Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 14 of 141
Found at i:4173934 original size:6 final size:6
Alignment explanation
Indices: 4173916--4174006 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
4173906 AAGAAACATT
* * *
4173916 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGGCG A-GAGA ATCAGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * * *
4173965 ATCAGT ATCAGGTA A-CAGG ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
4174007 GTAACAGAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
5 3 0.05
6 53 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:4173997 original size:31 final size:31
Alignment explanation
Indices: 4173927--4174021 Score: 127
Period size: 31 Copynumber: 3.1 Consensus size: 31
4173917 TCAGAACTAG
* ** * *
4173927 AATCAGAATCAGAATCAGGCGAGAGAATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
* *
4173958 AATTAGAATCAGTATCAGGTAACAGGATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
4173989 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
4174020 AA
1 AA
4174022 ATTAGAATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:4174229 original size:26 final size:27
Alignment explanation
Indices: 4174166--4174239 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
4174156 GCTCAGTTAT
* *
4174166 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
4174193 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
4174219 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
4174240 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:4174425 original size:22 final size:22
Alignment explanation
Indices: 4174397--4174461 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
4174387 GGCAAATACT
*
4174397 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
4174419 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
4174441 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
4174462 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:4174943 original size:27 final size:27
Alignment explanation
Indices: 4174888--4176053 Score: 1917
Period size: 27 Copynumber: 43.3 Consensus size: 27
4174878 GGGGCGAAAT
* * *
4174888 GGTAATTTTACC-CACAA-GGTATCTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * ** * *
4174913 AGTAATTCCACCCCACAGGGGTATTTT
1 GGTAATTCTACCTTACAAGGGTATTTC
* * * *
4174940 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * * *
4174967 GATAATTCTACCCTAC-AGGAATATTGC
1 GGTAATTCTACCTTACAAGG-GTATTTC
* * * *
4174994 GATAATTCTACCCTACAGGGGTATGTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * *
4175021 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * *
4175048 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* *
4175075 GGTAATTCTATCC-TACAGGGGTATTGC
1 GGTAATTCTA-CCTTACAAGGGTATTTC
* * *
4175102 GATAATTCTACCCTACAAGGGTTTTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * *
4175129 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * *
4175156 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
* * *
4175183 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175210 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175237 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175264 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175291 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175318 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175345 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175372 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175399 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175426 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175453 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175480 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175507 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175534 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175561 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175588 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175615 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175642 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175669 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175696 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175723 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175750 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175777 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175804 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175831 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175858 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175885 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175912 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175939 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175966 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4175993 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4176020 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCTTACAAGGGTATTTC
4176047 GGTAATT
1 GGTAATT
4176054 TTGTAAATCG
Statistics
Matches: 1093, Mismatches: 42, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
25 9 0.01
26 8 0.01
27 1072 0.98
28 4 0.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCTTACAAGGGTATTTC
Found at i:4176067 original size:27 final size:27
Alignment explanation
Indices: 4175225--4176378 Score: 317
Period size: 27 Copynumber: 42.7 Consensus size: 27
4175215 TTCTACCTTA
* * **
4175225 CAAGGGTATTTCGGTAATTCTAC-CTT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175251 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175278 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175305 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175332 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175359 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175386 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175413 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175440 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175467 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175494 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175521 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175548 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175575 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175602 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175629 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175656 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175683 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175710 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175737 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175764 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175791 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175818 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175845 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175872 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175899 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175926 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175953 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4175980 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4176007 ACAAGGGTATTTCGGTAATTCTAC-CTT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* **
4176034 ACAAGGGTATTTCGGTAATTTTGTAAAT
1 -CAAGGGTATTTTGGTAATTTTACAAAT
* *** * *
4176062 CGAGGGTAAAATGGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
4176089 TAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
4176116 CGAGGGTATTTCT-ATAATTTTACAGGT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
** ** * *
4176143 TGAGGGTATTTCAGTAATTTCACAGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
4176170 TAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
4176196 CTAGGGGTATTTTGATAATTTTACAAA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* *
4176223 CCAGTGGTATTTTGGTAATTTTATAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * *
4176251 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
4176278 CAGGGGTATTTTGGTAATTTTGCAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
4176304 CTAGGGGTATTTTGGTGATTTTATAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
*
4176332 CAAGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
4176358 CCAGAGGTATTTTGGTAATTT
1 CAAG-GGTATTTTGGTAATTT
4176379 GGTAAACTAA
Statistics
Matches: 1058, Mismatches: 60, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
26 5 0.00
27 1048 0.99
28 5 0.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:4176623 original size:20 final size:20
Alignment explanation
Indices: 4176571--4176624 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
4176561 AGGCCCATTG
*
4176571 GGCCCA-CATGGCCCCTTTC
1 GGCCCATCACGGCCCCTTTC
* * *
4176590 GGCTCATTATGGCCCCTTTC
1 GGCCCATCACGGCCCCTTTC
*
4176610 GGCCCATCGCGGCCC
1 GGCCCATCACGGCCC
4176625 GAAGTAGCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.09, C:0.44, G:0.24, T:0.22
Consensus pattern (20 bp):
GGCCCATCACGGCCCCTTTC
Found at i:4177723 original size:39 final size:39
Alignment explanation
Indices: 4177648--4177723 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
4177638 AACCTATTAT
* * *
4177648 TGAGTATTGTGATATATGCTTGAATGTTATGCAATTAAA
1 TGAGTATTGCGATATATGCTTGAATATTAAGCAATTAAA
* * *
4177687 TGAGTATTGCGATTTGTGCTTGAATATTAAGTAATTA
1 TGAGTATTGCGATATATGCTTGAATATTAAGCAATTA
4177724 TACGTGTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATATTAAGCAATTAAA
Found at i:4179851 original size:37 final size:37
Alignment explanation
Indices: 4179792--4179900 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
4179782 AGCTCAGATG
* * *
4179792 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
4179829 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
4179866 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
4179901 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:4180102 original size:48 final size:48
Alignment explanation
Indices: 4180047--4180641 Score: 877
Period size: 48 Copynumber: 12.1 Consensus size: 48
4180037 ACACATCGCC
*
4180047 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4180095 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4180143 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4180191 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
4180239 TATATATACTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATAT--TTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
4180289 TACATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
