Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold42
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: 3911082
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 18191 characters in sequence are not A, C, G, or T
File 17 of 24
Found at i:2579900 original size:28 final size:28
Alignment explanation
Indices: 2579842--2579901 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
2579832 GACATGTGTT
* *
2579842 AAGATAATATGGATAAGATTTTCTTATC
1 AAGACAATATGGATAAGATTTTCTTAAC
2579870 AAGACAATATGGATGAAG-TTGTT-TTAAC
1 AAGACAATATGGAT-AAGATT-TTCTTAAC
2579898 AAGA
1 AAGA
2579902 GAATGTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 23 0.82
29 5 0.18
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (28 bp):
AAGACAATATGGATAAGATTTTCTTAAC
Found at i:2579956 original size:56 final size:56
Alignment explanation
Indices: 2579870--2579976 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
2579860 TTTTCTTATC
* * * *
2579870 AAGACAATATGGATGAAGTTGTTTTAACAAGAGAATGTTTATAGTAGACATGTGCT
1 AAGACAATATGGATGAAGTTGTTCTAACAAGAGAATATCTAAAGTAGACATGTGCT
2579926 AAGACAATA-GAGAT-AAGCTTGTTCTAACAAGAGAATATCTAAAGTAGACAT
1 AAGACAATATG-GATGAAG-TTGTTCTAACAAGAGAATATCTAAAGTAGACAT
2579977 ATCTTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 4 0.09
56 41 0.91
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (56 bp):
AAGACAATATGGATGAAGTTGTTCTAACAAGAGAATATCTAAAGTAGACATGTGCT
Found at i:2583655 original size:22 final size:21
Alignment explanation
Indices: 2583623--2583669 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
2583613 TTAGTGGAAA
*
2583623 TTTGGTTTTTTTCCTTAGTATT
1 TTTGGTGTTTTTCCTTAG-ATT
* *
2583645 TTTGGTGTTTTTTCTTTGATT
1 TTTGGTGTTTTTCCTTAGATT
2583666 TTTG
1 TTTG
2583670 CTAAAATCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.06, C:0.06, G:0.17, T:0.70
Consensus pattern (21 bp):
TTTGGTGTTTTTCCTTAGATT
Found at i:2584027 original size:13 final size:13
Alignment explanation
Indices: 2583985--2584020 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
2583975 AATCAATAAC
2583985 AAAATTAAATTATA
1 AAAATTAAATTA-A
2583999 AAAATTAAAATTAA
1 AAAATT-AAATTAA
2584013 AAAATTAA
1 AAAATTAA
2584021 GATAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 13 0.62
15 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAATTAA
Found at i:2584473 original size:166 final size:160
Alignment explanation
Indices: 2584193--2584772 Score: 472
Period size: 166 Copynumber: 3.5 Consensus size: 160
2584183 TGATTTTTAC
* * * * ** * *
2584193 AAAACTGATTTAATGA-GAGTTTAATAACAATATTAGATGAATTTTAAAATTTTTAAAC-CGAGA
1 AAAACTGATTTAAT-ATGAATTCAATAATAATATTTGATGAATTTTAAAATTTAAAAACAAGAAA
* * * * * * * ** *
2584256 AATCCTTCTCAAAAAATTTTTAGAGAAGAAAACTC-AATTTTTAGGAAAAAAGGGAATTTCATCG
65 AATCC--CCCGAAAAATTTATAGAGTAGAAAACTCGTA-TTTCA-AAAAAAAGAAAATTTCA-AG
*
2584320 AAAAAAATCCAAAACTCATGAAAATGAATTAATTTTTTT
125 AAAAAAAT--AAAACTCATGAAAATGAATGAA-TTTTTT
2584359 AAAACTGATTTAATATGAATTCAATAATAATATTTGATGAATTTTAAAATTTAAAAACTAAGAAA
1 AAAACTGATTTAATATGAATTCAATAATAATATTTGATGAATTTTAAAATTTAAAAAC-AAGAAA
* *
2584424 AATCCCCCGAAACATTTATAGAGTAGAAAACTCTGTATTTCAAAAAAAAGAAAACTTCAAGGAAA
65 AATCCCCCGAAAAATTTATAGAGTAGAAAACTC-GTATTTCAAAAAAAAGAAAATTTCAA-GAAA
* * *
2584489 AAATAAAAAATTCATGAAAATGAAGGAATTTTTT
128 AAA-ATAAAACTCATGAAAATGAATGAATTTTTT
* * * * * * *
2584523 GAAACTGATTTAATGTGGA-TCAAATGATAATATTTGAAGAATTTTAAAAATTAGAAACCAAGAA
1 AAAACTGATTTAATATGAATTC-AATAATAATATTTGATGAATTTTAAAATTTA-AAAACAAGAA
* * *
2584587 AAATCCCCCTGAAAAATTTA-CGAAGTAGAAAA-TAACGAATTTCGAAAAAAATGAAAATTTCAA
64 AAATCCCCC-GAAAAATTTATAG-AGTAGAAAACT--CGTATTTC-AAAAAAAAGAAAATTTCAA
* * *
2584650 GGAAAAATAA-AAAACTCTTGAAAATGAATGAAATTTTG
124 -GAAAAA-AATAAAACTCATGAAAATGAATGAATTTTTT
* * * * * * * *
2584688 AAAACTGATTTAATTTGAAATAAACAATAATATTTGATGAATTTTTAAAATTTTAAACCCATAAA
1 AAAACTGATTTAATATGAATTCAATAATAATATTTGATGAA-TTTTAAAATTTAAAAACAAGAAA
*
2584753 AATCCTCCCAAAAAAATTTA
65 AATCC-CCC-GAAAAATTTA
2584773 CGAAGAAGAA
Statistics
Matches: 342, Mismatches: 54, Indels: 36
0.79 0.12 0.08
Matches are distributed among these distances:
163 2 0.01
164 66 0.19
165 117 0.34
166 142 0.42
167 6 0.02
168 9 0.03
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (160 bp):
AAAACTGATTTAATATGAATTCAATAATAATATTTGATGAATTTTAAAATTTAAAAACAAGAAAA
ATCCCCCGAAAAATTTATAGAGTAGAAAACTCGTATTTCAAAAAAAAGAAAATTTCAAGAAAAAA
ATAAAACTCATGAAAATGAATGAATTTTTT
Found at i:2584637 original size:165 final size:165
Alignment explanation
Indices: 2584321--2584785 Score: 523
Period size: 165 Copynumber: 2.8 Consensus size: 165
2584311 ATTTCATCGA
** * *
2584321 AAAAAATCCAAAACTCATGAAAATGAATTAATTTTTTTAAAACTGATTTAATATGAATTC-AATA
1 AAAAAATAAAAAACTCATGAAAATGAATGAA-TTTTTTGAAACTGATTTAATATGAA-TCAAATA
* * * *
2584385 ATAATATTTGATGAATTTTAAAATTTAAAAACTAAGAAAAATCCCCCGAAACATTTA-TAGAGTA
64 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAATTTACGA-AGTA
*
2584449 GAAAACTCTGTATTTCAAAAAAAA-GAAAACTTCAAGG
128 GAAAACTCTGAATTTCAAAAAAAATGAAAACTTCAAGG
* * * * *
2584486 AAAAAATAAAAAATTCATGAAAATGAAGGAATTTTTTGAAACTGATTTAATGTGGATCAAATGAT
1 AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTTGAAACTGATTTAATATGAATCAAATAAT
* *
2584551 AATATTTGAAGAATTTTAAAAATTAGAAACCAAGAAAAATCCCCCTGAAAAATTTACGAAGTAGA
66 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCC-GAAAAATTTACGAAGTAGA
* *
2584616 AAA-TAAC-GAATTTCGAAAAAAATGAAAATTTCAAGG
130 AAACT--CTGAATTTCAAAAAAAATGAAAACTTCAAGG
* * * *
2584652 -AAAAATAAAAAACTCTTGAAAATGAATGAA-ATTTTGAAAACTGATTTAATTTGAAAT-AAACA
1 AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTTG-AAACTGATTTAATATG-AATCAAATA
* ** * * * *
2584714 ATAATATTTGATGAATTTTTAAAATTTTAAACCCATAAAAATCCTCCCAAAAAAATTTACGAAGA
64 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCC-GAAAAATTTACGAAGT
2584779 AGAAAAC
127 AGAAAAC
2584786 CCCGTAATTT
Statistics
Matches: 255, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
163 2 0.01
164 74 0.29
165 140 0.55
166 39 0.15
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (165 bp):
AAAAAATAAAAAACTCATGAAAATGAATGAATTTTTTGAAACTGATTTAATATGAATCAAATAAT
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAATTTACGAAGTAGAA
AACTCTGAATTTCAAAAAAAATGAAAACTTCAAGG
Found at i:2587474 original size:163 final size:163
Alignment explanation
Indices: 2587284--2587681 Score: 374
Period size: 163 Copynumber: 2.5 Consensus size: 163
2587274 TTGAACCTTA
* * * *
2587284 AAAATTCTTTAAATATTTACT-TTTAATT-ATCATTAAATCAGTTTCAAAGAAAAATT-ATCTTA
1 AAAATTCTTCAAATA-TTATTGTTTAATTCA-AATTAAATCAATTTC--A-AAAAATTAATCTTA
* * * *
2587346 TTTTATAAATTTTGA-ATTTTCTTAT-TGACTTTTT-TATTTTCAAAATATG-GTGTTTTCATTC
61 TTTTATAAATTTT-ACATTTTCTT-TCAGACTTTTTCTATTTTCAAAATACGAAT-TTTTCACTC
**
2587407 CATAAATTTTTCGATAGGATTTTTCTAA-TTTATAAATTT-C
123 CATAAATTTTTCGATAGGATTTCCCTAAGTTTAT-AATTTCC
*
2587447 AAAATTCTTCAAATATTATTGTTTAATTCAAATTAAATCAATTTCAAAAAATTAATCTTATTTTG
1 AAAATTCTTCAAATATTATTGTTTAATTCAAATTAAATCAATTTCAAAAAATTAATCTTATTTTA
* * * * *
2587512 TAGATTTTACTTTTTCTTTCAGATTTTTTCTATTTTCAAAATACGAAATTTTTTACTCCGTAAAT
66 TAAATTTTACATTTTCTTTCAGACTTTTTCTATTTTCAAAATACG-AATTTTTCACTCCATAAAT
* * *
2587577 TTTTTGGTAGGATTTCCCTAAGTTTATGATTTCC
130 TTTTCGATAGGATTTCCCTAAGTTTATAATTTCC
* * * *
2587611 AAAATTCTTCAAATAATATTG--TAATTCATATTAAATTAGA-TT-GAAAAATTCAAT-TTATTT
1 AAAATTCTTCAAATATTATTGTTTAATTCAAATTAAATCA-ATTTCAAAAAATT-AATCTTATTT
*
2587671 TATAAGTTTTA
64 TATAAATTTTA
2587682 GAATTTTTCT
Statistics
Matches: 197, Mismatches: 26, Indels: 26
0.79 0.10 0.10
Matches are distributed among these distances:
160 9 0.05
161 53 0.27
162 38 0.19
163 69 0.35
164 28 0.14
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (163 bp):
AAAATTCTTCAAATATTATTGTTTAATTCAAATTAAATCAATTTCAAAAAATTAATCTTATTTTA
TAAATTTTACATTTTCTTTCAGACTTTTTCTATTTTCAAAATACGAATTTTTCACTCCATAAATT
TTTCGATAGGATTTCCCTAAGTTTATAATTTCC
Found at i:2587993 original size:151 final size:146
Alignment explanation
Indices: 2587533--2587994 Score: 417
Period size: 153 Copynumber: 3.1 Consensus size: 146
2587523 TTTTCTTTCA
* * * *
2587533 GATTTTTTCTATTTTCAAAATACGAAATTTTTTACTCCGTAAATTTTTTGGTAGGATTTCCCTAA
1 GATTTTTTCTATTTTCAAAATATGGAATTTTTTACTTCGTAAATTTTTTGGTAGGATTT--CTGA
* ** * * * *
2587598 GTTTATGATTTCCAAAATTCTTCAAATA--ATATTGTAATTCATATTAAATTAGATTGAAAAATT
64 GTTTATAATTTTTAAAATTCTTCAAATATTTTATT-TAATTAATACTAAATTAGTTTG-AAAATT
2587661 CAATTTATTTTATAAGTTTT
127 CAATTTATTTTATAAGTTTT
* * ** * * *
2587681 AGAATTTTTCTTATTATCACGATATAGAATTTTTTACTTCGTAAATTTTTTGATAGGATTTTTTT
1 -GATTTTTTC-TATTTTCAAAATATGGAATTTTTTACTTCGTAAATTTTTTGGTAGGA---TTTC
* * * * * * *
2587746 TGTGATTATAATTTTTAAAATTATTCAAATATTATTGTTTACTTTATACTAAATCAGTTTGAAAA
61 TGAGTTTATAATTTTTAAAATTCTTCAAATATT-TTATTTAATTAATACTAAATTAGTTTGAAAA
* * *
2587811 TTTTAATTTATTTTATGAGCTTTA
125 -TTCAATTTATTTTATAAG-TTTT
* * * *
2587835 GATTTTTTTCTATTTTTAAAATATGGTATTTTCTATTTCGTAAATTTTTTGGTAGGGATTTCTGA
1 GA-TTTTTTCTATTTTCAAAATATGGAATTTTTTACTTCGTAAATTTTTTGGTA-GGATTTCTGA
* * *
2587900 GTTTATAATTTTTAAAATTCGTT-AAATATTTTCATTAAATTAATAGTAAATTAGTTTTTGAAGA
64 GTTTATAATTTTTAAAATTC-TTCAAATATTTT-ATTTAATTAATACTAAATTAG--TTTGAAAA
2587964 TTCAATTTATTTTATAAGTTTT
125 TTCAATTTATTTTATAAGTTTT
2587986 GCATTTTTT
1 G-ATTTTTT
2587995 TCATGTAACA
Statistics
Matches: 246, Mismatches: 51, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
149 8 0.03
150 41 0.17
151 79 0.32
152 23 0.09
153 80 0.33
154 15 0.06
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.52
Consensus pattern (146 bp):
GATTTTTTCTATTTTCAAAATATGGAATTTTTTACTTCGTAAATTTTTTGGTAGGATTTCTGAGT
TTATAATTTTTAAAATTCTTCAAATATTTTATTTAATTAATACTAAATTAGTTTGAAAATTCAAT
TTATTTTATAAGTTTT
Found at i:2588312 original size:15 final size:15
Alignment explanation
Indices: 2588288--2588320 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2588278 GTTGGGTTGG
*
2588288 TTTTGGGTTAGGTCA
1 TTTTGAGTTAGGTCA
2588303 TTTTGAGTTAGGTCA
1 TTTTGAGTTAGGTCA
2588318 TTT
1 TTT
2588321 CGGATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (15 bp):
TTTTGAGTTAGGTCA
Found at i:2588395 original size:16 final size:16
Alignment explanation
Indices: 2588339--2588424 Score: 91
Period size: 16 Copynumber: 5.3 Consensus size: 16
2588329 AAAATTTTTA
*
2588339 GGTCATTTTCGGGTTTG
1 GGTCATTTT-GGGTTCG
* *
2588356 GGTCATTTCGGGTTCA
1 GGTCATTTTGGGTTCG
* *
2588372 GATTATTTTGGGTTCG
1 GGTCATTTTGGGTTCG
*
2588388 GGTCATTTTAGGTTCG
1 GGTCATTTTGGGTTCG
* *
2588404 AGTCATTTTGGATTCG
1 GGTCATTTTGGGTTCG
2588420 GGTCA
1 GGTCA
2588425 ATCGGGTTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
16 47 0.85
17 8 0.15
ACGTcount: A:0.13, C:0.13, G:0.31, T:0.43
Consensus pattern (16 bp):
GGTCATTTTGGGTTCG
Found at i:2589299 original size:16 final size:16
Alignment explanation
Indices: 2589263--2589331 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
2589253 AGTTTCGATT
*
2589263 ATTTCAGGTTTAGGTC
1 ATTTCAGGTTTGGGTC
*
2589279 ATTTTAGGTTTGGGTC
1 ATTTCAGGTTTGGGTC
** * *
2589295 ATTTTGGGTTCGGCTC
1 ATTTCAGGTTTGGGTC
* *
2589311 ATTTCGGGTTTGGGTT
1 ATTTCAGGTTTGGGTC
2589327 ATTTC
1 ATTTC
2589332 CGATTTTGGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.48
Consensus pattern (16 bp):
ATTTCAGGTTTGGGTC
Found at i:2590458 original size:16 final size:18
Alignment explanation
Indices: 2590426--2590458 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
2590416 GGTGTTTTGC
2590426 ATGTGTATTTAACATGTG
1 ATGTGTATTTAACATGTG
2590444 ATGTG-ATTT-ACATGT
1 ATGTGTATTTAACATGT
2590459 TTTTAACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (18 bp):
ATGTGTATTTAACATGTG
Found at i:2594366 original size:20 final size:20
Alignment explanation
Indices: 2594327--2594366 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2594317 AACTAAAAAA
*
2594327 AATCAAATCAAATGATGTTT
1 AATCAAATCAAATGAAGTTT
* *
2594347 AATCGAATCAAGTGAAGTTT
1 AATCAAATCAAATGAAGTTT
2594367 GTCCCCACAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
AATCAAATCAAATGAAGTTT
Found at i:2595028 original size:113 final size:113
Alignment explanation
Indices: 2594830--2595318 Score: 557
Period size: 113 Copynumber: 4.3 Consensus size: 113
2594820 AAAAAGAGTG
* * * * * * * *
2594830 CCAATGTGC-AGATTCAAGGTCAGCGACATTGGACTTAAGGATGCGAAAAATGATAAAAGTGCCA
1 CCAATGTGCTA-ATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCG
* * *
2594894 ATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGACAAAAGCA
65 ATATGCTAATTCAAAGCCAACGATATTGGACTTAAAGATGACAAAGGCA
* * * * *
2594943 CCAATGTGTTGATTCCAGGCCAACGGCATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCTGA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCGA
* * **
2595008 TATGCTAAGTCAAAGCCAACGATATTGGACTTAAAGATAACAAAGGTG
66 TATGCTAATTCAAAGCCAACGATATTGGACTTAAAGATGACAAAGGCA
2595056 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCGA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCGA
* ** * * * **
2595121 TATGCTAATTCAAAGCTAGGGATGTTAGACCTAAAGATGACAAAGGTG
66 TATGCTAATTCAAAGCCAACGATATTGGACTTAAAGATGACAAAGGCA
* * ** ** *
2595169 CTAGTGTGCTAATTCAAGGCTGACGACATTAAGCTTAAAGATGAAAAGAATGATAAAGGTGCCGA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCGA
* * *
2595234 TATGTTGATTCAAAGCCAGCGATATTGGACTTAAAGATGACAAAGGCA
66 TATGCTAATTCAAAGCCAACGATATTGGACTTAAAGATGACAAAGGCA
* * * * * **
2595282 CTAATATACTGATTCAAGGCTAGTGACATTGGGCTTA
1 CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTA
2595319 GAAGGAGATG
Statistics
Matches: 317, Mismatches: 58, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
113 317 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.23
Consensus pattern (113 bp):
CCAATGTGCTAATTCAAGGCCAACGACATTGGGCTTAAAGATGAGAAGAATGATAAAGGTGCCGA
TATGCTAATTCAAAGCCAACGATATTGGACTTAAAGATGACAAAGGCA
Found at i:2595365 original size:34 final size:34
Alignment explanation
Indices: 2595327--2595444 Score: 177
Period size: 34 Copynumber: 3.5 Consensus size: 34
2595317 TAGAAGGAGA
* *
2595327 TGCCACCAACTTGTATTGGCTTTAGAGAAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGAGGT
**
2595361 TGCCATTAACTTGTGTGGGCTTTAGAGAAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGAGGT
*
2595395 TGCCACCAGCTTGTGTGGGCTTTAGAGAA-AGG-
1 TGCCACCAACTTGTGTGGGCTTTAGAGAAGAGGT
2595427 TGCCACCAACTTGTGTGG
1 TGCCACCAACTTGTGTGG
2595445 ATTTAAAAGG
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
32 17 0.22
33 3 0.04
34 56 0.74
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (34 bp):
TGCCACCAACTTGTGTGGGCTTTAGAGAAGAGGT
Found at i:2595585 original size:56 final size:56
Alignment explanation
Indices: 2595464--2596279 Score: 559
Period size: 56 Copynumber: 14.3 Consensus size: 56
2595454 GATGTTACTA
* * * ** *
2595464 ACTTGTGGG-TTTTAAAAGAAAGCCACTGACTTA-TGGGCTTTGAAATGAAGCCACTG
1 ACTTGTGGGCTTTGAAAAG-ATGCCACTGAC-TAGTGGGCTTTGAAAGGGTGCCATTG
* * * *
2595520 ATTTCTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTT-AGAAGGGTGCCATTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGA-AAGGGTGCCATTG
* ** * *
2595576 ACTCT-TGGGCTTTAAAAAAAAAGATGCCACCAACTTGTGTGGGCTTTG-AAGAGGTGCCACT-
1 ACT-TGTGGGCTTT----GAAAAGATGCCACTGAC-T-AGTGGGCTTTGAAAG-GGTGCCATTG
* * * * * *
2595637 AGCTTGTTGGCTTTGAAAAGATGCCACTAACTCGTGGGCTTTGAAAGGATGCTACTG
1 A-CTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
* * * * *
2595694 ACTTGTGGGCTTTGAAAGGATGCTAGTGACTTGTGGGCTTTGAAAGGATGCCATTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
* * * * * *
2595750 ACTTATGGGCTTTGAAAGGGTGCCACTGACTAGCGGGCTTTGTAAGGGTGCCACTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
* ** *
2595806 ACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGCTTTG-AAGAGGTGCCATTG
1 ACTTGTGGGCTTTG----AAAAGATGCCACTGAC-T-AGTGGGCTTTGAAAG-GGTGCCATTG
* * * * * *
2595868 GCTTGTTGACTTTGAAAAGATGCCATTGACTCGTGGGCTTTG--AGGATGCCATTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
** * ** * * *
2595922 AAC-CATGGGCTTTGAAAGGATGTTACTGACTCGTGGGCTTTGAAAGGATGCTATTG
1 -ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
* * * * *
2595978 ACTTGTGGGCTTTGAAAGGATGCCATTGACATA-TGGGCTTTGAAAAGGTGTCA-TA
1 ACTTGTGGGCTTTGAAAAGATGCCACTGAC-TAGTGGGCTTTGAAAGGGTGCCATTG
* * *
2596033 ACTTATGGGCTTTGAAAAGGTGCCACTAACATA-TGGGCTTTAGAAGAGGGTTGCCATTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGAC-TAGTGGGCTTT-GAA-AGGG-TGCCATTG
* * * *
2596092 ACTTGTGGGCTTTG-AAAGGTGCCATTGACTTA-TGGGCTTTGAAAGGATGCCACTG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGAC-TAGTGGGCTTTGAAAGGGTGCCATTG
* * * * * * **
2596147 AGTTGTGGCCTTTGAAAAGGTGCCATTGAC-ATGTGAGCTTTGAAAGGATGCCACAG
1 ACTTGTGGGCTTTGAAAAGATGCCACTGACTA-GTGGGCTTTGAAAGGGTGCCATTG
* * * *
2596203 ACTTGTGGGCTTTAAAAAGGGTGGCACTGAC-ATGTAGGCTTTGAAAAGGGTGCCATTG
1 ACTTGTGGGCTTTGAAAA-GATGCCACTGACTA-GTGGGCTTTG-AAAGGGTGCCATTG
* *
2596261 TCATGTGGGCTTTGAAAAG
1 ACTTGTGGGCTTTGAAAAG
2596280 GTGTCGTATT
Statistics
Matches: 612, Mismatches: 111, Indels: 73
0.77 0.14 0.09
Matches are distributed among these distances:
54 41 0.07
55 64 0.10
56 282 0.46
57 42 0.07
58 81 0.13
59 14 0.02
60 24 0.04
61 10 0.02
62 54 0.09
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (56 bp):
ACTTGTGGGCTTTGAAAAGATGCCACTGACTAGTGGGCTTTGAAAGGGTGCCATTG
Found at i:2595705 original size:174 final size:173
Alignment explanation
Indices: 2595422--2595762 Score: 411
Period size: 174 Copynumber: 2.0 Consensus size: 173
2595412 GGCTTTAGAG
* ** * *
2595422 AAAGGTGCCACCAACTTGTGTGGATTTAAAAGGATGTTACTAACTTGTGGGTTTTAAAAGAAAGC
1 AAAGATGCCACCAACTTGTGTGGATTTAAAAGGATGCCACTAACTTGTGGCTTTGAAAAGAAAGC
* * * * *
2595487 CACTGACTTATGGGCTTTGAAATGAAGCCACTGATTTCTGGGCTTTGAAAGGGTGCCACTGACTA
66 CACTAACTCATGGGCTTTGAAAGGAAGCCACTGACTTCTGGGCTTTGAAAGGATGCCACTGACTA
*
2595552 GTGGGCTTT-AGAAGGGTGCCATTGACTCT-TGGGCTTTAAAAAA
131 GTGGGCTTTGA-AAGGATGCCATTGACT-TATGGGCTTTAAAAAA
* * *
2595595 AAAGATGCCACCAACTTGTGTGGGCTTTGAAGAGG-TGCCACTAGCTTGTTGGCTTTGAAAAG-A
1 AAAGATGCCACCAACTTGTGT-GGATTT-AAAAGGATGCCACTAACTTG-TGGCTTTGAAAAGAA
* * * * * * *
2595658 TGCCACTAACTCGTGGGCTTTGAAAGGATGCTACTGACTTGTGGGCTTTGAAAGGATGCTAGTGA
63 AGCCACTAACTCATGGGCTTTGAAAGGAAGCCACTGACTTCTGGGCTTTGAAAGGATGCCACTGA
*
2595723 CTTGTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTT
128 CTAGTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTT
2595763 GAAAGGGTGC
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
173 21 0.15
174 103 0.73
175 17 0.12
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (173 bp):
AAAGATGCCACCAACTTGTGTGGATTTAAAAGGATGCCACTAACTTGTGGCTTTGAAAAGAAAGC
CACTAACTCATGGGCTTTGAAAGGAAGCCACTGACTTCTGGGCTTTGAAAGGATGCCACTGACTA
GTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTTAAAAAA
Found at i:2595761 original size:230 final size:231
Alignment explanation
Indices: 2595368--2596260 Score: 881
Period size: 230 Copynumber: 3.9 Consensus size: 231
2595358 GGTTGCCATT
* *
2595368 AACTTGTGTGGGCTTTAGAGAAGAGGTTGCCACCAGCTTGTGTGGGCTTTAGAGAAAGGTGCCAC
1 AACTTGTGTGGGCTTT--AGAAGAGGTTGCCACTAGCTTGT-T-GGCTTT-GA-AAAGATGCCAC
* * * * ** * * * * * *
2595433 CAACTTGTGTGGATTTAAAAGGATGTTACTAACTTGTGGGTTTTAAAAGAAAGCCACTGACTTAT
60 TAACTCGTG-GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGT
* * * *
2595498 GGGCTTTGAAATGAAGCCACTGATTTCTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTT-A
124 GGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGA
2595562 GAAGGGTGCCATTGACTCTTGGGCTTTAAAAAAAAAGATGCCACC
189 -AAGGGTGCCATTGACTCTTGGGCTTT-AAAAAAAAGATGCCACC
2595607 AACTTGTGTGGGCTTT-GAAGAGG-TGCCACTAGCTTGTTGGCTTTGAAAAGATGCCACTAACTC
1 AACTTGTGTGGGCTTTAGAAGAGGTTGCCACTAGCTTGTTGGCTTTGAAAAGATGCCACTAACTC
* * *
2595670 GTGGGCTTTGAAAGGATGCTACTGACTTGTGGGCTTTGAAAGGATGCTAGTGACTTGTGGGCTTT
66 GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
* * * *
2595735 GAAAGGATGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTGACTAGCGGGCTTTGTAAGGGTG
131 GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTG
* *
2595800 CCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACC
196 CCATTGACTCTTGGGCTTT-AAAAAAAAGATGCCACC
* * * * *
2595837 AACTTGTGTGGGCTTT-GAAGAGG-TGCCATTGGCTTGTTGACTTTGAAAAGATGCCATTGACTC
1 AACTTGTGTGGGCTTTAGAAGAGGTTGCCACTAGCTTGTTGGCTTTGAAAAGATGCCACTAACTC
* ** ** *
2595900 GTGGGCTTTG--AGGATGCCATTGAAC-CATGGGCTTTGAAAGGATGTTACTGACTCGTGGGCTT
66 GTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTT
* * * * *
2595962 TGAAAGGATGCTATTGACTTGTGGGCTTTGAAAGGATGCCATTGACATA-TGGGCTTTGAAAAGG
130 TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC-TAGTGGGCTTTGAAAGGG
* * * * *
2596026 TGTCA-TAACT-TATGGGCTTT---GAAAAGGTGCCACT
194 TGCCATTGACTCT-TGGGCTTTAAAAAAAAGATGCCACC
* * * * * * *
2596060 AAC--ATATGGGCTTTAGAAGAGGGTTGCCA-TTGACTTGTGGGCTTTG-AAAGGTGCCATTGAC
1 AACTTGTGTGGGCTTTAGAAGA-GGTTGCCACTAG-CTTGTTGGCTTTGAAAAGATGCCACTAAC
** * * * * *
2596121 TTATGGGCTTTGAAAGGATGCCACTGAGTTGTGGCCTTTGAAAAGG-TGCCATTGACATGTGAGC
64 TCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGC
* * * *
2596185 TTTGAAAGGATGCCACAGACTTGTGGGCTTTAAAAAGGGTGGCACTGAC-ATGTAGGCTTTGAAA
128 TTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGACTA-GTGGGCTTTG-AA
2596249 AGGGTGCCATTG
190 AGGGTGCCATTG
2596261 TCATGTGGGC
Statistics
Matches: 557, Mismatches: 80, Indels: 45
0.82 0.12 0.07
Matches are distributed among these distances:
221 9 0.02
222 5 0.01
223 42 0.08
224 18 0.03
225 59 0.11
226 26 0.05
227 21 0.04
228 101 0.18
229 4 0.01
230 210 0.38
231 17 0.03
232 2 0.00
233 6 0.01
234 1 0.00
235 13 0.02
236 7 0.01
239 16 0.03
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (231 bp):
AACTTGTGTGGGCTTTAGAAGAGGTTGCCACTAGCTTGTTGGCTTTGAAAAGATGCCACTAACTC
GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
GAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTGAAAGGGTG
CCATTGACTCTTGGGCTTTAAAAAAAAGATGCCACC
Found at i:2595905 original size:146 final size:144
Alignment explanation
Indices: 2595645--2596176 Score: 356
Period size: 141 Copynumber: 3.8 Consensus size: 144
2595635 CTAGCTTGTT
* * * * **
2595645 GGCTTTGAAAAGATGCCACTAACTCGTGGGCTTTG----AAAGGATGCTACTGAC-T-TGTGGGC
1 GGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGC
* * * *
2595704 TTTGAAAGGATGCTAGTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTTGAAAGG
66 TTTGAAAGGATGCCAGTGACTTGTGGACTTTGAAAAGATGCCATTGACTCATGGGCTTTG--AGG
* *
2595769 GTGCCACTG-ACTAGCG
129 ATGCCACTGAACCA-CG
* *
2595785 GGCTTTGTAAGGGTGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGC
1 GGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGC
* * * *
2595850 TTTGAAGAGG-TGCCATTGGCTTGTTGACTTTGAAAAGATGCCATTGACTCGTGGGCTTTGAGGA
66 TTTGAA-AGGATGCCAGTGACTTGTGGACTTTGAAAAGATGCCATTGACTCATGGGCTTTGAGGA
* *
2595914 TGCCATTGAACCATG
130 TGCCACTGAACCACG
** * * ***
2595929 GGCTTTGAAAGGATGTTACTGACTCGTGGGCTTTG----AAAGGATGCTATTGAC-T-TGTGGGC
1 GGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGC
* * * * * * * *
2595988 TTTGAAAGGATGCCATTGACATATGGGCTTTGAAAAGGTGTCA-TAACTTATGGGCTTTGAAAAG
66 TTTGAAAGGATGCCAGTGACTTGTGGACTTTGAAAAGATGCCATTGACTCATGGGCTTTG---AG
* *
2596052 G-TGCCACT-AACATATG
128 GATGCCACTGAAC-CACG
* * * * *** *
2596068 GGCTTTAGAAGAGGGTTGCCATTGACTTGTGGGCTTTG-----AAAGGTGCCATTGAC-T-TATG
1 GGCTTT-GAA-A-GGATGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTG
* * * *
2596126 GGCTTTGAAAGGATGCCACTGAGTTGTGGCCTTTGAAAAGGTGCCATTGAC
63 GGCTTTGAAAGGATGCCAGTGACTTGTGGACTTTGAAAAGATGCCATTGAC
2596177 ATGTGAGCTT
Statistics
Matches: 318, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
137 16 0.05
138 42 0.13
139 16 0.05
140 48 0.15
141 57 0.18
142 23 0.07
144 54 0.17
145 4 0.01
146 55 0.17
147 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (144 bp):
GGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTGTGGGC
TTTGAAAGGATGCCAGTGACTTGTGGACTTTGAAAAGATGCCATTGACTCATGGGCTTTGAGGAT
GCCACTGAACCACG
Found at i:2595936 original size:172 final size:171
Alignment explanation
Indices: 2595497--2596164 Score: 447
Period size: 174 Copynumber: 3.9 Consensus size: 171
2595487 CACTGACTTA
* * * * * * * * *
2595497 TGGGCTTTGAAATGAAGCCACTGATTTCTGGGCTTTGAAAGGGTGCCACTGACTAGTGGGCTTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAGTGACTCGTGGGCTTT-
* * * * ** * *
2595562 GAAGGGTGCCATTGACTCTTGGGCTTTAAAAAAAAAGATGCCACCAACTTGTGTGGGCTTTGAAG
65 GAAGGATGCCATTGACTCATGGGCTTT----GAAAGGATGCCACTGAC-T-AGCGGGCTTTGAA-
* * *
2595627 AGG-TGCCACT-AGCTTGTTGGCTTTG----AAAAGATGCCACTAACTCG
123 AGGATGCCACTGA-CTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTCG
* * * * *
2595671 TGGGCTTTGAAAGGATGCTACTGACTTGTGGGCTTTGAAAGGATGCTAGTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAGTGACTCGTGGGCTTTG
* * * *
2595736 AAAGGATGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTGACTAGCGGGCTTTGTAAGGGTGC
66 -AAGGATGCCATTGACTCATGGGCTTTGAAAGGATGCCACTGACTAGCGGGCTTTGAAAGGATGC
*
2595801 CACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTTGTG
130 CACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAAC-T-CG
* * * *
2595845 TGGGCTTTGAAGAGG-TGCCATTGGCTTGTTGACTTTGAAAAGATGCCATTGACTCGTGGGCTTT
1 TGGGCTTTGAA-AGGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAGTGACTCGTGGGCTTT
** * *
2595909 G-AGGATGCCATTGAAC-CATGGGCTTTGAAAGGATGTTACTGACTCGTGGGCTTTGAAAGGATG
65 GAAGGATGCCATTG-ACTCATGGGCTTTGAAAGGATGCCACTGACTAGCGGGCTTTGAAAGGATG
* * * * *** *
2595972 CTATTGACTTGTGGGCTTTG----AAAGGATGCCATTGACAT-A
129 CCACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAAC-TCG
* * * * * * * *
2596011 TGGGCTTTGAAAAGG-TGTCA-TAACTTATGGGCTTTGAAAAGGTGCCACTAACAT-ATGGGCTT
1 TGGGCTTTG-AAAGGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAGTGAC-TCGTGGGCTT
* ** * *
2596073 TAGAAGAGGGTTGCCATTGACTTGTGGGCTTTGAAAGG-TGCCATTGACTTA-TGGGCTTTGAAA
64 T-G-A-A-GGATGCCATTGACTCATGGGCTTTGAAAGGATGCCACTGAC-TAGCGGGCTTTGAAA
* * *
2596136 GGATGCCACTGAGTTGTGGCCTTTGAAAA
124 GGATGCCACTGACTCGTGGGCTTTGAAAA
2596165 GGTGCCATTG
Statistics
Matches: 399, Mismatches: 71, Indels: 49
0.77 0.14 0.09
Matches are distributed among these distances:
165 32 0.08
166 18 0.05
167 5 0.01
168 41 0.10
169 45 0.11
170 37 0.09
172 83 0.21
173 4 0.01
174 131 0.33
175 3 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (171 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAAGATGCCAGTGACTCGTGGGCTTTG
AAGGATGCCATTGACTCATGGGCTTTGAAAGGATGCCACTGACTAGCGGGCTTTGAAAGGATGCC
ACTGACTCGTGGGCTTTGAAAAAAAAGATGCCACCAACTCG
Found at i:2596047 original size:27 final size:28
Alignment explanation
Indices: 2595485--2596282 Score: 392
Period size: 28 Copynumber: 28.0 Consensus size: 28
2595475 TTAAAAGAAA
* * **
2595485 GCCACTGACTTATGGGCTTTGAAATGAA
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* * * *
2595513 GCCACTGATTTCTGGGCTTTGAAAGGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* *
2595541 GCCACTGAC-TAGTGGGCTTT-AGAAGGGT
1 GCCATTGACTTA-TGGGCTTTGA-AAAGGT
* *
2595569 GCCATTGACTCT-TGGGCTTTAAAAAAAAAGAT
