAGGT-CTTTCAATT--TCTATT
63 GCTGAGGTATTTTCAATTAATCTATT
109682502 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCAC-G
1 TTTCAATTTCTGTT-GTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGCACAG
*
109682565 CTGAGGTATTTTCAATTAATGT-TT
64 CTGAGGTATTTTCAATTAATCTATT
* * *
109682589 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTG-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-
** * *
109682654 GCCAAGGTATTTCCAA--AATCTGTT
63 GCTGAGGTATTTTCAATTAATCTATT
** * * * *
109682678 TGGCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCT
1 TTTCAATTTCTGTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
109682733 TTGCTCACGT
Statistics
Matches: 201, Mismatches: 18, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
85 8 0.04
86 8 0.04
87 59 0.29
88 69 0.34
89 44 0.22
90 13 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAGCT
GAGGTATTTTCAATTAATCTATT
Found at i:109682754 original size:89 final size:86
Alignment explanation
Indices: 109682414--109682819 Score: 363
Period size: 89 Copynumber: 4.6 Consensus size: 86
109682404 GCTGAAGTAA
* *
109682414 TTTCAATTTCTGTTTGTCGAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* **
109682479 GCTGAGGTCTTTCAATTTCTATT
65 GCTGAGGTATTTCAAAATCT-TT
* *
109682502 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAG-GCAC-
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCACA
*
109682564 -GCTGAGGTATTTTCAATTAATGTTT
64 TGCTGAGGTA-TTTCAA--AATCTTT
* * *
109682589 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
**
109682654 GCCAAGGTATTTCCAAAATCTGTT
65 GCTGAGGTATTT-CAAAATCT-TT
** * * * ** *
109682678 TGGCAAATTCTGTTTTCAAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTTTGCTCACGT
1 TTTCAATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* **
109682743 GCTGAGCTATTTTTCAATTTCTGTT
65 GCTGAGGTA--TTTCAAAATCT-TT
** * * * **
109682768 TTT-AATAACTAGTTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
109682820 TCAGGATCAC
Statistics
Matches: 262, Mismatches: 40, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
85 8 0.03
86 6 0.02
87 56 0.21
88 70 0.27
89 94 0.36
90 25 0.10
91 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (86 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGGTATTTCAAAATCTTT
Found at i:109687257 original size:75 final size:75
Alignment explanation
Indices: 109687161--109687438 Score: 380
Period size: 75 Copynumber: 3.7 Consensus size: 75
109687151 CAATATTGAA
* * ** * *
109687161 TGTGAGCCCAGCTCTACTTGGATAAGCCAAAAATATTTGCACCTAGTGGTAGTCGGATAAACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACCGA
*
109687226 CGATAACAAT
66 AGATAACAAT
* *
109687236 TGTGAGCCTAGCTTTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACC-A
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACCGA
109687300 ATGATAACAAT
66 A-GATAACAAT
* * * *
109687311 TGTAAGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGAATAAACCGA
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACCGA
*
109687376 AGATAATAAT
66 AGATAACAAT
* * *
109687386 TGTGAGCCTAGCTGTAGTTGGATAAACCAACGGTATTTGCACCC-GTGCTAGTC
1 TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTC
109687439 AGACAAGCTG
Statistics
Matches: 179, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
74 9 0.05
75 168 0.94
76 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (75 bp):
TGTGAGCCCAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACCGA
AGATAACAAT
Found at i:109687363 original size:35 final size:35
Alignment explanation
Indices: 109687250--109687373 Score: 124
Period size: 35 Copynumber: 3.4 Consensus size: 35
109687240 AGCCTAGCTT
* *
109687250 TAGTTGGATAAACCAACGATATTTGCACCCAGTGC
1 TAGTCGGATAAACCAACGATATTTGCACCCAATGC
* * *
109687285 TAGTCGGATAAACCAATGATAACAATTGTAAGCCCAACT-C
1 TAGTCGGATAAACCAACGAT---ATTTG-CA-CCCAA-TGC
*
109687325 TAGTTGGATAAACCAACGATATTTGCACCCAATGC
1 TAGTCGGATAAACCAACGATATTTGCACCCAATGC
*
109687360 TAGTCGAATAAACC
1 TAGTCGGATAAACC
109687374 GAAGATAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
34 1 0.01
35 36 0.51
36 1 0.01
37 4 0.06
38 4 0.06
39 1 0.01
40 23 0.32
41 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (35 bp):
TAGTCGGATAAACCAACGATATTTGCACCCAATGC
Found at i:109687392 original size:150 final size:149
Alignment explanation
Indices: 109687165--109687438 Score: 422
Period size: 150 Copynumber: 1.8 Consensus size: 149
109687155 ATTGAATGTG
* * * * * * *
109687165 AGCCCAGCTCTACTTGGATAAGCCAAAAATATTTGCACCTAGTGGTAGTCGGATAAACCGACGAT
1 AGCCCAACTCTACTTGGATAAACCAAAAATATTTGCACCCAATGCTAGTCGAATAAACCGAAGAT
*
109687230 AACAATTGTGAGCCTAGCTTTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATA
66 AACAATTGTGAGCCTAGCTGTAGTTGGATAAACCAACGATATTTGCACCC-GTGCTAGTCGGATA
109687295 AACCAATGATAACAATTGTA
130 AACCAATGATAACAATTGTA
* **
109687315 AGCCCAACTCTAGTTGGATAAACCAACGATATTTGCACCCAATGCTAGTCGAATAAACCGAAGAT
1 AGCCCAACTCTACTTGGATAAACCAAAAATATTTGCACCCAATGCTAGTCGAATAAACCGAAGAT
* *
109687380 AATAATTGTGAGCCTAGCTGTAGTTGGATAAACCAACGGTATTTGCACCCGTGCTAGTC
66 AACAATTGTGAGCCTAGCTGTAGTTGGATAAACCAACGATATTTGCACCCGTGCTAGTC
109687439 AGACAAGCTG
Statistics
Matches: 111, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
149 9 0.08
150 102 0.92
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (149 bp):
AGCCCAACTCTACTTGGATAAACCAAAAATATTTGCACCCAATGCTAGTCGAATAAACCGAAGAT
AACAATTGTGAGCCTAGCTGTAGTTGGATAAACCAACGATATTTGCACCCGTGCTAGTCGGATAA
ACCAATGATAACAATTGTA
Found at i:109688329 original size:11 final size:11