4180341 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* * *
4180393 TATATATTTCGCATTAGCCATTCGGCTTTACCACATGTACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4180441 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
4180489 TACATATTTCACATTAGCCATTCGGCTTTTCCACGTATACATATCTTATACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC---T-CA
* *
4180541 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
4180589 TACATATTTCACATTATCCATTTGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
4180637 TACAT
1 TACAT
4180642 CAATTTCAGC
Statistics
Matches: 503, Mismatches: 32, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
48 321 0.64
49 3 0.01
50 43 0.09
51 1 0.00
52 135 0.27
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:4180448 original size:100 final size:96
Alignment explanation
Indices: 4180047--4180641 Score: 877
Period size: 100 Copynumber: 6.1 Consensus size: 96
4180037 ACACATCGCC
*
4180047 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
4180112 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
*
4180143 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
4180208 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
* *
4180239 TATATATACTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACAT
1 TACATAT--TTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
4180303 TAGCCATTCGGCTTTACCAGATATACATATCTCATATA
63 TAGCCATTCGGCTTTACCACATATACATATCTC----A
* * * * *
4180341 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATATTTCGCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
*
4180406 TTAGCCATTCGGCTTTACCACATGTACATATCTCA
62 TTAGCCATTCGGCTTTACCACATATACATATCTCA
*
4180441 TACATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
4180506 CCATTCGGCTTTTCCACGTATACATATCTTATACA
66 CCATTCGGCTTTACCACATATACATATC---T-CA
* * *
4180541 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
* *
4180606 CCATTTGGCTTTACCACATATACATATCTTA
66 CCATTCGGCTTTACCACATATACATATCTCA
4180637 TACAT
1 TACAT
4180642 CAATTTCAGC
Statistics
Matches: 454, Mismatches: 29, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
96 146 0.32
97 2 0.00
98 83 0.18
99 1 0.00
100 170 0.37
102 8 0.02
104 44 0.10
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:4195300 original size:23 final size:23
Alignment explanation
Indices: 4195274--4195322 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
4195264 AACTTTGATC
4195274 AAGTTTCATAAGCTTATTTAGAA
1 AAGTTTCATAAGCTTATTTAGAA
*
4195297 AAGTTTCATAAGCTTATTTAGCA
1 AAGTTTCATAAGCTTATTTAGAA
4195320 AAG
1 AAG
4195323 GCAATGTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (23 bp):
AAGTTTCATAAGCTTATTTAGAA
Found at i:4200349 original size:28 final size:28
Alignment explanation
Indices: 4200301--4200366 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
4200291 GTGACAGAGT
*
4200301 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
4200330 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
4200358 CACCAGAAC
1 CACCAGAAC
4200367 GCTTCCTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 27 0.77
29 7 0.20
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:4200516 original size:28 final size:28
Alignment explanation
Indices: 4200469--4200533 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
4200459 AAATTAACCC
*
4200469 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
4200497 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
4200525 TAGGGGTAT
1 TAGGGGTAT
4200534 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:4256605 original size:37 final size:37
Alignment explanation
Indices: 4256545--4256660 Score: 173
Period size: 37 Copynumber: 3.2 Consensus size: 37
4256535 AGTACACAAT
* * *
4256545 TAATCCAACCGA-AACATGCCAAATGATCATAAGAGC
1 TAATACAACCGATAACACGCCAAATGCTCATAAGAGC
*
4256581 TAATACAACCGATAACACGCCAAATGCTCATAAGAGT
1 TAATACAACCGATAACACGCCAAATGCTCATAAGAGC
*
4256618 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
1 TAATACAACCGATAACACGCCAAATGCTCATAAGAGC
4256655 T-ATACA
1 TAATACA
4256661 TCCGCCCCTA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 15 0.21
37 57 0.79
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.18
Consensus pattern (37 bp):
TAATACAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:4262589 original size:17 final size:18
Alignment explanation
Indices: 4262567--4262600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4262557 CTTAATGTCT
4262567 GTTCTA-GAACTCACTAA
1 GTTCTATGAACTCACTAA
*
4262584 GTTCTATGAACTTACTA
1 GTTCTATGAACTCACTA
4262601 CATTACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (18 bp):
GTTCTATGAACTCACTAA
Found at i:4265762 original size:39 final size:38
Alignment explanation
Indices: 4265665--4265762 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 38
4265655 TATCCTAAAC
* * *
4265665 TATGACATAATTAAAACCCTTATTAATGTTGTTCAAAT
1 TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
4265703 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
4265742 TATGACATAATTAAACACTCA
1 TATGACATAATTAAA-ACTCA
4265763 AACTAAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 15 0.27
39 40 0.73
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
Found at i:4266909 original size:40 final size:40
Alignment explanation
Indices: 4266866--4267046 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 40
4266856 TTAATTATAT
* *
4266866 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
4266906 TGATTACACACATGTGCCCCTGTTTGTACTAT-GATACCCC
1 TGATTACACATACGTGCCCCTGTTTGTACT-TCGGTACCCC
* * *
4266946 TGATTTCACATACGTGCCCCTGTTTGTACTTTGGTTCCCC
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
** * * *
4266986 TGACAACACACACGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
4267026 TGATTATAGATACGTGCCCCT
1 TGATTACACATACGTGCCCCT
4267047 ATCTATACCT
Statistics
Matches: 116, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 114 0.98
41 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (40 bp):
TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:4266969 original size:80 final size:80
Alignment explanation
Indices: 4266866--4267046 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 80
4266856 TTAATTATAT
* * ** * *
4266866 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTACACACATGTGCCCCTGTTT
1 TGATTTCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
*
4266931 GTACTATGA-TACCCC
66 GTACT-TCAGTACCCC
* *
4266946 TGATTTCACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTGACAACACACACGTGCCCCTATTT
1 TGATTTCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
4267011 GTACTTCAGTACCCC
66 GTACTTCAGTACCCC
*
4267026 TGATTAT-AGATACGTGCCCCT
1 TGATT-TCACATACGTGCCCCT
4267047 ATCTATACCT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 86 0.97
81 1 0.01
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (80 bp):
TGATTTCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
GTACTTCAGTACCCC
Found at i:4270349 original size:16 final size:17
Alignment explanation
Indices: 4270326--4270369 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
4270316 TAAAAAAAAT
4270326 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
*
4270341 TAAATTAAATTGGGAAG
1 TAAATTAAATTGGGAAA
4270358 TAAATTCAAATT
1 TAAATT-AAATT
4270370 TTTTAAACAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 10 0.40
18 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:4272810 original size:40 final size:40
Alignment explanation
Indices: 4272755--4273014 Score: 290
Period size: 40 Copynumber: 6.5 Consensus size: 40
4272745 TGATTGCACG
* ** * *
4272755 TACGTGCCCCTGTTTGTACTTTGGTACCCCCGATTTCATA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* *
4272795 TACGTGCCCCTGTTTGTACTT-GGTACCCCTTATTGCACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * *
4272834 TACGTGCCCATGTTTGTACTTCAGTACTCCTAATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * * *
4272874 CAAGTGCCCCTGTTTGTACGTCGGTACCCCTAATTGCACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * *
4272914 TACGTGCCCCTATTTGTACTTCGGTATCTCTAATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
* * * *
4272954 CACGTGCCTCTATTTGCACTTCGGTACCCC-ATATTACACA
1 TACGTGCCCCTGTTTGTACTTCGGTACCCCTA-ATTACACA
* *
4272994 TACGTGCCCCTATTTATACTT
1 TACGTGCCCCTGTTTGTACTT
4273015 TGATAATTTT
Statistics
Matches: 186, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 35 0.19
40 151 0.81
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.35
Consensus pattern (40 bp):
TACGTGCCCCTGTTTGTACTTCGGTACCCCTAATTACACA
Found at i:4277798 original size:56 final size:54
Alignment explanation
Indices: 4277672--4277834 Score: 181
Period size: 54 Copynumber: 3.0 Consensus size: 54
4277662 GGCCATGGCA
*
4277672 AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGTATCATATGGGGAAG
1 AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
* * *
4277726 TGAAGACCATATAGTGTAAGACCTAGTCATGGTGGCTAT-GACATCATATGAGGATA-
1 AGAAGACCATATAGTGTAAGACCTAGTC-TGGT-ACTATAG-CATCATATGGGGA-AG
* * *
4277782 AG-AGAACCATATAGTGTAAGACCTAGTCTAGG-ACTATGGCGTCATGTGGGGAA
1 AGAAG-ACCATATAGTGTAAGACCTAGTCT-GGTACTATAGCATCATATGGGGAA
4277835 AAGATAAAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
53 1 0.01
54 41 0.44
55 9 0.10
56 41 0.44
57 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (54 bp):
AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
Found at i:4280270 original size:7 final size:7
Alignment explanation
Indices: 4280258--4280291 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4280248 GCATGATTTA
4280258 TAATATT
1 TAATATT
4280265 TAATATT
1 TAATATT
4280272 TAATATT
1 TAATATT
4280279 TAATATT
1 TAATATT
4280286 TAATAT
1 TAATAT
4280292 AGTATGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAATATT
Found at i:4282527 original size:5 final size:5
Alignment explanation
Indices: 4282517--4282541 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4282507 ATATATCCCC
4282517 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
4282542 TTTGTGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:4285130 original size:20 final size:18
Alignment explanation
Indices: 4285105--4285141 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
4285095 TTTTAAATTT
4285105 CTTTATATATTCTTTAAAAA
1 CTTTATAT-TT-TTTAAAAA
4285125 CTTTATATTTTTTAAAA
1 CTTTATATTTTTTAAAA
4285142 GTATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 2 0.12
20 8 0.47
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (18 bp):
CTTTATATTTTTTAAAAA
Found at i:4285764 original size:16 final size:16
Alignment explanation
Indices: 4285743--4285784 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