1 GCCATTGACT-TATGGGCTTT----GAAAAGGT
*** * *
2595601 GCCACCAACTTGTGTGGGCTTTGAAGAGGT
1 GCCATTGAC-T-TATGGGCTTTGAAAAGGT
* * * *
2595631 GCCACT-AGCTTGTTGGCTTTGAAAAGAT
1 GCCATTGA-CTTATGGGCTTTGAAAAGGT
* * **
2595659 GCCACTAACTCGTGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
* * *
2595687 GCTACTGACTTGTGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
* * *
2595715 GCTAGTGACTTGTGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
*
2595743 GCCATTGACTTATGGGCTTTGAAAGGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* * * *
2595771 GCCACTGAC-TAGCGGGCTTTGTAAGGGT
1 GCCATTGACTTA-TGGGCTTTGAAAAGGT
* ** *
2595799 GCCACTGACTCGTGGGCTTTGAAAAAAAAGAT
1 GCCATTGACTTATGGGCTTTG----AAAAGGT
*** * *
2595831 GCCACCAACTTGTGTGGGCTTTGAAGAGGT
1 GCCATTGAC-T-TATGGGCTTTGAAAAGGT
* * * * *
2595861 GCCATTGGCTTGTTGACTTTGAAAAGAT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
**
2595889 GCCATTGACTCGTGGGCTTTG---AGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
*
2595915 GCCATTGAAC-CATGGGCTTTG-AAAGGAT
1 GCCATTG-ACTTATGGGCTTTGAAAAGG-T
** * **
2595943 GTTACTGACTCGTGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
* *
2595971 GCTATTGACTTGTGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
*
2595999 GCCATTGACATATGGGCTTTGAAAAGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* *
2596027 GTCA-TAACTTATGGGCTTTGAAAAGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* * * *
2596054 GCCACTAACATATGGGCTTTAGAAGAGGGTT
1 GCCATTGACTTATGGGCTTT-GAA-AAGG-T
*
2596085 GCCATTGACTTGTGGGCTTTG-AAAGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
2596112 GCCATTGACTTATGGGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
* * * *
2596140 GCCACTGAGTTGTGGCCTTTGAAAAGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
* * *
2596168 GCCATTGACATGTGAGCTTTG-AAAGGAT
1 GCCATTGACTTATGGGCTTTGAAAAGG-T
** * *
2596196 GCCACAGACTTGTGGGCTTTAAAAAGGGT
1 GCCATTGACTTATGGGCTTTGAAAA-GGT
* * * * *
2596225 GGCACTGACATGTAGGCTTTGAAAAGGGT
1 GCCATTGACTTATGGGCTTTGAAAA-GGT
* * *
2596254 GCCATTGTCATGTGGGCTTTGAAAAGGT
1 GCCATTGACTTATGGGCTTTGAAAAGGT
2596282 G
1 G
2596283 TCGTATTAAC
Statistics
Matches: 627, Mismatches: 105, Indels: 76
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.00
26 18 0.03
27 67 0.11
28 381 0.61
29 71 0.11
30 28 0.04
31 17 0.03
32 21 0.03
33 4 0.01
34 18 0.03
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
GCCATTGACTTATGGGCTTTGAAAAGGT
Found at i:2596162 original size:169 final size:169
Alignment explanation
Indices: 2595927--2596282 Score: 432
Period size: 169 Copynumber: 2.1 Consensus size: 169
2595917 CATTGAACCA
** * * * *
2595927 TGGGCTTTGAAAGGATGTTACTGACTCGTGGGCTTTGAAAGGATGCTATTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAGG-TGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGCCTTTG
* * * *
2595992 -AAAGGATGCCATTGACATATGGGCTTTGAAAAGG-TGTCATA-ACTTATGGGCTTTGAAAA-GG
65 AAAAGG-TGCCATTGACATATGAGCTTTG-AAAGGATGCCACAGACTTATGGGCTTTAAAAAGGG
* * *
2596053 TGCCACTAACATATGGGCTTTAGAAGAGGGTTGCCATTGACTTG
128 TGCCACTAACATATAGGCTTT-GAAAAGGG-TGCCATTGACATG
* * *
2596097 TGGGCTTTGAAAGGTGCCATTGACTTATGGGCTTTGAAAGGATGCCACTGAGTTGTGGCCTTTGA
1 TGGGCTTTGAAAGGTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGCCTTTGA
* * *
2596162 AAAGGTGCCATTGACATGTGAGCTTTGAAAGGATGCCACAGACTTGTGGGCTTTAAAAAGGGTGG
66 AAAGGTGCCATTGACATATGAGCTTTGAAAGGATGCCACAGACTTATGGGCTTTAAAAAGGGTGC
* * *
2596227 CACTGACATGTAGGCTTTGAAAAGGGTGCCATTGTCATG
131 CACTAACATATAGGCTTTGAAAAGGGTGCCATTGACATG
2596266 TGGGCTTTGAAAAGGTG
1 TGGGCTTTG-AAAGGTG
2596283 TCGTATTAAC
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
168 5 0.03
169 86 0.54
170 49 0.31
171 19 0.12
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (169 bp):
TGGGCTTTGAAAGGTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGCCTTTGA
AAAGGTGCCATTGACATATGAGCTTTGAAAGGATGCCACAGACTTATGGGCTTTAAAAAGGGTGC
CACTAACATATAGGCTTTGAAAAGGGTGCCATTGACATG
Found at i:2596257 original size:114 final size:112
Alignment explanation
Indices: 2595485--2596282 Score: 441
Period size: 118 Copynumber: 7.0 Consensus size: 112
2595475 TTAAAAGAAA
* * * * * * * * *
2595485 GCCACTGACTTATGGGCTTTGAAATGAAGCCACTGATTTCTGGGCTTTGAAAGGGTGCCACTGAC
1 GCCACTAACATATGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATTGAC
* * *
2595550 -TAGTGGGCTTT-AGAAGGGTGCCATTGACTCT-TGGGCTTTAAAAAAAAAGAT
66 ATA-TGGGCTTTGAAAAGGGTGCCA-TGACT-TGTGGGCTTT----GAAAAGGT
* * * * * * * * *
2595601 GCCACCAACTTGTGTGGGCTTTGAAGAGG-TGCCACT-AGCTTGTTGGCTTTGAAAAGATGCCAC
1 GCCACTAAC--ATATGAGCTTTGAA-AGGATGCCATTGA-CTTGTGGGCTTTGAAAGGGTGCCAT
* * * *
2595664 TAAC-TCGTGGGCTTTG-AAAGGATGCTACTGACTTGTGGGCTTTG-AAAGGAT
62 TGACAT-ATGGGCTTTGAAAAGGGTGCCA-TGACTTGTGGGCTTTGAAAAGG-T
* * * * * * * *
2595715 GCTAGTGACTTGTGGGCTTTGAAAGGATGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTGAC
1 GCCACTAACATATGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATTGAC
* * * *
2595780 -TAGCGGGCTTTG-TAAGGGTGCCACTGACTCGTGGGCTTTGAAAAAAAAGAT
66 ATA-TGGGCTTTGAAAAGGGTGCCA-TGACTTGTGGGCTTTG----AAAAGGT
* * * * * * * * *
2595831 GCCACCAACTTGTGTGGGCTTTGAAGAGG-TGCCATTGGCTTGTTGACTTTGAAAAGATGCCATT
1 GCCACTAAC--ATATGAGCTTTGAA-AGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATT
* * **
2595895 GAC-TCGTGGGCTTTG---AGGATGCCATTGAAC-CATGGGCTTTG-AAAGGAT
63 GACAT-ATGGGCTTTGAAAAGGGTGCCA-TG-ACTTGTGGGCTTTGAAAAGG-T
** * * * * *
2595943 GTTACTGAC-TCGTGGGCTTTGAAAGGATGCTATTGACTTGTGGGCTTTGAAAGGATGCCATTGA
1 GCCACTAACAT-ATGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATTGA
* * *
2596007 CATATGGGCTTTGAAAA-GGTGTCATAACTTATGGGCTTTGAAAAGGT
65 CATATGGGCTTTGAAAAGGGTGCCATGACTTGTGGGCTTTGAAAAGGT
* *
2596054 GCCACTAACATATGGGCTTTAGAAGAGGGTTGCCATTGACTTGTGGGCTTTGAAA-GGTGCCATT
1 GCCACTAACATATGAGCTTT-GAA-A-GGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATT
* * * *
2596118 GACTTATGGGCTTTG-AAAGGATGCCACTGAGTTGTGGCCTTTGAAAAGGT
63 GACATATGGGCTTTGAAAAGGGTGCCA-TGACTTGTGGGCTTTGAAAAGGT
* * * ** * * *
2596168 GCCATTGACATGTGAGCTTTGAAAGGATGCCACAGACTTGTGGGCTTTAAAAAGGGTGGCACTGA
1 GCCACTAACATATGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTT-GAAAGGGTGCCATTGA
* * * *
2596233 CATGTAGGCTTTGAAAAGGGTGCCATTGTCATGTGGGCTTTGAAAAGGT
65 CATATGGGCTTTGAAAAGGGTGCCA-TGACTTGTGGGCTTTGAAAAGGT
2596282 G
1 G
2596283 TCGTATTAAC
Statistics
Matches: 541, Mismatches: 102, Indels: 80
0.75 0.14 0.11
Matches are distributed among these distances:
109 4 0.01
110 56 0.10
111 55 0.10
112 103 0.19
113 56 0.10
114 97 0.18
116 33 0.06
117 8 0.01
118 124 0.23
119 5 0.01
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (112 bp):
GCCACTAACATATGAGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAAAGGGTGCCATTGAC
ATATGGGCTTTGAAAAGGGTGCCATGACTTGTGGGCTTTGAAAAGGT
Found at i:2614190 original size:13 final size:13
Alignment explanation
Indices: 2614171--2614201 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2614161 ACAACTCTTC
2614171 ATGTATCGATACA
1 ATGTATCGATACA
*
2614184 TTGTATCGATACA
1 ATGTATCGATACA
2614197 ATGTA
1 ATGTA
2614202 CCATTTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2614211 original size:33 final size:33
Alignment explanation
Indices: 2614152--2614216 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
2614142 TTTGAGAGAA
*
2614152 TGTATCGATACAACTCTTCATGTATCGATACAT
1 TGTATCGATACAACTCTCCATGTATCGATACAT
* *
2614185 TGTATCGATACAA-TGTACCATTTATCGATACA
1 TGTATCGATACAACTCT-CCATGTATCGATACA
2614217 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAACTCTCCATGTATCGATACAT
Found at i:2614290 original size:19 final size:18
Alignment explanation
Indices: 2614245--2614302 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
2614235 ACTGCCAGTT
2614245 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
*
2614264 TGCATGTATTGATACAATG
1 T-CATGTATCGATACAATG
2614283 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
2614302 T
1 T
2614303 ATCGATACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.54
20 15 0.43
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:2614304 original size:13 final size:13
Alignment explanation
Indices: 2614286--2614311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2614276 TACAATGATC
2614286 ATGTATCGATACA
1 ATGTATCGATACA
2614299 ATGTATCGATACA
1 ATGTATCGATACA
2614312 TCTGGATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2617980 original size:16 final size:17
Alignment explanation
Indices: 2617953--2617984 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2617943 GTTTTATCAA
2617953 CATTTCTTCTATTAAAT
1 CATTTCTTCTATTAAAT
2617970 CATTT-TTCTATTAAA
1 CATTTCTTCTATTAAA
2617985 AAATTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (17 bp):
CATTTCTTCTATTAAAT
Found at i:2622735 original size:13 final size:13
Alignment explanation
Indices: 2622717--2622741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2622707 CAATTCTTCA
2622717 TGTATCGATACAT
1 TGTATCGATACAT
2622730 TGTATCGATACA
1 TGTATCGATACA
2622742 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2622757 original size:33 final size:32
Alignment explanation
Indices: 2622697--2622761 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
2622687 TTTGAGAGAA
*
2622697 TGTATCGATACAATTCTTCATGTATCGATACAT
1 TGTATCGATACAATTC-TCATGCATCGATACAT
2622730 TGTATCGATACAATGTGC-CATGCATCGATACA
1 TGTATCGATACAAT-T-CTCATGCATCGATACA
2622762 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAATTCTCATGCATCGATACAT
Found at i:2622835 original size:19 final size:19
Alignment explanation
Indices: 2622790--2622863 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
2622780 ACTTCCAGTT
*
2622790 TCATGTATCAATACAATTG-
1 TCATGTATCGATACAA-TGA
*
2622809 TGCATGTATTGATACAATGA
1 T-CATGTATCGATACAATGA
*
2622829 TCATGTATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
2622849 TTATGTATCGATACA
1 TCATGTATCGATACA
2622864 TCTGGATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:2628029 original size:92 final size:93
Alignment explanation
Indices: 2627882--2628056 Score: 264
Period size: 93 Copynumber: 1.9 Consensus size: 93
2627872 AATAAGTTGA
* * *
2627882 GTATCGATACTTGCTGTCCAAAAATCAAATTTTAGCTACTACTAAGGCCATGTATCGATACAATC
1 GTATCGATACATGCTATCCAAAAATCAAATTTTAGCTACTACCAAGGCCATGTATCGATACAATC
2627947 ACACTAGGTATCGATACCTAGCCTTCAT
66 ACACTAGGTATCGATACCTAGCCTTCAT
* * **
2627975 GTATCGATACATGCTATCCAAATATCGAAA-TTTAGCTATTACCAAGG-TTTGTATCGATACAAT
1 GTATCGATACATGCTATCCAAAAATC-AAATTTTAGCTACTACCAAGGCCATGTATCGATACAAT
2628038 CACACTAGGTATCGATACC
65 CACACTAGGTATCGATACC
2628057 ACACCCTGCG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
92 33 0.45
93 38 0.51
94 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (93 bp):
GTATCGATACATGCTATCCAAAAATCAAATTTTAGCTACTACCAAGGCCATGTATCGATACAATC
ACACTAGGTATCGATACCTAGCCTTCAT
Found at i:2628536 original size:20 final size:19
Alignment explanation
Indices: 2628508--2628549 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
2628498 TCGATACAAC
* *
2628508 AAGTTAATGTATTGATACAT
1 AAGTGAATGTATCGATAC-T
2628528 AAGTGAATGTATCGATACT
1 AAGTGAATGTATCGATACT
2628547 AAG
1 AAG
2628550 GCTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (19 bp):
AAGTGAATGTATCGATACT
Found at i:2632720 original size:21 final size:21
Alignment explanation
Indices: 2632696--2632745 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2632686 AGAAAAGACA
*
2632696 AAGAAGAAAAAGAAAAAAATG
1 AAGAAAAAAAAGAAAAAAATG
* *
2632717 AAGAAAAAAAAGCATAAAATG
1 AAGAAAAAAAAGAAAAAAATG
2632738 AA-AAAAAA
1 AAGAAAAAA
2632746 GTGTAAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (21 bp):
AAGAAAAAAAAGAAAAAAATG
Found at i:2632721 original size:18 final size:20
Alignment explanation
Indices: 2632684--2632724 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
2632674 AATAAGAAAT
2632684 AAAGAAAAGACAAAGAAGAA
1 AAAGAAAAGACAAAGAAGAA
*
2632704 AAAGAAAA-A-AATGAAGAA
1 AAAGAAAAGACAAAGAAGAA
2632722 AAA
1 AAA
2632725 AAAGCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 1 0.05
20 8 0.40
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.02
Consensus pattern (20 bp):
AAAGAAAAGACAAAGAAGAA
Found at i:2633011 original size:16 final size:15
Alignment explanation
Indices: 2632983--2633016 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2632973 AAAGTAAAAA
*
2632983 AAAGAAGAGAAAGAG
1 AAAGAAGAAAAAGAG
2632998 AAAGAAAGAAAAAGAG
1 AAAG-AAGAAAAAGAG
2633014 AAA
1 AAA
2633017 ATAGAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAAAAGAG
Found at i:2633093 original size:26 final size:27
Alignment explanation
Indices: 2633054--2633112 Score: 102
Period size: 26 Copynumber: 2.2 Consensus size: 27
2633044 AACCCCAAAA
2633054 AAAAATGGGCAGTCTAAAGTAAAGTGG
1 AAAAATGGGCAGTCTAAAGTAAAGTGG
*
2633081 AAAAAT-GGTAGTCTAAAGTAAAGTGG
1 AAAAATGGGCAGTCTAAAGTAAAGTGG
2633107 AAAAAT
1 AAAAAT
2633113 TTTCTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.49, C:0.05, G:0.25, T:0.20
Consensus pattern (27 bp):
AAAAATGGGCAGTCTAAAGTAAAGTGG
Found at i:2633443 original size:100 final size:100
Alignment explanation
Indices: 2633332--2633512 Score: 263
Period size: 100 Copynumber: 1.8 Consensus size: 100
2633322 AATTTGTTTA
* * ** *
2633332 ATTTTTGAAGAAATTCATATTTTGTACAACATGATCCATTTGTGCCTAAGAAAATGAGGCATGTA
1 ATTTTTGAAGAAATTCATATTTTATACAACATGATCCATTCGAACCTAAGAAAATGAGGCATGCA
*
2633397 TCCTATTAGTTTTAAAGCCAACATCAAATTTATCT
