Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 43
Found at i:2642077 original size:2 final size:2
Alignment explanation
Indices: 2642070--2642104 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2642060 CAGCTTAAGC
2642070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2642105 TTAATCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2642707 original size:19 final size:19
Alignment explanation
Indices: 2642683--2642754 Score: 144
Period size: 19 Copynumber: 3.8 Consensus size: 19
2642673 GAATGCATTT
2642683 CATGCATCGATGCACCAGC
1 CATGCATCGATGCACCAGC
2642702 CATGCATCGATGCACCAGC
1 CATGCATCGATGCACCAGC
2642721 CATGCATCGATGCACCAGC
1 CATGCATCGATGCACCAGC
2642740 CATGCATCGATGCAC
1 CATGCATCGATGCAC
2642755 TCTGGCTATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 53 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (19 bp):
CATGCATCGATGCACCAGC
Found at i:2645376 original size:29 final size:30
Alignment explanation
Indices: 2645322--2645382 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
2645312 TACAGAAATT
* *
2645322 AAAATCCCTAATCTCCTATTT-TTTTTTTC
1 AAAATCCCTAATCGCCTATTTATTTTTCTC
*
2645351 AAAATCCCTAA-CGCCTCTTTCATTTTTCTC
1 AAAATCCCTAATCGCCTATTT-ATTTTTCTC
2645381 AA
1 AA
2645383 TTCTCTCACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.26
29 11 0.41
30 9 0.33
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (30 bp):
AAAATCCCTAATCGCCTATTTATTTTTCTC
Found at i:2656456 original size:17 final size:18
Alignment explanation
Indices: 2656419--2656458 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2656409 TTTATGAGAT
*
2656419 AATTAGAATATGTGAAGG
1 AATTAAAATATGTGAAGG
*
2656437 AATTAAAATATGT-CAGG
1 AATTAAAATATGTGAAGG
2656454 AATTA
1 AATTA
2656459 GAATCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (18 bp):
AATTAAAATATGTGAAGG
Found at i:2657376 original size:257 final size:251
Alignment explanation
Indices: 2656833--2657404 Score: 826
Period size: 257 Copynumber: 2.3 Consensus size: 251
2656823 CATCCGAGAC
2656833 CCGACCCGACCAAAATAAAGTTTCA-CCG----ACCCGAATATATGAATTAG-AA---ACCCGAC
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCCACCCGAATATATGAATTAGAAACCGACCCGAC
*
2656889 CCAAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAATTATATA
66 CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAATTATATA
*** * * *
2656954 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGATTGGG
131 TAGAGAAATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTT-G-TCGGG
*
2657019 TCGGGTCGGGTATTTTCACCCTAAACCCGACCCGACCCAAATATCACACTTAAAAAAA
194 TCGGGTCGAGTATTTTCACCCTAAACCCGACCCGACCCAAATATCACACTTAAAAAAA
2657077 CCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCC-ACCCGAATATATGAATTAGAAA-CCGACCCG
* *
2657142 ACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGATTTAATTG-AAAAAAATTATA
64 ACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAATTATA
*
2657206 TATAGATAAATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT-TCGGG
129 TATAGAGAAATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTCGGG
*
2657269 TCGGGTCGAGTATTTTTCACCCTAAACCCGAACTTGACCTGACCCGAATATCACACTTAAAAAAA
194 TCGGGTCGAGTA-TTTTCACCCTAAACCCG-AC----CC-GACCCAAATATCACACTTAAAAAAA
*
2657334 CCGACCCGACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAAAAACCCGACCCG
1 CCGACCCGACCAAAATAAAGTTTCACCCGACCC-ACCCGAATATATGAATTAGAAA-CCGACCCG
2657399 ACCCGA
64 ACCCGA
2657405 CCCGAAATAA
Statistics
Matches: 295, Mismatches: 15, Indels: 23
0.89 0.05 0.07
Matches are distributed among these distances:
244 25 0.08
245 3 0.01
250 34 0.12
251 19 0.06
252 2 0.01
253 4 0.01
254 60 0.20
255 54 0.18
256 2 0.01
257 92 0.31
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (251 bp):
CCGACCCGACCAAAATAAAGTTTCACCCGACCCACCCGAATATATGAATTAGAAACCGACCCGAC
CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAATTATATA
TAGAGAAATATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATTATTTGTCGGGTC
GGGTCGAGTATTTTCACCCTAAACCCGACCCGACCCAAATATCACACTTAAAAAAA
Found at i:2663159 original size:2 final size:2
Alignment explanation
Indices: 2663152--2663222 Score: 83
Period size: 2 Copynumber: 35.5 Consensus size: 2
2663142 TAATGTGTTG
*
2663152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
2663194 AT A- AT GT AGT AT GAT -T AT AT AT AT TT AT A
1 AT AT AT AT A-T AT -AT AT AT AT AT AT AT AT A
2663223 AGATAAGATA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
1 2 0.03
2 53 0.90
3 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2663250 original size:10 final size:10
Alignment explanation
Indices: 2663152--2663255 Score: 70
Period size: 10 Copynumber: 10.3 Consensus size: 10
2663142 TAATGTGTTG
*
2663152 ATATATATAT
1 ATATATATGT
*
2663162 ATATATATAT
1 ATATATATGT
*
2663172 ATATATATAT
1 ATATATATGT
*
2663182 ATATATATTT
1 ATATATATGT
2663192 ATATA-ATGT
1 ATATATATGT
*
2663201 AGTAT-GAT-T
1 A-TATATATGT
*
2663210 ATATATATTT
1 ATATATATGT
* *
2663220 ATAAGATAAGAT
1 AT-ATATATG-T
*
2663232 AAATAATATGT
1 ATAT-ATATGT
2663243 ATATATATGT
1 ATATATATGT
2663253 ATA
1 ATA
2663256 AATGTATGAC
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
8 3 0.04
9 8 0.10
10 51 0.66
11 9 0.12
12 6 0.08
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (10 bp):
ATATATATGT
Found at i:2663806 original size:20 final size:20
Alignment explanation
Indices: 2663778--2663821 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2663768 ATACTCCTAA
* **
2663778 CGATGCTATAAGATTAATAT
1 CGATACTATAAGAACAATAT
*
2663798 CGATACTATATGAACAATAT
1 CGATACTATAAGAACAATAT
2663818 CGAT
1 CGAT
2663822 TTTGTAGGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (20 bp):
CGATACTATAAGAACAATAT
Found at i:2666978 original size:19 final size:19
Alignment explanation
Indices: 2666954--2666992 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2666944 TCGAATGCAT
2666954 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2666973 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2666992 T
1 T
2666993 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2667091 original size:64 final size:65
Alignment explanation
Indices: 2666940--2667100 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
2666930 GAATTAATTG
* * *** * *
2666940 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCAA
* **
2667005 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATACA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATA-TTTTCA
2667068 A
65 A
2667069 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
2667101 CTTGGTGCAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.44
65 47 0.56
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGAATATTTTCAA
Found at i:2667120 original size:64 final size:64
Alignment explanation
Indices: 2666940--2667120 Score: 211
Period size: 64 Copynumber: 2.8 Consensus size: 64
2666930 GAATTAATTG
* * * *
2666940 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** * **
2667005 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATACATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
2667069 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
2667121 AGTGTTCCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.52
65 47 0.48
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:2668533 original size:15 final size:15
Alignment explanation
Indices: 2668515--2668546 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2668505 GCATTAGTTT
2668515 CCAATAATCTAGTCC
1 CCAATAATCTAGTCC
2668530 CCAATAATCTAGTCC
1 CCAATAATCTAGTCC
2668545 CC
1 CC
2668547 TTCGGTATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.38, G:0.06, T:0.25
Consensus pattern (15 bp):
CCAATAATCTAGTCC
Found at i:2670778 original size:64 final size:65
Alignment explanation
Indices: 2670709--2670865 Score: 185
Period size: 65 Copynumber: 2.4 Consensus size: 65
2670699 CACACCCATT
* * *
2670709 TCGAATGCATTTTATGCACCGATGCACAA-CCATGCATTGATGCACTCAAGAT-TTTATTGGAAC
1 TCGAATGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCACCCAAGATATTT-TTGAAAC
2670772 A
65 A
** * * * *
2670773 TCGAATTAATTTTGTGCACCGATGCACAAGTCATGCATCGATGCACCCCAGCTATTTTTGAAACA
1 TCGAATGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCACCCAAGATATTTTTGAAACA
*
2670838 TCGAA-GCAAATTTATGCACCGATGCACA
1 TCGAATGC-ATTTTATGCACCGATGCACA
2670866 CCCTAGTGTA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 26 0.34
65 48 0.62
66 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (65 bp):
TCGAATGCATTTTATGCACCGATGCACAAGCCATGCATCGATGCACCCAAGATATTTTTGAAACA
Found at i:2672814 original size:21 final size:21
Alignment explanation
Indices: 2672790--2672829 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2672780 AAGACTTTAT
2672790 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAA-ATGAAAAATGATA
2672811 TTTCAAAAATGAAAAATGA
1 TTTCAAAAATGAAAAATGA
2672830 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAAATGAAAAATGATA
Found at i:2673278 original size:18 final size:18
Alignment explanation
Indices: 2673217--2673277 Score: 115
Period size: 18 Copynumber: 3.4 Consensus size: 18
2673207 ATGAATATGG
2673217 ACCCAAAAGAATTTGGGT
1 ACCCAAAAGAATTTGGGT
2673235 ACCCAAAAGAATTTGGGT
1 ACCCAAAAGAATTTGGGT
2673253 ACCCAAAAGAATTTGGGT
1 ACCCAAAAGAATTTGGGT
2673271 A-CCAAAA
1 ACCCAAAA
2673278 ATTAATCTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 6 0.14
18 37 0.86
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (18 bp):
ACCCAAAAGAATTTGGGT
Found at i:2676750 original size:23 final size:22
Alignment explanation
Indices: 2676673--2676750 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
2676663 ACACTAGTTA
*
2676673 GTGCATCGATGTATTCCTTGAAT
1 GTGCATCGATG-AATCCTTGAAT
* ** * *
2676696 GTGCATTGATTCA-CCATGAAG
1 GTGCATCGATGAATCCTTGAAT
2676717 GTGCA-CTGATGAATGCCTTGAAT
1 GTGCATC-GATGAAT-CCTTGAAT
2676740 GTGCATCGATG
1 GTGCATCGATG
2676751 CACTCTACTG
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 15 0.38
23 24 0.60
24 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (22 bp):
GTGCATCGATGAATCCTTGAAT
Found at i:2679564 original size:65 final size:63
Alignment explanation
Indices: 2679435--2679591 Score: 158
Period size: 65 Copynumber: 2.4 Consensus size: 63
2679425 CACACCCATT
* * * *
2679435 TCGAATGCATTTTATGCACCGATGAACAACTATGCATCGATGCACTCAGGATTTTATTGGAACA
1 TCGAATG-ATTTTGTGCACCGATGCACAACTATGCATCGATGCACTCACGATTTTATTGAAACA