Alignment explanation
Indices: 109688300--109688332 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
109688290 TTTTGTTTTA
109688300 TTCACTTTAAT
1 TTCACTTTAAT
109688311 TT-ACTTTAAT
1 TTCACTTTAAT
109688321 TTCACTTTAAT
1 TTCACTTTAAT
109688332 T
1 T
109688333 ACAAAATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (11 bp):
TTCACTTTAAT
Found at i:109691346 original size:11 final size:11
Alignment explanation
Indices: 109691317--109691349 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
109691307 TTTTGTTTTA
109691317 TTCACTTTAAT
1 TTCACTTTAAT
109691328 TT-ACTTTAAT
1 TTCACTTTAAT
109691338 TTCACTTTAAT
1 TTCACTTTAAT
109691349 T
1 T
109691350 CCAAAATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (11 bp):
TTCACTTTAAT
Found at i:109694315 original size:28 final size:28
Alignment explanation
Indices: 109694260--109694320 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
109694250 CTTTTTAGTA
* * *
109694260 ACAG-AACAGTGTGGGCCTTAGCCTAAT
1 ACAGTAACAGTGTGGGCCTAAACCCAAT
*
109694287 ATAGTAACAGTGTGGGCCTAAACCCAAT
1 ACAGTAACAGTGTGGGCCTAAACCCAAT
109694315 ACAGTA
1 ACAGTA
109694321 TTAGAATCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTAAACCCAAT
Found at i:109694784 original size:22 final size:22
Alignment explanation
Indices: 109694759--109694815 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
109694749 AATAAGTTTA
*
109694759 GCACAAAGCCATAGTTAAGATG
1 GCACAGAGCCATAGTTAAGATG
** * *
109694781 GCACAGAGCCATTTTTAGGTTG
1 GCACAGAGCCATAGTTAAGATG
109694803 GCACAGAGCCATA
1 GCACAGAGCCATA
109694816 ATCAGATTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
GCACAGAGCCATAGTTAAGATG
Found at i:109695213 original size:27 final size:27
Alignment explanation
Indices: 109695175--109695236 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
109695165 CAAAGCAATC
* *
109695175 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
109695202 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
109695229 ATTTTACA
1 ATTTTACA
109695237 ATTTGAGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:109695245 original size:27 final size:27
Alignment explanation
Indices: 109695189--109695380 Score: 187
Period size: 27 Copynumber: 7.1 Consensus size: 27
109695179 TACCCTACAG
* **
109695189 GGGTATTTCGATAATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-TGA
*
109695216 GGGTATTTCGATAATTTTACAATTTGA
1 GGGTATTTCGATAATTTTACAAATTGA
** *
109695243 GGGTATTTTTAGTAATTTTAAAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATTGA
* **
109695271 GGGTATTTTGATAATTTTACAAACCG-
1 GGGTATTTCGATAATTTTACAAATTGA
* *
109695297 GAAGTATTTCGATAATTTTATAAATTGA
1 G-GGTATTTCGATAATTTTACAAATTGA
109695325 GGGTATTTC-AGTAATTTTAC-AATCTGA
1 GGGTATTTCGA-TAATTTTACAAAT-TGA
109695352 GGGTATTTC-AGTAATTTTACAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATTGA
109695379 GG
1 GG
109695381 TCTTAACGAC
Statistics
Matches: 140, Mismatches: 18, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
26 5 0.04
27 105 0.75
28 30 0.21
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATTGA
Found at i:109695247 original size:54 final size:55
Alignment explanation
Indices: 109695189--109695380 Score: 207
Period size: 54 Copynumber: 3.5 Consensus size: 55
109695179 TACCCTACAG
* ** *
109695189 GGGTATTTCGA-TAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAATTTGA
1 GGGTATTTCGAGTAATTTTACAAAT-TGAGGGTATTTCGATAATTTTACAATCTGA
** * * * *
109695243 GGGTATTTTTAGTAATTTTAAAAATTGAGGGTATTTTGATAATTTTACAAACCG-
1 GGGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAATCTGA
* *
109695297 GAAGTATTTCGA-TAATTTTATAAATTGAGGGTATTTC-AGTAATTTTACAATCTGA
1 G-GGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGA-TAATTTTACAATCTGA
109695352 GGGTATTTC-AGTAATTTTACAAATTGAGG
1 GGGTATTTCGAGTAATTTTACAAATTGAGG
109695381 TCTTAACGAC
Statistics
Matches: 113, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
53 2 0.02
54 70 0.62
55 39 0.35
56 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (55 bp):
GGGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAATCTGA
Found at i:109695373 original size:81 final size:82
Alignment explanation
Indices: 109695218--109695374 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 82
109695208 CACTACAAGG
* * *
109695218 GTATTTCGATAATTTTACAATTTGAGGGTATTTTTAGTAATTTTAAAAATTGAGGGTATTTTGAT
1 GTATTTCGATAATTTTACAAATTGAGGGTATTTTCAGTAATTTTAAAAATTGAGGGTATTTAGAT
109695283 AATTTTACAAACCGGAA
66 AATTTTACAAACCGGAA
* *
109695300 GTATTTCGATAATTTTATAAATTGAGGGTA-TTTCAGTAATTTT-ACAATCTGAGGGTATTTCAG
1 GTATTTCGATAATTTTACAAATTGAGGGTATTTTCAGTAATTTTAAAAAT-TGAGGGTATTT-AG
109695363 -TAATTTTACAAA
64 ATAATTTTACAAA
109695375 TTGAGGTCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
80 4 0.06
81 35 0.51
82 29 0.43
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.43
Consensus pattern (82 bp):
GTATTTCGATAATTTTACAAATTGAGGGTATTTTCAGTAATTTTAAAAATTGAGGGTATTTAGAT
AATTTTACAAACCGGAA
Found at i:109697075 original size:44 final size:44
Alignment explanation
Indices: 109697025--109697110 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
109697015 AACCTCAGAC
*
109697025 TCCTTGCCACACATGTAGCGCCACCTTGCCACTAGATCCCTTAG
1 TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTTAG
*
109697069 TCCTTGCCACACATGTAGCGCTACCTTGACACTAGATCCCTT
1 TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTT
109697111 CTCTTTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.27
Consensus pattern (44 bp):
TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTTAG
Found at i:109697095 original size:22 final size:22
Alignment explanation
Indices: 109697026--109697096 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
109697016 ACCTCAGACT
*
109697026 CCTTGCCACACATGTAGCGCCA
1 CCTTGCCACACATGTAGCGCTA
* * *
109697048 CCTTGCCAC-TA-G-ATCCCTTA
1 CCTTGCCACACATGTAGCGC-TA
109697068 GTCCTTGCCACACATGTAGCGCTA
1 --CCTTGCCACACATGTAGCGCTA
109697092 CCTTG
1 CCTTG
109697097 ACACTAGATC
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 3 0.08
20 2 0.06
21 1 0.03
22 23 0.64
23 1 0.03
24 3 0.08
25 3 0.08
ACGTcount: A:0.20, C:0.38, G:0.17, T:0.25
Consensus pattern (22 bp):
CCTTGCCACACATGTAGCGCTA
Found at i:109705914 original size:163 final size:170
Alignment explanation
Indices: 109705601--109705993 Score: 452
Period size: 169 Copynumber: 2.3 Consensus size: 170
109705591 TTCTGTTTTC
* * * *
109705601 TTCAA-TTATGTTTTTCAAAAAAATCAGCTCTATATTACCGAGAGGTGAGTTGAGGCCTCAGGGC
1 TTCAATTTATGTTTGTC-AAAAAATCAACTC-ATATT-GCGAGAAGTGAGTTGA-GCCTCAGGGC
* *
109705665 AACACTGAAGGTATTTTCAATTTCCTCGCTTTTCATTTCTGCTTTTCAAAAAAATCAACTCTATT
62 AACACTGAAGGTATTTTCAATTTCCTCGCTTTCCATTTCTGCTCTTCAAAAAAATCAACTCTATT
*
109705730 GGCGAGAGGTGAGTTGAGCCTC-AGGAC-A-CACTGATGTAATT
127 GGCGAGAGGTGAGTTGAGCCTCAAGGACAACCACTGAGGTAATT
*
109705771 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCAGGGC-ACA
1 TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCAACA
* *
109705835 CTG-AGCGTATTTTCGA-TT-CT-GCTTTCCAATTTCTGCTCTTCAAAAAATTCAACTCATATT-
66 CTGAAG-GTATTTTCAATTTCCTCGCTTTCC-ATTTCTGCTCTTCAAAAAAATCAACTC-TATTG
* *
109705895 G-TAGAGGTGAGTTGAGCCTCAAGGACAAAACGCCCTGAGGTAATT
128 GCGAGAGGTGAGTTGAGCCTCAAGGAC--AAC-CACTGAGGTAATT
* * *
109705940 TTCAATTTCTGTTTGTC-AAAATTCAACTCATTATCGACGAG-AGTGAGTTGAGCC
1 TTCAATTTATGTTTGTCAAAAAATCAACTCA-TATTG-CGAGAAGTGAGTTGAGCC
109705994 CGCCACTGCT
Statistics
Matches: 195, Mismatches: 16, Indels: 25
0.83 0.07 0.11
Matches are distributed among these distances:
163 24 0.12
164 33 0.17
165 8 0.04
166 15 0.08
167 10 0.05
168 26 0.13
169 48 0.25
170 21 0.11
171 10 0.05
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (170 bp):
TTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCAACA
CTGAAGGTATTTTCAATTTCCTCGCTTTCCATTTCTGCTCTTCAAAAAAATCAACTCTATTGGCG
AGAGGTGAGTTGAGCCTCAAGGACAACCACTGAGGTAATT
Found at i:109720584 original size:16 final size:16
Alignment explanation
Indices: 109720563--109720593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109720553 CTGAGGTAAT
*
109720563 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
109720579 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
109720594 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:109720655 original size:89 final size:87
Alignment explanation
Indices: 109720494--109721323 Score: 621
Period size: 89 Copynumber: 9.7 Consensus size: 87
109720484 CTGATGTTTT
* **
109720494 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
109720559 TAATTTCAATTTCTGTTTTCTTCA
66 TAATTTCAATTTCTG-TTT-TTCA
* * * * *
109720583 ATTTATGTTTTTCAAAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCACACTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
* *
109720648 TATTTTCAATTTCTGCTTTTCA
66 TAATTTCAATTTCTGTTTTTCA
109720670 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
1 ATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
* *
109720735 GGTAATTTCAATTTATGTTTGTCA
64 GGTAATTTCAATTTCTGTTTTTCA
** * *
109720759 A----------AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACACTGAGG
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
* * * *
109720814 TATTTTCGATTTCTGCTTTCCA
66 TAATTTCAATTTCTGTTTTTCA
* * *
109720836 ATTTCTGCTCTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGA
*
109720901 GGTAATTTCAATTTCTGTTTGTCAA
64 GGTAATTTCAATTTCTGTTTTTC-A
** ** * * * * * * * **
109720926 AAATCAAC---TC--ATATC-GC-GAGA--G-GTGAGTTGAGCCTCG-G-CTC---ACATGCTGA
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG--TTGAGCCTCAGGACACACTGA
** *
109720976 GGTCTTTTCAATTTCTATTTTTCA
64 GGTAATTTCAATTTCTGTTTTTCA
* *
109721000 ATTTCTG-TTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGG-CACGCTGA
1 ATTTCTGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACACTGA
* **
109721062 GGTATTTTCAATTAATGTTTTTTCA
64 GGTAATTTCAATTTCTG-TTTTTCA
* * * *
109721087 ATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACA-TGCCA
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTG---
** **
109721151 AGGT-ATTTCCAAAATCTGTTTGGCA
63 AGGTAATTT-CAATTTCTGTTTTTCA
* * ** ** *
109721176 AATTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTGCTGA
1 ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC--ACTGA
* *
109721240 GCTATTTTTCAATTTCTGTTTTT-A
64 GGTA-ATTTCAATTTCTGTTTTTCA
* * * * **
109721264 ATGTCTAG-TTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAG-CTCAGGATCACAC
1 ATTTCT-GCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACAC
109721324 ACTGAGTAAA
Statistics
Matches: 586, Mismatches: 107, Indels: 98
0.74 0.14 0.12
Matches are distributed among these distances:
74 4 0.01
75 27 0.05
77 69 0.12
78 15 0.03
79 3 0.01
80 4 0.01
81 4 0.01
82 3 0.01
83 15 0.03
86 20 0.03
87 37 0.06
88 99 0.17
89 267 0.46
90 17 0.03
91 2 0.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (87 bp):
ATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACACTGAGG
TAATTTCAATTTCTGTTTTTCA
Found at i:109720669 original size:14 final size:14
Alignment explanation