4285733 AATAATTTGA
*
4285743 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
4285759 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
4285775 TAGTTTTAAT
1 TAATTTTAAT
4285785 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:4285768 original size:22 final size:23
Alignment explanation
Indices: 4285758--4285813 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
4285748 TTACTAACAA
* * *
4285758 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
4285780 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
4285803 TTAATTTTAAT
1 TTAATTTTAAT
4285814 TTTAATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:4285807 original size:6 final size:6
Alignment explanation
Indices: 4285798--4285826 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4285788 ATTAAAAAAA
4285798 TAATTT TAATTT TAATTT TAATTT TAATT
1 TAATTT TAATTT TAATTT TAATTT TAATT
4285827 AAAAACGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TAATTT
Found at i:4293106 original size:47 final size:47
Alignment explanation
Indices: 4293028--4293293 Score: 164
Period size: 47 Copynumber: 5.6 Consensus size: 47
4293018 CCCTTCGGGA
* * *
4293028 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * * **
4293075 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * ** * * * *
4293122 CTTATCACGCTTTA-ACCCGGAT-ATAGT-ACTGACACAAAT-GCC-CTTCGGGA
1 CTTATCAC-ATATATACAC-TTTCACATTCA-T--CAC-ATTGGCCAC-TC-GGC
* * *
4293172 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * * **
4293219 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
4293266 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
4293294 ATGGGTTTAA
Statistics
Matches: 159, Mismatches: 45, Indels: 28
0.69 0.19 0.12
Matches are distributed among these distances:
46 1 0.01
47 99 0.62
48 12 0.08
49 31 0.19
50 15 0.09
51 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:4293248 original size:144 final size:144
Alignment explanation
Indices: 4292988--4293273 Score: 572
Period size: 144 Copynumber: 2.0 Consensus size: 144
4292978 CCTGCGGGGT
4292988 TTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACA
1 TTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACA
4293053 TCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
66 TCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
4293118 AAGCCTTATCACGC
131 AAGCCTTATCACGC
4293132 TTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACA
1 TTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACA
4293197 TCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
66 TCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
4293262 AAGCCTTATCAC
131 AAGCCTTATCAC
4293274 ATATATATAC
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 142 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.29
Consensus pattern (144 bp):
TTTAACCCGGATATAGTACTGACACAAATGCCCTTCGGGACTTATCACATTTATGCACTTTCACA
TCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
AAGCCTTATCACGC
Found at i:4294726 original size:13 final size:13
Alignment explanation
Indices: 4294708--4294732 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4294698 TACTAAATTT
4294708 TCATGGATTCAAG
1 TCATGGATTCAAG
4294721 TCATGGATTCAA
1 TCATGGATTCAA
4294733 TATACCATTA
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:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:4301271 original size:25 final size:24
Alignment explanation
Indices: 4301237--4301307 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
4301227 CATAACTTCA
* *
4301237 CCACTAAGGCTGTCCGAATAATACG
1 CCACAAAGGCTGTCAG-ATAATACG
* * *
4301262 CCACATAGGCCTTTCAGATAATTCG
1 CCACAAAGG-CTGTCAGATAATACG
*
4301287 CCACAAAGGCTTTACAGATAA
1 CCACAAAGGCTGT-CAGATAA
4301308 CTTTGCCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 4 0.11
25 29 0.76
26 5 0.13
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (24 bp):
CCACAAAGGCTGTCAGATAATACG
Found at i:4301321 original size:26 final size:24
Alignment explanation
Indices: 4301254--4301606 Score: 123
Period size: 25 Copynumber: 14.0 Consensus size: 24
4301244 GGCTGTCCGA
* *
4301254 ATAATACGCCACATAGGCCTTTCAG
1 ATAATTCGCCACAAAGG-CTTTCAG
4301279 ATAATTCGCCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * *
4301304 ATAACTTTGCCACTAAGGCTTTCTG
1 ATAA-TTCGCCACAAAGGCTTTCAG
* * * *
4301329 AATAATACACCACATATGCCTTTCAG
1 -ATAATTCGCCACA-AAGGCTTTCAG
** *
4301355 ATAATTTTCCACAAAGGCTTTATAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* ** * *
4301380 GTAACTTTACTACTAAA-GCTTTCTG
1 ATAA-TTCGCCAC-AAAGGCTTTCAG
* * * * * *
4301405 AATAATACACTACAAAGACCATTCAA
1 -ATAATTCGCCACAAAG-GCTTTCAG
*
4301431 ATAATTCACCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * * * *
4301456 ATTACTCACTACAAAGGCTTCCCAA
1 ATAATTCGCCACAAAGGCTT-TCAG
* * *
4301481 ATAATACGCCACAAAGACCATTCAG
1 ATAATTCGCCACAAAG-GCTTTCAG
* * ** *
4301506 ATAATTTGCCATAAAGATTTTACAA
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * *
4301531 ATTACTCACCACAAAGGCTTTCCG
1 ATAATTCGCCACAAAGGCTTTCAG
* * *
4301555 AATAATACGCCATAAAGGCCTTTAAG
1 -ATAATTCGCCACAAAGG-CTTTCAG
* *
4301581 ATAATTCGTCAAAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
4301606 A
1 A
4301607 CTACTCGTCT
Statistics
Matches: 235, Mismatches: 76, Indels: 34
0.68 0.22 0.10
Matches are distributed among these distances:
24 23 0.10
25 157 0.67
26 52 0.22
27 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (24 bp):
ATAATTCGCCACAAAGGCTTTCAG
Found at i:4301332 original size:76 final size:76
Alignment explanation
Indices: 4301228--4301606 Score: 384
Period size: 76 Copynumber: 5.0 Consensus size: 76
4301218 GGATTCCCAC
* *
4301228 ATAACTTCACCACTAAGGCTGTCCGAATAATACGCCACATAGGCCTTTCAGATAATTCGCCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
4301293 AGGCTTTACAG
66 AGGCTTTACAG
** * * * * **
4301304 ATAACTTTGCCACTAAGGCTTTCTGAATAATACACCACATATGCCTTTCAGATAATTTTCCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
*
4301369 AGGCTTTATAG
66 AGGCTTTACAG
* * * * * * * * * * *
4301380 GTAACTTTACTACTAAAGCTTTCTGAATAATACACTACAAAGACCATTCAAATAATTCACCACAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
4301445 AGGCTTTACAG
66 AGGCTTTACAG
* * * * * * * * *
4301456 ATTAC-TCACTACAAAGGCTTCCCAAATAATACGCCACAAAGACCATTCAGATAATTTGCCATAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
** *
4301520 AGATTTTACAA
66 AGGCTTTACAG
* * * * * *
4301531 ATTAC-TCACCACAAAGGCTTTCCGAATAATACGCCATAAAGGCCTTTAAGATAATTCGTCAAAA
1 ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
4301595 AGGCTTTACAG
66 AGGCTTTACAG
4301606 A
1 A
4301607 CTACTCGTCT
Statistics
Matches: 251, Mismatches: 52, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
75 118 0.47
76 133 0.53
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (76 bp):
ATAACTTCACCACTAAGGCTTTCCGAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
AGGCTTTACAG
Found at i:4301497 original size:75 final size:75
Alignment explanation
Indices: 4301234--4301612 Score: 348
Period size: 75 Copynumber: 5.0 Consensus size: 75
4301224 CCACATAACT
* * * * *
4301234 TCACCACTAAGGCTGTCCGAATAATACGCCACATAGGCCTTTCAGATAATTCGCCACAAAGGCTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
4301299 TACAGATAAC
66 TACAGATTAC
** * * * * * **
4301309 TTTGCCACTAAGGCTTTCTGAATAATACACCACATATG-CCTTTCAGATAATTTTCCACAAAGGC
1 -TCACCACAAAGGCTTTCCGAATAATACGCCACA-AAGACCATTCAGATAATTCGCCACAAAGGC
* * *
4301373 TTTATAGGTAAC
64 TTTACAGATTAC
* * * * * * *
4301385 TTTACTACTAAA-GCTTTCTGAATAATACACTACAAAGACCATTCAAATAATTCACCACAAAGGC
1 -TCACCAC-AAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGC
4301449 TTTACAGATTAC
64 TTTACAGATTAC
* * * * * **
4301461 TCACTACAAAGGCTTCCCAAATAATACGCCACAAAGACCATTCAGATAATTTGCCATAAAGATTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
4301526 TACAAATTAC
66 TACAGATTAC
* * * * * *
4301536 TCACCACAAAGGCTTTCCGAATAATACGCCATAAAGGCCTTTAAGATAATTCGTCAAAAAGGCTT
1 TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
*
4301601 TACAGACTAC
66 TACAGATTAC
4301611 TC
1 TC
4301613 GTCTCAAAGT
Statistics
Matches: 249, Mismatches: 50, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
74 3 0.01
75 123 0.49
76 120 0.48
77 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (75 bp):
TCACCACAAAGGCTTTCCGAATAATACGCCACAAAGACCATTCAGATAATTCGCCACAAAGGCTT
TACAGATTAC
Found at i:4308180 original size:8 final size:8
Alignment explanation
Indices: 4308167--4308200 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
4308157 TACTGTGAGG
4308167 TCAAAAGA
1 TCAAAAGA
4308175 TCAAAAGA
1 TCAAAAGA
4308183 TCAAAAGA
1 TCAAAAGA
4308191 TCAAAAGA
1 TCAAAAGA
4308199 TC
1 TC
4308201 CTGCTAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (8 bp):
TCAAAAGA
Found at i:4312166 original size:36 final size:36
Alignment explanation
Indices: 4312094--4312169 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
4312084 AGAAATATTG
* * *
4312094 AAGATCATATTTGGGATATAATACTTGTATGAGGGA
1 AAGATCATATGTGGGATACAATACTTGTATCAGGGA
*
4312130 AAGATCATATGTGGGATACAGTACTTGTA-CATGGGA
1 AAGATCATATGTGGGATACAATACTTGTATCA-GGGA
4312166 AAGA
1 AAGA
4312170 GGTGCAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (36 bp):
AAGATCATATGTGGGATACAATACTTGTATCAGGGA
Found at i:4323723 original size:16 final size:18
Alignment explanation
Indices: 4323695--4323728 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4323685 TAGAATTGTG
4323695 TTTGAGAAAATT-ATTTA
1 TTTGAGAAAATTAATTTA
4323712 TTTGAG-AAATTAATTTA
1 TTTGAGAAAATTAATTTA
4323729 GTTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTGAGAAAATTAATTTA
Found at i:4333072 original size:125 final size:125
Alignment explanation
Indices: 4332869--4333224 Score: 613
Period size: 125 Copynumber: 2.8 Consensus size: 125
4332859 ACAAGGGAGT
* * *
4332869 CCACCAAACTCACCTAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
*
4332934 AGTTAATACCTTACCCACTCAAAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
*
4332994 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAG
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
4333059 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
* * * *
4333119 CCACCAAGCTCGCTGAATGTAGACTTCACCGAAAGGCGCACTTCCTGACTTACATTCTTAGTCAC
1 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
* *
4333184 ACTTAATACCTTACCCACTCAGCACTTGCTCTAAACACCAT
66 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCAT
4333225 ACTTTGATAA
Statistics
Matches: 219, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 219 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (125 bp):
CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