* * *
2679499 TCGAATTGATTTTGTGCACTGATGCACAAGTCATGCATCGATGCAC-CCCGACTATTT-TTGAAA
1 TCGAA-TGATTTTGTGCACCGATGCACAACT-ATGCATCGATGCACTCACGA-T-TTTATTGAAA
2679562 CA
62 CA
*
2679564 TCGAA-GCAAATTTGTGCACCGATGCACA
1 TCGAATG--ATTTTGTGCACCGATGCACA
2679592 CCCTAGTGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
63 1 0.01
64 27 0.35
65 47 0.60
66 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (63 bp):
TCGAATGATTTTGTGCACCGATGCACAACTATGCATCGATGCACTCACGATTTTATTGAAACA
Found at i:2682958 original size:20 final size:21
Alignment explanation
Indices: 2682933--2682982 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
2682923 CTATTTTTGG
2682933 TATCGATACCC-ATAAATCAA
1 TATCGATACCCTATAAATCAA
* *
2682953 TATCGATACCCTATAGATCAG
1 TATCGATACCCTATAAATCAA
2682974 TATCGATAC
1 TATCGATAC
2682983 TATAAGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (21 bp):
TATCGATACCCTATAAATCAA
Found at i:2687715 original size:14 final size:14
Alignment explanation
Indices: 2687696--2687746 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
2687686 AAACCCGAAA
2687696 TCGGTTTTTTCGGT
1 TCGGTTTTTTCGGT
2687710 TCGGTTTTTTTAACGGT
1 TCGG-TTTTTT--CGGT
* *
2687727 TTGGGTTTTTCGGT
1 TCGGTTTTTTCGGT
2687741 TCGGTT
1 TCGGTT
2687747 CGATTTATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 12 0.40
15 6 0.20
16 5 0.17
17 7 0.23
ACGTcount: A:0.04, C:0.12, G:0.29, T:0.55
Consensus pattern (14 bp):
TCGGTTTTTTCGGT
Found at i:2692182 original size:15 final size:15
Alignment explanation
Indices: 2692162--2692196 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2692152 ACACAAGATT
2692162 AAGATTAAAACAATA
1 AAGATTAAAACAATA
* *
2692177 AAGATTAAGACAATT
1 AAGATTAAAACAATA
2692192 AAGAT
1 AAGAT
2692197 AAACAAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (15 bp):
AAGATTAAAACAATA
Found at i:2693942 original size:60 final size:60
Alignment explanation
Indices: 2693812--2693964 Score: 163
Period size: 60 Copynumber: 2.6 Consensus size: 60
2693802 AATATCGAGC
** *
2693812 TTTCCAA-AAAATAAAACCAATGATTTA--TATTTTCTTACAAAATAGAATTATATTTGA
1 TTTCCAAGAAAATAAATTCAATGATTTATTTATTTTCTTACAAAATAGAATTATACTTGA
* *
2693869 TTTCCAAGAAAATAAATTCAATGATTTATTTCATTTT-TTTCAAAGTAG-ATTCATACTTGA
1 TTTCCAAGAAAATAAATTCAATGATTTATTT-ATTTTCTTACAAAATAGAATT-ATACTTGA
* * * * *
2693929 TTTCTAAGAAAATAATTTTAACGATTTATTTTTTTT
1 TTTCCAAGAAAATAAATTCAATGATTTATTTATTTT
2693965 ATAAAAAATC
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
57 7 0.09
58 18 0.22
59 7 0.09
60 44 0.54
61 5 0.06
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (60 bp):
TTTCCAAGAAAATAAATTCAATGATTTATTTATTTTCTTACAAAATAGAATTATACTTGA
Found at i:2694203 original size:57 final size:57
Alignment explanation
Indices: 2693874--2694460 Score: 336
Period size: 58 Copynumber: 10.2 Consensus size: 57
2693864 TTTGATTTCC
* * * * * **
2693874 AAGAAAATAAATTCAATGATTTATTTCATTTTTTTCAAAGTAGATTCATACTTGATTTCT
1 AAGAAAATAAATTCAATGATTTATTTC--CTTTTACAAAATAGAATCATTCAAGA-TTCT
* * * * * * *
2693934 AAGAAAATAATTTTAACGATTTATTT-TTTTTA-TAAA-A-AATCAAT-AATATTCCT
1 AAGAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCATTCAAGATT-CT
* * ** * * *
2693987 ATA-AAAGTAAATTTAAAAATTTATTTCCTTTTACAAAATATAATCATTCCAGATTCCA
1 A-AGAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCATTCAAGATT-CT
* * * * * *
2694045 AAAAAAATAAATTCGATGATTTATTTCATTTTA-AAAACAAGAACCATAT-AAGTTTC-
1 AAGAAAATAAATTCAATGATTTATTTCCTTTTACAAAA-TAGAATCAT-TCAAGATTCT
* ** *
2694101 ACATATAAATAAAATT-AACT-ATTTATTTTTTTTTACAAAATAGAATCATTCAAGAGTCCT
1 A-AGA-AAAT-AAATTCAA-TGATTTATTTCCTTTTACAAAATAGAATCATTCAAGA-TTCT
** * * **
2694161 AAGAAAATAAATTTGATGATTTATTT-TTTTTACAGACCAGAATCATAT-AAGATTTCT
1 AAGAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCAT-TCAAGA-TTCT
* *
2694218 AAGAAAA-AAATTCGATGATTTATTTCCTTTTAC-AAATCATAATCATAT-AAGATTC-
1 AAGAAAATAAATTCAATGATTTATTTCCTTTTACAAAAT-AGAATCAT-TCAAGATTCT
* * * *
2694273 ACAGACTAATAAATTTAACGATTGATTTCCTTTTACAAAATAGAATCATTCAAGATTCT
1 A-AGA-AAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCATTCAAGATTCT
* * * *
2694332 CAAGAAAATAAATTCACAT-ATTTATTT-TTTTTAC-AAATAAAAATCA-TAAAAACTT-T
1 -AAGAAAATAAATTCA-ATGATTTATTTCCTTTTACAAAAT-AGAATCATTCAAGA-TTCT
** *
2694388 ATAGGAAAATAAATTCAATGATTTATTTCCTTTTACATGATAGAATCATTCAAGGTTCCT
1 A-A-GAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCATTCAAGATT-CT
2694448 AAGAAAATAAATT
1 AAGAAAATAAATT
2694461 AAATAATTAA
Statistics
Matches: 411, Mismatches: 75, Indels: 84
0.72 0.13 0.15
Matches are distributed among these distances:
52 2 0.00
53 23 0.06
54 10 0.02
55 6 0.01
56 40 0.10
57 114 0.28
58 160 0.39
59 29 0.07
60 27 0.07
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (57 bp):
AAGAAAATAAATTCAATGATTTATTTCCTTTTACAAAATAGAATCATTCAAGATTCT
Found at i:2694267 original size:172 final size:174
Alignment explanation
Indices: 2694048--2694424 Score: 471
Period size: 172 Copynumber: 2.2 Consensus size: 174
2694038 GATTCCAAAA
* * *
2694048 AAAATAAATTCGATGATTTATTTCATTTTA-AAAACAAGAACCATATAAGTTTCACATA-TAAAT
1 AAAATAAATTCGATGATTTATTTCCTTTTACAAAACAAGAACCATATAAGATTCACAGACT-AAT
* * **
2694111 AAAATTAACTATTTATTTTTTTTTACAAAATAGAATCATTCAAGAGTCCT-AAGAAAATAAATT-
65 AAAATTAACGATTGATTTCCTTTTACAAAATAGAATCATTCAAGA-TCCTCAAGAAAATAAATTC
** * * * * *
2694174 TGATGATTTATTTTTTTTACAGACCAGAATCATATAAGA-TTTCTAAG
129 ACAT-ATTTATTTTTTTTACAAACAAAAATCATA-AAAACTTTATAAG
* * *
2694221 AAAA-AAATTCGATGATTTATTTCCTTTTACAAATC-ATAATCATATAAGATTCACAGACTAATA
1 AAAATAAATTCGATGATTTATTTCCTTTTACAAAACAAGAACCATATAAGATTCACAGACTAATA
* *
2694284 AATTTAACGATTGATTTCCTTTTACAAAATAGAATCATTCAAGATTCTCAAGAAAATAAATTCAC
66 AAATTAACGATTGATTTCCTTTTACAAAATAGAATCATTCAAGATCCTCAAGAAAATAAATTCAC
* *
2694349 ATATTTATTTTTTTTACAAATAAAAATCATAAAAACTTTATAGG
131 ATATTTATTTTTTTTACAAACAAAAATCATAAAAACTTTATAAG
*
2694393 AAAATAAATTCAATGATTTATTTCCTTTTACA
1 AAAATAAATTCGATGATTTATTTCCTTTTACA
2694425 TGATAGAATC
Statistics
Matches: 176, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
171 6 0.03
172 133 0.76
173 37 0.21
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.38
Consensus pattern (174 bp):
AAAATAAATTCGATGATTTATTTCCTTTTACAAAACAAGAACCATATAAGATTCACAGACTAATA
AAATTAACGATTGATTTCCTTTTACAAAATAGAATCATTCAAGATCCTCAAGAAAATAAATTCAC
ATATTTATTTTTTTTACAAACAAAAATCATAAAAACTTTATAAG
Found at i:2694364 original size:115 final size:117
Alignment explanation
Indices: 2694199--2694460 Score: 299
Period size: 115 Copynumber: 2.3 Consensus size: 117
2694189 TTTACAGACC
* * *
2694199 AGAATCATAT-AAGATT-TCTAAGAAAA-AAATTCGATGATTTATTTCCTTTTACAAATCATAAT
1 AGAATCAT-TCAAGATTCTCTAAGAAAATAAATTCCATGATTTATTTCCTTTTACAAATAAAAAT
* * *
2694261 CATATAAGA-TTCACA-GACTAATAAATTTAACGATTGATTTCCTTTTACAAAAT
65 CATA-AAAACTTCACAGGA-AAATAAATTCAACGATTGATTTCCTTTTACAAAAT
*
2694314 AGAATCATTCAAGATTCTC-AAGAAAATAAATTCACAT-ATTTATTT-TTTTTACAAATAAAAAT
1 AGAATCATTCAAGATTCTCTAAGAAAATAAATTC-CATGATTTATTTCCTTTTACAAATAAAAAT
* * * * **
2694376 CATAAAAACTTTATAGGAAAATAAATTCAATGATTTATTTCCTTTTACATGAT
65 CATAAAAACTTCACAGGAAAATAAATTCAACGATTGATTTCCTTTTACAAAAT
*
2694429 AGAATCATTCAAGGTTC-CTAAGAAAATAAATT
1 AGAATCATTCAAGATTCTCTAAGAAAATAAATT
2694461 AAATAATTAA
Statistics
Matches: 126, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
114 5 0.04
115 101 0.80
116 18 0.14
117 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (117 bp):
AGAATCATTCAAGATTCTCTAAGAAAATAAATTCCATGATTTATTTCCTTTTACAAATAAAAATC
ATAAAAACTTCACAGGAAAATAAATTCAACGATTGATTTCCTTTTACAAAAT
Found at i:2695615 original size:20 final size:19
Alignment explanation
Indices: 2695575--2695617 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
2695565 AAAATAAAAT
*
2695575 TTTGAAAAAATATGTTTTA
1 TTTGAAAAAATATGTTATA
2695594 TTTGAGAAAAATAT-TTCATA
1 TTTGA-AAAAATATGTT-ATA
2695614 TTTG
1 TTTG
2695618 GGTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTGAAAAAATATGTTATA
Found at i:2702516 original size:31 final size:31
Alignment explanation
Indices: 2702478--2702568 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 31
2702468 AAAATTTAAA
* * *
2702478 TACTAAAATAGATCTAAATTGATAGTTTATG
1 TACTAAAATATATCTAAATTGATAATTTAGG
* *
2702509 TATTAAAATATACCTAAATTGATAATTTAGG
1 TACTAAAATATATCTAAATTGATAATTTAGG
2702540 TACTAAAATATAT-TCAAATTGATAATTTA
1 TACTAAAATATATCT-AAATTGATAATTTA
2702569 AACATTTACC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
30 1 0.02
31 51 0.98
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.40
Consensus pattern (31 bp):
TACTAAAATATATCTAAATTGATAATTTAGG
Found at i:2707001 original size:2 final size:2
Alignment explanation
Indices: 2706994--2707025 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2706984 CCCAACAATA
2706994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2707026 GCTAGTATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2714445 original size:16 final size:15
Alignment explanation
Indices: 2714412--2714444 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
2714402 ACCCTTTTTC
2714412 TTTATTTTATTTATT
1 TTTATTTTATTTATT
2714427 TTTATATTTA-TTATT
1 TTTAT-TTTATTTATT
2714442 TTT
1 TTT
2714445 TGGAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTATTTATT
Found at i:2721395 original size:3 final size:3
Alignment explanation
Indices: 2721387--2721518 Score: 264
Period size: 3 Copynumber: 44.0 Consensus size: 3
2721377 GTTGAAACTG
2721387 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2721435 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2721483 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2721519 GTACTGCCAT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 129 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2722944 original size:21 final size:23
Alignment explanation
Indices: 2722906--2722947 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2722896 ATTATAAAAC
*
2722906 ATATTTGAATTCATAATTATAAT
1 ATATTTGAATCCATAATTATAAT
2722929 ATATTTGAA-CCA-AATTATA
1 ATATTTGAATCCATAATTATA
2722948 TAATAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATTTGAATCCATAATTATAAT
Found at i:2730671 original size:13 final size:14
Alignment explanation
Indices: 2730653--2730689 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2730643 ATGAGACTCC
2730653 AAAAGAAGAAG-GA
1 AAAAGAAGAAGAGA
2730666 AAAAGAAGAAGAGA
1 AAAAGAAGAAGAGA
2730680 ATAAA-AAGAA
1 A-AAAGAAGAA
2730690 AAATAATGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.50