Indices: 109720650--109720684 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
109720640 CACTGAGGTA
109720650 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
109720664 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
109720678 TTTTCAA
1 TTTTCAA
109720685 AAAAATCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:109720790 original size:77 final size:75
Alignment explanation
Indices: 109720665--109721074 Score: 260
Period size: 77 Copynumber: 5.1 Consensus size: 75
109720655 AATTTCTGCT
109720665 TTTCAATTTCTGCTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTCAATTTCTG-TTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
109720729 CACTGAGGTAA
65 CACTGAGGTAA
* * *
109720740 TTTCAATTTATGTTTGTCAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGC
1 TTTCAATTTCTGTTTGTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
109720805 ACACTGAGGTAT
64 ACACTGAGGTAA
* ** *** *
109720817 TTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAA--AA-TCAACTCATATTGTGAGAGGTGA
1 TTTCAATTTCTG---------TT-TG-TC-AAAAAAATCAACTC-A-T-ATTGCGAGAG--GTGA
*
109720879 GTTGAGCCTCAGGACACGCTGAGGTAA
49 GTTGAGCCTCAGGACACACTGAGGTAA
* *
109720906 TTTCAATTTCTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA
**
109720968 CATGCTGAGGTCT
65 CA--CTGAGGTAA
* * *
109720981 TTTCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTCAATTTCTGTTTGTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
109721046 CCTCGAGG-CACGCTGAGGTAT
55 CCTC-AGGACACACTGAGGTAA
109721067 TTTCAATT
1 TTTCAATT
109721075 AATGTTTTTT
Statistics
Matches: 263, Mismatches: 32, Indels: 69
0.72 0.09 0.19
Matches are distributed among these distances:
72 2 0.01
73 17 0.06
74 3 0.01
75 47 0.18
76 1 0.00
77 67 0.25
78 4 0.02
79 2 0.01
80 2 0.01
84 2 0.01
85 3 0.01
86 19 0.07
87 12 0.05
88 41 0.16
89 39 0.15
90 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
ACTGAGGTAA
Found at i:109720804 original size:166 final size:161
Alignment explanation
Indices: 109720579--109721224 Score: 709
Period size: 166 Copynumber: 3.9 Consensus size: 161
109720569 TTCTGTTTTC
* *
109720579 TTCAATTTATGTTTTTC---AAAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGGCAC
1 TTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGGCAC
109720641 ACTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGA
65 ACTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGA
*
109720706 GAGGTGAGTTGAGCCTCAGGACACACTGAGGTAAT
127 GAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* *
109720741 TTCAATTTATGTTTGTCAAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCA
1 TTCAATTTATGTTTGTC-AAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGGCA
* * * *
109720806 CACTGAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTCTTCAAAAAAATCAACTCATATTGTG
64 CACTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCG
109720871 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
126 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* ** *
109720907 TTCAATTTCTGTTTGTC---AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG-GCAC
* ** *
109720969 ATGCTGAGGTCTTTTCAATTTCTATTTTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGA
65 A--CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGA
*
109721033 GAGGTGAGTTGAGCCTCGAGG-CACGCTGAGGTATT
127 GAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
* *
109721068 TTCAATTAATGTTTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTCAATTTATG-TTTGTCAA---A--------AAAAATCAACTCATATTACGAGAGGTGAGTTGA
* ** * *
109721133 GCCTCGGGTCACA-TGCCAAGGTATTTCCAAAATCTG-TTTGGCAAATTCTGTTTTCAAAAATCA
54 GCCTCGGG-CACACTG---AGGTATTTTCAATTTCTGCTTT-TCAATTTCTGTTTTCAAAAATCA
*
109721196 ACTCATATTGCGAGAAGTGAGTTGAGCCT
114 ACTCATATTGCGAGAGGTGAGTTGAGCCT
109721225 TTGCTCACGT
Statistics
Matches: 417, Mismatches: 37, Indels: 46
0.83 0.07 0.09
Matches are distributed among these distances:
161 60 0.14
162 64 0.15
163 1 0.00
164 32 0.08
166 153 0.37
173 2 0.00
175 5 0.01
176 100 0.24
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (161 bp):
TTCAATTTATGTTTGTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGCACA
CTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGG
TGAGTTGAGCCTCAGGACACGCTGAGGTAAT
Found at i:109720985 original size:75 final size:73
Alignment explanation
Indices: 109720851--109721000 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 73
109720841 TGCTCTTCAA
* *
109720851 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
*
109720916 TGTTTGTC
66 TATTTGTC
* **
109720924 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAAT
*
109720988 TTCTATTTTTC
63 TTCTATTTGTC
109720999 AA
1 AA
109721001 TTTCTGTTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 2 0.03
73 36 0.54
75 29 0.43
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TATTTGTC
Found at i:109721105 original size:88 final size:88
Alignment explanation
Indices: 109720906--109721311 Score: 391
Period size: 88 Copynumber: 4.6 Consensus size: 88
109720896 GCTGAGGTAA
* *
109720906 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACA-
*
109720971 GCTGAGGTCTTTTCAATT--TCTATT
63 GCTGAGGTATTTTCAATTAATCTATT
*
109720995 TTTCAATTTCTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGGCAC-G
1 TTTCAATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GGCACAG
*
109721058 CTGAGGTATTTTCAATTAATGT-TT
64 CTGAGGTATTTTCAATTAATCTATT
* *
109721082 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG-CACA-
