Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1753
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: 212588
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
File 1 of 2
Found at i:7180 original size:62 final size:62
Alignment explanation
Indices: 7103--7934 Score: 642
Period size: 62 Copynumber: 13.4 Consensus size: 62
7093 GTATCCTTTC
* * * * *
7103 CAAAACCCACATGAGTTGGTGGTACCCTAGTCAAAGCCCGCACGAGTTAGAGGCACCTAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * * * * * * *
7165 CAAAACCTACATGAGTTGGTGGAACCTTAGTCAAAGCCCGCACAAGTTGGCGACACCCAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * * * * **
7227 CTAAGTCCACACGAGTTGGTAGCACCCTAGTCAAAACCCGCATGAGTTGATGGCACCCT-AGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCA-CCTAAGT
* * * * * *** * *
7289 CAAAACCCATACGAGTTGATGACA-CCTGAGTCCAAGCTAACACGAATTGGTGGCACC-ATAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGTCAAAGCCCGCACGAGTTGGCGGCACCTA-AGT
*** ** * ** * * * *
7351 CAAAGCTTGCATAAGTTGGCGGCACCGAAGTCAAAGCCAGCACTAGTTGGCGGCACTTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * ** * **
7413 CAAAGCCTACACGAGTTTGGTGGCACCCTAGTCAAAGCCCACATAAGTCGATGGCAACCCT---T
1 CAAAGCCCACACGAG-TTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGC-A-CCTAAGT
* * * * * * * *
7475 CTAAAGTCCACCCAAGTCGGTGGAAACCCT--TCCAAAGCCCGCATGAGTTGGCGGCACTTGAGT
1 C-AAAGCCCACACGAGTTGGTGG-CACCCTAGT-CAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * * * *
7538 AAAAGCCCACACAAGTTAGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACTTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * *
7600 CAAAGCCCACACAAGTTGGTGGCACCCTAG-CTAAAGCCCGCACGAGTTGGCGACACCTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTC-AAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * * * * *
7662 CAAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCTGCATGAGTTAGCGACACCTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* * * * * * ** * *
7724 CAAAGCCCACACAAGTTAGTGGCACCCAAGTCTAAGCCCGCACAAGTTGACGATAGCCGAATT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCA-CCTAAGT
* * * *
7787 TAAA-CCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACGAGTTGGTGGCACATAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
* ** * ** * *
7848 CTAAGCCCACACGAGTTTATAGCACCCTAGTCAAAGCCTACACAAGTTGGCGGCA-CTCGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCT-AAGT
7910 CAAAGCCCACACGAGTTGGTGGCAC
1 CAAAGCCCACACGAGTTGGTGGCAC
7935 TTTAGTCTGA
Statistics
Matches: 609, Mismatches: 139, Indels: 44
0.77 0.18 0.06
Matches are distributed among these distances:
60 2 0.00
61 20 0.03
62 527 0.87
63 57 0.09
64 1 0.00
65 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (62 bp):
CAAAGCCCACACGAGTTGGTGGCACCCTAGTCAAAGCCCGCACGAGTTGGCGGCACCTAAGT
Found at i:7935 original size:31 final size:31
Alignment explanation
Indices: 7103--7934 Score: 533
Period size: 31 Copynumber: 26.8 Consensus size: 31
7093 GTATCCTTTC
* * *
7103 CAAAACCCACATGAGTTGGTGGTACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * *
7134 CAAAGCCCGCACGAGTTAGAGGCA-CCTAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
* * * * *
7165 CAAAACCTACATGAGTTGGTGGAACCTTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * * * *
7196 CAAAGCCCGCACAAGTTGGCGACACCCAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * *
7227 CTAAGTCCACACGAGTTGGTAGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * * *
7258 CAAAACCCGCATGAGTTGATGGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * * *
7289 CAAAACCCATACGAGTTGATGACA-CCTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