66 TCCTATTAGTTCTAAAGCCAACATCAAATTTATCT
** ** *
2633432 ATTTTTGAAGAAATTCATATTTTATATGATTTGATCCATTCGAACCTAGGAAAATGAGGCATGCA
1 ATTTTTGAAGAAATTCATATTTTATACAACATGATCCATTCGAACCTAAGAAAATGAGGCATGCA
2633497 TCCTATTAGTTCTAAA
66 TCCTATTAGTTCTAAA
2633513 ATTTTTGAGC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (100 bp):
ATTTTTGAAGAAATTCATATTTTATACAACATGATCCATTCGAACCTAAGAAAATGAGGCATGCA
TCCTATTAGTTCTAAAGCCAACATCAAATTTATCT
Found at i:2634140 original size:88 final size:87
Alignment explanation
Indices: 2634048--2634240 Score: 255
Period size: 87 Copynumber: 2.2 Consensus size: 87
2634038 ATTGGCATTG
*** * * *
2634048 GCATCATTTCATATGCATTTGCCATTTTATTGATGCTTGCATTTGCTTTGTTTCACACATATT-T
1 GCATCATTTCATATGCATTTGCCACAATATTGATGCTTACATTGGCATTG-TTCACACAT-TTCT
*
2634112 GCATTTTAAAACACATTAGTGTTT
64 ACATTTTAAAACACATTAGTGTTT
*
2634136 GCATCATTTCATATGCATTTGCCACAATATTGATGCTTACATTGGCATTGTTCATACATTTCTAC
1 GCATCATTTCATATGCATTTGCCACAATATTGATGCTTACATTGGCATTGTTCACACATTTCTAC
**
2634201 ATTTTAAATGACATTAGTGTTT
66 ATTTTAAAACACATTAGTGTTT
2634223 GCAT-AGTTTCATATGCAT
1 GCATCA-TTTCATATGCAT
2634241 ATTGTAGACA
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 3 0.03
87 46 0.49
88 44 0.47
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (87 bp):
GCATCATTTCATATGCATTTGCCACAATATTGATGCTTACATTGGCATTGTTCACACATTTCTAC
ATTTTAAAACACATTAGTGTTT
Found at i:2634604 original size:20 final size:19
Alignment explanation
Indices: 2634579--2634719 Score: 126
Period size: 20 Copynumber: 7.8 Consensus size: 19
2634569 TTTACCCAGA
*
2634579 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTCT-CAT
2634599 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
2634619 TGTATCGAT--A----CAT
1 TGTATCGATACATTCTCAT
2634632 TGTATCGATACATTACTCAT
1 TGTATCGATACATT-CTCAT
2634652 TGTATCGAT--A----CAT
1 TGTATCGATACATTCTCAT
2634665 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-CTCAT
* *
2634685 TGTATCGATACATTTTACAA
1 TGTATCGATACATTCT-CAT
2634705 TGTATCGATACATTC
1 TGTATCGATACATTC
2634720 AGGCATTTTT
Statistics
Matches: 101, Mismatches: 4, Indels: 32
0.74 0.03 0.23
Matches are distributed among these distances:
13 24 0.24
15 2 0.02
18 2 0.02
19 1 0.01
20 71 0.70
21 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATTCTCAT
Found at i:2634638 original size:33 final size:33
Alignment explanation
Indices: 2634596--2634698 Score: 197
Period size: 33 Copynumber: 3.1 Consensus size: 33
2634586 ATACATTTTG
2634596 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
2634629 CATTGTATCGATACATTACTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
2634662 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
2634695 CATT
1 CATT
2634699 TTACAATGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:2634686 original size:53 final size:53
Alignment explanation
Indices: 2634579--2634718 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 53
2634569 TTTACCCAGA
* *
2634579 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTTTACATTGTATCGATACATTGCTCATCGTATCGATACAT
* * *
2634632 TGTATCGATACATTACT-CATTGTATCGATACATTG-T-ATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTACATTGTATCGATACATTGCTCATCG-T--ATCGATACAT
*
2634685 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATTTTACATTGTATCGATACATT
2634719 CAGGCATTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
51 3 0.04
52 3 0.04
53 65 0.86
54 5 0.07
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (53 bp):
TGTATCGATACATTTTACATTGTATCGATACATTGCTCATCGTATCGATACAT
Found at i:2634698 original size:13 final size:13
Alignment explanation
Indices: 2634616--2634679 Score: 86
Period size: 13 Copynumber: 5.4 Consensus size: 13
2634606 ATACATTGCT
2634616 CATTGTATCGATA
1 CATTGTATCGATA
2634629 CATTGTATCGATA
1 CATTGTATCGATA
2634642 CA-T-TA-C--T-
1 CATTGTATCGATA
2634649 CATTGTATCGATA
1 CATTGTATCGATA
2634662 CATTGTATCGATA
1 CATTGTATCGATA
2634675 CATTG
1 CATTG
2634680 CTCATTGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 2 0.04
10 2 0.04
11 2 0.04
12 2 0.04
13 33 0.73
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2637084 original size:51 final size:50
Alignment explanation
Indices: 2637007--2637223 Score: 170
Period size: 51 Copynumber: 4.3 Consensus size: 50
2636997 TTTCATCTCA
** *
2637007 GGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTCTCTTAATCG
1 GGGATACTCCAACT-CCAATTT-ATTTCCAAAACATCAATTTCTCTCAATCG
* * * * *
2637058 GGGATACTCCAACTCCAATTCTATTTCTAAAGCATCGATTTAC-CGCAACCG
1 GGGATACTCCAACTCCAATT-TATTTCCAAAACATCAATTT-CTCTCAATCG
* * * * *
2637109 AGGATACTCCAA-TCCTAGTTTCATCTCCAAAACATCAATTTTTCTTAATCG
1 GGGATACTCCAACTCC-AATTT-ATTTCCAAAACATCAATTTCTCTCAATCG
* * * * * * *
2637160 GGGATACTCTAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAATTG
1 GGGATACTCCAACTCC-AATTTATTTCCAAAACATCAATTTCTCTCAATCG
2637211 GGGATACTCCAAC
1 GGGATACTCCAAC
2637224 CCCGTTATTT
Statistics
Matches: 130, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
50 4 0.03
51 116 0.89
52 10 0.08
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACTCCAATTTATTTCCAAAACATCAATTTCTCTCAATCG
Found at i:2637216 original size:102 final size:102
Alignment explanation
Indices: 2637007--2637222 Score: 272
Period size: 102 Copynumber: 2.1 Consensus size: 102
2636997 TTTCATCTCA
* *
2637007 GGGATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAACT
1 GGGATACTCCAATCCCAGTTTCATCTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAACT
* * * *
2637072 CCAATTCTATTTCTAAAGCATCGATTTACCGCAACCG
66 CCAATTCTATTTCTAAAACACCAATTTACCACAACCG
* * * *
2637109 AGGATACTCCAATCCTAGTTTCATCTCCAAAACATCAATTTTTCTTAATCGGGGATACTCTAACT
1 GGGATACTCCAATCCCAGTTTCATCTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAACT
* * ** **
2637174 CCGATTTTATTT-TCAAAACACCAATTTTTCACAATTG
66 CCAATTCTATTTCT-AAAACACCAATTTACCACAACCG
2637211 GGGATACTCCAA
1 GGGATACTCCAA
2637223 CCCCGTTATT
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
101 1 0.01
102 95 0.99
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (102 bp):
GGGATACTCCAATCCCAGTTTCATCTCCAAAACATCAATTTCTCTTAATCGGGGATACTCCAACT
CCAATTCTATTTCTAAAACACCAATTTACCACAACCG
Found at i:2637245 original size:28 final size:28
Alignment explanation
Indices: 2637213--2637283 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
2637203 CACAATTGGG
**
2637213 GATACTCCAACCCCGTTATTTCATCGGA
1 GATACTCCAACCCCGTTATTTCAGAGGA
* *
2637241 GATACTCCAACCCCGTTATTTCCGAGGG
1 GATACTCCAACCCCGTTATTTCAGAGGA
2637269 GATACTCCAACCCCG
1 GATACTCCAACCCCG
2637284 GCTTTATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATTTCAGAGGA
Found at i:2637357 original size:109 final size:108
Alignment explanation
Indices: 2637160--2637429 Score: 308
Period size: 109 Copynumber: 2.5 Consensus size: 108
2637150 TTCTTAATCG
* * * * * * * * **
2637160 GGGATACTCTAACTCCGATTTTATTTTCAAAACACCAATTTTTCACAAT-TGGGGATACTCCAAC
1 GGGATACTCCAACCCCGACTTTATATCCAAAATACCAATTTTTCATAATCGGGGGGCACTCCAAC
* *
2637224 CCCGTTATTTCATCGGAGATACTCCAACCCCGTTATTTCCGAG
66 CCCGTTATGTCATCGGAGATACTCCAACCCCGTTATTTCCGAA
* ** * *
2637267 GGGATACTCCAACCCCGGCTTTATATCCAAAATATTGATTTTTTCATAATCGGGGGGCACTCTAA
1 GGGATACTCCAACCCCGACTTTATATCCAAAATA-CCAATTTTTCATAATCGGGGGGCACTCCAA
* * * *
2637332 CCCCGTTATGTCATCGGGGATACTCCAATCCTGTTATTTCTGAA
65 CCCCGTTATGTCATCGGAGATACTCCAACCCCGTTATTTCCGAA
* * *
2637376 GGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGGGG
1 GGGATACTCCAACCCCGACTTTATATCCAAAATACCAATTTTTCATAATCGGGG
2637430 ATACTCCAAC
Statistics
Matches: 133, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
107 27 0.20
108 28 0.21
109 78 0.59
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (108 bp):
GGGATACTCCAACCCCGACTTTATATCCAAAATACCAATTTTTCATAATCGGGGGGCACTCCAAC
CCCGTTATGTCATCGGAGATACTCCAACCCCGTTATTTCCGAA
Found at i:2637433 original size:51 final size:51
Alignment explanation
Indices: 2637376--2637491 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
2637366 TATTTCTGAA
* * *
2637376 GGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTTTTCATAATCG
1 GGGATACTCCAACCCCGATTTTAGTTTC-AAAACACCAATTTCTCACAATCG
*
2637427 GGGATACTCCAACTCCGATTTTAGTTTCAAAACACCAATTTCTCACAATCG
1 GGGATACTCCAACCCCGATTTTAGTTTCAAAACACCAATTTCTCACAATCG
*
2637478 AGGATACTCCAACC
1 GGGATACTCCAACC
2637492 TCGTTATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGATTTTAGTTTCAAAACACCAATTTCTCACAATCG
Found at i:2637619 original size:131 final size:130
Alignment explanation
Indices: 2637344--2637619 Score: 301
Period size: 131 Copynumber: 2.1 Consensus size: 130
2637334 CCGTTATGTC
* **
2637344 ATCGGGGATACTCCAATCCTGTTATTTCTGAAGGGATACTCCAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAATCCTGTTATTTCTCAAGGGATACTCCAACCCCGACCTTATTTCTAAAAT
* *
2637409 ACCAATTTTTCATAATCGGGGATACTCCAACTCCGATTTTAGTTTCAAAACACCAATTTCTCACA
66 ACCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTAATTTCAAAACACCAATTTCTCACA
* * * *
2637474 ATCGAGGATACTCCAA-CCTCGTTATTT-TCACGGGGATACTCCAACCCTGGCCTTATTTCTAAA
1 ATCGGGGATACTCCAATCCT-GTTATTTCTCA-AGGGATACTCCAACCCCGACCTTATTTCTAAA
* * * * * ** *
2637537 GCAT-CGATTTTTTCACAATCGGGGATACTCTAAC-CCTGATTTTAATTTTAGAATGCCGATTT-
64 --ATACCAATTTTTCACAATCGGGGATACTCCAACTCC-GATTTTAATTTCAAAACACCAATTTC
*
2637599 TCCATA
126 T-CACA
2637605 ATCGGGGATACTCCA
1 ATCGGGGATACTCCA
2637620 GCCTTGTTGT
Statistics
Matches: 121, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
129 5 0.04
130 52 0.43
131 62 0.51
132 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (130 bp):
ATCGGGGATACTCCAATCCTGTTATTTCTCAAGGGATACTCCAACCCCGACCTTATTTCTAAAAT
ACCAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTAATTTCAAAACACCAATTTCTCACA
Found at i:2643872 original size:61 final size:61
Alignment explanation
Indices: 2643763--2644633 Score: 929
Period size: 61 Copynumber: 14.4 Consensus size: 61
2643753 CCCTTTTAGC
* * * *
2643763 CCTT-TAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
2643824 CCTTCTAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2643885 CCTTTTAGTCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2643946 CCCTCCAGCCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2644009 -CTTTTAGTCCTCAAAGAACATGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
2644069 CCTTTTAGTCCTTAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACGCGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
2644129 CCCTTC-AGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CCTTCTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2644192 CCTT-TAGTCCTCAAAGAGCAAGACACCTTTTTGCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
2644253 CTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
2644314 TTTTTTTTAGTCCTCAAAAAGCAGGACGCC-TTT-C----AGAGCACACACAAGTTGGTGGCA
1 --CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
2644371 CCTT-TCAGTCTTCAAAGAGCAGGA------TGCCTTTTAAAACCCACACAAGTCGGTGGCA
1 CCTTCT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
2644426 CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *
2644488 TTTTCCAATCCTCAAAGAGCAGGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCA
* *
2644549 CCTTCCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* * *
2644610 CTTTTTAGTCCTCAAAGAGTAGGA
1 CCTTCTAGTCCTCAAAGAGCAGGA
2644634 TGCACTTTAT
Statistics
Matches: 686, Mismatches: 94, Indels: 60
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.00
51 1 0.00
54 1 0.00
55 38 0.06
56 19 0.03
57 22 0.03
59 4 0.01
60 75 0.11
61 316 0.46
62 128 0.19
63 81 0.12
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:2644080 original size:184 final size:184
Alignment explanation
Indices: 2643768--2644633 Score: 1030
Period size: 184 Copynumber: 4.8 Consensus size: 184
2643758 TTAGCCCTTT
* * * * *
2643768 AGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCTAGT
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * * * *
2643833 CCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTC
66 CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
* * *
2643898 AAAGAGCAGGACGTCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCCTCC
131 AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
* * *
2643952 AGCCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
1 AGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * * * *
2644016 TCCTCAAAGAACATGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACCTTTTAGTCCT
65 TCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCT
* * * * * *
2644081 TAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACGCGAGTTGGTGGCACCCTTC
130 CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
* *
2644135 AGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAG
1 AGTCCTCAAAGAGCAGGATGCC-TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAG
* * *
2644199 TCCTCAAAGAGCAAGACACCTTTTTGCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTTAGTCC
65 TCCTCAAAGAGCAGGACACC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCC
*** **
2644264 TCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTTT
129 TCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--CCCTCC
* * * * *
2644322 AGTCCTCAAAAAGCAGGACG-C-----C-TTTCAGAGCACACACAAGTTGGTGGCACCTTTCAGT
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* * * *
2644380 CTTCAAAGAGCAGG--A----TGCCTTTTAAAACCCACACAAGTCGGTGGCACTTTTCTAGTCCT