14 8 0.36
15 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (14 bp):
AAAAGAAGAAGAGA
Found at i:2735505 original size:25 final size:25
Alignment explanation
Indices: 2735477--2735525 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
2735467 GAGTTCCTTC
2735477 ATATGGGATGAGAAACAAAAAAAAT
1 ATATGGGATGAGAAACAAAAAAAAT
*
2735502 ATATGGGATGAGAAATAAAAAAAA
1 ATATGGGATGAGAAACAAAAAAAA
2735526 AAAGCTTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.20, T:0.16
Consensus pattern (25 bp):
ATATGGGATGAGAAACAAAAAAAAT
Found at i:2740991 original size:42 final size:42
Alignment explanation
Indices: 2740942--2741034 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
2740932 CATTTTCATG
*
2740942 TGTTTGATAGCT-TGAAAATA-TTTTTCAGAAAATATTTTCCAA
1 TGTTTGATAGCTGTG--AATAGTTTTACAGAAAATATTTTCCAA
* * *
2740984 TGTTTGATAGCTGTGATTAGTTTTACAGAAAATATTTTTCAG
1 TGTTTGATAGCTGTGAATAGTTTTACAGAAAATATTTTCCAA
2741026 TGTTTGATA
1 TGTTTGATA
2741035 TTCTATGCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 3 0.07
42 40 0.89
43 2 0.04
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (42 bp):
TGTTTGATAGCTGTGAATAGTTTTACAGAAAATATTTTCCAA
Found at i:2743324 original size:27 final size:26
Alignment explanation
Indices: 2743287--2743338 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
2743277 CCAAATTGCT
*
2743287 TTTTGTTTTCTTTCCTCTCTTCTTTC
1 TTTTGTTTTCTTTCCTCTCCTCTTTC
*
2743313 TTTTGTTCTTCTTTCTTCTCCTCTTT
1 TTTTGTT-TTCTTTCCTCTCCTCTTT
2743339 TACCATCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (26 bp):
TTTTGTTTTCTTTCCTCTCCTCTTTC
Found at i:2752023 original size:23 final size:23
Alignment explanation
Indices: 2751989--2752042 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
2751979 AAATGGTGCT
*
2751989 GTAGTTTTTAGAAGGTCCAATCA
1 GTAGTTTCTAGAAGGTCCAATCA
2752012 GTAGTTTCTAGAAGGTCCAATCA
1 GTAGTTTCTAGAAGGTCCAATCA
*
2752035 GCAGTTTC
1 GTAGTTTC
2752043 GTGAGGAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (23 bp):
GTAGTTTCTAGAAGGTCCAATCA
Found at i:2770766 original size:14 final size:15
Alignment explanation
Indices: 2770747--2770775 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2770737 AAGGTTAATA
2770747 TTGGACC-GATTTAG
1 TTGGACCTGATTTAG
2770761 TTGGACCTGATTTAG
1 TTGGACCTGATTTAG
2770776 GTTTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (15 bp):
TTGGACCTGATTTAG
Found at i:2775581 original size:92 final size:92
Alignment explanation
Indices: 2775405--2775584 Score: 204
Period size: 92 Copynumber: 2.0 Consensus size: 92
2775395 GACTTTTCAC
* * *
2775405 ATGAATTGCATTACCACATTCATGAGAATTTTATGCATGTATTGCATTACAGCATTCATCCATAC
1 ATGAATCGCATTACCACATTCATGAGAATTTTATGCATGAATCGCATTACAGCATTCATCCATAC
* * *
2775470 TTTTTATATTTATTGAGGACTTTCGGT
66 TTTTTACATTCATTAAGGACTTTCGGT
** * * *
2775497 ATGAATCGCATTACTGCATTCATGAGGATTTTATGTATGAATCGCATTATCA-CATTCATCCTTA
1 ATGAATCGCATTACCACATTCATGAGAATTTTATGCATGAATCGCATTA-CAGCATTCATCCATA
*
2775561 -TTTTTCACCTCTCA-TAAGGACTTT
65 CTTTTT-ACAT-TCATTAAGGACTTT
2775585 TTTCAAATAC
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
91 5 0.07
92 64 0.88
93 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (92 bp):
ATGAATCGCATTACCACATTCATGAGAATTTTATGCATGAATCGCATTACAGCATTCATCCATAC
TTTTTACATTCATTAAGGACTTTCGGT
Found at i:2776233 original size:129 final size:129
Alignment explanation
Indices: 2776024--2776267 Score: 303
Period size: 129 Copynumber: 1.9 Consensus size: 129
2776014 AGATTACTAG
* * * * * *
2776024 AGAAAATCTATCTTGGTTTGGCCTACCCTAAAAAGCAATGGAGTAGATCCCCTTTTGTCTGAATC
1 AGAAAATCTATCTTGGTTTGACATACCCTAAAAAGCAACGGAGAAGAGCCCCTTTTCTCTGAATC
* * * *
2776089 TGACCTAACCTGAAGAGTACCAGAGCATATTCCATTAGATTTGACCTACCCTACAGAATAACAT
66 TAACCGAACCTGAAGAGTACCAGAGCAGATTCCATTAAATTTGACCTACCCTACAGAATAACAT
* *
2776153 AGAAAATCTATCTT-GTTCTGACATACCCTAAAGAG-AAGCGGAGAAGAGCCCCTTTTCTTTGAA
1 AGAAAATCTATCTTGGTT-TGACATACCCTAAAAAGCAA-CGGAGAAGAGCCCCTTTTCTCTGAA
* * * * *
2776216 TCTAAGCGACCCTGAAGAGTAGCAGAGTAGATTCCATTAAATTTGGCCTACC
64 TCTAACCGAACCTGAAGAGTACCAGAGCAGATTCCATTAAATTTGACCTACC
2776268 TTGAAGAGCA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
128 5 0.05
129 91 0.95
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (129 bp):
AGAAAATCTATCTTGGTTTGACATACCCTAAAAAGCAACGGAGAAGAGCCCCTTTTCTCTGAATC
TAACCGAACCTGAAGAGTACCAGAGCAGATTCCATTAAATTTGACCTACCCTACAGAATAACAT
Found at i:2776604 original size:2 final size:2
Alignment explanation
Indices: 2776597--2776623 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2776587 AATTTTGAAG
2776597 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2776624 ATAAGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2779327 original size:29 final size:30
Alignment explanation
Indices: 2779265--2779338 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
2779255 CAGTTTAAAG
2779265 TATATTTTA-TT-A-TATTTAATATTTTGT
1 TATATTTTATTTAATTATTTAATATTTTGT
*
2779292 TACTATTTTATTTAATTATTTAAT-TTTTTT
1 TA-TATTTTATTTAATTATTTAATATTTTGT
2779322 TATATTTTATTTAATTA
1 TATATTTTATTTAATTA
2779339 CTTTTTTGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
27 2 0.05
28 7 0.17
29 17 0.40
30 8 0.19
31 8 0.19
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (30 bp):
TATATTTTATTTAATTATTTAATATTTTGT
Found at i:2779353 original size:29 final size:28
Alignment explanation
Indices: 2779265--2779354 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 28
2779255 CAGTTTAAAG
* * *
2779265 TATATTTTATTATATTTA-ATATTTT-GT
1 TATATTTTATT-TAATTATTTATTTTAAT
**
2779292 TACTATTTTATTTAATTATTTAATTTTTTT
1 TA-TATTTTATTTAATTATTT-ATTTTAAT
2779322 TATATTTTATTTAATTACTTT-TTTGTAAT
1 TATATTTTATTTAATTA-TTTATTT-TAAT
2779351 TATA
1 TATA
2779355 AAATGGAAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
27 7 0.13
28 13 0.25
29 26 0.50
30 6 0.12
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (28 bp):
TATATTTTATTTAATTATTTATTTTAAT
Found at i:2786841 original size:22 final size:23
Alignment explanation
Indices: 2786813--2786855 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
2786803 TGGTTTATAA
2786813 ACTTTGAGTCAAGAAC-AATTTC
1 ACTTTGAGTCAAGAACTAATTTC
2786835 ACTTTGAGTCAAGAACTAATT
1 ACTTTGAGTCAAGAACTAATT
2786856 CAGAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (23 bp):
ACTTTGAGTCAAGAACTAATTTC
Found at i:2788807 original size:58 final size:59
Alignment explanation
Indices: 2788738--2788861 Score: 196
Period size: 59 Copynumber: 2.1 Consensus size: 59
2788728 AAATAAATAG
* *
2788738 TCCATTACAAAACCCAATTATAATTAAAA-TTCCAATACAAGTCCAAAGTAAAAATCAA
1 TCCATTACAAAACACAATTATAATTAAAAGTTCCAATACAAGTCCAAAATAAAAATCAA
* *
2788796 TCCATTACAAAACACAATTGTAATTAAAAGTTCCAATACAAGTCCAAAATAAAATTCAA
1 TCCATTACAAAACACAATTATAATTAAAAGTTCCAATACAAGTCCAAAATAAAAATCAA
*
2788855 TACATTA
1 TCCATTA
2788862 TACAAATACA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
58 27 0.45
59 33 0.55
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (59 bp):
TCCATTACAAAACACAATTATAATTAAAAGTTCCAATACAAGTCCAAAATAAAAATCAA
Found at i:2793128 original size:17 final size:16
Alignment explanation
Indices: 2793106--2793138 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2793096 GCAAGGGTTC
2793106 ATTAGTCTATTATAGCT
1 ATTAGTCTATTA-AGCT
2793123 ATTAGTCTATTAAGCT
1 ATTAGTCTATTAAGCT
2793139 GCTTTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (16 bp):
ATTAGTCTATTAAGCT
Found at i:2798134 original size:29 final size:29
Alignment explanation
Indices: 2798101--2798195 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
2798091 AATTCAGTGG
2798101 TATCTGGTATAGTTTACACTTCAAATTTT
1 TATCTGGTATAGTTTACACTTCAAATTTT
* * *** ** *
2798130 TATCT-TTATTAGAATGCTATTTTTCACGTCTT
1 TATCTGGTA-TAG--T-TTACACTTCAAATTTT
2798162 TATCTGGTATAGTTTACACTTCAAATTTT
1 TATCTGGTATAGTTTACACTTCAAATTTT
2798191 TATCT
1 TATCT
2798196 TTATTAGAAT
Statistics
Matches: 45, Mismatches: 16, Indels: 10
0.63 0.23 0.14
Matches are distributed among these distances:
28 2 0.04
29 22 0.49
30 1 0.02
31 1 0.02
32 17 0.38
33 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (29 bp):
TATCTGGTATAGTTTACACTTCAAATTTT
Found at i:2798196 original size:61 final size:61
Alignment explanation
Indices: 2798101--2798222 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
2798091 AATTCAGTGG
2798101 TATCTGGTATAGTTTACACTTCAAATTTTTATCTTTATTAGAATGCTATTTTTCACGTCTT
1 TATCTGGTATAGTTTACACTTCAAATTTTTATCTTTATTAGAATGCTATTTTTCACGTCTT
*
2798162 TATCTGGTATAGTTTACACTTCAAATTTTTATCTTTATTAGAATGCTGTTTTTCACGTCTT
1 TATCTGGTATAGTTTACACTTCAAATTTTTATCTTTATTAGAATGCTATTTTTCACGTCTT
2798223 GAATAATGGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.51
Consensus pattern (61 bp):
TATCTGGTATAGTTTACACTTCAAATTTTTATCTTTATTAGAATGCTATTTTTCACGTCTT
Found at i:2800838 original size:39 final size:39
Alignment explanation
Indices: 2800779--2800864 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
2800769 GTATATGACT
* *
2800779 TGTAAGACCTTACCGTAGGCTCCTCTGCTTTGTGCTCAG
1 TGTAAGTCCTTACCGAAGGCTCCTCTGCTTTGTGCTCAG
* **
2800818 TGTAAGTCCTTACTGAAGGCTCCTCTTTTTTGTGCTCAG
1 TGTAAGTCCTTACCGAAGGCTCCTCTGCTTTGTGCTCAG
*
2800857 GGTAAGTC
1 TGTAAGTC
2800865 ATTTTCGCAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.36
Consensus pattern (39 bp):
TGTAAGTCCTTACCGAAGGCTCCTCTGCTTTGTGCTCAG
Found at i:2801296 original size:14 final size:14
Alignment explanation
Indices: 2801277--2801303 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2801267 TTCTAATATA
2801277 TGTGTGTGTGTTTG
1 TGTGTGTGTGTTTG
2801291 TGTGTGTGTGTTT
1 TGTGTGTGTGTTT
2801304 ATTGTATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.41, T:0.59
Consensus pattern (14 bp):
TGTGTGTGTGTTTG
Found at i:2803222 original size:20 final size:20
Alignment explanation
Indices: 2803193--2803235 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2803183 ATTTCACCAC
*
2803193 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
2803213 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
2803233 ATG
1 ATG
2803236 GGATTTTAGA
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:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:2803868 original size:15 final size:17
Alignment explanation
Indices: 2803848--2803885 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
2803838 TACAGCTTCA
2803848 TTTTTTCTTTT-TCTTT
1 TTTTTTCTTTTCTCTTT
2803864 TTTTTTCTTTTCTCTTT