* ** * *
7320 CCAAGCTAACACGAATTGGTGGCACCATAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
*** ** * **
7351 CAAAGCTTGCATAAGTTGGCGGCACCGAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * *
7382 CAAAG-CCAGCACTAGTTGGCGGCA-CTTGAGT
1 CAAAGCCCA-CACGAGTTGGTGGCACCCT-AGT
*
7413 CAAAGCCTACACGAGTTTGGTGGCACCCTAGT
1 CAAAGCCCACACGAG-TTGGTGGCACCCTAGT
** * *
7445 CAAAGCCCACATAAGTCGATGGCAACCCT--T
1 CAAAGCCCACACGAGTTGGTGGC-ACCCTAGT
* * * * *
7475 CTAAAGTCCACCCAAGTCGGTGGAAACCCT--T
1 C-AAAGCCCACACGAGTTGGTGG-CACCCTAGT
* * * *
7506 CCAAAGCCCGCATGAGTTGGCGGCA-CTTGAGT
1 -CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
* * *
7538 AAAAGCCCACACAAGTTAGTGGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * *
7569 CAAAGCCCGCACGAGTTGGCGGCA-CTTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
*
7600 CAAAGCCCACACAAGTTGGTGGCACCCTAG-
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * *
7630 CTAAAGCCCGCACGAGTTGGCGACA-CCTGAGT
1 C-AAAGCCCACACGAGTTGGTGGCACCCT-AGT
*
7662 CAAAGCCCACACAAGTTGGTGGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
** * * * *
7693 CAAAGCCTGCATGAGTTAGCGACA-CCTGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
* * *
7724 CAAAGCCCACACAAGTTAGTGGCACCCAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * * ** ** ** *
7755 CTAAGCCCGCACAAGTTGACGATAGCCGAATT
1 CAAAGCCCACACGAGTTGGTGGCA-CCCTAGT
*
7787 TAAA-CCCACACGAGTTGGTGGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
*
7817 CAAAGCCCACACGAGTTGGTGGCA-CATAAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCT-AGT
* ** *
7848 CTAAGCCCACACGAGTTTATAGCACCCTAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
* * * * *
7879 CAAAGCCTACACAAGTTGGCGGCACTCGAGT
1 CAAAGCCCACACGAGTTGGTGGCACCCTAGT
7910 CAAAGCCCACACGAGTTGGTGGCAC
1 CAAAGCCCACACGAGTTGGTGGCAC
7935 TTTAGTCTGA
Statistics
Matches: 603, Mismatches: 169, Indels: 58
0.73 0.20 0.07
Matches are distributed among these distances:
29 2 0.00
30 28 0.05
31 516 0.86
32 55 0.09
33 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (31 bp):
CAAAGCCCACACGAGTTGGTGGCACCCTAGT
Found at i:8481 original size:20 final size:19
Alignment explanation
Indices: 8433--8486 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
8423 TTGTACAAAT
8433 TGTATCGATACAAATAATAAA
1 TGTATCGATAC--ATAATAAA
* *
8454 TATATCGATACATAAGTGAA
1 TGTATCGATACATAA-TAAA
8474 TGTATCGATACAT
1 TGTATCGATACAT
8487 GCTTGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 15 0.52
21 10 0.34
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATAATAAA
Found at i:8502 original size:21 final size:21
Alignment explanation
Indices: 8435--8506 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
8425 GTACAAATTG
8435 TATCGATACAAATAA-T-AAATA
1 TATCGATAC--ATAAGTGAAATA
*
8456 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATA
***
8476 TATCGATACATGCTTGAAATA
1 TATCGATACATAAGTGAAATA
8497 TATCGATACA
1 TATCGATACA
8507 AAGCCACTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 4 0.09
20 17 0.40
21 22 0.51
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATA
Found at i:9067 original size:30 final size:30
Alignment explanation
Indices: 9022--9078 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
9012 AACATTGGCT
*
9022 CAGCAAAGAGAAAAAAAAGAGAGGAGATTC
1 CAGCAAAGAGAAAAAAAAAAGAGGAGATTC
* *
9052 CAGCAGAGAGTAAAAAAAAAGAGGAGA
1 CAGCAAAGAGAAAAAAAAAAGAGGAGA
9079 AAGCCCTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.28, T:0.05
Consensus pattern (30 bp):
CAGCAAAGAGAAAAAAAAAAGAGGAGATTC
Found at i:15831 original size:20 final size:20