Found at i:4333599 original size:26 final size:27
Alignment explanation
Indices: 4333570--4333622 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
4333560 TTTGTTTTTG
4333570 TATTTCCAA-AAATAAACATCTCAATA
1 TATTTCCAATAAATAAACATCTCAATA
* *
4333596 TATTTCCAATTAAATAATCTTCTCAAT
1 TATTTCCAA-TAAATAAACATCTCAAT
4333623 CCAATTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAACATCTCAATA
Found at i:4333796 original size:51 final size:52
Alignment explanation
Indices: 4333731--4333841 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 52
4333721 ATTTCCAGAC
* *
4333731 CATTTTCATTTTGGAGAAAACCA-CATACATTTTCAAATGATT-TCATTTCTT
1 CATTTTCATTTTGGAGAAAACCATAATA-ATTTTCAAAAGATTCTCATTTCTT
* * *
4333782 TATTTTTATTTTGGAGAAAACCATAATAATTTTCAAAAGTTTCTCATTTCTT
1 CATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTT
4333834 CATTTTCA
1 CATTTTCA
4333842 CCGTTTATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 33 0.65
52 18 0.35
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (52 bp):
CATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTT
Found at i:4341604 original size:12 final size:12
Alignment explanation
Indices: 4341572--4341606 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4341562 ATCAAATACG
4341572 AACTCAAATTTA
1 AACTCAAATTTA
* *
4341584 AAATAAAATTTA
1 AACTCAAATTTA
4341596 AACTCAAATTT
1 AACTCAAATTT
4341607 CGCATATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AACTCAAATTTA
Found at i:4341922 original size:17 final size:19
Alignment explanation
Indices: 4341887--4341924 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4341877 AAAAATTGCG
4341887 TATTTAAAATATAAATATA
1 TATTTAAAATATAAATATA
4341906 TATTTAAAA-AT-AATATA
1 TATTTAAAATATAAATATA
4341923 TA
1 TA
4341925 ATAAATAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTTAAAATATAAATATA
Found at i:4342394 original size:18 final size:18
Alignment explanation
Indices: 4342373--4342410 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4342363 TAAAATATTT
4342373 AAAATT-AAAAAATTATAA
1 AAAATTCAAAAAATT-TAA
*
4342391 AAAATTCATAAAATTTAA
1 AAAATTCAAAAAATTTAA
4342409 AA
1 AA
4342411 TAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTCAAAAAATTTAA
Found at i:4345004 original size:40 final size:41
Alignment explanation
Indices: 4344947--4345027 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
4344937 GAAGCGCTTA
4344947 GTCCACGTGGACGCAAAGCGCGCCCTCAAGGAAGCATTTTCT
1 GTCCACGTGGAC-CAAAGCGCGCCCTCAAGGAAGCATTTTCT
** **
4344989 GTCCACGTGGA-CAAAGCGCTTCCTTGAGGAAGCATTTTC
1 GTCCACGTGGACCAAAGCGCGCCCTCAAGGAAGCATTTTC
4345028 CTACTTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 24 0.69
42 11 0.31
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.22
Consensus pattern (41 bp):
GTCCACGTGGACCAAAGCGCGCCCTCAAGGAAGCATTTTCT
Found at i:4367605 original size:20 final size:20
Alignment explanation
Indices: 4367580--4367630 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
4367570 ACAAGGATGT
* *
4367580 CGAAGTGTATACAGGGGCAC
1 CGAAGTGCAAACAGGGGCAC
4367600 CGAAGTGCAAACAGGGGCAC
1 CGAAGTGCAAACAGGGGCAC
4367620 CGAAGTGCAAA
1 CGAAGTGCAAA
4367631 TCTCGTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.22, G:0.33, T:0.10
Consensus pattern (20 bp):
CGAAGTGCAAACAGGGGCAC
Found at i:4373572 original size:15 final size:14
Alignment explanation
Indices: 4373545--4373592 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
4373535 TTAAATAATA
*
4373545 TTTAGGATTTAGGG
1 TTTAGAATTTAGGG
4373559 TTTAGAATTTTAGGG
1 TTTAGAA-TTTAGGG
*
4373574 TTTAGTATTTAGGG
1 TTTAGAATTTAGGG
4373588 TTTAG
1 TTTAG
4373593 GGTCTATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTAGAATTTAGGG
Found at i:4375728 original size:39 final size:40
Alignment explanation
Indices: 4375684--4375759 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
4375674 TGAGTGCACA
* *
4375684 AGGTTTGAA-CAAATATAAGTATA-TATATGTATATATTCT
1 AGGTTT-AATCAAAGATAAGTATATTATATATATATATTCT
*
4375723 AGGTTTAATCAAAGATATGTATATTATATATATATAT
1 AGGTTTAATCAAAGATAAGTATATTATATATATATAT
4375760 AAGATTCGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.06
39 18 0.56
40 12 0.38
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (40 bp):
AGGTTTAATCAAAGATAAGTATATTATATATATATATTCT
Found at i:4377874 original size:5 final size:5
Alignment explanation
Indices: 4377864--4377897 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
4377854 GATGAAATTT
4377864 GAATC GAATC GAATC GAATC GAATC GAATC GAAT
1 GAATC GAATC GAATC GAATC GAATC GAATC GAAT
4377898 ATATTTGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (5 bp):
GAATC
Found at i:4378576 original size:30 final size:31
Alignment explanation
Indices: 4378537--4378596 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
4378527 AGAGGTGGGA
* *
4378537 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTACGGGAAAAG
*
4378568 TGGG-AGGGAGTAAAAATTTTACGGGAAAA
1 TGGGAAGGGAATAAAAATTTTACGGGAAAA
4378597 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTACGGGAAAAG
Found at i:4378824 original size:9 final size:9
Alignment explanation
Indices: 4378810--4378846 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4378800 TATAGTTTGA
4378810 TATTCGAAT
1 TATTCGAAT
4378819 TATTCGAAT
1 TATTCGAAT
*
4378828 TATTCGAGT
1 TATTCGAAT
4378837 TATTCGAAT
1 TATTCGAAT
4378846 T
1 T
4378847 CAGAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4378917 original size:9 final size:9
Alignment explanation
Indices: 4378900--4378930 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4378890 TCGAGTTGAT
4378900 TCGAATAAC
1 TCGAATAAC
*
4378909 TCGATTAAC
1 TCGAATAAC
4378918 TCGAATAAC
1 TCGAATAAC
4378927 TCGA
1 TCGA
4378931 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:4384860 original size:51 final size:50
Alignment explanation
Indices: 4384800--4385020 Score: 232
Period size: 51 Copynumber: 4.4 Consensus size: 50
4384790 GATGAACACG
4384800 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-AAATAATGGTCACA
* * * * *
4384851 TGTGTAGTACTAAGTGAAGACTACTATGTGTATCGAAAAGCT-TTTGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAA--TAATGGTCACA
* * * *
4384902 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT--TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AAAA-TAATGGTCACA
* * * *
4384952 TGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAA-AATAATGGTCACA
* *
4385003 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
4385021 AACCCCCAAA
Statistics
Matches: 141, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
49 3 0.02
50 41 0.29
51 92 0.65
52 5 0.04
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAAAATAATGGTCACA
Found at i:4384984 original size:101 final size:102
Alignment explanation
Indices: 4384800--4384984 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
4384790 GATGAACACG
* * *
4384800 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
*
4384865 TGAAGACTACTATGTGTATCGAAAAGCTTTTGTCACA
66 TGAAGACTACTACGTGTATCGAAAAGCTTTTGTCACA
* * *
4384902 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-ATGATCACATGTGTAGTACTAA
*
4384965 GTGAAGGCTACTACGTGTAT
65 GTGAAGACTACTACGTGTAT
4384985 TGAATGATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 40 0.54
102 33 0.45
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGACTACTACGTGTATCGAAAAGCTTTTGTCACA
Found at i:4385004 original size:101 final size:102
Alignment explanation
Indices: 4384800--4385020 Score: 259
Period size: 101 Copynumber: 2.2 Consensus size: 102
4384790 GATGAACACG
* * *
4384800 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
* * * * *
4384865 TGAAGACTACTATGTGTATCGAAAAGCTTTTGTCACA
66 TGAAGACTACTACGTGTATCGAAAAGATATAGTAACA
* * *
4384902 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-ATGATCACATGTGTAGTACTAA
* * *
4384965 GTGAAGGCTACTACGTGTATTG-AATGATAATAGTAACA
65 GTGAAGACTACTACGTGTATCGAAAAGAT-ATAGTAACA
* *
4385003 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
4385021 AACCCCCAAA
Statistics
Matches: 101, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
100 5 0.05
101 63 0.62
102 33 0.33
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (102 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAG
TGAAGACTACTACGTGTATCGAAAAGATATAGTAACA
Found at i:4388265 original size:19 final size:19
Alignment explanation
Indices: 4388241--4388302 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
4388231 ATAAATGTTA
4388241 AATATATTCACGAGATTCG
1 AATATATTCACGAGATTCG
**
4388260 AATATATAT-A--A-ATGTTA
1 AATATAT-TCACGAGAT-TCG
4388277 AATATATTCACGAGATTCG
1 AATATATTCACGAGATTCG
4388296 AATATAT
1 AATATAT
4388303 ATATGTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 3 0.09
17 10 0.30
19 17 0.52
20 3 0.09
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (19 bp):
AATATATTCACGAGATTCG
Found at i:4388277 original size:36 final size:36
Alignment explanation
Indices: 4388230--4388305 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
4388220 TAGTTAATGG
4388230 TATAAATGTTAAATATATTCACGAGATTCGAATATA
1 TATAAATGTTAAATATATTCACGAGATTCGAATATA
4388266 TATAAATGTTAAATATATTCACGAGATTCGAATATA
1 TATAAATGTTAAATATATTCACGAGATTCGAATATA
4388302 TATA
1 TATA
4388306 TGTATATTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (36 bp):
TATAAATGTTAAATATATTCACGAGATTCGAATATA
Found at i:4388749 original size:41 final size:41
Alignment explanation
Indices: 4388593--4388738 Score: 238
Period size: 41 Copynumber: 3.6 Consensus size: 41
4388583 GTGAAGTAAT
*
4388593 CCAGACATTACTTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
4388634 CCAGACATTACGTCTAGCAGGCTTGATGCCGATGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
4388675 CCAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
4388716 TCAGACTTTATGTCTAGCAGGCT
1 CCAGACATTACGTCTAGCAGGCT
4388739 AAGTGTCGGT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 97 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:4388774 original size:82 final size:82
Alignment explanation
Indices: 4388606--4388791 Score: 196
Period size: 82 Copynumber: 2.3 Consensus size: 82
4388596 GACATTACTT
* *
4388606 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCGATGAAA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATGCCGATGAAA
* * * *
4388671 CATACCAGACATTACGT
66 CAAAACAGACATTAAGC
* * * * * *
4388688 CTAGTAGGCTTGATGCCGGTGAAACATATCAGACTTTATGTCTAGCAGGCTA-AGTGTCGGTG-T
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGA-TGCCGATGAA
* *
4388751 ACTAAAACAGGCTTTAAGC
65 AC-AAAACAGACATTAAGC
**
4388770 CTAGTAGGCTAAATGCCGGTGA
1 CTAGTAGGCTTGATGCCGGTGA
4388792 TATTGTTTAT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
81 3 0.03