66 CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCT
***
2644439 CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
130 CAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
* * * **
2644494 AATCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
* *
2644558 CCTCAAAGAGCAGGAC-GCTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCT
66 CCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCT
*
2644622 CAAAGAGTAGGA
130 CAAAGAGCAGGA
2644634 TGCACTTTAT
Statistics
Matches: 592, Mismatches: 69, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
172 22 0.04
173 31 0.05
174 56 0.09
177 1 0.00
178 46 0.08
179 26 0.04
180 18 0.03
183 133 0.22
184 184 0.31
185 55 0.09
186 1 0.00
187 19 0.03
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (184 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
CCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
AAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTCC
Found at i:2644302 original size:122 final size:121
Alignment explanation
Indices: 2643765--2644633 Score: 939
Period size: 123 Copynumber: 7.2 Consensus size: 121
2643755 CTTTTAGCCC
* * * *
2643765 TTTAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-T
* * *
2643830 AGTCCTCAAGGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACGAGTTGGTGGCACCT
64 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * **
2643888 TTTAGTCCTCAAAGAGCAGGACGTCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCCTCCA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTA
* * * *
2643953 GCCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA-CT
65 GTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
2644011 TTTAGTCCTCAAAGAACATGACACCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACCTTTTA
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTA
* * * * * *
2644076 GTCCTTAAAGAGCAGGACGCCTTCTCC-TTCAAAGCCCACGCGAGTTGGTGGCACCC
65 GTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * *
2644132 TTCAGTCCTCAAAGAGTAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTTAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * *
2644197 AGTCCTCAAAGAGCAAGACACCTTTTTGCTTTTAAAGCCTACACAAGTTGGTGGCACTT
64 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
**
2644256 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA---CCTT
* * *
2644321 TAGTCCTCAAAAAGCAGGACGCC-TTT-C----AGAGCACACACAAGTTGGTGGCACCT
63 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * *
2644374 TTCAGTCTTCAAAGAGCAGGA------TGCCTTTTAAAACCCACACAAGTCGGTGGCACTTTTCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTT-T
2644433 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA--T
64 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * *
2644489 TTTCCAATCCTCAAAGAGCAGGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCT
1 TTT--AGTCCTCAAAGAGCAGGACGCCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCACCT
* * *
2644552 TCCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
62 T-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCT
*
2644613 TTTAGTCCTCAAAGAGTAGGA
1 TTTAGTCCTCAAAGAGCAGGA
2644634 TGCACTTTAT
Statistics
Matches: 629, Mismatches: 86, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
110 3 0.00
111 22 0.03
112 31 0.05
113 1 0.00
115 3 0.00
117 37 0.06
118 41 0.07
120 23 0.04
121 37 0.06
122 163 0.26
123 167 0.27
124 79 0.13
125 22 0.03
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (121 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAG
TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT
Found at i:2644682 original size:42 final size:43
Alignment explanation
Indices: 2644617--2644794 Score: 193
Period size: 42 Copynumber: 4.1 Consensus size: 43
2644607 GCACTTTTTA
* **
2644617 GTCCTCAAAGAGTAGGATGCACTTTATTTTCC-TCTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTT
* *
2644659 GTCCTCAAAGAGCAGGACACACTTCA-TTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTC-TTTC-C-TTT
* * *
2644704 GTCCTCAAAGAGCATGACGCACTTTATTTTCC-TCTTTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTT
* *
2644746 GTCCTCAAAGAGCAGGACACA-TTTCGTTTTCCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTTCCTTCTTTCCTTT
*
2644789 ATCCTC
1 GTCCTC
2644795 GAAAAGTAGG
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
41 7 0.06
42 52 0.46
43 17 0.15
44 5 0.04
45 28 0.25
46 4 0.04
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.41
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTT
Found at i:2644784 original size:87 final size:87
Alignment explanation
Indices: 2644612--2644788 Score: 259
Period size: 87 Copynumber: 2.0 Consensus size: 87
2644602 TGGTGGCACT
* *
2644612 TTTTAGTCCTCAAAGAGTAGGATGCACTTTATTTTCCTCTTTCCTTTGTCCTCAAAGAGCAGGAC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCCTTTGTCCTCAAAGAGCAGGAC
2644677 ACACTTCATTCCCTTCTTTTCTC
66 ACACTTCATTCCCTTCTTTTC-C
* *
2644700 TTTT-GTCCTCAAAGAGCATGACGCACTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAGGAC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCCTTTGTCCTCAAAGAGCAGGAC
* * *
2644764 ACATTTCGTTTTCCTT-TTTTCC
66 ACACTTC-ATTCCCTTCTTTTCC
2644786 TTT
1 TTT
2644789 ATCCTCGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 4 0.05
87 67 0.83
88 10 0.12
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.42
Consensus pattern (87 bp):
TTTTAGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCCTTTGTCCTCAAAGAGCAGGAC
ACACTTCATTCCCTTCTTTTCC
Found at i:2645535 original size:20 final size:20
Alignment explanation
Indices: 2645510--2645666 Score: 84
Period size: 20 Copynumber: 7.8 Consensus size: 20
2645500 TTTTCACAAT
2645510 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
2645530 TTGTATCGATACATTATGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
* *
2645558 GATGTATTGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
2645579 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
2645599 TTGTATTGAT--A-----CA
1 TTGTATCGATACATTGTTCA
2645612 TTGTATCGATACATTGCTT-A
1 TTGTATCGATACATTG-TTCA
2645632 TTGTATCGATACATT-TT-A
1 TTGTATCGATACATTGTTCA
2645650 TAATGTATCGATACATT
1 T--TGTATCGATACATT
2645667 CAGGCATTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 40
0.69 0.05 0.25
Matches are distributed among these distances:
13 11 0.10
15 1 0.01
18 5 0.05
20 67 0.61
21 4 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 3 0.03
29 11 0.10
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2645613 original size:13 final size:13
Alignment explanation
Indices: 2645597--2645627 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2645587 ATACATTGCT
*
2645597 CATTGTATTGATA
1 CATTGTATCGATA
2645610 CATTGTATCGATA
1 CATTGTATCGATA
2645623 CATTG
1 CATTG
2645628 CTTATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2645619 original size:33 final size:33
Alignment explanation
Indices: 2645577--2645646 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
2645567 ATACATTTTG
*
2645577 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
2645610 CATTGTATCGATACATTGCTTATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
2645643 CATT
1 CATT
2645647 TTATAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:2648082 original size:52 final size:50
Alignment explanation
Indices: 2647899--2648115 Score: 182
Period size: 51 Copynumber: 4.2 Consensus size: 50
2647889 TTTCATCTCA
* *
2647899 AGGATACTCTAATCCTGATTTCATTTCCATAACATCAATTTTTCTTAATCG
1 AGGATACTCCAATCC-GATTTCATTTCCAAAACATCAATTTTTCTTAATCG
* * * * * ** ** *
2647950 AGGATACTCGAACTCCGATTTTATTTCTAAAGCATCGATTTACCGCAACCG
1 AGGATACTCCAA-TCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCG
* * * *
2648001 GGGATACTCCAATCCCGGTTTCATCTCCAAAACATAAAATTTTTCTTAATCG
1 AGGATACTCCAAT-CCGATTTCATTTCCAAAACAT-CAATTTTTCTTAATCG
* * * ** *
2648053 AGGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATTG
1 AGGATACTCCAA-TCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCG
*
2648104 GGGATACTCCAA
1 AGGATACTCCAA
2648116 CCCCGTTATT
Statistics
Matches: 126, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
50 1 0.01
51 85 0.67
52 39 0.31
53 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (50 bp):
AGGATACTCCAATCCGATTTCATTTCCAAAACATCAATTTTTCTTAATCG
Found at i:2648107 original size:103 final size:102
Alignment explanation
Indices: 2647900--2648130 Score: 273
Period size: 103 Copynumber: 2.2 Consensus size: 102
2647890 TTCATCTCAA
* * * * * *
2647900 GGATACTCTAATCCTGATTTCATTTCCATAACATCAATTTTTCTTAATCGAGGATACTCGAACTC
1 GGATACTCCAATCCCGATTTCATCTCCAAAACATAAATTTTTCTTAATCGAGGATACTCCAACTC
* * * * * *
2647965 CGATTTTATTTCTAAAGCATCGATTTACCGCAACCGG
66 CAATTTTATTTCCAAAACACCAATTTACCACAACCGG
*
2648002 GGATACTCCAATCCCGGTTTCATCTCCAAAACATAAAATTTTTCTTAATCGAGGATACTCCAACT
1 GGATACTCCAATCCCGATTTCATCTCCAAAACAT-AAATTTTTCTTAATCGAGGATACTCCAACT
** **
2648067 CCAATTTTATTTCCAAAACACCAATTTTTCACAATTGG
65 CCAATTTTATTTCCAAAACACCAATTTACCACAACCGG
*
2648105 GGATACTCCAACCCCGTTATTTCATC
1 GGATACTCCAATCCCG--ATTTCATC
2648131 GGGGATACTC
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
102 29 0.27
103 71 0.66
105 7 0.07
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.34
Consensus pattern (102 bp):
GGATACTCCAATCCCGATTTCATCTCCAAAACATAAATTTTTCTTAATCGAGGATACTCCAACTC
CAATTTTATTTCCAAAACACCAATTTACCACAACCGG
Found at i:2648135 original size:28 final size:27
Alignment explanation
Indices: 2648103--2648176 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 27
2648093 TTTCACAATT
2648103 GGGGATACTCCAACCCCGTTA-TTTCA
1 GGGGATACTCCAACCCCGTTATTTTCA
2648129 TCGGGGATACTCCAACCCCGTTATTTTCGA
1 --GGGGATACTCCAACCCCGTTATTTTC-A
2648159 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2648177 ACTTTATATC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 39 0.89
29 4 0.09
30 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTATTTTCA
Found at i:2648310 original size:109 final size:107
Alignment explanation
Indices: 2648054--2648332 Score: 342
Period size: 109 Copynumber: 2.6 Consensus size: 107
2648044 TCTTAATCGA
* * * * *
2648054 GGATACTCCAACTCCAATTTTATTTCCAAAACACCAATTTTTCACAATTGGGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAATACCAATTTTTCATAATCGGGGACACTCCAACCC
* *
2648119 CGTTATTTCATCGGGGATACTCCAACCCCGTTATTTTCGAGG
66 CGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
* * * ** * * *
2648161 GGATACTCCAACCCCGACTTTATATCCAAAATATTGATTTTTTCATAATCAGGGGGCACTCTAAC
1 GGATACTCCAACTCCGATTTTATTTCCAAAATA-CCAATTTTTCATAATC-GGGGACACTCCAAC
* * *
2648226 CCCGTTATGTCATTGGGGATACTCCAATCCTGTTATTTCCGAGG
64 CCCGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
* * * *
2648270 GGATACTCCAACTTCGATTTTATTTCTAAAATACCAATTTTTCATAATCGGGGATATTCCAAC
1 GGATACTCCAACTCCGATTTTATTTCCAAAATACCAATTTTTCATAATCGGGGACACTCCAAC
2648333 TTCGATTTTA
Statistics
Matches: 140, Mismatches: 30, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
107 38 0.27
108 24 0.17
109 78 0.56
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (107 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAATACCAATTTTTCATAATCGGGGACACTCCAACCC
CGTTATGTCATCGGGGATACTCCAACCCCGTTATTTCCGAGG
Found at i:2648323 original size:51 final size:51
Alignment explanation
Indices: 2648268--2648383 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
2648258 TTATTTCCGA
* * *
2648268 GGGGATACTCCAACTTCGATTTTA-TTTCTAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAACTTCGATTTTAGTTTC-AAAACACCAATTTCTCACAATC
*
2648319 GGGGATATTCCAACTTCGATTTTAGTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACTTCGATTTTAGTTTCAAAACACCAATTTCTCACAATC
2648370 GGGGATACTCCAAC
1 GGGGATACTCCAAC
2648384 CCCGTTATTT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 55 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTTCGATTTTAGTTTCAAAACACCAATTTCTCACAATC
Found at i:2648465 original size:52 final size:51
Alignment explanation
Indices: 2648400--2648512 Score: 129
Period size: 52 Copynumber: 2.2 Consensus size: 51
2648390 ATTTTCACGA
* * *
2648400 GGATACTCCAACCCTGGCCTTATTTCTA-AAGCATCGATTTTTTCACAATCGG
1 GGATACTCCAACCCCGACCTTATTTCTAGAA-CATCGA-TTTTCCACAATCGG
* ** * *
2648452 GGATACTCTAACCCCGATTTTATTTTTAGAACATCGATTTTCCATAATCGG
1 GGATACTCCAACCCCGACCTTATTTCTAGAACATCGATTTTCCACAATCGG
2648503 GGATACTCCA
1 GGATACTCCA
2648513 GCCCTGTTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
51 21 0.41
52 28 0.55
53 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACCCCGACCTTATTTCTAGAACATCGATTTTCCACAATCGG
Found at i:2649695 original size:88 final size:88
Alignment explanation
Indices: 2649584--2649970 Score: 401
Period size: 88 Copynumber: 4.5 Consensus size: 88
2649574 ATTTACACCC
* * * * *
2649584 TTAAATGACATTGGTATTGGCATCATTTCATATGCATTTGCCATTTTATTGATGTTTGCATTTGC
1 TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGC
* * *
2649649 TTTGTTTCACACATATTTGCATT
66 ATTGTTTCACACATATCTACATT
* ** * *
2649672 TTAAAAGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACAATATTGATGCTTACATTGGC
1 TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGC
*
2649737 ATTG-TTCATACATATCTACATT
66 ATTGTTTCACACATATCTACATT
* ** * *
2649759 TTAAATGACATTAGTGTTTGCATAATTTCATATGCATTTATCTCTTTATGGATGCTTGCA--T-C
1 TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGC
* * *
2649821 A---TTTCACATACATCTACACT
66 ATTGTTTCACACATATCTACATT
* * * * * *** * *
2649841 CTAAATGACATCAATATTGGCATCATTTCATATGCATTTATTACTTTATTAATGCTCGCATTTGC