** * *
109721147 GCCAAGGTATTTCCAA--AATCTGTT
63 GCTGAGGTATTTTCAATTAATCTATT
** * * * ** *
109721171 TGGCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACGTG
1 TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGGCAC-AG
* *
109721236 CTGAGCTATTTTTCAATT--TCTGTT
64 CTGAGGTA-TTTTCAATTAATCTATT
* * * * **
109721260 TTT-AATGTCTAGTTTTTAAAAGTCAATTCATATTGCGAGAAATGAGTTGAGC
1 TTTCAATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
109721312 TCAGGATCAC
Statistics
Matches: 267, Mismatches: 34, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
86 17 0.06
87 17 0.06
88 141 0.53
89 79 0.30
90 13 0.05
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (88 bp):
TTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACAGCT
GAGGTATTTTCAATTAATCTATT
Found at i:109721200 original size:176 final size:176
Alignment explanation
Indices: 109720906--109721224 Score: 462
Period size: 176 Copynumber: 1.8 Consensus size: 176
109720896 GCTGAGGTAA
* *
109720906 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACAT
** * * ** ** * *
109720971 GCTGAGGTCTTTTCAATTTCTATTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAG
66 GCCAAGGTATTTCCAAAATCTATTTGGCAAATTCTGTTCGTCAAAATCAACTCATATTGCGAGAA
109721036 GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTTT
131 GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTTT
* *
109721082 TTTCAATTTATGCTTT-TCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTCAATTTATG-TTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACA
* *
109721146 TGCCAAGGTATTTCCAAAATCTGTTTGGCAAATTCTGTT-TTCAAAAATCAACTCATATTGCGAG
65 TGCCAAGGTATTTCCAAAATCTATTTGGCAAATTCTGTTCGTC-AAAATCAACTCATATTGCGAG
109721210 AAGTGAGTTGAGCCT
129 AAGTGAGTTGAGCCT
109721225 TTGCTCACGT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
175 2 0.02
176 120 0.96
177 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (176 bp):
TTTCAATTTATGTTTGTCAAAAATCAACTCATATCACGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCCAAGGTATTTCCAAAATCTATTTGGCAAATTCTGTTCGTCAAAATCAACTCATATTGCGAGAA
GTGAGTTGAGCCTCGAGGCACGCTGAGGTATTTTCAATTAATGTTT
Found at i:109730806 original size:18 final size:17
Alignment explanation
Indices: 109730785--109730827 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
109730775 TATATGTTAT
109730785 AAATTACATAATATATAA
1 AAATTACATAATATA-AA
*
109730803 AAATAACATAATATAAA
1 AAATTACATAATATAAA
*
109730820 ACATTACA
1 AAATTACA
109730828 AACTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATTACATAATATAAA
Found at i:109731724 original size:57 final size:57
Alignment explanation
Indices: 109731661--109731774 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
109731651 TTGTTATATC
*
109731661 AATAATACGATATGAGGTGATATGGCTATAAAGTATATGGGTGACATATGATAAAAT
1 AATAATACGATATGAGGTGATATGGCTATAAAATATATGGGTGACATATGATAAAAT
109731718 AATAATACGATATGAGGTGATATGGCTATAAAATATATGGGTGACATATGATAAAAT
1 AATAATACGATATGAGGTGATATGGCTATAAAATATATGGGTGACATATGATAAAAT
109731775 TAAAAATTAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (57 bp):
AATAATACGATATGAGGTGATATGGCTATAAAATATATGGGTGACATATGATAAAAT
Found at i:109733204 original size:2 final size:2
Alignment explanation
Indices: 109733197--109733269 Score: 50
Period size: 2 Copynumber: 38.5 Consensus size: 2
109733187 CTATATTACG
* * *
109733197 TA TA TA TA TA T- TT TA TA CTA T- TT TA TG TA TA TA TCA T- TA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA T-A TA TA TA
*
109733237 TA T- TA TA T- TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109733270 TTTCTACATG
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
1 6 0.11
2 47 0.82
3 4 0.07
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:109733227 original size:25 final size:25
Alignment explanation
Indices: 109733136--109733270 Score: 68
Period size: 25 Copynumber: 5.5 Consensus size: 25
109733126 ATTATATTTC
* * *
109733136 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
109733160 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
109733181 TAAATTCTATATTACGTATATATATAT
1 TTAATACTATATTA--TGTATATATAT
* *
109733208 TTTATACTATTTTATGTATATATCA-
1 TTAATACTATATTATGTATATAT-AT
* *
109733233 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
*
109733258 ATATATA-TATATT
1 TTA-ATACTATATT
109733271 TTCTACATGT
Statistics
Matches: 84, Mismatches: 18, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 8 0.10
24 3 0.04
25 40 0.48
26 5 0.06
27 11 0.13
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:109733311 original size:22 final size:24
Alignment explanation
Indices: 109733285--109733343 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
109733275 ACATGTTATC
109733285 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
109733307 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
109733332 TTATGTACATAT
1 TTATGTATATAT
109733344 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:109733333 original size:25 final size:25
Alignment explanation
Indices: 109733301--109733349 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
109733291 ATATATCTTA
**
109733301 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
109733326 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
109733350 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:109733529 original size:16 final size:15
Alignment explanation
Indices: 109733505--109733552 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
109733495 TAATTATTAT
*
109733505 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