1 TTTTTTCTTTTCTCTTT
2803881 TTTTT
1 TTTTT
2803886 ACAAAGTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTCTTTTCTCTTT
Found at i:2810798 original size:29 final size:29
Alignment explanation
Indices: 2810743--2810798 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2810733 ATGACTAAAT
* *
2810743 TGAAATTTTAACTAAATTCTGGGCCAAAG
1 TGAAATTTTAACTAAATTCAGAGCCAAAG
* *
2810772 TGAAATTTTAATTAAATTCAGATCCAA
1 TGAAATTTTAACTAAATTCAGAGCCAA
2810799 GTTCATAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
TGAAATTTTAACTAAATTCAGAGCCAAAG
Found at i:2816120 original size:387 final size:387
Alignment explanation
Indices: 2815406--2816183 Score: 1556
Period size: 387 Copynumber: 2.0 Consensus size: 387
2815396 AATTGTATGA
2815406 CTGAAATCAAGTCTCAGCTCACACACAATCTGTATCCAAGTACATGAAAAAGAAAATCTGAAATC
1 CTGAAATCAAGTCTCAGCTCACACACAATCTGTATCCAAGTACATGAAAAAGAAAATCTGAAATC
2815471 AAAGCAAACCCTTACTCATCTGATGTTATGCCACGATCACCATACACGTGTCACTTAACCTTTAT
66 AAAGCAAACCCTTACTCATCTGATGTTATGCCACGATCACCATACACGTGTCACTTAACCTTTAT
2815536 ACCCACAGTCCAGACTTTTCCACCCAAAGAAGTTTTTTTATTAAAATACACGCAATCTCACAGTG
131 ACCCACAGTCCAGACTTTTCCACCCAAAGAAGTTTTTTTATTAAAATACACGCAATCTCACAGTG
2815601 AGGACTAAAGCCACCTTCAGTTTTAACCCTACAAGTACAATTTTTCTAACTCTAATACGAAAACT
196 AGGACTAAAGCCACCTTCAGTTTTAACCCTACAAGTACAATTTTTCTAACTCTAATACGAAAACT
2815666 ATAACAACCCTTCTAAGACGCACCAAAGAGGGGGGAAAAAAACTATCTTTATAACACTTTTCTCT
261 ATAACAACCCTTCTAAGACGCACCAAAGAGGGGGGAAAAAAACTATCTTTATAACACTTTTCTCT
2815731 TCCTCAGCCTTGCCTTCTCTGCTCCATCGCTTAAACTCTTTTAAAAACCCGTTGTGTCTTTG
326 TCCTCAGCCTTGCCTTCTCTGCTCCATCGCTTAAACTCTTTTAAAAACCCGTTGTGTCTTTG
2815793 CTGAAATCAAGTCTCAGCTCACACACAATCTGTATCCAAGTACATGAAAAAGAAAATCTGAAATC
1 CTGAAATCAAGTCTCAGCTCACACACAATCTGTATCCAAGTACATGAAAAAGAAAATCTGAAATC
2815858 AAAGCAAACCCTTACTCATCTGATGTTATGCCACGATCACCATACACGTGTCACTTAACCTTTAT
66 AAAGCAAACCCTTACTCATCTGATGTTATGCCACGATCACCATACACGTGTCACTTAACCTTTAT
2815923 ACCCACAGTCCAGACTTTTCCACCCAAAGAAGTTTTTTTATTAAAATACACGCAATCTCACAGTG
131 ACCCACAGTCCAGACTTTTCCACCCAAAGAAGTTTTTTTATTAAAATACACGCAATCTCACAGTG
2815988 AGGACTAAAGCCACCTTCAGTTTTAACCCTACAAGTACAATTTTTCTAACTCTAATACGAAAACT
196 AGGACTAAAGCCACCTTCAGTTTTAACCCTACAAGTACAATTTTTCTAACTCTAATACGAAAACT
2816053 ATAACAACCCTTCTAAGACGCACCAAAGAGGGGGGAAAAAAACTATCTTTATAACACTTTTCTCT
261 ATAACAACCCTTCTAAGACGCACCAAAGAGGGGGGAAAAAAACTATCTTTATAACACTTTTCTCT
2816118 TCCTCAGCCTTGCCTTCTCTGCTCCATCGCTTAAACTCTTTTAAAAACCCGTTGTGTCTTTG
326 TCCTCAGCCTTGCCTTCTCTGCTCCATCGCTTAAACTCTTTTAAAAACCCGTTGTGTCTTTG
2816180 CTGA
1 CTGA
2816184 TAGTTTCCTC
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
387 391 1.00
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (387 bp):
CTGAAATCAAGTCTCAGCTCACACACAATCTGTATCCAAGTACATGAAAAAGAAAATCTGAAATC
AAAGCAAACCCTTACTCATCTGATGTTATGCCACGATCACCATACACGTGTCACTTAACCTTTAT
ACCCACAGTCCAGACTTTTCCACCCAAAGAAGTTTTTTTATTAAAATACACGCAATCTCACAGTG
AGGACTAAAGCCACCTTCAGTTTTAACCCTACAAGTACAATTTTTCTAACTCTAATACGAAAACT
ATAACAACCCTTCTAAGACGCACCAAAGAGGGGGGAAAAAAACTATCTTTATAACACTTTTCTCT
TCCTCAGCCTTGCCTTCTCTGCTCCATCGCTTAAACTCTTTTAAAAACCCGTTGTGTCTTTG
Found at i:2816288 original size:68 final size:68
Alignment explanation
Indices: 2816206--2816341 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 68
2816196 AACTTGCACC
*
2816206 ATATTATCTGATCTGGGTTTTCTTTATTTCTCATTCAGATTATAGTTATCCAAGAAAAATAAAGC
1 ATATTATCTGATCTGGGTTTTCTTTATTTCTCATTCAGATCATAGTTATCCAAGAAAAATAAAGC
2816271 TTT
66 TTT
*
2816274 ATATTATCTGATCTGGGTTTTCTTTATTTCTCATTCAGATCATAGTTCTCCAAGAAAAATAAAGC
1 ATATTATCTGATCTGGGTTTTCTTTATTTCTCATTCAGATCATAGTTATCCAAGAAAAATAAAGC
2816339 TTT
66 TTT
2816342 CTTTTCTTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (68 bp):
ATATTATCTGATCTGGGTTTTCTTTATTTCTCATTCAGATCATAGTTATCCAAGAAAAATAAAGC
TTT
Found at i:2823498 original size:15 final size:15
Alignment explanation
Indices: 2823478--2823511 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2823468 TAGTTACCAG
2823478 TTGTGGTTCTCATAT
1 TTGTGGTTCTCATAT
2823493 TTGTGGTTCTCATAT
1 TTGTGGTTCTCATAT
2823508 TTGT
1 TTGT
2823512 ACTTCTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.56
Consensus pattern (15 bp):
TTGTGGTTCTCATAT
Found at i:2823517 original size:15 final size:15
Alignment explanation
Indices: 2823484--2823517 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2823474 CCAGTTGTGG
**
2823484 TTCTCATATTTGTGG
1 TTCTCATATTTGTAC
2823499 TTCTCATATTTGTAC
1 TTCTCATATTTGTAC
2823514 TTCT
1 TTCT
2823518 GTACAGGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.12, T:0.56
Consensus pattern (15 bp):
TTCTCATATTTGTAC
Found at i:2827808 original size:14 final size:14
Alignment explanation
Indices: 2827789--2827815 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2827779 TAAGGTCTAG
2827789 CAGCCGTTTTACTT
1 CAGCCGTTTTACTT
2827803 CAGCCGTTTTACT
1 CAGCCGTTTTACT
2827816 CAAAACCGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.30, G:0.15, T:0.41
Consensus pattern (14 bp):
CAGCCGTTTTACTT
Found at i:2830232 original size:22 final size:20
Alignment explanation
Indices: 2830182--2830234 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
2830172 CTGAACCCCG
* *
2830182 AGTATCGATACCCTATGAAC
1 AGTATCGATACCCCAAGAAC
*
2830202 AATATCGATACCCCAAGAACC
1 AGTATCGATACCCCAAGAA-C
2830223 AGGTATCGATAC
1 A-GTATCGATAC
2830235 TTCTATACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
21 2 0.07
22 9 0.33
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (20 bp):
AGTATCGATACCCCAAGAAC
Found at i:2830881 original size:81 final size:82
Alignment explanation
Indices: 2830784--2831003 Score: 243
Period size: 81 Copynumber: 2.6 Consensus size: 82
2830774 AAATGAGAGG
* * * * *
2830784 CTCATATTTTTTTAATTTCTTGC-CTACATACAACATCATTCATAAATGAAAGATTCACCTTT-T
1 CTCACATTTTTTTAATTTCTTGCTC-ACATACATCATCATCCAAAAATGAAAGA-TCACATTTAT
2830847 -TC-TCCATAAATAAAATA
64 ATCATCCATAAATAAAATA
* *
2830864 CTCACATTTTTTCTAATTTCTTGTCTGA-ATACATCATCATCCACAAATGAAATGATCACATTTA
1 CTCACATTTTTT-TAATTTCTTG-CTCACATACATCATCATCCAAAAATGAAA-GATCACATTT-
* *
2830928 CATCATCATTCATAAATGAAATA
62 -AT-ATCATCCATAAATAAAATA
*
2830951 CTCACATTTTTTTAATTTCTTGCTCGCATACATCATCATCCAAAAATGAAAGA
1 CTCACATTTTTTTAATTTCTTGCTCACATACATCATCATCCAAAAATGAAAGA
2831004 CTTGCCTTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
80 11 0.09
81 38 0.32
82 4 0.03
84 1 0.01
85 4 0.03
86 35 0.30
87 25 0.21
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (82 bp):
CTCACATTTTTTTAATTTCTTGCTCACATACATCATCATCCAAAAATGAAAGATCACATTTATAT
CATCCATAAATAAAATA
Found at i:2830935 original size:33 final size:33
Alignment explanation
Indices: 2830893--2830959 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
2830883 CTTGTCTGAA
2830893 TACATCATCATCCACAAATGAAATGA-TCACATT
1 TACATCATCATCCACAAATGAAAT-ACTCACATT
* *
2830926 TACATCATCATTCATAAATGAAATACTCACATT
1 TACATCATCATCCACAAATGAAATACTCACATT
2830959 T
1 T
2830960 TTTTAATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.31
Consensus pattern (33 bp):
TACATCATCATCCACAAATGAAATACTCACATT
Found at i:2831219 original size:25 final size:26
Alignment explanation
Indices: 2831186--2831238 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
2831176 TGATATTTTC
2831186 TTTTCAAAACATTTTAACTCTTAATA
1 TTTTCAAAACATTTTAACTCTTAATA
2831212 TTTT-AAAACATTTTAACTCTTAATA
1 TTTTCAAAACATTTTAACTCTTAATA
2831237 TT
1 TT
2831239 GTATTATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTCAAAACATTTTAACTCTTAATA
Found at i:2842552 original size:21 final size:21
Alignment explanation
Indices: 2842528--2842724 Score: 114
Period size: 21 Copynumber: 9.6 Consensus size: 21
2842518 TATCGCAAAT
*
2842528 TCGCGTTGCGATAGTTGGAAA
1 TCGCGTTGCGATAGTTGAAAA
2842549 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
2842570 TCGCGTTGCAAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
2842590 TCGCGTTGTGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
2842611 TCACGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* * *
2842631 TCGCATTGCTATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
2842652 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
2842672 TCGCTTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
2842692 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2842713 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2842725 TTTCCATTTC
Statistics
Matches: 130, Mismatches: 43, Indels: 6
0.73 0.24 0.03
Matches are distributed among these distances:
20 58 0.45
21 72 0.55
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:2842603 original size:41 final size:41
Alignment explanation
Indices: 2842549--2842675 Score: 193
Period size: 41 Copynumber: 3.1 Consensus size: 41
2842539 TAGTTGGAAA
* *
2842549 TCGCGTTGCGATAGTTGAAAATCGCGTTGCAATTTTCCATT
1 TCGCGTTGTGATAGTTGAAAATCGCGTTGCGATTTTCCATT
*
2842590 TCGCGTTGTGATAGTTGAAAATCACGTTGCGATTTTCCATT
1 TCGCGTTGTGATAGTTGAAAATCGCGTTGCGATTTTCCATT
* *
2842631 TCGCATTGCT-ATAGTTAAAAATCGCGTTGCGATTTTCCATT
1 TCGCGTTG-TGATAGTTGAAAATCGCGTTGCGATTTTCCATT
2842672 TCGC
1 TCGC
2842676 TTTGCGATTT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 78 0.99
42 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (41 bp):
TCGCGTTGTGATAGTTGAAAATCGCGTTGCGATTTTCCATT
Found at i:2842688 original size:61 final size:61
Alignment explanation
Indices: 2842616--2842744 Score: 222
Period size: 61 Copynumber: 2.1 Consensus size: 61
2842606 GAAAATCACG
* *
2842616 TTGCGATTTTCCATTTCGCATTGCTATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCT
1 TTGCGATTTTCCATTTCGCATTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCA
* *
2842677 TTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCA
1 TTGCGATTTTCCATTTCGCATTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCA
2842738 TTGCGAT
1 TTGCGAT
2842745 AGTCTACAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (61 bp):
TTGCGATTTTCCATTTCGCATTGCGATAGTTAAAAATCGCGTTGCGATTTTCCATTTCGCA
Found at i:2842708 original size:102 final size:102
Alignment explanation
Indices: 2842570--2842771 Score: 318
Period size: 102 Copynumber: 2.0 Consensus size: 102
2842560 TAGTTGAAAA
*
2842570 TCGCGTTGCAATTTTCCATTTCGCGTTGTGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCAATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGC
*
2842635 ATTGCTATAGT-TAAAAATCG-CGTTGCGATTTTCCATT
66 ATTGCGATAGTCT-AAAAT-GTCGTTGCGATTTTCCATT
* * *