1 TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGC
* *
2649906 ATCGTTTCACACATATCTGCATT
66 ATTGTTTCACACATATCTACATT
* *
2649929 TTAAATGACATTGGTGTTTGCATCATTTAATATGCATTTGCC
1 TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCC
2649971 TTATACATTT
Statistics
Matches: 239, Mismatches: 53, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
82 63 0.26
84 3 0.01
85 2 0.01
87 66 0.28
88 105 0.44
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (88 bp):
TTAAATGACATTAGTGTTTGCATCATTTCATATGCATTTGCCACTTTATTGATGCTTGCATTTGC
ATTGTTTCACACATATCTACATT
Found at i:2649896 original size:82 final size:82
Alignment explanation
Indices: 2649750--2649901 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 82
2649740 GTTCATACAT
* * * * * * *
2649750 ATCTACATTTTAAATGACATTAGTGTTTGCATAATTTCATATGCATTTATCTCTTTATGGATGCT
1 ATCTACACTCTAAATGACATCAATATTGGCATAATTTCATATGCATTTATCTCTTTATGAATGCT
*
2649815 TGCATCATTTCACATAC
66 CGCATCATTTCACATAC
* *
2649832 ATCTACACTCTAAATGACATCAATATTGGCATCATTTCATATGCATTTAT-TACTTTATTAATGC
1 ATCTACACTCTAAATGACATCAATATTGGCATAATTTCATATGCATTTATCT-CTTTATGAATGC
2649896 TCGCAT
65 TCGCAT
2649902 TTGCATCGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 1 0.02
82 58 0.98
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (82 bp):
ATCTACACTCTAAATGACATCAATATTGGCATAATTTCATATGCATTTATCTCTTTATGAATGCT
CGCATCATTTCACATAC
Found at i:2650002 original size:77 final size:77
Alignment explanation
Indices: 2649899--2650045 Score: 204
Period size: 77 Copynumber: 1.9 Consensus size: 77
2649889 TTAATGCTCG
* * * * *
2649899 CATTTGCATCGTTTCACACATATCTGCATTTTAAATGACATTGGTGTTTGCATCATTTAATATGC
1 CATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTGGTATTTACATCATTTAATATGC
2649964 ATTTGCCTTATA
66 ATTTGCCTTATA
* * * * *
2649976 CATTTGCATCATTTCATACACATCTGCACTTTATATTACATTGGTATTTACATCATTTCATATTC
1 CATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTGGTATTTACATCATTTAATATGC
2650041 ATTTG
66 ATTTG
2650046 GCCACTTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
77 60 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (77 bp):
CATTTGCATCATTTCACACACATCTGCACTTTAAATGACATTGGTATTTACATCATTTAATATGC
ATTTGCCTTATA
Found at i:2651296 original size:80 final size:81
Alignment explanation
Indices: 2651180--2651584 Score: 320
Period size: 80 Copynumber: 5.0 Consensus size: 81
2651170 CTCGACGAAT
* **
2651180 ACCTTTTTAACTTGTTGACTCGTATGGTTTTGTCCTAGA-CAACTTTTCTCATTTGTTTGTATGG
1 ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATCAACTTTTCTCATTTGTTTGTATGG
*
2651244 TTTTGTCTCGGCCAAC
66 TTTTATCTCGGCCAAC
* * * *
2651260 ACCTTTCTAACTTGTTGCCTCGTATGGTTTCATCCTA-ATCAACTATTCT-TTGTTGGTATGTAT
1 ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATCAACTTTTCTCAT-TT-GTTTGTAT
*
2651323 GGTTTCAT-TCTGGCCAAC
64 GGTTTTATCTC-GGCCAAC
** * * * * ** * *
2651341 ATTTTTCTAACTTGTTGGCTCGTATGGTTTCGT-TTCGATTGACTTTCCTCATTGGTTTGTATGG
1 ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATCAACTTTTCTCATTTGTTTGTATGG
*
2651405 TTTTATCTCGACCAAC
66 TTTTATCTCGGCCAAC
* ** * * * * ** * *
2651421 ACCATTCTAACTTGTTGGTTCGTATAGTTTTATCCCAG-CCAACACCCTTCTAACTTGTTGGTAT
1 ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATC-A-ACTTTTCT--CAT-TT-GTTT
* *
2651485 GTATGGTTTCATCTCAGCCAAC
60 GTATGGTTTTATCTCGGCCAAC
* * * * * * *
2651507 ACTTTTCTAACTTGTTAACTCGTATAGTTTCAT-CTAAATCAACTTTCCTCATTGGTTCGTATGG
1 ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATCAACTTTTCTCATTTGTTTGTATGG
2651571 TTTTATCTCGGCCA
66 TTTTATCTCGGCCA
2651585 CTATTGCTTT
Statistics
Matches: 246, Mismatches: 64, Indels: 30
0.72 0.19 0.09
Matches are distributed among these distances:
79 2 0.01
80 113 0.46
81 62 0.25
82 8 0.03
84 7 0.03
85 4 0.02
86 50 0.20
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (81 bp):
ACCTTTCTAACTTGTTGACTCGTATGGTTTCATCCTAGATCAACTTTTCTCATTTGTTTGTATGG
TTTTATCTCGGCCAAC
Found at i:2651370 original size:43 final size:42
Alignment explanation
Indices: 2651183--2651371 Score: 105
Period size: 43 Copynumber: 4.7 Consensus size: 42
2651173 GACGAATACC
* ** * *
2651183 TTTT-TAACTTGTTGACTCGTATGGTTTTGTCCTAGACAAC-
1 TTTTCTAACTTGTTGGCTCGTATGGTTTCATCCTGGCCAACA
* * **
2651223 TTTTCTCATTTGTT---T-GTATGGTTTTGT-CTCGGCCAACA
1 TTTTCTAACTTGTTGGCTCGTATGGTTTCATCCT-GGCCAACA
* * ***
2651261 CCTTTCTAACTTGTTGCCTCGTATGGTTTCATCCTAATCAAC-
1 -TTTTCTAACTTGTTGGCTCGTATGGTTTCATCCTGGCCAACA
* * *
2651303 TATTCT---TTGTTGG-TATGTATGGTTTCATTCTGGCCAACA
1 TTTTCTAACTTGTTGGCT-CGTATGGTTTCATCCTGGCCAACA
2651342 TTTTTCTAACTTGTTGGCTCGTATGGTTTC
1 -TTTTCTAACTTGTTGGCTCGTATGGTTTC
2651372 GTTTCGATTG
Statistics
Matches: 111, Mismatches: 22, Indels: 29
0.69 0.14 0.18
Matches are distributed among these distances:
36 2 0.02
37 18 0.16
38 25 0.23
39 11 0.10
40 9 0.08
41 11 0.10
42 1 0.01
43 31 0.28
44 3 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (42 bp):
TTTTCTAACTTGTTGGCTCGTATGGTTTCATCCTGGCCAACA
Found at i:2651422 original size:161 final size:161
Alignment explanation
Indices: 2651182--2651702 Score: 495
Period size: 161 Copynumber: 3.2 Consensus size: 161
2651172 CGACGAATAC
* ** * * *
2651182 CTTTT-TAACTTGTTGACTCGTATGGTTTTGTCCTAGA-CAACTTTTCTCATTTGTTTGTATGGT
1 CTTTTCTAACTTGTTGGCTCGTATGGTTTCAT-CTAAATCAACTTTCCTCATTGGTTTGTATGGT
* * *
2651245 TTTGTCTCGGCCAACACCTTTCTAACTTGTTGCCTCGTATGGTTTCATCCTAATCAACTATTCTT
65 TTTATCTCGGCCAACACCTTTCTAACTTGTTGACTCGTATGGTTTTATCCTAATCAACTATTCTT
2651310 TGTTGGTATGTATGGTTTCATTCTGGCCAACA
130 TGTTGGTATGTATGGTTTCATTCTGGCCAACA
* * * ** **
2651342 TTTTTCTAACTTGTTGGCTCGTATGGTTTCGTTTCGATTGACTTTCCTCATTGGTTTGTATGGTT
1 CTTTTCTAACTTGTTGGCTCGTATGGTTTCATCTAAATCAACTTTCCTCATTGGTTTGTATGGTT
* * ** * * **
2651407 TTATCTCGACCAACACCATTCTAACTTGTTGGTTCGTATAGTTTTATCCCAGCCAAC-ACCCTTC
66 TTATCTCGGCCAACACCTTTCTAACTTGTTGACTCGTATGGTTTTATCCTAATCAACTA---TTC
*
2651471 TAACTTGTTGGTATGTATGGTTTCA-TCTCAGCCAACA
128 T---TTGTTGGTATGTATGGTTTCATTCT-GGCCAACA
** * *
2651508 CTTTTCTAACTTGTTAACTCGTATAGTTTCATCTAAATCAACTTTCCTCATTGGTTCGTATGGTT
1 CTTTTCTAACTTGTTGGCTCGTATGGTTTCATCTAAATCAACTTTCCTCATTGGTTTGTATGGTT
* * * *
2651573 TTATCTCGGCC-ACTA--TTGCTTTAACTTATTAACTC-TAATGGTTTTGTCCTAATCAACT-TG
66 TTATCTCGGCCAAC-ACCTT--TCTAACTTGTTGACTCGT-ATGGTTTTATCCTAATCAACTAT-
* * * *
2651633 TTTTTGTTGGTACGTATGGTTTCATCCTGACCAACA
126 TCTTTGTTGGTATGTATGGTTTCATTCTGGCCAACA
* *
2651669 CCCTTT-TAACTTGTTGGCTCATATGGTTTCATCT
1 -CTTTTCTAACTTGTTGGCTCGTATGGTTTCATCT
2651703 CGGCCAATAC
Statistics
Matches: 291, Mismatches: 53, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
160 8 0.03
161 144 0.49
162 6 0.02
163 5 0.02
164 3 0.01
165 6 0.02
166 119 0.41
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (161 bp):
CTTTTCTAACTTGTTGGCTCGTATGGTTTCATCTAAATCAACTTTCCTCATTGGTTTGTATGGTT
TTATCTCGGCCAACACCTTTCTAACTTGTTGACTCGTATGGTTTTATCCTAATCAACTATTCTTT
GTTGGTATGTATGGTTTCATTCTGGCCAACA
Found at i:2651453 original size:43 final size:43
Alignment explanation
Indices: 2651392--2651541 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
2651382 ACTTTCCTCA
* * *
2651392 TTGGTTTGTATGGTTTTATCTC-GACCAACACCATTCTAACTTG
1 TTGGTTCGTATAGTTTCATCTCAG-CCAACACCATTCTAACTTG
* * *
2651435 TTGGTTCGTATAGTTTTATCCCAGCCAACACCCTTCTAACTTG
1 TTGGTTCGTATAGTTTCATCTCAGCCAACACCATTCTAACTTG
* **
2651478 TTGGTAT-GTATGGTTTCATCTCAGCCAACACTTTTCTAACTTG
1 TTGGT-TCGTATAGTTTCATCTCAGCCAACACCATTCTAACTTG
***
2651521 TTAACTCGTATAGTTTCATCT
1 TTGGTTCGTATAGTTTCATCT
2651542 AAATCAACTT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.01
43 88 0.97
44 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (43 bp):
TTGGTTCGTATAGTTTCATCTCAGCCAACACCATTCTAACTTG
Found at i:2651697 original size:43 final size:42
Alignment explanation
Indices: 2651636--2651911 Score: 228
Period size: 43 Copynumber: 6.6 Consensus size: 42
2651626 CAACTTGTTT
2651636 TTGTTGG-TACGTATGGTTTCATCCTGACCAACACCCTTTTAAC
1 TTGTTGGCT-CGTATGGTTTCATCCTGACCAACA-CCTTTTAAC
* * *
2651679 TTGTTGGCTCATATGGTTTCAT-CTCGGCCAATACCTTTCTAAC
1 TTGTTGGCTCGTATGGTTTCATCCT-GACCAACACCTTT-TAAC
* * *
2651722 TTGTTGGTTCGTATGGTTTTAT-CTCAGCCAACATCCTTTTAAC
1 TTGTTGGCTCGTATGGTTTCATCCTGA-CCAACA-CCTTTTAAC
* * * *
2651765 TTGTTGGTTCGTATAGTTTCAT-CTCGACTAACACCCTTTAAC
1 TTGTTGGCTCGTATGGTTTCATCCT-GACCAACACCTTTTAAC
* * * * **
2651807 TTATTGACTCATATGGTTTCATCCTGATC-A-A--TTTTTCC
1 TTGTTGGCTCGTATGGTTTCATCCTGACCAACACCTTTTAAC
* *
2651845 TTGTTGG-TACGTATGGTTTCATCTTGGCCAACACCTTTTCAAC
1 TTGTTGGCT-CGTATGGTTTCATCCTGACCAACACCTTTT-AAC
* *
2651888 TTGTTGACTTGTATGGTTTCATCC
1 TTGTTGGCTCGTATGGTTTCATCC
2651912 CGGTTAACTT
Statistics
Matches: 184, Mismatches: 35, Indels: 28
0.74 0.14 0.11
Matches are distributed among these distances:
37 1 0.01
38 25 0.14
39 1 0.01
40 2 0.01
41 1 0.01
42 38 0.21
43 108 0.59
44 8 0.04
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (42 bp):
TTGTTGGCTCGTATGGTTTCATCCTGACCAACACCTTTTAAC
Found at i:2651790 original size:86 final size:82
Alignment explanation
Indices: 2651147--2651789 Score: 307
Period size: 80 Copynumber: 7.8 Consensus size: 82
2651137 ACCCTTCTAA
* * * * * * *
2651147 CTTGTTGGTCCGTATGGCTTCATCTC-GACGAATACCTTTTTAACTTGTTGACTCGTATGGTTT-
1 CTTGTTGGTTCGTATGGTTTTATCTCAG-CCAACACC-TTTTAACTTGTTGGCTCGTATAGTTTC
* *
2651210 -TGTCCTAGA-CAACTTTTCT
64 ATCTCCCA-ATCAAC-TTTCT
* * * * * *
2651229 CAT-TT-GTTTGTATGGTTTTGTCTCGGCCAACACCTTTCTAACTTGTTGCCTCGTATGGTTTCA
1 CTTGTTGGTTCGTATGGTTTTATCTCAGCCAACACCTTT-TAACTTGTTGGCTCGTATAGTTTCA
*
2651292 --TCCTAATCAACTATTCT
65 TCTCCCAATCAACT-TTCT
* * ** *
2651309 -TTGTTGGTAT-GTATGGTTTCAT-TCTGGCCAACATTTTTCTAACTTGTTGGCTCGTATGGTTT
1 CTTGTTGGT-TCGTATGGTTTTATCTC-AGCCAACACCTTT-TAACTTGTTGGCTCGTATAGTTT
* * * **
2651371 CGT-T-TCGATTGACTTTC-
63 CATCTCCCAATCAACTTTCT
** * * * *
2651388 CTCATTGGTTTGTATGGTTTTATCTC-GACCAACACCATTCTAACTTGTTGGTTCGTATAGTTTT
1 CTTGTTGGTTCGTATGGTTTTATCTCAG-CCAACACC-TTTTAACTTGTTGGCTCGTATAGTTTC
* * *
2651452 ATCCCAGCCAA-CACCCTTCT
64 ATCTC--CCAATCAACTTTCT
* * **
2651472 AACTTGTTGGTAT-GTATGGTTTCATCTCAGCCAACACTTTTCTAACTTGTTAACTCGTATAGTT
1 --CTTGTTGGT-TCGTATGGTTTTATCTCAGCCAACACCTTT-TAACTTGTTGGCTCGTATAGTT
*
2651536 TCATCT--AAATCAACTTTC-
62 TCATCTCCCAATCAACTTTCT
** * * * ** *
2651554 CTCATTGGTTCGTATGGTTTTATCTCGGCC-ACTA-TTGCTTTAACTTATTAACTC-TAATGGTT
1 CTTGTTGGTTCGTATGGTTTTATCTCAGCCAAC-ACCT--TTTAACTTGTTGGCTCGT-ATAGTT
* *
2651616 T--TGTCCTAATCAACTTGT-T
62 TCATCTCCCAATCAACTT-TCT
* * * * * *
2651635 TTTGTTGGTACGTATGGTTTCATC-CTGACCAACACCCTTTTAACTTGTTGGCTCATATGGTTTC
1 CTTGTTGGTTCGTATGGTTTTATCTCAG-CCAACA-CCTTTTAACTTGTTGGCTCGTATAGTTTC
*
2651699 ATCTCGGCCAAT-ACCTTTCT
64 ATCTC--CCAATCAACTTTCT
*
2651719 AACTTGTTGGTTCGTATGGTTTTATCTCAGCCAACATCCTTTTAACTTGTTGGTTCGTATAGTTT
1 --CTTGTTGGTTCGTATGGTTTTATCTCAGCCAACA-CCTTTTAACTTGTTGGCTCGTATAGTTT
2651784 CATCTC
63 CATCTC
2651790 GACTAACACC
Statistics
Matches: 432, Mismatches: 80, Indels: 94
0.71 0.13 0.16
Matches are distributed among these distances:
78 2 0.00
79 14 0.03
80 162 0.38
81 104 0.24
82 9 0.02
83 15 0.03
84 7 0.02
85 6 0.01
86 109 0.25
87 4 0.01
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (82 bp):
CTTGTTGGTTCGTATGGTTTTATCTCAGCCAACACCTTTTAACTTGTTGGCTCGTATAGTTTCAT
CTCCCAATCAACTTTCT
Found at i:2651924 original size:80 final size:80
Alignment explanation
Indices: 2651764--2651991 Score: 219
Period size: 80 Copynumber: 2.8 Consensus size: 80
2651754 ATCCTTTTAA
* * * * **
2651764 CTTGTTGGTTCGTATAGTTTCATCTCGACTAACACCCTTT-AACTTATTGACTCATATGGTTTCA
1 CTTGTTGGTTCGTATGGTTTCATCTTGGCTAACA-CCTTTCAACTTGTTGACTTGTATGGTTTCA
* *
2651828 TCCTGATCAATTTTTC
65 TCCCGATCAATCTTTC
* *
2651844 CTTGTTGGTACGTATGGTTTCATCTTGGCCAACACCTTTTCAACTTGTTGACTTGTATGGTTTCA
1 CTTGTTGGTTCGTATGGTTTCATCTTGGCTAACACC-TTTCAACTTGTTGACTTGTATGGTTTCA
* *
2651909 TCCCGGTTAA-CTTTC
65 TCCCGATCAATCTTTC
* * ** * * **
2651924 CTCGTTGATTCGTATGGTTTTGTCTTGAG-TAATACCCTTCTAACTTGTTGGTTTGTATGGTTTC
1 CTTGTTGGTTCGTATGGTTTCATCTTG-GCTAACACCTTTC-AACTTGTTGACTTGTATGGTTTC
2651988 ATCC
64 ATCC
2651992 TAGCCAACAT
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
79 5 0.04
80 88 0.72
81 29 0.24
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (80 bp):
CTTGTTGGTTCGTATGGTTTCATCTTGGCTAACACCTTTCAACTTGTTGACTTGTATGGTTTCAT
CCCGATCAATCTTTC
Found at i:2652072 original size:123 final size:123
Alignment explanation
Indices: 2651844--2652092 Score: 270
Period size: 123 Copynumber: 2.0 Consensus size: 123
2651834 TCAATTTTTC
* * **
2651844 CTTGTTGGTACGTATGGTTTCATCTTGGCCAACACCTTTTCAACTTGTTGACTTGTATGGTTTCA
1 CTTGTTGGTACGTATGGTTTCATCCTAGCCAACACCTTTTCAACTCATTGACTTGTATGGTTTCA
** * ** *
2651909 TCCCGGTTAACTTTCCTCGTTGATTCGTATGGTTTTGTCTTGAGTAATACCCTTCTAA
66 TCCCGGCCAACTTTCCTCGTTGATTCGTATGGTTTCGTCTTGACCAACACCCTTCTAA
** * *
2651967 CTTGTTGGTTTGTATGGTTTCATCCTAGCCAACA-TTTTTCTAACTCATTGACTTGTATGGTTTT
1 CTTGTTGGTACGTATGGTTTCATCCTAGCCAACACCTTTTC-AACTCATTGACTTGTATGGTTTC
** * * * *
2652031 ATTTCGGCCAACTTTTCTTTGTTGGTAT-GTAT-GTTTCGTCTTGACCAACACCTTTCTAA
65 ATCCCGGCCAAC-TTTCCTCGTTGAT-TCGTATGGTTTCGTCTTGACCAACACCCTTCTAA
2652090 CTT
1 CTT
2652093 AGTGGCTCAT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
122 5 0.05
123 83 0.81
124 14 0.14
125 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.45
Consensus pattern (123 bp):
CTTGTTGGTACGTATGGTTTCATCCTAGCCAACACCTTTTCAACTCATTGACTTGTATGGTTTCA
TCCCGGCCAACTTTCCTCGTTGATTCGTATGGTTTCGTCTTGACCAACACCCTTCTAA