109733521 TATTTTAATATTTTA
1 TATTTTAATATTTTA
109733536 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
109733552 T
1 T
109733553 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:109733540 original size:7 final size:8
Alignment explanation
Indices: 109733505--109733556 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
109733495 TAATTATTAT
*
109733505 TATTCTAA
1 TATTTTAA
*
109733513 TATTTTGA
1 TATTTTAA
109733521 TATTTTAA
1 TATTTTAA
109733529 TATTTT-A
1 TATTTTAA
109733536 TATTTTATA
1 TATTTTA-A
*
109733545 TATTTTAT
1 TATTTTAA
109733553 TATT
1 TATT
109733557 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:109734312 original size:25 final size:25
Alignment explanation
Indices: 109734261--109734313 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
109734251 ATATTTTTTA
* * *
109734261 TAATATTTTTTAATTTTCAATATTT
1 TAATATTTTTTAATGTTCAAAAGTT
109734286 TAATATTTTTTACA-GTTCAAAAGTT
1 TAATATTTTTTA-ATGTTCAAAAGTT
109734311 TAA
1 TAA
109734314 AACTTTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
TAATATTTTTTAATGTTCAAAAGTT
Found at i:109735703 original size:19 final size:19
Alignment explanation
Indices: 109735681--109735728 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
109735671 TTTTCATGGG
*
109735681 ATTTTTTTATT-TTTATTTT
1 ATTTTTTTATTGTTTA-CTT
109735700 ATTTTTTTATTGTTTACTT
1 ATTTTTTTATTGTTTACTT
*
109735719 ATTTATTTAT
1 ATTTTTTTAT
109735729 CTATTGCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
ATTTTTTTATTGTTTACTT
Found at i:109740217 original size:107 final size:108
Alignment explanation
Indices: 109740091--109740332 Score: 297
Period size: 108 Copynumber: 2.2 Consensus size: 108
109740081 AATAATATCT
* * * * * * *
109740091 CAATGTTCAAACTAGGACCAACTTGACTTCCATGAGAT-GTGGCGGAACTTGATTTCCACCTTTT
1 CAATGTTCAAACCAAGACCAACTTGACTTACATGAAATGGTGGCAGAACTTGATTTACACATTTT
*
109740155 CCAGGGGCAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCC
66 CCAGGGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCC
* * *
109740198 CAATGTTTAAACCAAGACCAACTTGACTTACTTGAAATGGTGGCAGAACTTGATTTATACATTTT
1 CAATGTTCAAACCAAGACCAACTTGACTTACATGAAATGGTGGCAGAACTTGATTTACACATTTT
* * * * *
109740263 CTAGGGGAAGATGGTGGAGTGGGCTCTCCTTTCGGTAATATCC
66 CCAGGGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCC
* ** *
109740306 CAAAGTTCAAACCGTGACTAACTTGAC
1 CAATGTTCAAACCAAGACCAACTTGAC
109740333 GTGGTGGTGG
Statistics
Matches: 113, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
107 32 0.28
108 81 0.72
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (108 bp):
CAATGTTCAAACCAAGACCAACTTGACTTACATGAAATGGTGGCAGAACTTGATTTACACATTTT
CCAGGGGAAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCC
Found at i:109740392 original size:99 final size:99
Alignment explanation
Indices: 109740151--109742308 Score: 3146
Period size: 99 Copynumber: 21.7 Consensus size: 99
109740141 GATTTCCACC
* * * * * **
109740151 TTTTCCAGGGGCAGATGGTGGAGTGGACCCTCCCTTCGGTAACATCCCAATGTTTAAACCAAGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * * *
109740216 CAACTTGACTTAC-TTGAAATGGTGGCAGAACTTGATTTATACA
66 CAACTTGAC--GCGGTG--GTGGTGGC-G----T-ATTTATACG
* * *
109740259 TTTTCTAGGGGAAGATGGTGGAGTGGGCTCTCCTTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * * ** *
109740324 TAACTTGACGTGGTGGTGGCGGTATATTTATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
** * *
109740358 TTTTTTAGGGGCAAATAGTGGAGTGGGCTCT-CCTTCGGTAATATCCCAAAGTTCACAAACCGTG
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTT--CAAACCGTG
* * *
109740422 ACCAACTTGAAGCGATGATGGTGGCGTATTTATACG
64 ACCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * * * *
109740458 TTTTCTAAGGGCAGATGGTGGAGTGGGCTCTCCCTTCGATAATATCCCAAAGCTCAAACCCTGAA
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* *
109740523 CAATTTGACGCGGTGGTGGTGGCGTATTTATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109740557 TTTTCTAGGGGCAGATGGTGGAGTGGTCTCTCCCTTCAGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109740622 CAACTTGACGCGGTGGTGGTGGCGTATTTATATG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109740656 TTTTTCAGGGGCAGATGGTGGAGTGGACTCTCCCTTCGGTAATATCTCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109740721 CAACTTGACGCGGTGGTGGTGGTGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
109740755 TTTTCCGGGGGCAGATGGTGGAGTAGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109740820 CAACTTGACGCTGTGGTGGT-GCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109740853 TTTTTC-GAAGGCAGATGGTGGAGTGGGCTCTCCCTTTGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCCAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
109740917 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109740952 TTTTCC-GAGGGTAGATGGTGGAGTGGGCTCTCCCTTCGATAATATCCCAAAGTTCAAACTGTGA
1 TTTTCCAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
109741016 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109741051 TTTTTC-GGGGACAGATGGTGGAGTGGGCTCTGCCTTCGGTAATATCCCAAAGTTCAAATCGTGA
1 TTTTCCAGGGG-CAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
109741115 CTAACTTGACGCGGTGGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
109741150 TTTTCC-GATGGCACATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCCAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
*
109741214 CCAACTTGACACGGTGGTGGTGGCGTATTTATACG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