2842672 TCGCTTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGC
1 TCGCGTTGCAATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGC
*
2842737 ATTGCGATAGTCTACAATGTCGTTGCGATTTTCCA
66 ATTGCGATAGTCTAAAATGTCGTTGCGATTTTCCA
2842772 AATTCGTTGC
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 90 0.98
103 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (102 bp):
TCGCGTTGCAATTTTCCATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTCCATTTCGC
ATTGCGATAGTCTAAAATGTCGTTGCGATTTTCCATT
Found at i:2842729 original size:41 final size:41
Alignment explanation
Indices: 2842672--2842790 Score: 147
Period size: 41 Copynumber: 2.9 Consensus size: 41
2842662 ATTTTCCATT
*
2842672 TCGCTTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-AAAA
* *
2842713 TCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCTACAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
*
2842754 T-GTCGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTA
1 TCG-CGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTCTA
2842791 CAGTTGTTGT
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
40 15 0.21
41 51 0.73
42 4 0.06
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTAAAA
Found at i:2842742 original size:20 final size:20
Alignment explanation
Indices: 2842570--2842744 Score: 125
Period size: 20 Copynumber: 8.6 Consensus size: 20
2842560 TAGTTGAAAA
*
2842570 TCGCGTTGCAATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
2842590 TCGCGTTGTGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
2842611 TCACGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * * ** **
2842631 TCGCATTGCTATAGTTAAAAA
1 TCGCGTTGCGAT-TTTCCATT
2842652 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
2842672 TCGCTTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
2842692 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
2842713 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
2842733 TCGCATTGCGAT
1 TCGCGTTGCGAT
2842745 AGTCTACAAT
Statistics
Matches: 110, Mismatches: 42, Indels: 6
0.70 0.27 0.04
Matches are distributed among these distances:
20 69 0.63
21 41 0.37
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:2842780 original size:19 final size:19
Alignment explanation
Indices: 2842716--2842784 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
2842706 TTGAAAATCG
*
2842716 CGTTGCGATTTTCC-ATTT
1 CGTTGCGATTTTCCAAATT
** *
2842734 CGCATTGCGATAGTCTACAATGT
1 CG--TTGCGATTTTCCA-AAT-T
2842757 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
2842776 CGTTGCGAT
1 CGTTGCGAT
2842785 AGTCTACAGT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.05
19 10 0.26
20 12 0.31
21 10 0.26
22 2 0.05
23 3 0.08
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:2842804 original size:22 final size:22
Alignment explanation
Indices: 2842738--2842828 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 22
2842728 CCATTTCGCA
*
2842738 TTGCGATAGTCTACA-ATGTCG
1 TTGCGATAGTCTACAGTTGTCG
* * **
2842759 TTGCGAT--TTTCCAAAT-TCG
1 TTGCGATAGTCTACAGTTGTCG
*
2842778 TTGCGATAGTCTACAGTTGTTG
1 TTGCGATAGTCTACAGTTGTCG
*
2842800 TTGCGAAAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTTGTCG
2842822 TTGCGAT
1 TTGCGAT
2842829 TTCCCAAATT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
19 14 0.25
20 2 0.04
21 12 0.21
22 28 0.50
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (22 bp):
TTGCGATAGTCTACAGTTGTCG
Found at i:2842951 original size:5 final size:5
Alignment explanation
Indices: 2842935--2842965 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
2842925 TTACCACGAC
2842935 CCCGA CCCCGA CCCGA CCCGA CCCGA CCCGA
1 CCCGA -CCCGA CCCGA CCCGA CCCGA CCCGA
2842966 GACGGACGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.61, G:0.19, T:0.00
Consensus pattern (5 bp):
CCCGA
Found at i:2843484 original size:6 final size:6
Alignment explanation
Indices: 2843468--2843505 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
2843458 TCTCATCTCG
2843468 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
2843506 AATACGTGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:2843603 original size:13 final size:13
Alignment explanation
Indices: 2843585--2843610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2843575 TTTTTAACTA
2843585 TCACAACGAATTT
1 TCACAACGAATTT
2843598 TCACAACGAATTT
1 TCACAACGAATTT
2843611 GGAAAATCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TCACAACGAATTT
Found at i:2843646 original size:41 final size:40
Alignment explanation
Indices: 2843601--2843804 Score: 117
Period size: 41 Copynumber: 5.2 Consensus size: 40
2843591 CGAATTTTCA
2843601 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTGGAAAATCGCAACG-CAACTGTAGACTATCG
* ** * **
2843642 CAACGCGATTTTCAACTATCGCAACGCGAACTG--GAAAATCG
1 CAACG-AATTTGGAA-AATCGCAACGC-AACTGTAGACTATCG
* ** * *
2843683 CAACGCGAA-ATGGAAAATCGCAACGTGATTTTCA-ACTATCG
1 CAA--CGAATTTGGAAAATCGCAACGCAACTGT-AGACTATCG
* *
2843724 CAACGCGAA-CTGGAAAATCGCAACGCGA-T-T----T-TCG
1 CAA--CGAATTTGGAAAATCGCAACGCAACTGTAGACTATCG
2843758 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTGGAAAATCGCAACG-CAACTGTAGACTATCG
2843799 CAACGA
1 CAACGA
2843805 CAACTGTAGA
Statistics
Matches: 125, Mismatches: 21, Indels: 34
0.69 0.12 0.19
Matches are distributed among these distances:
32 4 0.03
33 15 0.12
34 8 0.06
35 2 0.02
36 1 0.01
39 3 0.02
40 11 0.09
41 57 0.46
42 8 0.06
43 16 0.13
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (40 bp):
CAACGAATTTGGAAAATCGCAACGCAACTGTAGACTATCG
Found at i:2843661 original size:21 final size:21
Alignment explanation
Indices: 2843635--2843751 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 21
2843625 ACAACTGTAG
* *
2843635 ACTATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAATTGCA
* *
2843656 ACTATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGAATTGCA
* * *
2843677 A-AATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAATTGCA
* * * *
2843697 A-AATCGCAACGTGATTTTCA
1 ACTATCGCAACGCGAATTGCA
* *
2843717 ACTATCGCAACGCGAACTGGA
1 ACTATCGCAACGCGAATTGCA
*
2843738 A-AATCGCAACGCGA
1 ACTATCGCAACGCGA
2843752 TTTTCGCAAC
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
20 45 0.58
21 32 0.42
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAATTGCA
Found at i:2843684 original size:20 final size:20
Alignment explanation
Indices: 2843659--2843751 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 20
2843649 ATTTTCAACT
2843659 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
*
2843679 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAACTGGAAA
* ** ** *
2843699 ATCGCAACGTGATTTTCAACT
1 ATCGCAACGCGAACTGGAA-A
2843720 ATCGCAACGCGAACTGGAAA
1 ATCGCAACGCGAACTGGAAA
2843740 ATCGCAACGCGA
1 ATCGCAACGCGA
2843752 TTTTCGCAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
20 45 0.76
21 14 0.24
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAACTGGAAA
Found at i:2843801 original size:22 final size:22
Alignment explanation
Indices: 2843773--2843825 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
2843763 AATTTGGAAA
2843773 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2843795 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
2843817 ATCGCAACG
1 ATCGCAACG
2843826 CGAACTGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:2843831 original size:22 final size:22
Alignment explanation
Indices: 2843773--2843870 Score: 91
Period size: 22 Copynumber: 4.6 Consensus size: 22
2843763 AATTTGGAAA
2843773 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAACTGTAGACT
2843795 ATCGCAACGAC-AACTGTAGACT
1 ATCGCAACG-CGAACTGTAGACT
**
2843817 ATCGCAACGCGAACTG--GAAA
1 ATCGCAACGCGAACTGTAGACT
* *
2843837 ATCGCAACGCG-ATTTTCA-ACT
1 ATCGCAACGCGAACTGT-AGACT
2843858 ATCGCAACGCGAA
1 ATCGCAACGCGAA
2843871 TTTACGTTAG
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
19 2 0.03
20 13 0.20
21 13 0.20
22 37 0.57
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGCGAACTGTAGACT
Found at i:2862705 original size:17 final size:17
Alignment explanation
Indices: 2862683--2862716 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2862673 TTGTGGTGGC
2862683 ATTTGTGTTTGCTCACT
1 ATTTGTGTTTGCTCACT
2862700 ATTTGTGTTTGCTCACT
1 ATTTGTGTTTGCTCACT
2862717 CAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
ATTTGTGTTTGCTCACT
Found at i:2865858 original size:32 final size:32
Alignment explanation
Indices: 2865807--2865888 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
2865797 CCCCTCCAGG
**
2865807 GCAGCTGGATGTGGTCCCCTCCTGGGCAGCTT
1 GCAGCTGGGCGTGGTCCCCTCCTGGGCAGCTT
* *
2865839 GCAGTTGGGCGTGGTCCCCTCTTGGGCAGCTT
1 GCAGCTGGGCGTGGTCCCCTCCTGGGCAGCTT
*
2865871 GCAGCTGGGTGTGGTCCC
1 GCAGCTGGGCGTGGTCCC
2865889 GACAGAATCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.07, C:0.29, G:0.38, T:0.26
Consensus pattern (32 bp):
GCAGCTGGGCGTGGTCCCCTCCTGGGCAGCTT
Found at i:2882159 original size:139 final size:139
Alignment explanation
Indices: 2881906--2882201 Score: 405
Period size: 139 Copynumber: 2.1 Consensus size: 139
2881896 TTAATCTGGA
* * * *
2881906 GATAATTTGGTGACAACACTGTTCCTACGTGATGAGGAAGTCTGATTGTTTAAGGATGACACTGC
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTATATAAGGATGACACTGC
* * * * * * * * *
2881971 TCCTTCGCGTTGAGGAGATCTGGTTAGTGGACGATATTGTTCCTTCGTGATGAGGACGTATGGTC
66 TCCTACGCGTTAAGGAGATCTGATCAATGGACGACATTGTTCCTACGTGATAAGGACGTATAGTC
2882036 GTCTTTAGG
131 GTCTTTAGG
* *
2882045 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGGA-TATATGAGGATGACGCTG
1 GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCT-GATTATATAAGGATGACACTG
* * *
2882109 CTCCTACGTGTTAAGGAGATCTGATCAATGGACGACCTTGTTCCTACGTGATAAGGACGTCTAGT
65 CTCCTACGCGTTAAGGAGATCTGATCAATGGACGACATTGTTCCTACGTGATAAGGACGTATAGT
*
2882174 TGTCTTTAGG
130 CGTCTTTAGG
2882184 GATAATTTGGAGACAACA
1 GATAATTTGGAGACAACA
2882202 ATCTCAAGTG
Statistics
Matches: 137, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
139 135 0.99
140 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (139 bp):
GATAATTTGGAGACAACACGGTTCCTACGTGATGAGGAAGTCTGATTATATAAGGATGACACTGC
TCCTACGCGTTAAGGAGATCTGATCAATGGACGACATTGTTCCTACGTGATAAGGACGTATAGTC
GTCTTTAGG
Found at i:2882336 original size:36 final size:36
Alignment explanation
Indices: 2882289--2882579 Score: 234
Period size: 36 Copynumber: 8.4 Consensus size: 36
2882279 CAAAGGTTTA