Found at i:2652110 original size:80 final size:80
Alignment explanation
Indices: 2651981--2652210 Score: 196
Period size: 80 Copynumber: 2.9 Consensus size: 80
2651971 TTGGTTTGTA
* ** ** ** * * *
2651981 TGGTTTCAT-CCTAGCCAACATTTTTCTAACTCATTGACTTGTATGGTTTTATTTCGGCCAACTT
1 TGGTTTCATCCCGA-CCAACACCTTTCTAACTTGTTGACTCATATAGTTTTATCTCGGTCAACTT
* **
2652045 TTCTTTGTTGGTATGT
65 TTCTTTGTTAGTACAT
* ** * * *
2652061 AT-GTTTCGTCTTGACCAACACCTTTCTAACTTAG-TGGCTCATATAGTTTTGTCTCAGTCAACT
1 -TGGTTTCATCCCGACCAACACCTTTCTAACTT-GTTGACTCATATAGTTTTATCTCGGTCAACT
**
2652124 TCCCTTTGTTAGTACAT
64 TTTCTTTGTTAGTACAT
* * *
2652141 TGGTTTCATCCCGACCAACACCTTTCTAACTTGTTGACTCATATGGTTTCATCTCGATCAACTTT
1 TGGTTTCATCCCGACCAACACCTTTCTAACTTGTTGACTCATATAGTTTTATCTCGGTCAACTTT
2652206 TCTTT
66 TCTTT
2652211 ATTGATAAGA
Statistics
Matches: 113, Mismatches: 32, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
79 2 0.02
80 109 0.96
81 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (80 bp):
TGGTTTCATCCCGACCAACACCTTTCTAACTTGTTGACTCATATAGTTTTATCTCGGTCAACTTT
TCTTTGTTAGTACAT
Found at i:2652268 original size:41 final size:41
Alignment explanation
Indices: 2652206--2652408 Score: 138
Period size: 41 Copynumber: 5.0 Consensus size: 41
2652196 GATCAACTTT
* * * * * *
2652206 TCTTTATTGATAAGATGGTTTTGCCTTGGTCAACATTTCTC
1 TCTTTATTGACACGATAGTTTTGCCATGGTCAACATCTCAC
*
2652247 T-TTCTATTGACACGATAGTTTTGCCATGGTCAATATCTCAC
1 TCTT-TATTGACACGATAGTTTTGCCATGGTCAACATCTCAC
** * * * *
2652288 TCTTTATTGACGTGATGGTTTTGCCCTAGTCAACATCTTAC
1 TCTTTATTGACACGATAGTTTTGCCATGGTCAACATCTCAC
* * * **** *
2652329 CCTTTGTTGACATGATAGTTCCAACTTGGTCAACATCTCAC
1 TCTTTATTGACACGATAGTTTTGCCATGGTCAACATCTCAC
* * ** * * *
2652370 CCTTTGTCAACGCGATGGTTTTGCCCTGGTCAACATCTC
1 TCTTTATTGACACGATAGTTTTGCCATGGTCAACATCTC
2652409 GCCCTTTGTG
Statistics
Matches: 125, Mismatches: 35, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
40 2 0.02
41 121 0.97
42 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.39
Consensus pattern (41 bp):
TCTTTATTGACACGATAGTTTTGCCATGGTCAACATCTCAC
Found at i:2652346 original size:82 final size:80
Alignment explanation
Indices: 2652219--2652552 Score: 321
Period size: 82 Copynumber: 4.1 Consensus size: 80
2652209 TTATTGATAA
* * * * * * * * *
2652219 GATGGTTTTGCCTTGGTCAACATTTC-TCTTTCTATTGACACGATAGTTTTGCCATGGTCAATAT
1 GATGGTTTTGCCCTGGTCAACA-TTCACCCTT-TGTTGACATGATAGTTTCGCCTTAGTCAACAT
*
2652283 CTCACTCTTTATTGACGT
64 CTCAC-CTTTGTTGACGT
* * * ** *
2652301 GATGGTTTTGCCCTAGTCAACATCTTACCCTTTGTTGACATGATAGTTCCAACTTGGTCAACATC
1 GATGGTTTTGCCCTGGTCAACAT-TCACCCTTTGTTGACATGATAGTTTCGCCTTAGTCAACATC
** *
2652366 TCACCCTTTGTCAACGC
65 TCA-CCTTTGTTGACGT
* * *
2652383 GATGGTTTTGCCCTGGTCAACATCTCGCCCTTTGTGGACATGAT-GTTTCGCCTTAGTTAACATC
1 GATGGTTTTGCCCTGGTCAACAT-TCACCCTTTGTTGACATGATAGTTTCGCCTTAGTCAACATC
* *
2652447 TAACCTTTGTTGATGT
65 TCACCTTTGTTGACGT
* * * *
2652463 GATGGTTTCGCCCTGGTCAAGATTCACCCTTTGTTGACGTGATGGTTTCGCCTTAGTCAACATCT
1 GATGGTTTTGCCCTGGTCAACATTCACCCTTTGTTGACATGATAGTTTCGCCTTAGTCAACATCT
**
2652528 CACCATTTGTTGATTT
66 CACC-TTTGTTGACGT
2652544 GATGGTTTT
1 GATGGTTTT
2652553 TCCTTGGTTA
Statistics
Matches: 207, Mismatches: 40, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
79 17 0.08
80 53 0.26
81 36 0.17
82 97 0.47
83 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (80 bp):
GATGGTTTTGCCCTGGTCAACATTCACCCTTTGTTGACATGATAGTTTCGCCTTAGTCAACATCT
CACCTTTGTTGACGT
Found at i:2652547 original size:41 final size:41
Alignment explanation
Indices: 2652275--2652551 Score: 263
Period size: 41 Copynumber: 6.8 Consensus size: 41
2652265 TTTTGCCATG
* * * *
2652275 GTCAATATCTCACTCTTTATTGACGTGATGGTTTTGCCCTA
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
* * * * ** * *
2652316 GTCAACATCTTACCCTTTGTTGACATGATAGTTCCAACTTG
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
** * * *
2652357 GTCAACATCTCACCCTTTGTCAACGCGATGGTTTTGCCCTG
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
* * * *
2652398 GTCAACATCTCGCCCTTTGTGGACATGAT-GTTTCGCCTTA
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
* * * *
2652438 GTTAACATCT-AACCTTTGTTGATGTGATGGTTTCGCCCTG
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
* *
2652478 GTCAAGAT-TCACCCTTTGTTGACGTGATGGTTTCGCCTTA
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
* **
2652518 GTCAACATCTCACCATTTGTTGATTTGATGGTTT
1 GTCAACATCTCACCCTTTGTTGACGTGATGGTTT
2652552 TTCCTTGGTT
Statistics
Matches: 184, Mismatches: 49, Indels: 6
0.77 0.21 0.03
Matches are distributed among these distances:
39 14 0.08
40 65 0.35
41 105 0.57
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (41 bp):
GTCAACATCTCACCCTTTGTTGACGTGATGGTTTCGCCCTA
Found at i:2656447 original size:21 final size:19
Alignment explanation
Indices: 2656421--2656461 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 19
2656411 AAGTCACTTT
2656421 TAAAATATATATATATATAAA
1 TAAAATATATATA-ATA-AAA
2656442 TAAAATATATATAATAAAA
1 TAAAATATATATAATAAAA
2656461 T
1 T
2656462 TTTCTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAATATATATAATAAAA
Found at i:2656451 original size:15 final size:14
Alignment explanation
Indices: 2656431--2656461 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
2656421 TAAAATATAT
2656431 ATATATATAAATAAA
1 ATATATAT-AATAAA
2656446 ATATATATAATAAA
1 ATATATATAATAAA
2656460 AT
1 AT
2656462 TTTCTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATATATAATAAA
Found at i:2660157 original size:92 final size:92
Alignment explanation
Indices: 2660007--2660182 Score: 300
Period size: 92 Copynumber: 1.9 Consensus size: 92
2659997 TGATTTTATG
*
2660007 ATCTACACATACAAGAGATCTATAAAGTTAGGGGAGTTGGCTACACCATAAGTAAGGATCGATAC
1 ATCTACACATACAAGAGATCTATAAAGTTAGGGGAGTTGGCTACACCACAAGTAAGGATCGATAC
2660072 ATCTTGTGATGCCCATAAACTTTTACA
66 ATCTTGTGATGCCCATAAACTTTTACA
* * *
2660099 ATCTACATATACAAGAGATCTATAAAGTT-GGGAGAGTTGGTTACACCACAAGTAAGGATTGATA
1 ATCTACACATACAAGAGATCTATAAAGTTAGGG-GAGTTGGCTACACCACAAGTAAGGATCGATA
2660163 CATCTTGTGATGCCCATAAA
65 CATCTTGTGATGCCCATAAA
2660183 TTGATACCAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 3 0.04
92 76 0.96
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (92 bp):
ATCTACACATACAAGAGATCTATAAAGTTAGGGGAGTTGGCTACACCACAAGTAAGGATCGATAC
ATCTTGTGATGCCCATAAACTTTTACA
Found at i:2662918 original size:19 final size:18
Alignment explanation
Indices: 2662894--2662959 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
2662884 TTCAACAATT
2662894 TGTATCGATACATAAGTTA
1 TGTATCGATACATAAG-TA
2662913 TGTATCGATAC---A--A
1 TGTATCGATACATAAGTA
2662926 TGTATCGATACATAAGTA
1 TGTATCGATACATAAGTA
2662944 TTGTATCGATACATAA
1 -TGTATCGATACATAA
2662960 TTAGCTACTA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.29
16 2 0.05
18 1 0.02
19 26 0.63
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (18 bp):
TGTATCGATACATAAGTA
Found at i:2662930 original size:13 final size:13
Alignment explanation
Indices: 2662912--2662937 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2662902 TACATAAGTT
2662912 ATGTATCGATACA
1 ATGTATCGATACA
2662925 ATGTATCGATACA
1 ATGTATCGATACA
2662938 TAAGTATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2662931 original size:32 final size:32
Alignment explanation
Indices: 2662894--2662956 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
2662884 TTCAACAATT
2662894 TGTATCGATACATAAGT-TATGTATCGATACAA
1 TGTATCGATACATAAGTAT-TGTATCGATACAA
2662926 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2662957 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 29 0.97
33 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2663017 original size:13 final size:13
Alignment explanation
Indices: 2662999--2663024 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2662989 CATTTTTCTG
2662999 TGTATCGATACAT
1 TGTATCGATACAT
2663012 TGTATCGATACAT
1 TGTATCGATACAT
2663025 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2663021 original size:33 final size:33
Alignment explanation
Indices: 2662979--2663045 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2662969 ACCAAGGAAA
***
2662979 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2663012 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2663045 T
1 T
2663046 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2663641 original size:13 final size:13
Alignment explanation
Indices: 2663623--2663654 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
2663613 TCCCGTAGCT
2663623 CCAAAAGCCGCCA
1 CCAAAAGCCGCCA
2663636 CCAAAAGCCGCCA
1 CCAAAAGCCGCCA
2663649 CCAAAA
1 CCAAAA
2663655 AACCACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.44, G:0.12, T:0.00
Consensus pattern (13 bp):
CCAAAAGCCGCCA
Found at i:2665577 original size:28 final size:27
Alignment explanation
Indices: 2665510--2665582 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
2665500 CTTTACAATC
* **
2665510 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
2665537 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
2665565 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2665583 ACTTTATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.23, C:0.36, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:2665695 original size:51 final size:51
Alignment explanation
Indices: 2665400--2665700 Score: 164
Period size: 51 Copynumber: 5.7 Consensus size: 51
2665390 CAATTCTCCA
* * * * *
2665400 TAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTA
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTT
* *
2665451 TAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAAACACCAA-TTTCTT
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAACACCAATTTTCTT
* * * ** * * *** *
2665503 TACAATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTCCAA-CCCCGT
1 T--AATCGGGGATACTCCAACCCCGATTTTAT-TTC--CAAAACACCAATTTTCTT
* * * * *** *
2665556 TATTTCCGAGGGGATACTCCAACCCCGACTTTATTTACAAAATATTGATTTT-TCA
1 TA-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCT-T
* * *
2665611 TAATCGGGGATACTCCGACCCTGGTTTTAATTT-CAAAACACCAATTTTCCTT
1 TAATCGGGGATACTCCAACCCCGATTTT-ATTTCCAAAACACCAATTTT-CTT
*
2665663 TAATCGGGGATACTCCAACACCGATTTTATTTCCAAAA
1 TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAA
2665701 ATATCAATTT
Statistics
Matches: 181, Mismatches: 50, Indels: 37
0.68 0.19 0.14
Matches are distributed among these distances:
51 66 0.36
52 44 0.24
53 24 0.13
54 23 0.13
55 19 0.10
56 1 0.01
57 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCTT
Found at i:2665762 original size:211 final size:211
Alignment explanation
Indices: 2665398--2665793 Score: 537
Period size: 211 Copynumber: 1.9 Consensus size: 211
2665388 CTCAATTCTC
* * *
2665398 CATAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CATAATCGGGGATACTCCAACTCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATA
* * * **
2665463 CTCCAACTCTGATTTTATTTCCAAAAAACACCAATTTCTTTACAATCGGGGACACTCCAACCCCG
66 CTCCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCG
* * * ** * *
2665528 TTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTA
131 TCAATCATCAGAGATACTCCAACCCCGTTACATCCGAGGGAACACTCCAACCCCGACTTTATTTA
2665593 CAAAATATTGATTTTT
196 CAAAATATTGATTTTT
* * *
2665609 CATAATCGGGGATACTCCGAC-CCTGGTTTTAATTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 CATAATCGGGGATACTCCAACTCC-GATTTTAATTTCAAAACACCAATTTT-CTATAATCGGGGA
* * * * *
2665673 TACTCCAACACCGATTTTATTTCC-AAAAATATCAATTT-TTCACAATTAAGGATACTCCAACCT
64 TACTCCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCC
2665736 CGTCAATTCATCAGAGATACTCCAACCCCGTTACATCCGAGGGAACACTCCAACCCCG
129 CGTCAA-TCATCAGAGATACTCCAACCCCGTTACATCCGAGGGAACACTCCAACCCCG
2665794 TTATTATCTC
Statistics
Matches: 159, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
210 26 0.16
211 99 0.62
212 34 0.21
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (211 bp):
CATAATCGGGGATACTCCAACTCCGATTTTAATTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCAAGGACACTCCAACCCCG
TCAATCATCAGAGATACTCCAACCCCGTTACATCCGAGGGAACACTCCAACCCCGACTTTATTTA
CAAAATATTGATTTTT
Found at i:2666771 original size:13 final size:13
Alignment explanation
Indices: 2666753--2666778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2666743 CAATTTTTTG
2666753 TGTATCGATACAT
1 TGTATCGATACAT
2666766 TGTATCGATACAT
1 TGTATCGATACAT
2666779 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2667425 original size:14 final size:14
Alignment explanation
Indices: 2667406--2667432 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2667396 TTCTCCCTTA
2667406 AACAAAATAATTTT
1 AACAAAATAATTTT
2667420 AACAAAATAATTT
1 AACAAAATAATTT
2667433 CTCCCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AACAAAATAATTTT
Found at i:2667574 original size:12 final size:12
Alignment explanation
Indices: 2667557--2667582 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2667547 TAATTCACAC
2667557 ATATCAAAATTT
1 ATATCAAAATTT
2667569 ATATCAAAATTT
1 ATATCAAAATTT
2667581 AT
1 AT
2667583 TTGCATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATCAAAATTT
Found at i:2669388 original size:13 final size:13
Alignment explanation
Indices: 2669370--2669434 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
2669360 ATAATCCTCC
*
2669370 TGTATCGATACAG
1 TGTATCGATACAA
2669383 TGTATCGATACAA
1 TGTATCGATACAA
*
2669396 TGTATCGATACAG