109741249 TTTTCCAAGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGAGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * *
109741314 CAACTTGAAGCGGTGGTGGTGACGTATTTATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * *
109741348 TTTTCCAAGGGTAGATGGTAGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTTAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109741413 CAACTTGAAGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109741447 TTTTCTAGGGGCAAATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCCTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
109741512 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109741546 TTTTCTAGGGGCAGATGGTGGAGTGGGCTCTCCTTTCAGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109741611 CAACTTGACGTGGTGGTGGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
109741645 TTTTCCGGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTTAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109741710 CAACTTGACGCGGTGGTGGTGGCGTATTTATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * *
109741744 TTTTCCGGGGGAAGATGGTGGAATGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109741809 CAACTTGACGCGGTGGTGGTGGTGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
*
109741843 TTTTCCGGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
*
109741908 CAACTTGACGCGGTGGTAGTGGCGTATTTATACG
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
*
109741942 TTTTTC-GAGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
1 TTTTCCAG-GGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGA
* * *
109742006 CCAACTTGACGCGGTGGTGGTAGTGTATTTATATG
65 CCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * *
109742041 TTTTCCGGGGGTAGATGGTAGAGTAGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
* * *
109742106 CAACTTGACGCGGTGGTGGCGGCATATTTATACA
66 CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* *
109742140 TTTTTC-GAGGGTAGATGGTGGAGTGGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTG
1 TTTTCCAG-GGGCAGATGGTGGAGT-GGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTG
*
109742204 ACCAACTTGATGCGGTGGTGGTGGCGTATTTATACG
64 ACCAACTTGACGCGGTGGTGGTGGCGTATTTATACG
* * * * *
109742240 TTTTCCAGGGGTAGATGGTGGAGTGGGTTCTCCTTTCGGTAATATCTCAAAGTTCAAACTGTGAC
1 TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
109742305 CAAC
66 CAAC
109742309 ATTACTCGAA
Statistics
Matches: 1872, Mismatches: 164, Indels: 37
0.90 0.08 0.02
Matches are distributed among these distances:
97 1 0.00
98 116 0.06
99 1506 0.80
100 158 0.08
101 21 0.01
105 5 0.00
107 2 0.00
108 63 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (99 bp):
TTTTCCAGGGGCAGATGGTGGAGTGGGCTCTCCCTTCGGTAATATCCCAAAGTTCAAACCGTGAC
CAACTTGACGCGGTGGTGGTGGCGTATTTATACG
Found at i:109749761 original size:19 final size:19
Alignment explanation
Indices: 109749728--109749776 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
109749718 TTCATTCTAG
* *
109749728 TTTTTTAAATATTTTTATGA
1 TTTTTT-AATTTTTTTATAA
109749748 TTTTTTAATTTTTTTATAA
1 TTTTTTAATTTTTTTATAA
*
109749767 TTTTTAAATT
1 TTTTTTAATT
109749777 ATTTGTTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTAATTTTTTTATAA
Found at i:109754403 original size:43 final size:44
Alignment explanation
Indices: 109754321--109754407 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
109754311 GGTATGGTAG
109754321 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
1 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
*
109754365 GAAACATGAAACATGGCTAG-AAATACTAGGTTGTGTGTTTATC
1 GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
109754408 TCAATTAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 23 0.55
44 19 0.45
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (44 bp):
GAAACATGAAACATGGCCAGAAAATACTAGGTTGTGTGTTTATC
Found at i:109759997 original size:19 final size:17
Alignment explanation
Indices: 109759962--109760013 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
109759952 TAATTACATT
109759962 AATATTTAATATTTTTA
1 AATATTTAATATTTTTA
109759979 AATATTTAATTACTTTTTA
1 AATATTTAA-TA-TTTTTA
*
109759998 AAT-GTT-ATATTTTTA
1 AATATTTAATATTTTTA
109760013 A
1 A
109760014 TTACATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 7 0.22
16 2 0.06
17 10 0.31
18 4 0.12
19 9 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
AATATTTAATATTTTTA
Found at i:109766392 original size:2 final size:2
Alignment explanation
Indices: 109766380--109766413 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
109766370 CTTAGATTCT
*
109766380 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109766414 ACTTTTTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:109769652 original size:25 final size:25
Alignment explanation
Indices: 109769618--109769668 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
109769608 TTGACGTTCA
109769618 TCTTTATTTTACCTGAAGTAGTTAC
1 TCTTTATTTTACCTGAAGTAGTTAC
109769643 TCTTTATTTTACCTGAAGTAGTTAC
1 TCTTTATTTTACCTGAAGTAGTTAC
109769668 T
1 T
109769669 TGGTACAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.49
Consensus pattern (25 bp):
TCTTTATTTTACCTGAAGTAGTTAC
Found at i:109773485 original size:42 final size:41
Alignment explanation
Indices: 109773423--109773537 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 41
109773413 TTCGTTTTCC
* *
109773423 CGATGCCATAGTTCAACTATGGTCTTACACATCTTCATATAAT
1 CGATGCCATAG-TCAGCTATGGTCTTACACATATTCATAT-AT
109773466 -GATGCCATAGCTCAGCTATGGTCTTACACATATTCATATAT
1 CGATGCCATAG-TCAGCTATGGTCTTACACATATTCATATAT