82 83 0.97
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (82 bp):
CTAGTAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAGATGCCGATGAAA
CAAAACAGACATTAAGC
Found at i:4397015 original size:135 final size:134
Alignment explanation
Indices: 4396836--4397104 Score: 389
Period size: 135 Copynumber: 2.0 Consensus size: 134
4396826 TTTGTGCTTA
*
4396836 TCTATACTATATTTAAGTCTCTCACTAAGTTGGTGTCACAAGTCAA-CGGAACATCAACTCAATT
1 TCTATACTATATTTAAGTCTCTCACTAAGTTGGTGTCACAAGTCAACCAG-ACATCAACTCAATT
* * * *
4396900 GAGAAATGACTAAAAACTT-TTTTTTTACGAAGTAACAAATATTATATGAAGGTATTTTATCTTT
65 GAGAAATGACTAAAAACTTACTTTTTTACAAAGTAACAAATATTACATGAAAGTATTTTATCTTT
4396964 TTACG
130 TTACG
* * * * *
4396969 TCTATACTAAATATTTACGTCTCTCACTGAGTTGGTGTCACGAGTCAACCAGACATCAGCTCAGT
1 TCTATACT--ATATTTAAGTCTCTCACTAAGTTGGTGTCACAAGTCAACCAGACATCAACTCAAT
*
4397034 TGAGAAATGACTAAAAACTTAACTTTTTTACAAAGTAACAAATATTACATGAAAGTATTTTGTCT
64 TGAGAAATGACTAAAAACTT-ACTTTTTTACAAAGTAACAAATATTACATGAAAGTATTTTATCT
4397099 TTTTAC
128 TTTTAC
4397105 ATATTTATAT
Statistics
Matches: 120, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
133 8 0.07
135 66 0.55
136 2 0.02
137 44 0.37
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (134 bp):
TCTATACTATATTTAAGTCTCTCACTAAGTTGGTGTCACAAGTCAACCAGACATCAACTCAATTG
AGAAATGACTAAAAACTTACTTTTTTACAAAGTAACAAATATTACATGAAAGTATTTTATCTTTT
TACG
Found at i:4406054 original size:20 final size:21
Alignment explanation
Indices: 4406019--4406069 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4406009 AATTTCTATA
*
4406019 GTAAGTTTTAGATTTATGAT-T
1 GTAATTTTTAGATTTA-GATAT
4406040 GTAATTTTTAG-TTTAGATAT
1 GTAATTTTTAGATTTAGATAT
*
4406060 TTAATTTTTA
1 GTAATTTTTA
4406070 CTGTAGTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 3 0.11
20 14 0.52
21 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
GTAATTTTTAGATTTAGATAT
Found at i:4409813 original size:55 final size:56
Alignment explanation
Indices: 4409726--4409882 Score: 190
Period size: 55 Copynumber: 2.8 Consensus size: 56
4409716 AATCTATTTA
* * *
4409726 TATAATAAATAACAACATAACTATTTACATAACAACATTTTTAACGGATACCAAAATC
1 TATAATATATAA-AA-ATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
* * ** * * *
4409784 TATAATATAT-GACATATTTATTTATATAACAACATTTCTAATGGATGCCAAAATC
1 TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
*
4409839 TATGATATATAAAAATAAATATTTATATAACAACATTTTTAACG
1 TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACG
4409883 TGGTGTGGGC
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
55 45 0.55
56 28 0.34
58 9 0.11
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (56 bp):
TATAATATATAAAAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
Found at i:4420082 original size:41 final size:40
Alignment explanation
Indices: 4419994--4420350 Score: 342
Period size: 41 Copynumber: 8.7 Consensus size: 40
4419984 TGACCTTTCG
* * * *
4419994 GGGCTTTAGTGGCGTTTCTGAAAAGCGTCGCTAATGTTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCA
* *
4420034 GGGCTTTAGCGGCGTTTTTGACAAAGTGCCGCTAATGCCCA
1 GGGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCA
* * *
4420075 GGTCTTTAGCGGCGTTTTTGAAAAGACGCCGGTAATGCTTA
1 GGGCTTTAGCGGCGTTTTTGAAAAG-CGCCGCTAATGCTCA
* *
4420116 GGGCTTTAGTGACGTTTTTGAAAAGACGCCGCTAATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAAAG-CGCCGCTAATGCTCA
* * * *
4420156 GGGTTTTTAGCGGCATTTTTTAAAAGGCGCCGCTAATGCT-T
1 GGG-CTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGCTCA
** * *
4420197 GGGCCTTTAGCGGCGTTTTCCAAGAAGCGCCACTAATGCTCG
1 GGG-CTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCA
* * **
4420239 GGGATTTAGCGGCGTTTTTAAAAAAGCATCGCTAATGCTC-
1 GGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGCTCA
* ** *
4420279 GGAGCTATAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTCG
1 GG-GCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCA
*
4420321 GGGCTTTAGCGGTGTTTTTGAAAATGCGCC
1 GGGCTTTAGCGGCGTTTTTGAAAA-GCGCC
4420351 ACAAAAACAT
Statistics
Matches: 261, Mismatches: 44, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
40 32 0.12
41 219 0.84
42 10 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
GGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCA
Found at i:4420748 original size:15 final size:15
Alignment explanation
Indices: 4420730--4420793 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 15
4420720 TAGTGTAAGG
4420730 TTTAAGGAGTATGGA
1 TTTAAGGAGTATGGA
* *
4420745 TTTAGGGATTATGGA
1 TTTAAGGAGTATGGA
* *
4420760 -TTAGGGATTATGG-
1 TTTAAGGAGTATGGA
4420773 TTTAAGG-GT-TGAGA
1 TTTAAGGAGTATG-GA
4420787 TTTAAGG
1 TTTAAGG
4420794 TTTAGGGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 25 0.60
15 13 0.31
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAAGGAGTATGGA
Found at i:4420765 original size:14 final size:15
Alignment explanation
Indices: 4420739--4420776 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
4420729 GTTTAAGGAG
4420739 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
4420754 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
4420768 TATGG-TTTA
1 TATGGATTTA
4420777 AGGGTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:4420805 original size:7 final size:7
Alignment explanation
Indices: 4420795--4420825 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
4420785 GATTTAAGGT
4420795 TTAGGGG
1 TTAGGGG
4420802 TTAGGGG
1 TTAGGGG
*
4420809 TTAGAGG
1 TTAGGGG
4420816 TTAGGGG
1 TTAGGGG
4420823 TTA
1 TTA
4420826 AGAGTTAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:4420812 original size:14 final size:14
Alignment explanation
Indices: 4420795--4420834 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4420785 GATTTAAGGT
*
4420795 TTAGGGGTTAGGGG
1 TTAGAGGTTAGGGG
4420809 TTAGAGGTTAGGGG
1 TTAGAGGTTAGGGG
4420823 TTA-AGAGTTAGG
1 TTAGAG-GTTAGG
4420835 AATTTATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (14 bp):
TTAGAGGTTAGGGG
Found at i:4420832 original size:21 final size:22
Alignment explanation
Indices: 4420771--4420833 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 22
4420761 TAGGGATTAT
* * *
4420771 GGTTTAAGGGTTGAGATTTA-A
1 GGTTTAGGGGTTAAGAGTTAGA
* *
4420792 GGTTTAGGGGTTAGGGGTTAGA
1 GGTTTAGGGGTTAAGAGTTAGA
4420814 GG-TTAGGGGTTAAGAGTTAG
1 GGTTTAGGGGTTAAGAGTTAG
4420834 GAATTTATAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGA
Found at i:4421199 original size:14 final size:14
Alignment explanation
Indices: 4421158--4421207 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
4421148 TTTTGTGTAT
*
4421158 GGTTTAGGGTTT-G
1 GGTTTAGAGTTTGG
* *
4421171 GGATT-GAGATTGG
1 GGTTTAGAGTTTGG
4421184 GGTTTAGAGTTTGG
1 GGTTTAGAGTTTGG
*
4421198 GGTTTGGAGT
1 GGTTTAGAGT
4421208 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 16 0.55
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (14 bp):
GGTTTAGAGTTTGG
Found at i:4423621 original size:13 final size:13
Alignment explanation
Indices: 4423603--4423627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4423593 TTGCTGCAAG
4423603 TTCTGGTTAATGT
1 TTCTGGTTAATGT
4423616 TTCTGGTTAATG
1 TTCTGGTTAATG
4423628 CTGTGGTTAA
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:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (13 bp):
TTCTGGTTAATGT
Found at i:4424433 original size:18 final size:18
Alignment explanation
Indices: 4424402--4424451 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
4424392 TATATCAAAC
*
4424402 CATAACTTAAATAAATCA
1 CATAACTTACATAAATCA
*
4424420 CATAA-TATACATAACTCA
1 CATAACT-TACATAAATCA
4424438 CATAACTTACATAA
1 CATAACTTACATAA
4424452 TAACTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (18 bp):
CATAACTTACATAAATCA
Found at i:4424442 original size:27 final size:27
Alignment explanation
Indices: 4424402--4424453 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4424392 TATATCAAAC
*
4424402 CATAACTTAAATAAATCACATAATATA
1 CATAACTCAAATAAATCACATAATATA
* * *
4424429 CATAACTCACATAACTTACATAATA
1 CATAACTCAAATAAATCACATAATA
4424454 ACTTATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (27 bp):
CATAACTCAAATAAATCACATAATATA
Found at i:4424504 original size:60 final size:60
Alignment explanation
Indices: 4424440--4424996 Score: 323
Period size: 60 Copynumber: 8.7 Consensus size: 60
4424430 ATAACTCACA
* * *
4424440 TAACTTACATAA-TAACT-TATATATATCATACCATTACTTAAATAACTCACATAAGTTACC
1 TAACTTA-ATAACTAA-TATATATATATCAAACCATAACTTAAATAAATCACATAAGTTACC
*
4424500 TAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAA-----G----T
* *
4424565 CACA
57 TACC
* * *
4424569 TAACTTACATAACTTAATA-ACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
1 TAACTTA-ATAAC-TAATATA--TAT--ATATCAAACCATAACTTAAATAAATCACATAAGTTAC
4424633 C
60 C
*
4424634 TAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAA-----G----T
* *
4424699 CACA
57 TACC
* * *
4424703 TAACTTACATAACTTAATA-ACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
1 TAACTTA-ATAAC-TAATATA--TAT--ATATCAAACCATAACTTAAATAAATCACATAAGTTAC
4424767 C
60 C
*
4424768 TAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAA-----G----T
* *
4424833 CACA
57 TACC
* * *
4424837 TAACTTACATAACTTAATA-ACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
1 TAACTTA-ATAAC-TAATATA--TAT--ATATCAAACCATAACTTAAATAAATCACATAAGTTAC
4424901 C
60 C
* * * * * * *
4424902 TAACTTAATAAC---T-TATATATATCATATCATAA-TCTACATAACTCACATAACTCACA
1 TAACTTAATAACTAATATATATATATCAAACCATAACT-TAAATAAATCACATAAGTTACC
*
4424958 TAACTTAATAAC---T-TATATATATCATACCATAACTTAAAT
1 TAACTTAATAACTAATATATATATATCAAACCATAACTTAAAT
4424997 GTATCTCATA
Statistics
Matches: 402, Mismatches: 43, Indels: 108
0.73 0.08 0.20
Matches are distributed among these distances:
55 1 0.00
56 66 0.16
57 1 0.00
58 3 0.01
59 5 0.01
60 105 0.26
62 6 0.01
63 8 0.02
64 17 0.04
65 31 0.08
69 30 0.07
70 18 0.04
71 12 0.03
72 9 0.02
74 90 0.22
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.32
Consensus pattern (60 bp):
TAACTTAATAACTAATATATATATATCAAACCATAACTTAAATAAATCACATAAGTTACC
Found at i:4424644 original size:134 final size:134
Alignment explanation
Indices: 4424378--4424930 Score: 980
Period size: 134 Copynumber: 4.2 Consensus size: 134
4424368 ACAACTTAGA
**
4424378 TAATAAC-T-TATATATATATCAAACCATAACTTAAATAAATCACATAATATAC--ATAACTCAC
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAAT-CCCGGA-AACTCAC
* *
4424439 ATAACTTAC---A--TAATAACTTATATATATCATACCATTACTTAAATAACTCACATAAGTTAC
64 ATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTAC
4424499 CTAACT
129 CTAACT
4424505 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
4424570 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