2882289 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
2882325 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
*
2882361 TGTTTCAAGAGAAATTGTCTCAAGTGAGAC-A-ACTT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATAC-T
* * ** ***
2882396 TTTTTCGAGAGAAACAATCTCAA---AG-GTTTAC-
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
* * * ** *
2882427 -ATTTCAAGAGAAATTGTCTTAAACGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
* * ***
2882462 TGTTTTAAGAGAAA-TAATCTCAA---AG-GTTTA--
1 TGTTTCAAGAGAAACT-GTCTCAAGTGAGACAATACT
* *
2882492 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
* *
2882528 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATAC-T
*
2882565 TGTTTCGAGAGAAAC
1 TGTTTCAAGAGAAAC
2882580 AATCTCAAAG
Statistics
Matches: 202, Mismatches: 35, Indels: 35
0.74 0.13 0.13
Matches are distributed among these distances:
30 35 0.17
31 1 0.00
32 3 0.01
33 8 0.04
34 5 0.02
35 21 0.10
36 114 0.56
37 15 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGTGAGACAATACT
Found at i:2882483 original size:137 final size:138
Alignment explanation
Indices: 2882193--2882542 Score: 380
Period size: 137 Copynumber: 2.6 Consensus size: 138
2882183 GGATAATTTG
* * * *
2882193 GAGACAAC-AATCTCAAGTGAGATTAATTTTTTTTCAAGAGAAATTGTCTCAAGCGAGACGAAAC
1 GAGA-AACTAATCTCAAGTGAGA-CAATATTGTTTCAAGAGAAATTGTCTCAAGTGAGAC-AAAC
** **
2882257 TTTGATTT-GA-ATGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAAGTGAGACA
63 TTT-ATTTCGAGA-GAAACAATCTCAAAGGTTTACATTTCAAGAGAAACTGTCTCAAACGAGACA
*
2882320 ATACTTGTTTCAA
126 AAACTTGTTTCAA
*
2882333 GAGAAACT-GTCTCAAGTGAGACAATACTTGTTTCAAGAGAAATTGTCTCAAGTGAGAC-AACTT
1 GAGAAACTAATCTCAAGTGAGACAATA-TTGTTTCAAGAGAAATTGTCTCAAGTGAGACAAACTT
* * *
2882396 TTTTTCGAGAGAAACAATCTCAAAGGTTTACATTTCAAGAGAAATTGTCTTAAACGAGACAAAAC
65 TATTTCGAGAGAAACAATCTCAAAGGTTTACATTTCAAGAGAAACTGTCTCAAACGAGACAAAAC
*
2882461 TTGTTTTAA
130 TTGTTTCAA
*** * *
2882470 GAGAAA-TAATCTCAA---AG-GTTTA-TGTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTT
1 GAGAAACTAATCTCAAGTGAGACAATATTGTTTCAAGAGAAATTGTCTCAAGTGAGACAAACTTT
* *
2882529 GTTTCAAGAGAAAC
66 ATTTCGAGAGAAAC
2882543 TGTCTCAAGC
Statistics
Matches: 182, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
131 29 0.16
132 17 0.09
133 2 0.01
134 2 0.01
136 4 0.02
137 76 0.42
138 4 0.02
139 44 0.24
140 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (138 bp):
GAGAAACTAATCTCAAGTGAGACAATATTGTTTCAAGAGAAATTGTCTCAAGTGAGACAAACTTT
ATTTCGAGAGAAACAATCTCAAAGGTTTACATTTCAAGAGAAACTGTCTCAAACGAGACAAAACT
TGTTTCAA
Found at i:2882498 original size:66 final size:66
Alignment explanation
Indices: 2882224--2882542 Score: 338
Period size: 66 Copynumber: 4.7 Consensus size: 66
2882214 ATTAATTTTT
* * * *
2882224 TTTCAAGAGAAATTGTCTCAAGCGAGACGAAACTTTGATTTGAA-TGAAACAATCTCAAAGGTTT
1 TTTCAAGAGAAATTGTCTCAAGTGAGACAAAAC-TTG-TTTCAAGAGAAACAATCTCAAAGGTTT
2882288 ATG
64 ATG
* * ** **
2882291 TTTCAAGAGAAACTGTCTCAAGTGAGACAATACTTGTTTCAAGAGAAACTGTCTCAAGTGAGACA
1 TTTCAAGAGAAATTGTCTCAAGTGAGACAAAACTTGTTTCAAGAGAAACAATCTCAA---AG-GT
*
2882356 ATACTTG
62 TTA--TG
* *
2882363 TTTCAAGAGAAATTGTCTCAAGTGAGAC--AACTTTTTTTCGAGAGAAACAATCTCAAAGGTTTA
1 TTTCAAGAGAAATTGTCTCAAGTGAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGGTTTA
**
2882426 CA
65 TG
* ** * *
2882428 TTTCAAGAGAAATTGTCTTAAACGAGACAAAACTTGTTTTAAGAGAAATAATCTCAAAGGTTTAT
1 TTTCAAGAGAAATTGTCTCAAGTGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
2882493 G
66 G
* *
2882494 TTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTTGTTTCAAGAGAAAC
1 TTTCAAGAGAAATTGTCTCAAGTGAGACAAAACTTGTTTCAAGAGAAAC
2882543 TGTCTCAAGC
Statistics
Matches: 204, Mismatches: 38, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
65 30 0.15
66 83 0.41
67 34 0.17
68 2 0.01
69 2 0.01
70 4 0.02
71 20 0.10
72 29 0.14
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (66 bp):
TTTCAAGAGAAATTGTCTCAAGTGAGACAAAACTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
G
Found at i:2882646 original size:56 final size:57
Alignment explanation
Indices: 2882537--2882648 Score: 190
Period size: 56 Copynumber: 2.0 Consensus size: 57
2882527 TTGTTTCAAG
* *
2882537 AGAAACTGTCTCAAGCGAGACAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTT
1 AGAAACTGTCTCAAACGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTT
*
2882594 AGAAATTGTCTCAAACGAGACAAAAC-TTGTTTCAAGAGAAACAATCTCAAAGGTT
1 AGAAACTGTCTCAAACGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTT
2882649 ACATACAATC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
56 28 0.54
57 24 0.46
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (57 bp):
AGAAACTGTCTCAAACGAGACAAAACTTTGTTTCAAGAGAAACAATCTCAAAGGTTT
Found at i:2886676 original size:195 final size:196
Alignment explanation
Indices: 2886303--2886690 Score: 742
Period size: 195 Copynumber: 2.0 Consensus size: 196
2886293 TGTGTGAATG
2886303 AAGTTACATAGTTAGAAACACCTCCTTAGAGTCCTCCACGAGATAAATCCATGATTAATGCATGT
1 AAGTTACATAGTTAGAAACACCTCCTTAGAGTCCTCCACGAGATAAATCCATGATTAATGCATGT
2886368 AAAAATGTCTAAATGAATGCCATGTAAAAATGCAAAGATGCAAATGCGAATGCAAAAAGTGTTGG
66 AAAAATGTCTAAATGAATGCCATGTAAAAATGCAAAGATGCAAATGCGAATGCAAAAAGTGTTGG
*
2886433 TCCCAATGATGAATATCATAGAATAATTTTCACCAGAGATAAAAGTCTTCATATTGCAAGATAAT
131 TCCCAATGATGAATATCATAGAATAATTTTCACCAGAGATAAAAGTCTTCACATTGCAAGATAAT
2886498 A
196 A
*
2886499 AAGTTACGTAGTTAGAAACACCTCCTTAGAGTCCTCCACGAGATAAATCCATGATTAATGCATGT
1 AAGTTACATAGTTAGAAACACCTCCTTAGAGTCCTCCACGAGATAAATCCATGATTAATGCATGT
*
2886564 AAAAATGTCTAAATGAATGCCATG-CAAAATGCAAAGATGCAAATGCGAATGCAAAAAGTGTTGG
66 AAAAATGTCTAAATGAATGCCATGTAAAAATGCAAAGATGCAAATGCGAATGCAAAAAGTGTTGG
2886628 TCCCAATGATGAATATCATAGAATAATTTTCACCAGAGATAAAAGTCTTCACATTGCAAGATA
131 TCCCAATGATGAATATCATAGAATAATTTTCACCAGAGATAAAAGTCTTCACATTGCAAGATA
2886691 GTCCATTTTA
Statistics
Matches: 189, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
195 101 0.53
196 88 0.47
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (196 bp):
AAGTTACATAGTTAGAAACACCTCCTTAGAGTCCTCCACGAGATAAATCCATGATTAATGCATGT
AAAAATGTCTAAATGAATGCCATGTAAAAATGCAAAGATGCAAATGCGAATGCAAAAAGTGTTGG
TCCCAATGATGAATATCATAGAATAATTTTCACCAGAGATAAAAGTCTTCACATTGCAAGATAAT
A
Found at i:2887190 original size:17 final size:17
Alignment explanation
Indices: 2887168--2887207 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2887158 AATATAACGC
*
2887168 CTACCCCATCATGGTAT
1 CTACCCCACCATGGTAT
2887185 CTACCCCACCATGGTAT
1 CTACCCCACCATGGTAT
2887202 CTACCC
1 CTACCC
2887208 GCATGCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.25
Consensus pattern (17 bp):
CTACCCCACCATGGTAT
Found at i:2887429 original size:19 final size:19
Alignment explanation
Indices: 2887405--2887442 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2887395 CAGAGGTTTG
2887405 ATATGGCTATACCTAGGGT
1 ATATGGCTATACCTAGGGT
2887424 ATATGGCTATACCTAGGGT
1 ATATGGCTATACCTAGGGT
2887443 GACTATTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (19 bp):
ATATGGCTATACCTAGGGT
Found at i:2888849 original size:228 final size:228
Alignment explanation
Indices: 2888528--2889016 Score: 737
Period size: 228 Copynumber: 2.1 Consensus size: 228
2888518 GGTGATTGTT
* * * * * * ** * *
2888528 TTGCCGGTCAATGTCTTCACAAATATCTGCATTCCTCCACGAAGCCTCAG-AACAAGGTGAAGAG
1 TTGCCGGTCAAGGTTTTCACAAAGATCTGCATACCCCCACGAAGACGGAGCACCAA-GTGGAGAG
*
2888592 TCGATTCCTTCTGGATATTATAATCCGCCAAGGTACGGCCGTCTTCCAGCTGTTTGCCGGCAAAG
65 TCGATTCCTTCTGGATATTATAATCCGCCAAGGTACGGCCATCTTCCAGCTGTTTGCCGGCAAAG
*
2888657 ATGAGGCGTTGCTGGTCGGGTGGGATGCCTTCTTTGTCTTGAATTTTGGCCTTAACGTTGTCGAT
130 ATGAGGCGTTGCTGGTCGGGTGGGATGCCCTCTTTGTCTTGAATTTTGGCCTTAACGTTGTCGAT
*
2888722 GGTGTCGGAACTCTCGACCTCGAGGGTTATGGTT
195 GGTGTCGGAACTCTCGACCTCGAGGGTTATGGTC
* * *
2888756 TTGCCGGTCAAGGTTTTGACGAAGATTTGCATACCCCCACGAAGACGGAGCACCAAGTGGAGAGT
1 TTGCCGGTCAAGGTTTTCACAAAGATCTGCATACCCCCACGAAGACGGAGCACCAAGTGGAGAGT
* * * * *
2888821 CGATTCCTTCTGGATGTTGTAATCCGCCAGGGTACGGCCATCTTCCAGCTGTTTTCCGGCGAAGA
66 CGATTCCTTCTGGATATTATAATCCGCCAAGGTACGGCCATCTTCCAGCTGTTTGCCGGCAAAGA
* *
2888886 TGAGGCGTTGCTGGTCGGGTGGGATGCCCTCTTTGTCTTGGATTTTGGCCTTGACGTTGTCGATG
131 TGAGGCGTTGCTGGTCGGGTGGGATGCCCTCTTTGTCTTGAATTTTGGCCTTAACGTTGTCGATG
2888951 GTGTCGGAACTCTCGACCTCGAGGGTTATGGTC
196 GTGTCGGAACTCTCGACCTCGAGGGTTATGGTC
* *
2888984 TTGCCGGTGAGGGTTTTCACAAAGATCTGCATA
1 TTGCCGGTCAAGGTTTTCACAAAGATCTGCATA
2889017 TTTCAATGTT
Statistics
Matches: 232, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
228 228 0.98
229 4 0.02
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (228 bp):
TTGCCGGTCAAGGTTTTCACAAAGATCTGCATACCCCCACGAAGACGGAGCACCAAGTGGAGAGT
CGATTCCTTCTGGATATTATAATCCGCCAAGGTACGGCCATCTTCCAGCTGTTTGCCGGCAAAGA
TGAGGCGTTGCTGGTCGGGTGGGATGCCCTCTTTGTCTTGAATTTTGGCCTTAACGTTGTCGATG
GTGTCGGAACTCTCGACCTCGAGGGTTATGGTC
Found at i:2889446 original size:35 final size:35
Alignment explanation
Indices: 2889407--2889485 Score: 158
Period size: 35 Copynumber: 2.3 Consensus size: 35
2889397 TTTAGAGTAT
2889407 ATTAATTATATTAATTCAATTTTTTAAAATTATAA
1 ATTAATTATATTAATTCAATTTTTTAAAATTATAA
2889442 ATTAATTATATTAATTCAATTTTTTAAAATTATAA
1 ATTAATTATATTAATTCAATTTTTTAAAATTATAA
2889477 ATTAATTAT
1 ATTAATTAT
2889486 TAAAAAATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.52
Consensus pattern (35 bp):
ATTAATTATATTAATTCAATTTTTTAAAATTATAA
Found at i:2890168 original size:23 final size:23
Alignment explanation
Indices: 2890142--2890203 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
2890132 ATATATATTT
*
2890142 TTTTATATAACTTAAAAAATATA
1 TTTTATTTAACTTAAAAAATATA
* **
2890165 TTTT-TCTTAACTCATTAAATATA
1 TTTTAT-TTAACTTAAAAAATATA
2890188 TTTTATTTAA-TTAAAA
1 TTTTATTTAACTTAAAA
2890204 TTAATTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
22 4 0.13
23 25 0.83
24 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTTATTTAACTTAAAAAATATA
Found at i:2890340 original size:26 final size:25
Alignment explanation
Indices: 2890298--2890379 Score: 85
Period size: 26 Copynumber: 3.2 Consensus size: 25
2890288 CTTTAAATTA
2890298 TTAAATATATTTTATTTTATCTTAAC
1 TTAAA-ATATTTTATTTTATCTTAAC
* *
2890324 TTAAAATATTTTAATTTTATTTTAAT
1 TTAAAATATTTT-ATTTTATCTTAAC
* *
2890350 TTAAAA-ACATATATTTTATTCTTAAC
1 TTAAAATA-TTTTATTTTA-TCTTAAC
2890376 TTAA
1 TTAA
2890380 CGATATATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 14 0.30
26 33 0.70