* *
109773507 CAATGCTATAGTCCAGCTATGGTCTTACACA
1 CGATGCCATAGT-CAGCTATGGTCTTACACA
109773538 AATCACATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 62 0.95
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (41 bp):
CGATGCCATAGTCAGCTATGGTCTTACACATATTCATATAT
Found at i:109773690 original size:31 final size:31
Alignment explanation
Indices: 109773655--109773741 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
109773645 CTTGTCACTT
*
109773655 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
109773686 GTAGCCGGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
109773717 GTAGCTAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
109773742 TGTCATTTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:109773802 original size:43 final size:45
Alignment explanation
Indices: 109773737--109773836 Score: 152
Period size: 43 Copynumber: 2.3 Consensus size: 45
109773727 CTACCACTTT
*
109773737 TCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCGAAGCTA
1 TCACTTATCACTTTGTCATTGATCAGATAAGTGTAGCCGAAGCTA
* *
109773781 TCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCCGAAGCTT
1 TCACTTATCACTTTGTCATTGATCAGATAAGTGTAGCCGAAGCTA
109773824 TCACTTATCACTT
1 TCACTTATCACTT
109773837 GTTGCCATGG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
43 37 0.71
44 15 0.29
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (45 bp):
TCACTTATCACTTTGTCATTGATCAGATAAGTGTAGCCGAAGCTA
Found at i:109779510 original size:12 final size:12
Alignment explanation
Indices: 109779493--109779528 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
109779483 AATTTGAAAG
109779493 TTTAATTTTTTA
1 TTTAATTTTTTA
109779505 TTTAATTATTTTTA
1 TTTAA-T-TTTTTA
109779519 TTTAATTTTT
1 TTTAATTTTT
109779529 ATAATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 11 0.50
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:109784595 original size:35 final size:36
Alignment explanation
Indices: 109784544--109784622 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 36
109784534 TATGTATTTT
109784544 CGTATGTTTGTTCAAG-TTCCGAGTC-TAAGACTGCA
1 CGTAT-TTTGTTCAAGATTCCGAGTCTTAAGACTGCA
* * *
109784579 TGTATTTTGTATCAAGTATTTCGAGTCTTAAGGCTGCA
1 CGTATTTTGT-TCAAG-ATTCCGAGTCTTAAGACTGCA
109784617 CGTATT
1 CGTATT
109784623 CTAGATTAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.14
35 9 0.25
37 8 0.22
38 14 0.39
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (36 bp):
CGTATTTTGTTCAAGATTCCGAGTCTTAAGACTGCA
Found at i:109784931 original size:30 final size:30
Alignment explanation
Indices: 109784897--109784953 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
109784887 TCTAATAATG
109784897 TTAAATTAATTTCAATATTATAATGTATTA
1 TTAAATTAATTTCAATATTATAATGTATTA
109784927 TTAAATTAATTTCAATATTATAATGTA
1 TTAAATTAATTTCAATATTATAATGTA
109784954 AACATGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
TTAAATTAATTTCAATATTATAATGTATTA
Found at i:109788401 original size:42 final size:42
Alignment explanation
Indices: 109788354--109788438 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
109788344 ACCATAAACC
109788354 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
* *
109788396 TTTCAAAAAGAGTTAAATTGTTGTTGTTTTTAATAGAATTAT
1 TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
109788438 T
1 T
109788439 GACTAAAACG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTCAAAAAGAGTTAAATTGTTGATGTTTTTAATAGAAATAT
Found at i:109788850 original size:10 final size:11
Alignment explanation
Indices: 109788814--109788862 Score: 50
Period size: 10 Copynumber: 4.7 Consensus size: 11
109788804 TAATTACACA
109788814 TTATATATA-T
1 TTATATATATT
*
109788824 ATATATATA-T
1 TTATATATATT
* *
109788834 ATATATATCTT
1 TTATATATATT
109788845 TT-TATATATT
1 TTATATATATT
109788855 TTATATAT
1 TTATATAT
109788863 TAAAGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 26 0.79
11 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTATATATATT
Found at i:109788861 original size:2 final size:2
Alignment explanation
Indices: 109788815--109788841 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
109788805 AATTACACAT
109788815 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
109788842 CTTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109789162 original size:17 final size:18
Alignment explanation
Indices: 109789140--109789173 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
109789130 TTCGCCCCTC
109789140 ATTATACATA-CTAAATA
1 ATTATACATACCTAAATA
*
109789157 ATTATATATACCTAAAT
1 ATTATACATACCTAAAT
109789174 TATGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTATACATACCTAAATA
Found at i:109793842 original size:3 final size:3
Alignment explanation
Indices: 109793834--109793872 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
109793824 AAAAAGTAAA
109793834 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AA
109793873 CGATAAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:109793878 original size:16 final size:16
Alignment explanation
Indices: 109793830--109793879 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
109793820 ACACAAAAAG
*
109793830 TAAA-AATAATAATAA
1 TAAATAATAATAACAA
*
109793845 T-AATAATAATAATAA
1 TAAATAATAATAACAA
*
109793860 TAAATAATAATAACGA
1 TAAATAATAATAACAA
109793876 TAAA
1 TAAA
109793880 ACTTACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 2 0.06
15 13 0.42
16 16 0.52
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (16 bp):
TAAATAATAATAACAA
Done.