66 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
4424635 AACT
131 AACT
4424639 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
4424704 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
66 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
4424769 AACT
131 AACT
4424773 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
1 TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
4424838 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
66 AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
4424903 AACT
131 AACT
4424907 TAATAACTTATATATATCATATCA
1 TAATAACTTATATATAT-ATATCA
4424931 TAATCTACAT
Statistics
Matches: 412, Mismatches: 4, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
127 7 0.02
128 2 0.00
129 56 0.14
130 1 0.00
132 1 0.00
134 339 0.82
135 6 0.01
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (134 bp):
TAATAACTTATATATATATATCAAACCATAACTTAAATAAATCACATAATCCCGGAAACTCACAT
AACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAATTACCT
AACT
Found at i:4424755 original size:56 final size:55
Alignment explanation
Indices: 4424695--4425375 Score: 485
Period size: 56 Copynumber: 12.1 Consensus size: 55
4424685 TAATCCCGGA
*
4424695 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACTTACAT
* * * *
4424751 AACTCACATAAATTACCTAACTTAATAACTTATATATATATATCAAACCATAACTTAAAT
1 AACTCACATAACTTACATAACTTAATAAC---T-TATATATATCATA-CATAACTTACAT
* * * * * *
4424811 AAATCACATAATCCCGGAAACTCACATAACTTACATAACTTA-ATA-ACTTATATATATCATACC
1 AACTCAC---AT------AACTTACATAACTTA-ATAACTTATATATA-TCATACATAACTTA-C
4424874 AT
54 AT
* * * * *
4424876 AACTTAAATAACTCACATAAATTACCTAACTTAATAACTTATATATATCATATCATAA-TCTACA
1 AACTCACATAACTTACATAACTTA-ATAAC--------TTATATATATCATA-CATAACT-TACA
4424940 T
55 T
* *
4424941 AACTCACATAACTCACATAACTTAATAACTTATATATATCATACCATAACTTAAAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACTTACAT
* * * *
4424997 GTA-TCTCATAAATTA-GTGAA--TAATAACTTATATATATCATATCATAA-TCTACAT
1 -AACTCACATAACTTACAT-AACTTAATAACTTATATATATCATA-CATAACT-TACAT
* *
4425051 AACTCACATAACTTACATAAGTTAACAAC-T-TATATAT-AT-CATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTACAT
** * *
4425102 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACT-TACAT
4425158 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAA-TCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACT-TACAT
* * *
4425214 AACTCACATGACTTACATAAGTTAACAAC-T-TATATAT-AT-CATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTACAT
** * *
4425265 AACTTGCATAACTTACCTAACTTAA-AA-TGTAT-CATATCATA-AT--C-TACAT
1 AACTCACATAACTTACATAACTTAATAACT-TATATATATCATACATAACTTACAT
*
4425314 AACTCACATAACTTACATAACTTAACAACTTATATATATATCATATCATAACTTACAT
1 AACTCACATAACTTACATAACTTAATAAC-T-TATATATATCATA-CATAACTTACAT
4425372 AACT
1 AACT
4425376 TGCATAATAC
Statistics
Matches: 503, Mismatches: 64, Indels: 114
0.74 0.09 0.17
Matches are distributed among these distances:
49 27 0.05
50 5 0.01
51 69 0.14
52 12 0.02
53 20 0.04
54 58 0.12
55 7 0.01
56 174 0.35
57 3 0.01
58 9 0.02
59 1 0.00
60 31 0.06
62 2 0.00
63 2 0.00
64 14 0.03
65 43 0.09
66 8 0.02
67 1 0.00
69 12 0.02
70 5 0.01
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (55 bp):
AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTACAT
Found at i:4424775 original size:190 final size:188
Alignment explanation
Indices: 4424561--4425040 Score: 502
Period size: 190 Copynumber: 2.5 Consensus size: 188
4424551 TAATCCCGGA
4424561 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTCACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAA-TCACAT
4424626 AAATTACCTAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATC-A-CATAAT
65 AAATTACCTAACTTAATAACTTATATATATATATC-AA--ATAACTTAAATAAATCAACCATAA-
** *
4424689 CCCGGA-AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAA-CTTAAAT
126 CCCAAATAACTCACATAAATTACATAACTTAATAACTTATATATATCATACCATAATC-TAAAT
* * *
4424751 AACTCACATAAATTACCTAACTTAATAACTTATATATATATATCAAACCATAACTTAAATAAATC
1 AACTCACATAACTTACATAACTTAATAAC---T-TATATATATCATACCATAACTTAAAT-AATC
* * * * * * *
4424816 ACAT-AA-TCCCGGAAACTCACATAACTTACATA-A-CT-T--AATAACTTATATATATCATACC
61 ACATAAATTACC--TAACTTA-ATAACTTATATATATATATCAAATAACTTAAATAAATCA-ACC
** * * *
4424874 ATAACTTAAATAACTCACATAAATTACCTAACTTAATAACTTATATATATCATATCATAATCTAC
122 ATAACCCAAATAACTCACATAAATTACATAACTTAATAACTTATATATATCATACCATAATCTAA
4424939 AT
187 AT
* * *
4424941 AACTCACATAACTCACATAACTTAATAACTTATATATATCATACCATAACTTAAATGTATCTCAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAAT-AATCACAT
*
4425006 AAATTA-GTGAA--TAATAACTTATATATATCATATCA
65 AAATTACCT-AACTTAATAACTTATATATAT-ATATCA
4425041 TAATCTACAT
Statistics
Matches: 237, Mismatches: 31, Indels: 45
0.76 0.10 0.14
Matches are distributed among these distances:
183 11 0.05
184 2 0.01
186 34 0.14
187 18 0.08
188 1 0.00
189 4 0.02
190 108 0.46
191 1 0.00
192 4 0.02
193 4 0.02
194 37 0.16
195 13 0.05
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.33
Consensus pattern (188 bp):
AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAATCACATA
AATTACCTAACTTAATAACTTATATATATATATCAAATAACTTAAATAAATCAACCATAACCCAA
ATAACTCACATAAATTACATAACTTAATAACTTATATATATCATACCATAATCTAAAT
Found at i:4425187 original size:8 final size:9
Alignment explanation
Indices: 4424561--4425421 Score: 230
Period size: 9 Copynumber: 94.7 Consensus size: 9
4424551 TAATCCCGGA
*
4424561 AACTCACAT
1 AACTTACAT
4424570 AACTTACAT
1 AACTTACAT
4424579 AACTTA-AT
1 AACTTACAT
*
4424587 AACTTATAT
1 AACTTACAT
*
4424596 ATATCATACCAT
1 A-A-CTTA-CAT
*
4424608 AACTTAAAT
1 AACTTACAT
*
4424617 AACTCACAT
1 AACTTACAT
* *
4424626 AAATTACCT
1 AACTTACAT
4424635 AACTTA-AT
1 AACTTACAT
*
4424643 AACTTATAT
1 AACTTACAT
4424652 ATA-TATATCA-
1 A-ACT-TA-CAT
4424662 AAC---CAT
1 AACTTACAT
*
4424668 AACTTAAAT
1 AACTTACAT
* *
4424677 AAATCACAT
1 AACTTACAT
**
4424686 AA-TCCCGGA-
1 AACTTAC--AT
*
4424695 AACTCACAT
1 AACTTACAT
4424704 AACTTACAT
1 AACTTACAT
4424713 AACTTA-AT
1 AACTTACAT
*
4424721 AACTTATAT
1 AACTTACAT
*
4424730 ATATCATACCAT
1 A-A-CTTA-CAT
*
4424742 AACTTAAAT
1 AACTTACAT
*
4424751 AACTCACAT
1 AACTTACAT
* *
4424760 AAATTACCT
1 AACTTACAT
4424769 AACTTA-AT
1 AACTTACAT
*
4424777 AACTTATAT
1 AACTTACAT
4424786 ATA-TATATCA-
1 A-ACT-TA-CAT
4424796 AAC---CAT
1 AACTTACAT
*
4424802 AACTTAAAT
1 AACTTACAT
* *
4424811 AAATCACAT
1 AACTTACAT
**
4424820 AA-TCCCGGA-
1 AACTTAC--AT
*
4424829 AACTCACAT
1 AACTTACAT
4424838 AACTTACAT
1 AACTTACAT
4424847 AACTTA-AT
1 AACTTACAT
*
4424855 AACTTATAT
1 AACTTACAT
*
4424864 ATATCATACCAT
1 A-A-CTTA-CAT
*
4424876 AACTTAAAT
1 AACTTACAT
*
4424885 AACTCACAT
1 AACTTACAT
* *
4424894 AAATTACCT
1 AACTTACAT
4424903 AACTTA-AT
1 AACTTACAT
*
4424911 AACTTATAT
1 AACTTACAT
*
4424920 ATATCATATCAT
1 A-A-CTTA-CAT
4424932 AA-TCTACAT
1 AACT-TACAT
*
4424941 AACTCACAT
1 AACTTACAT
*
4424950 AACTCACAT
1 AACTTACAT
4424959 AACTTA-AT
1 AACTTACAT
*
4424967 AACTTATAT
1 AACTTACAT
*
4424976 ATATCATACCAT
1 A-A-CTTA-CAT
*
4424988 AACTTAAAT
1 AACTTACAT
*
4424997 GTA-TCT-CAT
1 -AACT-TACAT
* *
4425006 AAATTA-GT
1 AACTTACAT
4425014 GAA--TA-AT
1 -AACTTACAT
*
4425021 AACTTATAT
1 AACTTACAT
*
4425030 ATATCATATCAT
1 A-A-CTTA-CAT
4425042 AA-TCTACAT
1 AACT-TACAT
*
4425051 AACTCACAT
1 AACTTACAT
4425060 AACTTACAT
1 AACTTACAT
* *
4425069 AAGTTA-AC
1 AACTTACAT
*
4425077 AACTTATAT
1 AACTTACAT
4425086 -A--TATCAT
1 AACTTA-CAT
4425093 AACTTACAT
1 AACTTACAT
*
4425102 AACTTGCAT
1 AACTTACAT
*
4425111 AACTTACCT
1 AACTTACAT
4425120 AACTTA-AT
1 AACTTACAT
*
4425128 AACTTATATGT
1 AACTTACA--T
* *
4425139 ATCATATCAT
1 AACTTA-CAT
4425149 AA-TCTACAT
1 AACT-TACAT
*
4425158 AACTCACAT
1 AACTTACAT
4425167 AACTTACAT
1 AACTTACAT
4425176 AACTTA-AT
1 AACTTACAT
*
4425184 AACTTATAT
1 AACTTACAT
*
4425193 ATATCATATCAT
1 A-A-CTTA-CAT
4425205 AA-TCTACAT
1 AACT-TACAT
*
4425214 AACTCACAT
1 AACTTACAT
*
4425223 GACTTACAT
1 AACTTACAT
* *
4425232 AAGTTA-AC
1 AACTTACAT
*
4425240 AACTTATAT
1 AACTTACAT
4425249 -A--TATCAT
1 AACTTA-CAT
4425256 AACTTACAT
1 AACTTACAT
*
4425265 AACTTGCAT
1 AACTTACAT
*
4425274 AACTTACCT
1 AACTTACAT
*
4425283 AACTTAAAATGT
1 AACTT-ACA--T
* *
4425295 ATCATATCAT
1 AACTTA-CAT
4425305 AA-TCTACAT
1 AACT-TACAT
*
4425314 AACTCACAT
1 AACTTACAT
4425323 AACTTACAT
1 AACTTACAT
*
4425332 AACTTA-AC
1 AACTTACAT
*
4425340 AACTTATATAT
1 AAC-T-TACAT
*
4425351 ATATCATATCAT
1 A-A-CTTA-CAT
4425363 AACTTACAT
1 AACTTACAT
*
4425372 AACTTGCAT
1 AACTTACAT
4425381 AA--TACAT
1 AACTTACAT
*
4425388 AA-TTATAT
1 AACTTACAT
*
4425396 ATTCTTATCAT
1 A-ACTTA-CAT
*
4425407 AAGTTACAT
1 AACTTACAT
4425416 AACTTA
1 AACTTA
4425422 ATTATACTTA
Statistics
Matches: 631, Mismatches: 122, Indels: 198
0.66 0.13 0.21
Matches are distributed among these distances:
5 4 0.01
6 12 0.02
7 13 0.02
8 106 0.17
9 348 0.55
10 72 0.11
11 44 0.07
12 31 0.05
13 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:4425330 original size:100 final size:98
Alignment explanation
Indices: 4425169--4425376 Score: 305
Period size: 100 Copynumber: 2.1 Consensus size: 98
4425159 ACTCACATAA
* *
4425169 CTTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATGACTTACATAA
1 CTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCACATAACTTACATAA
*
4425234 GTTAACAACTTATATATATCATAACTTACATAA
66 CTTAACAACTTATATATATCATAACTTACATAA
* * *
4425267 CTTGCATAACTTACCTAACTTAAAATGTATCATATCATAATCTACATAACTCACATAACTTACAT
1 CTTACATAACTTA-ATAACTT-AAATATATCATATCATAATCTACATAACTCACATAACTTACAT
*
4425332 AACTTAACAACTTATATATAT-AT--CATATCATAA
64 AACTTAACAACTTATATATATCATAACTTA-CATAA
4425365 CTTACATAACTT
1 CTTACATAACTT
4425377 GCATAATACA
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
97 3 0.03
98 28 0.28
99 8 0.08
100 60 0.61
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.36
Consensus pattern (98 bp):
CTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCACATAACTTACATAA
CTTAACAACTTATATATATCATAACTTACATAA
Found at i:4425382 original size:58 final size:58
Alignment explanation
Indices: 4425253--4425389 Score: 174
Period size: 58 Copynumber: 2.4 Consensus size: 58
4425243 TTATATATAT
* * *
4425253 CATAACTTACATAACTTGCATAACTTACCTAACTTAAAATGTATCATATCATAATCTA
1 CATAACTTACATAACTTACATAACTTAACTAACTTAAAATATATCATATCATAATCTA
* *
4425311 CATAACTCACATAACTTACATAACTTAAC-AACTTATATATATATCATATCATAA-CTTA
1 CATAACTTACATAACTTACATAACTTAACTAACTTA-AAATATATCATATCATAATC-TA
*
4425369 CATAACTTGCATAA--TACATAA
1 CATAACTTACATAACTTACATAA
4425390 TTATATATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
56 7 0.10
57 7 0.10
58 56 0.80
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (58 bp):