1 TGTATCGATACAA
2669409 TGTATCGATACAA
1 TGTATCGATACAA
2669422 TGTATCGATACAA
1 TGTATCGATACAA
2669435 AGAAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2669399 original size:26 final size:26
Alignment explanation
Indices: 2669370--2669433 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
2669360 ATAATCCTCC
2669370 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
2669396 TGTATCGATACAGTGTATCGATACAA
1 TGTATCGATACAGTGTATCGATACAA
2669422 TGTATCGATACA
1 TGTATCGATACA
2669434 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTATCGATACAGTGTATCGATACAA
Found at i:2671517 original size:15 final size:15
Alignment explanation
Indices: 2671497--2671527 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2671487 ATTTCGTTTG
*
2671497 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2671512 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2671527 G
1 G
2671528 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2673360 original size:21 final size:21
Alignment explanation
Indices: 2673331--2673375 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2673321 AAGTTTTCAT
*
2673331 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2673351 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2673373 TTT
1 TTT
2673376 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2675602 original size:28 final size:28
Alignment explanation
Indices: 2675521--2675602 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2675511 TTTTGGAGAT
*
2675521 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2675549 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2675577 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2675603 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2675745 original size:51 final size:51
Alignment explanation
Indices: 2675585--2675752 Score: 192
Period size: 51 Copynumber: 3.2 Consensus size: 51
2675575 GAAATAACGA
* * *
2675585 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2675637 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2675690 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2675741 GGTTGGAGTATC
1 GGTTGGAGTATC
2675753 TCCTCAAAAA
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 36 0.38
52 16 0.17
53 32 0.34
54 10 0.11
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2678280 original size:20 final size:20
Alignment explanation
Indices: 2678253--2678307 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
2678243 TAAAATTTCC
*
2678253 AAATGTATCGATACAAAGAT
1 AAATGTATCGATACAAAGAA
** *
2678273 CCATGTATCGATACACAGAA
1 AAATGTATCGATACAAAGAA
2678293 AAATGTATCGATACA
1 AAATGTATCGATACA
2678308 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AAATGTATCGATACAAAGAA
Found at i:2678351 original size:19 final size:18
Alignment explanation
Indices: 2678327--2678394 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2678317 CAGTAGCTAA
2678327 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2678346 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2678361 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2678378 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2678395 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2678367 original size:13 final size:13
Alignment explanation
Indices: 2678349--2678373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2678339 ACAATACTTA
2678349 TGTATCGATACAT
1 TGTATCGATACAT
2678362 TGTATCGATACA
1 TGTATCGATACA
2678374 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2678371 original size:32 final size:32
Alignment explanation
Indices: 2678330--2678392 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2678320 TAGCTAATTA
*
2678330 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2678362 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2678393 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2679204 original size:55 final size:55
Alignment explanation
Indices: 2679109--2679903 Score: 1079
Period size: 55 Copynumber: 14.3 Consensus size: 55
2679099 ATAAAGTGTA
* * * * * * *
2679109 TCCTTCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
2679164 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* * *
2679219 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAA-ATAAAAAG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGT-----G
** * * *
2679278 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAACGTG
1 --TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2679335 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2679390 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTAGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2679445 TCCTGCTTTTTGAGGACTCGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
2679500 TCCTGCTCTTCGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2679555 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2679610 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
2679666 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2679721 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
2679776 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
2679831 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGACGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
2679886 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2679904 AAAAAGCGGA
Statistics
Matches: 668, Mismatches: 50, Indels: 44
0.88 0.07 0.06
Matches are distributed among these distances:
54 19 0.03
55 535 0.80
56 65 0.10
57 2 0.00
59 1 0.00
61 45 0.07
62 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:2679243 original size:26 final size:26
Alignment explanation
Indices: 2679155--2679244 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
2679145 GTGTGGGCTT
* *
2679155 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
2679181 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
2679208 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
2679236 TGAAAGGTG
1 TGAAAGGTG
2679245 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:2680907 original size:11 final size:10
Alignment explanation
Indices: 2680885--2680947 Score: 56
Period size: 11 Copynumber: 6.0 Consensus size: 10
2680875 CTTTTCTCTC
*
2680885 TTTTTCTTTG
1 TTTTTTTTTG
2680895 TTTTGTTTTTG
1 TTTT-TTTTTG
2680906 TTTTTTTTT-
1 TTTTTTTTTG
*
2680915 TTTTTTTCCTTT
1 TTTTTTT--TTG
2680927 TTTTTTTTTG
1 TTTTTTTTTG
*
2680937 CTCTTTTTTTG
1 -TTTTTTTTTG
2680948 AAGAGAAGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.16
10 11 0.24
11 20 0.44
12 7 0.16
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:2680920 original size:17 final size:18
Alignment explanation
Indices: 2680868--2680935 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
2680858 CTTAAGTAGG
* *
2680868 TTTTTTTCTTTTCTCTCTT
1 TTTTTTTTTTTTTTC-CTT
**
2680887 TTTCTTTGTTTTGTTTTTGTT
1 TTT-TTT-TTTT-TTTTCCTT
2680908 TTTTTTTTTTTTTTCCTT
1 TTTTTTTTTTTTTTCCTT
2680926 TTTTTTTTTT
1 TTTTTTTTTT
2680936 GCTCTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
18 16 0.40
19 7 0.17
20 6 0.15
21 8 0.20
22 3 0.08
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTTTTTTCCTT
Found at i:2680942 original size:16 final size:16
Alignment explanation
Indices: 2680889--2680946 Score: 64
Period size: 15 Copynumber: 3.6 Consensus size: 16
2680879 TCTCTCTTTT
*
2680889 TCTTTGTTTTGTTTTTGT
1 TCTTT-TTTT-TTTTTGC
* *
2680907 TTTTTTTTTTTTTTTC
1 TCTTTTTTTTTTTTGC
2680923 -CTTTTTTTTTTTTGC
1 TCTTTTTTTTTTTTGC
2680938 TCTTTTTTT
1 TCTTTTTTT
2680947 GAAGAGAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 13 0.38
16 13 0.38
17 4 0.12
18 4 0.12
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (16 bp):
TCTTTTTTTTTTTTGC
Found at i:2680944 original size:17 final size:16
Alignment explanation
Indices: 2680885--2680946 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
2680875 CTTTTCTCTC
*
2680885 TTTT-TCTTTGTTTTGT
1 TTTTGTCTTT-TTTTTT
2680901 TTTTGT-TTTTTTTTT
1 TTTTGTCTTTTTTTTT
* *
2680916 TTTTTTCCTTTTTTTT
1 TTTTGTCTTTTTTTTT
2680932 TTTTGCTCTTTTTTT
1 TTTTG-TCTTTTTTT
2680947 GAAGAGAAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 10 0.26
16 19 0.50
17 9 0.24
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.85
Consensus pattern (16 bp):
TTTTGTCTTTTTTTTT
Found at i:2693416 original size:28 final size:28
Alignment explanation
Indices: 2693335--2693416 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2693325 TTTTGGAGAT
*
2693335 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2693363 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2693391 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2693417 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2693559 original size:51 final size:51
Alignment explanation
Indices: 2693399--2693569 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2693389 GAAATAACGA
* * *
2693399 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2693451 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2693504 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2693555 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2693570 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2693615 original size:27 final size:28
Alignment explanation
Indices: 2693552--2693627 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
2693542 AAAATAAAGT
*
2693552 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
2693580 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
2693607 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2693628 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:2704360 original size:27 final size:29
Alignment explanation
Indices: 2704330--2704400 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 29
2704320 GGAGATAATA
* * *
2704330 AACGAGGTTGG-GTGTTCCC-TCGGAAGT
1 AACGAGGTTGGAGTATTCCCGTAGGAAAT
* *
2704357 AACGGGGTTGGAGTATTCCCGTATGAAAT
1 AACGAGGTTGGAGTATTCCCGTAGGAAAT
2704386 AACGAGGTT-GAGTAT
1 AACGAGGTTGGAGTAT
2704401 CCTCGATTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 10 0.28
28 13 0.36
29 13 0.36
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (29 bp):
AACGAGGTTGGAGTATTCCCGTAGGAAAT
Found at i:2704451 original size:52 final size:52
Alignment explanation
Indices: 2704395--2704521 Score: 132
Period size: 53 Copynumber: 2.4 Consensus size: 52
2704385 TAACGAGGTT
* * * * *
2704395 GAGTATCCTCGATTGTGAAAAAATTGGTATTTTTGGAAAT-AAATCGGAATTG
1 GAGTATCCCCGATTGTGAAAAAATTGGT-GTGTTGAAAATAAAACCGGAATTG
* **
2704447 GAGTATCCCCGATTAAG-GAGAAAATTGGTGTGTTGAAAATAAAACCGGGGTTG
1 GAGTATCCCCGATT--GTGAAAAAATTGGTGTGTTGAAAATAAAACCGGAATTG
*
2704500 GAGTATCCCCGATTATGAAAAA
1 GAGTATCCCCGATTGTGAAAAA
2704522 TCGATATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
52 26 0.43
53 34 0.56
54 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.28
Consensus pattern (52 bp):
GAGTATCCCCGATTGTGAAAAAATTGGTGTGTTGAAAATAAAACCGGAATTG
Found at i:2715472 original size:28 final size:28
Alignment explanation
Indices: 2715391--2715472 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
2715381 TTTTGGAGAT
*
2715391 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
2715419 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
2715447 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
2715473 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:2715615 original size:51 final size:51
Alignment explanation
Indices: 2715455--2715625 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
2715445 GAAATAACGA
* * *
2715455 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
2715507 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
2715560 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
2715611 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2715626 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:2718164 original size:13 final size:13
Alignment explanation
Indices: 2718146--2718171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2718136 ACAAAGATCC
2718146 ATGTATCGATACA
1 ATGTATCGATACA
2718159 ATGTATCGATACA
1 ATGTATCGATACA
2718172 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2718167 original size:33 final size:33
Alignment explanation
Indices: 2718125--2718191 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2718115 AAAATTTCCA
***
2718125 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2718158 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2718191 A
1 A
2718192 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2718235 original size:19 final size:18
Alignment explanation
Indices: 2718211--2718278 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2718201 CAGTAGCTAA
2718211 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2718230 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2718245 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2718262 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2718279 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2718251 original size:13 final size:13
Alignment explanation
Indices: 2718233--2718257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2718223 ACAATACTTA
2718233 TGTATCGATACAT
1 TGTATCGATACAT
2718246 TGTATCGATACA
1 TGTATCGATACA
2718258 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.