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAAATATTTTATTTTATCTTAAC
Found at i:2890387 original size:26 final size:25
Alignment explanation
Indices: 2890310--2890389 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 25
2890300 AAATATATTT
*
2890310 TATTTTA-TCTTAACTTAAAATATTT
1 TATTTTATTCTTAACTTAAAATA-TA
* *
2890335 TAATTTTATT-TTAATTTAAAAACATA
1 T-ATTTTATTCTTAACTT-AAAATATA
*
2890361 TATTTTATTCTTAACTTAACGATATA
1 TATTTTATTCTTAACTTAA-AATATA
2890387 TAT
1 TAT
2890390 ATATATGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 11 0.25
26 27 0.61
27 6 0.14
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (25 bp):
TATTTTATTCTTAACTTAAAATATA
Found at i:2890474 original size:30 final size:30
Alignment explanation
Indices: 2890438--2890501 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
2890428 TTTTTAACAT
2890438 ATATTTAATAAGTTAGA-GTAAGAATAAAAC
1 ATATTTAATAAGTTA-ATGTAAGAATAAAAC
*
2890468 ATATTTAATAAGTTAATGTAAGAATAAAAT
1 ATATTTAATAAGTTAATGTAAGAATAAAAC
2890498 ATAT
1 ATAT
2890502 GGTTTAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.53, C:0.02, G:0.11, T:0.34
Consensus pattern (30 bp):
ATATTTAATAAGTTAATGTAAGAATAAAAC
Found at i:2890558 original size:31 final size:31
Alignment explanation
Indices: 2890511--2890606 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
2890501 TGGTTTAAAT
*
2890511 ATTTTTAAA--TAAGATAAAAATAAAATATA
1 ATTTTTAAATTTAAGATAAGAATAAAATATA
2890540 ATTTTTAAATTTAAGATAAGAATAAAATATA
1 ATTTTTAAATTTAAGATAAGAATAAAATATA
2890571 ATTTTTAAATTTAAGATAAGAATAAAATATA
1 ATTTTTAAATTTAAGATAAGAATAAAATATA
2890602 ATTTT
1 ATTTT
2890607 AAGTTAAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 9 0.14
31 55 0.86
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (31 bp):
ATTTTTAAATTTAAGATAAGAATAAAATATA
Found at i:2892154 original size:3 final size:3
Alignment explanation
Indices: 2892148--2892177 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2892138 CATCATGTCC
2892148 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
2892178 AACCCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:2892365 original size:13 final size:14
Alignment explanation
Indices: 2892347--2892376 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2892337 AGTTGAAAAA
2892347 TCTTCATATGCA-G
1 TCTTCATATGCATG
2892360 TCTTCATATGCATG
1 TCTTCATATGCATG
2892374 TCT
1 TCT
2892377 GTAATGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (14 bp):
TCTTCATATGCATG
Found at i:2900692 original size:39 final size:39
Alignment explanation
Indices: 2900636--2900712 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
2900626 CTCAGCAAAA
*
2900636 GTGAATGAGGCAAATTTACTAGGTCAAAACAAAAGAAAT
1 GTGAATGAGGCAAATTTACCAGGTCAAAACAAAAGAAAT
* *
2900675 GTGAATGAGGCAGATTTACCAGGTCAAAACAGAAGAAA
1 GTGAATGAGGCAAATTTACCAGGTCAAAACAAAAGAAA
2900713 ATGAGGTGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.23, T:0.18
Consensus pattern (39 bp):
GTGAATGAGGCAAATTTACCAGGTCAAAACAAAAGAAAT
Found at i:2907446 original size:27 final size:27
Alignment explanation
Indices: 2907401--2907501 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
2907391 GGTCATAAAA
*
2907401 GATGGAAATACTATACATCACTCCGAAG
1 GATGG-AATACTATGCATCACTCCGAAG
* *
2907429 GATGGAATTCTATGCATCA-TCTTGAAAG
1 GATGGAATACTATGCATCACTC-CG-AAG
*
2907457 G-T-GAA-ACTATGCATCACCCCGAAG
1 GATGGAATACTATGCATCACTCCGAAG
*
2907481 GATGAAATACTATGCATCACT
1 GATGGAATACTATGCATCACT
2907502 GTTAGGATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
24 4 0.07
25 12 0.20
26 8 0.14
27 26 0.44
28 9 0.15
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
GATGGAATACTATGCATCACTCCGAAG
Found at i:2915149 original size:27 final size:27
Alignment explanation
Indices: 2915111--2915174 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
2915101 AGGTTCAACA
2915111 ATCACC-CTGAAGGATAAAAT-TCTATGC
1 ATCACCTCTGAA-GATAAAATAT-TATGC
**
2915138 ATCACCTC-GAAGATGGAATATTATGC
1 ATCACCTCTGAAGATAAAATATTATGC
2915164 ATCACCT-TGAA
1 ATCACCTCTGAA
2915175 AGGTGGAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
26 21 0.66
27 10 0.31
28 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (27 bp):
ATCACCTCTGAAGATAAAATATTATGC
Found at i:2920686 original size:27 final size:27
Alignment explanation
Indices: 2920655--2920815 Score: 138
Period size: 27 Copynumber: 6.1 Consensus size: 27
2920645 ATATTATACG
2920655 TCACCCTAAAGGATGGAATTCTATGCA
1 TCACCCTAAAGGATGGAATTCTATGCA
* * *
2920682 CCACCTTGAAAGG-T-GAA-ACTATGCA
1 TCACCCT-AAAGGATGGAATTCTATGCA
* *
2920707 TCACCCCAAAGGATGGAATACTATGCA
1 TCACCCTAAAGGATGGAATTCTATGCA
* * *
2920734 TCACCCTCAATGATGGAATTCTATACA
1 TCACCCTAAAGGATGGAATTCTATGCA
*
2920761 TCACCTTAAAAGG-TGGAA-T-TATGCA
1 TCACCCT-AAAGGATGGAATTCTATGCA
** *
2920786 TCACCCCGAAGGATGAAATTAC-ATGCA
1 TCACCCTAAAGGATGGAATT-CTATGCA
2920813 TCA
1 TCA
2920816 TCTTGAAAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
24 9 0.08
25 26 0.25
26 8 0.08
27 55 0.52
28 8 0.08
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (27 bp):
TCACCCTAAAGGATGGAATTCTATGCA
Found at i:2920754 original size:79 final size:79
Alignment explanation
Indices: 2920655--2920815 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 79
2920645 ATATTATACG
* *
2920655 TCACCCTAAAGGATGGAATTCTATGCACCACCTTGAAAGGTGAAACTATGCATCACCCCAAAGGA
1 TCACCCTAAAGGATGGAATTCTATACACCACCTTAAAAGGTGAAACTATGCATCACCCCAAAGGA
*
2920720 TGGAA-TACTATGCA
66 TGAAATTAC-ATGCA
* * * * * *
2920734 TCACCCTCAATGATGGAATTCTATACATCACCTTAAAAGGTGGAATTATGCATCACCCCGAAGGA
1 TCACCCTAAAGGATGGAATTCTATACACCACCTTAAAAGGTGAAACTATGCATCACCCCAAAGGA
2920799 TGAAATTACATGCA
66 TGAAATTACATGCA
2920813 TCA
1 TCA
2920816 TCTTGAAAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 69 0.96
80 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (79 bp):
TCACCCTAAAGGATGGAATTCTATACACCACCTTAAAAGGTGAAACTATGCATCACCCCAAAGGA
TGAAATTACATGCA
Found at i:2920815 original size:52 final size:53
Alignment explanation
Indices: 2920714--2920838 Score: 123
Period size: 52 Copynumber: 2.3 Consensus size: 53
2920704 GCATCACCCC
* *
2920714 AAAGGATGGAATACTATGCATCACCCTCAATGATGGAATTCTATACATCACCTT-A
1 AAAGG-TGGAAT--TATGCATCACCCTCAAGGATGAAATTCTATACATCACCTTGA
* *
2920769 AAAGGTGGAATTATGCATCACCC-CGAAGGATGAAATTAC-ATGCATCATCTTGA
1 AAAGGTGGAATTATGCATCACCCTC-AAGGATGAAATT-CTATACATCACCTTGA
* *
2920822 AAA-GTGAAACTATGCAT
1 AAAGGTGGAATTATGCAT
2920839 TGATGAGTGC
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
51 1 0.02
52 44 0.72
53 5 0.08
54 6 0.10
55 5 0.08
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
AAAGGTGGAATTATGCATCACCCTCAAGGATGAAATTCTATACATCACCTTGA
Found at i:2921357 original size:24 final size:24
Alignment explanation
Indices: 2921321--2921377 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
2921311 TATAAAGTTC
2921321 TTTC-TTTTTATTTCT-TTTCAAGT
1 TTTCATTTTTATTT-TATTTCAAGT
*
2921344 TTTCATTTTTATTTTATTTTAAGT
1 TTTCATTTTTATTTTATTTCAAGT
2921368 TTT-ATTTTTA
1 TTTCATTTTTA
2921378 AACATGCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTCATTTTTATTTTATTTCAAGT
Found at i:2924335 original size:21 final size:21
Alignment explanation
Indices: 2924309--2924367 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
2924299 GTCTGAGTTA
2924309 TCCGCGATGGCCGCAATAGCG
1 TCCGCGATGGCCGCAATAGCG
2924330 TCCGCGATGGCCGCAATAGCG
1 TCCGCGATGGCCGCAATAGCG
* *
2924351 CCCGCGACGGCCGCAAT
1 TCCGCGATGGCCGCAAT
2924368 CACGGTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.19, C:0.37, G:0.32, T:0.12
Consensus pattern (21 bp):
TCCGCGATGGCCGCAATAGCG
Found at i:2924971 original size:16 final size:16
Alignment explanation
Indices: 2924950--2924980 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2924940 AATAAGGTAA
*
2924950 ATTATATTTATAAAAT
1 ATTATAATTATAAAAT
2924966 ATTATAATTATAAAA
1 ATTATAATTATAAAA
2924981 ATAATTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATAATTATAAAAT
Found at i:2925332 original size:34 final size:34
Alignment explanation
Indices: 2925286--2925350 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 34
2925276 TTTTAGTAAT
*
2925286 AATAAAATAAATGTTTA-TTAAGTGACTAAATTG
1 AATAAAATAAATGTTAATTTAAGTGACTAAATTG
* *
2925319 AATAAATTGAAATGTTAATTTTAGTGACTAAA
1 AATAAAAT-AAATGTTAATTTAAGTGACTAAA
2925351 ATGTAAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 7 0.26
34 8 0.30
35 12 0.44
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (34 bp):
AATAAAATAAATGTTAATTTAAGTGACTAAATTG
Found at i:2928363 original size:45 final size:45
Alignment explanation
Indices: 2928308--2928865 Score: 849
Period size: 45 Copynumber: 12.5 Consensus size: 45
2928298 AATAAACAAG
*
2928308 ATAATAATGCATATGGGTTCATTATAGGCATGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
*
2928353 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGGTGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
*
2928398 ATAATAATGCATATGGGTGCATTATCA-ACATGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGCCAAA
*
2928443 ATAATAATACATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
* * *
2928488 ATAATAATGCATATGGGTGCATTATCGACATGAAATGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
* * * *
2928533 ATAATAATGCATATAGGTGTATTATTGGTATGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
*
2928578 ATAATAATGCATATGGGTGCATTATAGGCATGAAATGATGCCAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
*
2928623 ATAATAATGCATATGGGTACATTATCA-GCATGAAAGGATGCCAAA
1 ATAATAATGCATATGGGTGCATTAT-AGGCATGAAAGGATGCCAAA
*
2928668 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATG-C-TA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
* *
2928711 A-AATAATGCATGTGGGTGCATTATAGGCATGAAAGGATGCCTAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
*
2928755 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCTAAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
* *
2928800 ATAATAATGCATATGGGTGCATTATTGGTATGAAAGGATGCCATAA
1 ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCA-AA
* * *
2928846 TTGA-AATGCTTATGGGTGCA
1 ATAATAATGCATATGGGTGCA
2928866 CTTTCAGCAT
Statistics
Matches: 469, Mismatches: 36, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
42 37 0.08
43 3 0.01
44 5 0.01
45 418 0.89
46 6 0.01
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (45 bp):
ATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAA
Found at i:2935371 original size:21 final size:21