CATAACTTACATAACTTACATAACTTAACTAACTTAAAATATATCATATCATAATCTA
Found at i:4428689 original size:27 final size:27
Alignment explanation
Indices: 4428659--4428807 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
4428649 ATATTAAGTC
* *
4428659 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
4428686 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
4428714 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
4428741 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
4428768 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
4428796 CGCACACTTAGT
1 CGCACACTTAGT
4428808 TCTGTACAAT
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
27 70 0.62
28 42 0.38
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:4428727 original size:55 final size:54
Alignment explanation
Indices: 4428659--4428807 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 54
4428649 ATATTAAGTC
* * *
4428659 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAATC-AACT
* * *
4428714 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAATCAACT
4428768 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGT
4428808 TCTGTACAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 25 0.29
55 61 0.71
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCAACATAATCAACT
Found at i:4434379 original size:21 final size:21
Alignment explanation
Indices: 4434355--4434397 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4434345 TAAAGCAAAT
*
4434355 GCAGCAGCGAGGGAAGCAGAG
1 GCAGCAGCGAGAGAAGCAGAG
* *
4434376 GCAGCATCGAGAGAAGCTGAG
1 GCAGCAGCGAGAGAAGCAGAG
4434397 G
1 G
4434398 TTCAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.44, T:0.05
Consensus pattern (21 bp):
GCAGCAGCGAGAGAAGCAGAG
Found at i:4434432 original size:87 final size:87
Alignment explanation
Indices: 4434281--4434461 Score: 245
Period size: 87 Copynumber: 2.1 Consensus size: 87
4434271 ACTCAACTTA
* *
4434281 AAGCGGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAATATGAAGAACACCAACCACAACTT
1 AAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACTT
*
4434346 AAAGCAAATGCAGCAGCGAGGG
66 AAAGCAAATGCAGCAGCGAGAG
* * * * * *
4434368 AAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAGAAAACATGAAGAACTCTAGCTACAACTT
1 AAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACTT
*** *
4434433 AAAGTTGATGCAGCAGTGAGAG
66 AAAGCAAATGCAGCAGCGAGAG
4434455 AAGCAGA
1 AAGCAGA
4434462 TGAGAAAGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (87 bp):
AAGCAGAGGCAGCATCGAGAGAAGCTGAAGTCCAAAGAAAACATGAAGAACACCAACCACAACTT
AAAGCAAATGCAGCAGCGAGAG
Found at i:4434813 original size:41 final size:41
Alignment explanation
Indices: 4434757--4435088 Score: 189
Period size: 43 Copynumber: 7.8 Consensus size: 41
4434747 TGGCATTTTT
* * * *
4434757 TAAAAAACGCCGCT-AAAGTCGTGTTCTTTAGCGGCGTTTA
1 TAAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* *
4434797 TAAAAAAGTGCCGCTAAAAGTCATGATCTATAGCAGCGTTTG
1 TAAAAAA-CGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * * * * *
4434839 TGGGAGAAGCACCGCTAAAAGTCATGATCTATAGCGGCGTTTG
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * ** * * *
4434882 TGGGAGAAGTGCCGCTAAAAGTCATGATATATAGCGGCGTTTG
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * * *
4434925 TGGAAGAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTG
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * ** * * *
4434968 TGGGAGAAGTGCCGCTAAAAGTCATGATATATAGCGGCGTTTG
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * * *
4435011 TGGAAGAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTG
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
* * * * *
4435054 TGGGAGAAGCGCCGCTAAAGGTCATGATCTGTAGC
1 T--AAAAAACGCCGCTAAAAGTCATGATCTATAGC
4435089 GGTGTTTGTG
Statistics
Matches: 261, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
40 7 0.03
41 6 0.02
42 22 0.08
43 223 0.85
44 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (41 bp):
TAAAAAACGCCGCTAAAAGTCATGATCTATAGCAGCGTTTA
Found at i:4434860 original size:43 final size:43
Alignment explanation
Indices: 4434806--4435134 Score: 532
Period size: 43 Copynumber: 7.7 Consensus size: 43
4434796 ATAAAAAAGT
*
4434806 GCCGCTAAAAGTCATGATCTATAGCAGCGTTTGTGGGAGAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
* *
4434849 ACCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
* *
4434892 GCCGCTAAAAGTCATGATATATAGCGGCGTTTGTGGAAGAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
*
4434935 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
* *
4434978 GCCGCTAAAAGTCATGATATATAGCGGCGTTTGTGGAAGAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
4435021 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
* * *
4435064 GCCGCTAAAGGTCATGATCTGTAGCGGTGTTTGTGGGAGAAGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
* * *
4435107 GCCGCTAAAGGTCATGACCTTTAGCGGC
1 GCCGCTAAAAGTCATGATCTATAGCGGC
4435135 ATTTTTGTAA
Statistics
Matches: 265, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 265 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGC
Found at i:4435729 original size:18 final size:18
Alignment explanation
Indices: 4435708--4435750 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
4435698 TAATTTAGCC
*
4435708 ATTTTTATTTTTATTATA
1 ATTTTTATTTTTAGTATA
* *
4435726 ATTTTTGTTTTTAGTGTA
1 ATTTTTATTTTTAGTATA
4435744 ATTTTTA
1 ATTTTTA
4435751 CATTCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTTATTTTTAGTATA
Found at i:4436817 original size:18 final size:18
Alignment explanation
Indices: 4436790--4436827 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
4436780 GGAGGTGAAA
*
4436790 TAAATTATCCAGAATATT
1 TAAATAATCCAGAATATT
4436808 TAAATAATCCAGAATATT
1 TAAATAATCCAGAATATT
4436826 TA
1 TA
4436828 CCCTTTGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (18 bp):
TAAATAATCCAGAATATT
Found at i:4442003 original size:13 final size:13
Alignment explanation
Indices: 4441984--4442036 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
4441974 CTTTTACCCC
4441984 TTATTTTTA-TT-
1 TTATTTTTATTTA
4441995 TTATTTTTTATTTA
1 TTA-TTTTTATTTA
*
4442009 TTGTTTTTATTTA
1 TTATTTTTATTTA
4442022 TTATTTCTT-TTTA
1 TTATTT-TTATTTA
4442035 TT
1 TT
4442037 TTAGCCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 3 0.08
12 6 0.17
13 23 0.64
14 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:4443418 original size:20 final size:20
Alignment explanation
Indices: 4443390--4443432 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
4443380 ACCCATATGA
4443390 GGATGATTGAGAGACTTCAT
1 GGATGATTGAGAGACTTCAT
* *
4443410 GGATTATTGAGCGACTTCAT
1 GGATGATTGAGAGACTTCAT
4443430 GGA
1 GGA
4443433 GTGGATCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (20 bp):
GGATGATTGAGAGACTTCAT
Found at i:4443782 original size:18 final size:17
Alignment explanation
Indices: 4443736--4443785 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
4443726 GGACCATTAA
4443736 GTTTA-TTTATTTTCT-T
1 GTTTAGTTTATTTT-TAT
*
4443752 -TTTAGTTTTTTTTTAT
1 GTTTAGTTTATTTTTAT
4443768 GTTTATGTTTATTTTTAT
1 GTTTA-GTTTATTTTTAT
4443786 TCTTAGTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 5 0.18
16 8 0.29
17 4 0.14
18 11 0.39
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (17 bp):
GTTTAGTTTATTTTTAT
Found at i:4449416 original size:25 final size:24
Alignment explanation
Indices: 4449359--4449429 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
4449349 AGATGATGCA
**
4449359 TAAAATAAATAATATTGAAAAATTT
1 TAAAATAAATAATATT-AAATTTTT
*
4449384 GAAAATAAATAATATTAAATTTTT
1 TAAAATAAATAATATTAAATTTTT
*
4449408 TAAATATAATTAA-ATTATAATT
1 TAAA-ATAAATAATATTA-AATT
4449430 ATAATTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
24 13 0.33
25 26 0.67
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
TAAAATAAATAATATTAAATTTTT
Found at i:4450615 original size:25 final size:24
Alignment explanation
Indices: 4450585--4450642 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
4450575 AACTTAAGTT
*
4450585 AATTTAAATTAAAAT-TGAATGGTAA
1 AATTTAAATAAAAATGTGAA--GTAA
*
4450610 AATTTAATATAAAAATGTGGAGTAA
1 AATTTAA-ATAAAAATGTGAAGTAA
4450635 AATTTAAA
1 AATTTAAA
4450643 AGCGCTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 1 0.03
25 18 0.62
26 7 0.24
27 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (24 bp):
AATTTAAATAAAAATGTGAAGTAA
Found at i:4452537 original size:11 final size:11
Alignment explanation
Indices: 4452521--4452551 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4452511 ATACCCATAC
4452521 CCCATACCTTG
1 CCCATACCTTG
*
4452532 CCCATACCTTT
1 CCCATACCTTG
4452543 CCCATACCT
1 CCCATACCT
4452552 ACCCATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:4454116 original size:13 final size:13
Alignment explanation
Indices: 4454093--4454123 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4454083 TTCAAAAATC
*
4454093 ATAAATAAAAGTT
1 ATAAAAAAAAGTT
4454106 ATAAAAAAAAGTT
1 ATAAAAAAAAGTT
4454119 ATAAA
1 ATAAA
4454124 TTTTTTTAAG
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:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
ATAAAAAAAAGTT
Found at i:4454136 original size:17 final size:19
Alignment explanation
Indices: 4454114--4454151 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
4454104 TTATAAAAAA
4454114 AAGTTAT-AAATTTTT-TT
1 AAGTTATAAAATTTTTATT
4454131 AAGTTATAAAATTTTTATT
1 AAGTTATAAAATTTTTATT
4454150 AA
1 AA
4454152 AAATTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AAGTTATAAAATTTTTATT
Found at i:4454277 original size:17 final size:17
Alignment explanation
Indices: 4454244--4454278 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4454234 TATTTTTTAA
**
4454244 TAAAAATTTTATGATTT
1 TAAAAATTTTAAAATTT
4454261 TAAAAATTTTAAAATTT
1 TAAAAATTTTAAAATTT
4454278 T
1 T
4454279 GTTTTGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TAAAAATTTTAAAATTT
Found at i:4456769 original size:25 final size:26
Alignment explanation
Indices: 4456716--4456788 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
4456706 GCTGTAAACA
4456716 GTAAGCTCCTCCGAGTTGAAATAATG
1 GTAAGCTCCTCCGAGTTGAAATAATG
*
4456742 GTAAGCTCCTTCGA-TCTG-AATAATG
1 GTAAGCTCCTCCGAGT-TGAAATAATG
* **
4456767 GTAAGCTCATAAGAGTTGAAAT
1 GTAAGCTCCTCCGAGTTGAAAT
4456789 CATAACCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (26 bp):
GTAAGCTCCTCCGAGTTGAAATAATG
Found at i:4458896 original size:21 final size:21
Alignment explanation
Indices: 4458872--4458913 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4458862 AACAACAAAG
4458872 CATCAAACCCGAATCAATAAT
1 CATCAAACCCGAATCAATAAT
4458893 CATCAAACCCGAATCAATAAT
1 CATCAAACCCGAATCAATAAT