Alignment explanation
Indices: 2935345--2935384 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2935335 TTCTACGTGG
2935345 TCCTTTAGG-ACATATATGTAA
1 TCCTTT-GGAACATATATGTAA
2935366 TCCTTTGGAACATATATGT
1 TCCTTTGGAACATATATGT
2935385 GGTACTTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TCCTTTGGAACATATATGTAA
Found at i:2935462 original size:18 final size:18
Alignment explanation
Indices: 2935438--2935490 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
2935428 GTTCTTAAGG
2935438 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
2935456 TGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
2935474 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
2935491 GGTTTAAGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2937892 original size:95 final size:94
Alignment explanation
Indices: 2937759--2937941 Score: 260
Period size: 95 Copynumber: 1.9 Consensus size: 94
2937749 ACCGATACTG
* * * *
2937759 AAGGGTATCGATACCATGGATCCAGAATGTCAAAATGGTATCGATACTGAAAGGGAGTATCGGTA
1 AAGGGTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATACTGAAAGGGAGAATCGGTA
* *
2937824 CCATAGTATAGTAGTATCGATACTGAAAT
66 CCATAGTACAGAAGTATCGATACTGAAAT
* *
2937853 AAGGGTATCGATACCATGCAACACAGAATAT-AGAAATGGTATCGATATTGAAAGGGGGAATCGG
1 AAGGGTATCGATACCATGCAAC-CAGAATATCA-AAATGGTATCGATACTGAAAGGGAGAATCGG
*
2937917 TACTATAGTACAGAAGTATCGATAC
64 TACCATAGTACAGAAGTATCGATAC
2937942 CAGAGTAGTA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
94 21 0.27
95 57 0.73
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (94 bp):
AAGGGTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATACTGAAAGGGAGAATCGGTA
CCATAGTACAGAAGTATCGATACTGAAAT
Found at i:2938871 original size:45 final size:45
Alignment explanation
Indices: 2938364--2938851 Score: 791
Period size: 45 Copynumber: 10.9 Consensus size: 45
2938354 AACGAATGAA
*
2938364 CAAAATAATAATGCATATGGGTACATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
2938409 CAAAATAATAATGCACATGGGTGCATTATAGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
2938454 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
2938499 CAAAATAATAATGCATATAGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * *
2938544 CAAAATAATAATACATATGGGTGCATTATCGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
2938589 CAAAATAATAATGCATATGGGTGCATTATTGGTC-TGAAAGGTTGC
1 CAAAATAATAATGCATATGGGTGCATTATAGG-CATGAAAGGATGC
* *
2938634 CAAAATAATAATGCATATTGGTGCATTATAGGCATGAAAGTATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
2938679 CAAAATAATAATTCATATGGGTGCATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
2938724 CAAAATAATAA-GCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
2938768 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAACGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
2938813 CAAAATAATAATGCATATGGGTGCATTATTGGTATGAAA
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAA
2938852 TAATGCCATA
Statistics
Matches: 409, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
44 43 0.11
45 365 0.89
46 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
Found at i:2941940 original size:94 final size:96
Alignment explanation
Indices: 2941782--2941978 Score: 256
Period size: 95 Copynumber: 2.1 Consensus size: 96
2941772 CTGTTGATGC
* * * * *
2941782 AGTATCAATACCATTGTAAGGGTATCGATACCCTTCAAACATCGAATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGGTAAGGGTATCGATACCCATCAAACATCGAAGCTAATTTCGGTATCGATA
* * * *
2941847 CCTTG-AGGGG-TATCGGTATCATAGTATAGT
66 CC-AGAAGGGGTTATCGATACCATAGTATAGA
* * *
2941877 AGTATCGATACCGTGGTAAGGGTATTGATA-CCATGAAACATCGAAGCTAATTTCGGTATCGATA
1 AGTATCGATACCATGGTAAGGGTATCGATACCCATCAAACATCGAAGCTAATTTCGGTATCGATA
2941941 CCAGAAGGGGTTATCGATACCATAGTATAGA
66 CCAGAAGGGGTTATCGATACCATAGTATAGA
2941972 AGTATCG
1 AGTATCG
2941979 GCACTAGGAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
93 1 0.01
94 37 0.42
95 50 0.57
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (96 bp):
AGTATCGATACCATGGTAAGGGTATCGATACCCATCAAACATCGAAGCTAATTTCGGTATCGATA
CCAGAAGGGGTTATCGATACCATAGTATAGA
Found at i:2942429 original size:20 final size:20
Alignment explanation
Indices: 2942404--2942477 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
2942394 AATTGAAAAT
2942404 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
2942424 GCATGAACA-GATGCCATAATTTAAAAT
1 GCATGAA-AGGATG-C---A-TT--AAG
2942451 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
2942471 GCATGAA
1 GCATGAA
2942478 CGGGTGCCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
20 20 0.47
21 2 0.05
22 2 0.05
23 1 0.02
24 1 0.02
25 2 0.05
26 2 0.05
27 13 0.30
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:2942460 original size:47 final size:47
Alignment explanation
Indices: 2942391--2942582 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
2942381 AAATCAAATT
2942391 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * *
2942438 CATAATTTAAAATGCATGAAAGGATGCATTAAGGCATGAACGGGTGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
* * **
2942485 CATAATTGAAAATTG-ATGAAAGGATGCATTACGACATGAATGGATGC
1 CATAATTGAAAA-TGCATGAAAGGATGCATTAAGGCATGAACAGATGC
*
2942532 CATAATTGAAAATGCATGAAAAGGATGTATTAAGGCATGAA-AGGATGC
1 CATAATTGAAAATGCATG-AAAGGATGCATTAAGGCATGAACA-GATGC
2942580 CAT
1 CAT
2942583 GTATATTAAA
Statistics
Matches: 129, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.02
47 98 0.76
48 29 0.22
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.23
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACAGATGC
Found at i:2948547 original size:70 final size:70
Alignment explanation
Indices: 2948429--2948565 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
2948419 TGGGCAAGGG
*
2948429 TATCGGTACTGATTGAATCCGTACCGATACTATAGGCAAAAAGAAGGACGAATTTGCTGTATAGT
1 TATCGGTACTGATTGAATCCGTACCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAGT
2948494 ATCAA
66 ATCAA
* *
2948499 TATCGGTACTGATTGAATCCGTATCGATACTATAGGCAAAAAGGAGGACGAATTTGCTATATAGT
1 TATCGGTACTGATTGAATCCGTACCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAGT
2948564 AT
66 AT
2948566 TGATACTGAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (70 bp):
TATCGGTACTGATTGAATCCGTACCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAGT
ATCAA
Found at i:2948590 original size:64 final size:68
Alignment explanation
Indices: 2948429--2948592 Score: 219
Period size: 70 Copynumber: 2.4 Consensus size: 68
2948419 TGGGCAAGGG
* * *
2948429 TATCGGTACTGATTGAATCCGTACCGATACTATAGGCAAAAAGAAGGACGAATTTGCTGTATAGT
1 TATCGATACTGATTGAATCCGTATCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAG-
2948494 ATCAA
65 AT-AA
* *
2948499 TATCGGTACTGATTGAATCCGTATCGATACTATAGGCAAAAAGGAGGACGAATTTGCTATATAG-
1 TATCGATACTGATTGAATCCGTATCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAGA
2948563 T-A
66 TAA
* *
2948565 T-T-GATACTGATTCAATCAGTATCGATAC
1 TATCGATACTGATTGAATCCGTATCGATAC
2948593 CGTTGATGCA
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
64 23 0.26
65 1 0.01
66 2 0.02
68 1 0.01
70 61 0.69
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (68 bp):
TATCGATACTGATTGAATCCGTATCGATACTATAGGCAAAAAGAAGGACGAATTTGCTATATAGA
TAA
Found at i:2948751 original size:94 final size:96
Alignment explanation
Indices: 2948617--2948797 Score: 258
Period size: 95 Copynumber: 1.9 Consensus size: 96
2948607 TGATGCCATT
* * * * **
2948617 GTAAGGGTATTGATACCATGCAAACATCGAATCTAATTTTGGTATTGATA-CCTTAAGGGGTATC
1 GTAAGGGTATCGATACCATGCAAACATCGAAGCTAATTTTGATATCGATATCCAAAAGGGGTATC
* *
2948681 GGTAACATAGTATAGTAGTATCGATATCGTG
66 AGTAACATAGTATAGAAGTATCGATATCGTG
*
2948712 GTAAGGGTATCGATACCATG-AAACATCGAAGCTAATTTTGATATCGATATCGAAAAGGGGTATC
1 GTAAGGGTATCGATACCATGCAAACATCGAAGCTAATTTTGATATCGATATCCAAAAGGGGTATC
*
2948776 AGTACCATAGTATAGAAGTATC
66 AGTAACATAGTATAGAAGTATC
2948798 AGTACTAGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
94 26 0.35
95 49 0.65
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (96 bp):
GTAAGGGTATCGATACCATGCAAACATCGAAGCTAATTTTGATATCGATATCCAAAAGGGGTATC
AGTAACATAGTATAGAAGTATCGATATCGTG
Found at i:2948812 original size:20 final size:22
Alignment explanation
Indices: 2948771--2948815 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2948761 TCGAAAAGGG
*
2948771 GTATCAGTACCATAGTATAGAA
1 GTATCAGTACCATAGGATAGAA
2948793 GTATCAGTA-C-TAGGATAGAA
1 GTATCAGTACCATAGGATAGAA
2948813 GTA
1 GTA
2948816 CCGATACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 1 0.05
22 9 0.41
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (22 bp):
GTATCAGTACCATAGGATAGAA
Found at i:2949249 original size:20 final size:20
Alignment explanation
Indices: 2949224--2949276 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
2949214 ATTAAAAATT
2949224 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
2949244 CATGAAAGGATGCATTAAGG
1 CATGAAAGGATGCATTAAGG
*
2949264 CATGAACGGATGC
1 CATGAAAGGATGC
2949277 CATAATTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (20 bp):
CATGAAAGGATGCATTAAGG
Found at i:2949293 original size:27 final size:27
Alignment explanation
Indices: 2949263--2949343 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 27
2949253 ATGCATTAAG
2949263 GCATGAACGGATGCCATAATTGAAAAT
1 GCATGAACGGATGCCATAATTGAAAAT
** *
2949290 GCATGAAATGATG-C---ATT---AAG
1 GCATGAACGGATGCCATAATTGAAAAT
*
2949310 GCATAAACGGATGCCATAATTGAAAAT
1 GCATGAACGGATGCCATAATTGAAAAT
2949337 GCATGAA
1 GCATGAA
2949344 AATAATGCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
20 12 0.31
21 1 0.03
23 3 0.08
24 3 0.08
26 1 0.03
27 19 0.49
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (27 bp):
GCATGAACGGATGCCATAATTGAAAAT
Found at i:2949297 original size:47 final size:47
Alignment explanation
Indices: 2949243--2949374 Score: 219
Period size: 47 Copynumber: 2.8 Consensus size: 47
2949233 ATGCATTAAG
*
2949243 GCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAAT
1 GCATGAAATGATGCATTAAGGCATGAACGGATGCCATAATTGAAAAT
*
2949290 GCATGAAATGATGCATTAAGGCATAAACGGATGCCATAATTGAAAAT
1 GCATGAAATGATGCATTAAGGCATGAACGGATGCCATAATTGAAAAT
* *
2949337 GCATGAAAATAATGCATTAAGGCATGAAAGGATGCCAT
1 GCATG-AAATGATGCATTAAGGCATGAACGGATGCCAT
2949375 GTATATTAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 50 0.63
48 29 0.37
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (47 bp):
GCATGAAATGATGCATTAAGGCATGAACGGATGCCATAATTGAAAAT
Done.