4458914 TCAGCTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.29, G:0.05, T:0.19
Consensus pattern (21 bp):
CATCAAACCCGAATCAATAAT
Found at i:4460975 original size:18 final size:18
Alignment explanation
Indices: 4460952--4460992 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4460942 CAATTGATAA
4460952 AAAAATGCATAATAAA-AT
1 AAAAATGCATAA-AAATAT
*
4460970 AAAAATGTATAAAAATAT
1 AAAAATGCATAAAAATAT
4460988 AAAAA
1 AAAAA
4460993 AAAAAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAATGCATAAAAATAT
Found at i:4464408 original size:21 final size:21
Alignment explanation
Indices: 4464380--4464430 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4464370 ATATTGTAAT
4464380 AAAAGAAATA-AATTGAA-GAAC
1 AAAAGAAA-AGAATT-AAGGAAC
*
4464401 AAATGAAAAGAATTAAGGAAC
1 AAAAGAAAAGAATTAAGGAAC
4464422 AAAAGAAAA
1 AAAAGAAAA
4464431 AAAAAAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.69, C:0.04, G:0.16, T:0.12
Consensus pattern (21 bp):
AAAAGAAAAGAATTAAGGAAC
Found at i:4477057 original size:25 final size:26
Alignment explanation
Indices: 4477029--4477102 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
4477019 AATGGGATAT
4477029 TAAATATGAAAATTAAATA-AATAAA
1 TAAATATGAAAATTAAATAGAATAAA
*
4477054 TAAATA--AAAA-CATAATCAGAATAAA
1 TAAATATGAAAATTA-AAT-AGAATAAA
4477079 TAAAT-TG-AAATTAAATAGGAATAA
1 TAAATATGAAAATTAAATA-GAATAA
4477103 CCCAACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
22 1 0.03
23 7 0.17
24 2 0.05
25 29 0.73
26 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.26
Consensus pattern (26 bp):
TAAATATGAAAATTAAATAGAATAAA
Found at i:4477729 original size:20 final size:20
Alignment explanation
Indices: 4477706--4477761 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
4477696 AGAATATCAC
* *
4477706 AGAACAGAATAGAGTAAAGT
1 AGAACAGAACAGAGCAAAGT
*
4477726 AGAACGGAACAGAGCAAAGT
1 AGAACAGAACAGAGCAAAGT
4477746 AGAAC-GAAACAGAGCA
1 AGAACAG-AACAGAGCA
4477762 GAACTGAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.54, C:0.12, G:0.27, T:0.07
Consensus pattern (20 bp):
AGAACAGAACAGAGCAAAGT
Found at i:4477770 original size:20 final size:20
Alignment explanation
Indices: 4477725--4477770 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4477715 TAGAGTAAAG
* *
4477725 TAGAACGGAACAGAGCAAAG
1 TAGAACGAAACAGAGCAAAC
4477745 TAGAACGAAACAGAGCAGAAC
1 TAGAACGAAACAGAGCA-AAC
4477766 T-GAAC
1 TAGAAC
4477771 TGAACTATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.50, C:0.17, G:0.26, T:0.07
Consensus pattern (20 bp):
TAGAACGAAACAGAGCAAAC
Found at i:4483901 original size:23 final size:23
Alignment explanation
Indices: 4483847--4483968 Score: 145
Period size: 23 Copynumber: 5.3 Consensus size: 23
4483837 AGTGTTATTA
*
4483847 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * * * *
4483870 TTTAATGGTAGGTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4483893 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
4483916 TTTAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4483939 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4483962 ATCAGTG
1 ATCAGTG
4483969 TGGCACTTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4483905 original size:46 final size:46
Alignment explanation
Indices: 4483847--4483961 Score: 167
Period size: 46 Copynumber: 2.5 Consensus size: 46
4483837 AGTGTTATTA
* *
4483847 ATCAGTGATAGCTTCGGCTACATTTTAATGGTAGGTACGACTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTTAATGGTAGCTACGACTACAT
* * **
4483893 ATCAGTGGTAGCTTCGGCTACATTTTAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTTAATGGTAGCTACGACTACAT
*
4483939 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4483962 ATCAGTGTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTTAATGGTAGCTACGACTACAT
Found at i:4485402 original size:85 final size:85
Alignment explanation
Indices: 4485274--4485442 Score: 329
Period size: 85 Copynumber: 2.0 Consensus size: 85
4485264 TGCCATAATT
4485274 GAATAATGATAGTGTGACGACTCCTGATATCTTAAAATATTTTTTTTATAGTAATGGATCTTAAT
1 GAATAATGATAGTGTGACGACTCCTGATATCTTAAAATATTTTTTTTATAGTAATGGATCTTAAT
4485339 TGAGATACAATTGATGATTA
66 TGAGATACAATTGATGATTA
*
4485359 GAATAATGATAGTGTGACGACTCCTGATATCTTAAAATGTTTTTTTTATAGTAATGGATCTTAAT
1 GAATAATGATAGTGTGACGACTCCTGATATCTTAAAATATTTTTTTTATAGTAATGGATCTTAAT
4485424 TGAGATACAATTGATGATT
66 TGAGATACAATTGATGATT
4485443 CTCAAAGTAA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (85 bp):
GAATAATGATAGTGTGACGACTCCTGATATCTTAAAATATTTTTTTTATAGTAATGGATCTTAAT
TGAGATACAATTGATGATTA
Found at i:4490325 original size:20 final size:20
Alignment explanation
Indices: 4490300--4490353 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4490290 GGATGAAATT
4490300 CTCAAATGAGCTGAATT-GAG
1 CTCAAATGAGCT-AATTGGAG
* *
4490320 CTCAAAGGAGCTAGTTGGAG
1 CTCAAATGAGCTAATTGGAG
*
4490340 CTGAAATGAGCTAA
1 CTCAAATGAGCTAA
4490354 GGGAGTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (20 bp):
CTCAAATGAGCTAATTGGAG
Found at i:4491637 original size:25 final size:25
Alignment explanation
Indices: 4491603--4491650 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
4491593 AAAGTGAAAA
4491603 TTATTGCATAATTTGGAAATTGTTT
1 TTATTGCATAATTTGGAAATTGTTT
4491628 TTATTGCATAATTTGGAAATTGT
1 TTATTGCATAATTTGGAAATTGT
4491651 GCTCTTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (25 bp):
TTATTGCATAATTTGGAAATTGTTT
Found at i:4492650 original size:63 final size:62
Alignment explanation
Indices: 4492552--4492673 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
4492542 ATGTATAACT
*
4492552 TGCAAGAAAACAAACATACTTAAAATAAAAAAAAATG-TCAAAATAACACCGACTTATTCTTTA
1 TGCAAGAAAACAAACATACTTAAAATAAAAAAAAATGCT-AAAATAACACCAACTT-TTCTTTA
* * *
4492615 TGCAAGAAAA-AAACATGCTTAAAA-ACTACATAAAATGCTAAAATAACACCAACTTTTCT
1 TGCAAGAAAACAAACATACTTAAAATA--AAAAAAAATGCTAAAATAACACCAACTTTTCT
4492674 AATGATTCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
61 1 0.02
62 17 0.33
63 33 0.63
64 1 0.02
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (62 bp):
TGCAAGAAAACAAACATACTTAAAATAAAAAAAAATGCTAAAATAACACCAACTTTTCTTTA
Found at i:4500760 original size:14 final size:14
Alignment explanation
Indices: 4500743--4500770 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4500733 CGTAATTAAC
4500743 TTTTTATATATAAA
1 TTTTTATATATAAA
4500757 TTTTTATATATAAA
1 TTTTTATATATAAA
4500771 AAGTATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTATATATAAA
Found at i:4501228 original size:8 final size:7
Alignment explanation
Indices: 4501211--4501249 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
4501201 AAATATATTA
4501211 TTTTTAT
1 TTTTTAT
4501218 TTTTTAT
1 TTTTTAT
4501225 TTTTTAT
1 TTTTTAT
4501232 TTTTTATT
1 TTTTTA-T
4501240 TTTTTAT
1 TTTTTAT
4501247 TTT
1 TTT
4501250 AAAATACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:4501230 original size:14 final size:15
Alignment explanation
Indices: 4501206--4501249 Score: 72
Period size: 14 Copynumber: 2.9 Consensus size: 15
4501196 ATAATAAATA
4501206 TATTATTTTTATTTTT
1 TATT-TTTTTATTTTT
4501222 TA-TTTTTTATTTTT
1 TATTTTTTTATTTTT
4501236 TATTTTTTTATTTT
1 TATTTTTTTATTTT
4501250 AAAATACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.48
15 12 0.44
16 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:4501249 original size:13 final size:12
Alignment explanation
Indices: 4501208--4501250 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 12
4501198 AATAAATATA
4501208 TTATTTTTATTTT
1 TTATTTTT-TTTT
4501221 TTATTTTTTATTTT
1 TTA-TTTTT-TTTT
4501235 TTATTTTTTTATT
1 TTATTTTTTT-TT
4501248 TTA
1 TTA
4501251 AAATACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.07
13 13 0.46
14 13 0.46
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTATTTTTTTTT
Found at i:4501577 original size:4 final size:4
Alignment explanation
Indices: 4501568--4501608 Score: 64
Period size: 4 Copynumber: 9.8 Consensus size: 4
4501558 ATTTCAGTAA
4501568 TTAT TTAT TTAT TTAT TTAT ATTAT TTAT TTAT ATTAT TTA
1 TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT -TTAT TTA
4501609 GGTAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 27 0.77
5 8 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:4501593 original size:21 final size:22
Alignment explanation
Indices: 4501567--4501608 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
4501557 TATTTCAGTA
4501567 ATTATTTATTTAT-TTATTTAT
1 ATTATTTATTTATATTATTTAT
4501588 ATTATTTATTTATATTATTTA
1 ATTATTTATTTATATTATTTA
4501609 GGTAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTATTTATTTATATTATTTAT
Found at i:4501594 original size:13 final size:13
Alignment explanation
Indices: 4501568--4501608 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
4501558 ATTTCAGTAA
4501568 TTATTTAT-TTAT
1 TTATTTATATTAT
4501580 TTATTTATATTAT
1 TTATTTATATTAT
4501593 TTATTTATATTAT
1 TTATTTATATTAT
4501606 TTA
1 TTA
4501609 GGTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATATTAT
Found at i:4505776 original size:3 final size:3
Alignment explanation
Indices: 4505770--4505816 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
4505760 CATCATCATG
** *
4505770 ATT ATT ATT ATT ATT ATT ATTT ATT ACC AGT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
4505816 A
1 A
4505817 AATTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:4510152 original size:18 final size:17
Alignment explanation
Indices: 4510109--4510154 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
4510099 CCGTTATGTC
4510109 CGCGACCGCGA-C-AAA
1 CGCGACCGCGACCGAAA
*
4510124 CACGA-CGCGACCGAAAA
1 CGCGACCGCGACCG-AAA
4510141 CGCGACCGCGACCG
1 CGCGACCGCGACCG
4510155 CAATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 5 0.20
15 5 0.20
17 7 0.28
18 8 0.32
ACGTcount: A:0.30, C:0.41, G:0.28, T:0.00
Consensus pattern (17 bp):
CGCGACCGCGACCGAAA
Found at i:4510679 original size:15 final size:14
Alignment explanation
Indices: 4510655--4510684 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4510645 AAGAGAATCT
4510655 AATTTGACATATTA
1 AATTTGACATATTA
4510669 AATTGTGACATATTA
1 AATT-TGACATATTA
4510684 A
1 A
4510685 TAAGTTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (14 bp):
AATTTGACATATTA
Found at i:4511375 original size:24 final size:24
Alignment explanation
Indices: 4511343--4511395 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
4511333 CAATGATTTA
*
4511343 ATTTTTTTAAAATGTATTTAGTAT
1 ATTTTTTTAAAATGTAGTTAGTAT
** *
4511367 ATTTTTTTAAGGTGTAGTTAGTGT
1 ATTTTTTTAAAATGTAGTTAGTAT
4511391 ATTTT
1 ATTTT
4511396 CATAATTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.58
Consensus pattern (24 bp):
ATTTTTTTAAAATGTAGTTAGTAT
Done.