Alignment explanation
Indices: 15808--15859 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
15798 CAAAGCAAAT
*
15808 TGTATCGATACATTTGGAAA
1 TGTATCGATACATTTAGAAA
* **
15828 TGTATTC-AAACATTTAGTTA
1 TGTA-TCGATACATTTAGAAA
15848 TGTATCGATACA
1 TGTATCGATACA
15860 ATTTTTTGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:18803 original size:21 final size:21
Alignment explanation
Indices: 18777--18820 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
18767 AATGCAGTTG
18777 TTATAAGAATTTCCAAATATC
1 TTATAAGAATTTCCAAATATC
18798 TTATAAGAATTTCCAAATATC
1 TTATAAGAATTTCCAAATATC
18819 TT
1 TT
18821 CGCATGGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.41
Consensus pattern (21 bp):
TTATAAGAATTTCCAAATATC
Found at i:21999 original size:17 final size:15
Alignment explanation
Indices: 21977--22032 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
21967 TACTATGTGT
21977 AAAAAAAAAAGAAAGGC
1 AAAAAAAAAAGAAA--C
*
21994 AAAAAAAAAACAAAAAC
1 -AAAAAAAAA-AGAAAC
*
22011 AAAAAAAATAGAAAC
1 AAAAAAAAAAGAAAC
22026 AAAAAAA
1 AAAAAAA
22033 TCAAATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 12 0.35
16 8 0.24
17 1 0.03
18 9 0.26
19 4 0.12
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAGAAAC
Found at i:22014 original size:15 final size:15
Alignment explanation
Indices: 21996--22037 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
21986 AGAAAGGCAA
21996 AAAAAAAACAAAAAC
1 AAAAAAAACAAAAAC
* *
22011 AAAAAAAATAGAAAC
1 AAAAAAAACAAAAAC
*
22026 AAAAAAATCAAA
1 AAAAAAAACAAA
22038 TGAAAACCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (15 bp):
AAAAAAAACAAAAAC
Found at i:23475 original size:43 final size:43
Alignment explanation
Indices: 23421--23525 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 43
23411 GGGAGACTTC
* * * *
23421 TTTATTCTTTGTTTGCCTGTCGGCTAAATCTTGGGAAACACCT
1 TTTATCCTTTGTTTACCTATCGACTAAATCTTGGGAAACACCT
* * *
23464 TTTATCCTTTGTTTACCTATCGATTCAGTCTTGGGAAACACCT
1 TTTATCCTTTGTTTACCTATCGACTAAATCTTGGGAAACACCT
23507 TTTATCCTTTGTTTACCTA
1 TTTATCCTTTGTTTACCTA
23526 CCGGCTCAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (43 bp):
TTTATCCTTTGTTTACCTATCGACTAAATCTTGGGAAACACCT
Found at i:23609 original size:84 final size:84
Alignment explanation
Indices: 23510--24073 Score: 427
Period size: 84 Copynumber: 6.8 Consensus size: 84
23500 AACACCTTTT
* * *
23510 ATCCTTTGTTTACCTACCGGCTCAATCCCTAGTAAACCCATTATCCCTGTGTTGACTTGTTAGCT
1 ATCCTTTGTTTACCTATCGGCTCAGTCCCTAGTAAACCCATTATCCCTGTGTTGACCTGTTAGCT
*
23575 CAGTCT-CTAGTCAACCTTC
66 CAGTCTCCGA-TCAACCTTC
* * * * * * *
23594 ATCCTTTGTTGACCTATCGGCTTAGT-CCTCAGTAAACCCTTTAT-CCTTTGGTGACCTATTAAC
1 ATCCTTTGTTTACCTATCGGCTCAGTCCCT-AGTAAACCCATTATCCCTGTGTTGACCTGTTAGC
* * *
23657 TCAGTCTCCGATCAGCTTTT
65 TCAGTCTCCGATCAACCTTC
* * * * * * * *
23677 ATCTTTTATTTACCTATCGGCTTAGTCCTTGGTAAA-CCACTTATCCCT-TGGTG-CTTGTCAGC
1 ATCCTTTGTTTACCTATCGGCTCAGTCCCTAGTAAACCCA-TTATCCCTGTGTTGACCTGTTAGC
* ** *
23739 TTAGTCTTTGGTCAACCTTC
65 TCAGTCTCCGATCAACCTTC
* * * * *
23759 ATCCTTTGTTTACCTGTCGACTCAGTCCCTGGTAAACCCATTACCCCTGTGTTGACCTATTAGCT
1 ATCCTTTGTTTACCTATCGGCTCAGTCCCTAGTAAACCCATTATCCCTGTGTTGACCTGTTAGCT
*
23824 CAGTCTCCGATCAACCTTT
66 CAGTCTCCGATCAACCTTC
* * * * *
23843 ATCCTTTGTTTACCTGTCGGCACAATCCCCCAGTAAACCCATTA-CCCTTGTGTTGACCTGTCAG
1 ATCCTTTGTTTACCTATCGGCTCAGT-CCCTAGTAAACCCATTATCCC-TGTGTTGACCTGTTAG
* * * * * *
23907 CTTAGTTTTCAATCAACTTTT
64 CTCAGTCTCCGATCAACCTTC
* * * * * * * * *
23928 ATCTTTTGTTTACCTGTCTGCTTAGTTCAC-AGTAAACCCCTTATCGCT-TGGTGACCTGTCAGC
1 ATCCTTTGTTTACCTATCGGCTCAG-TCCCTAGTAAACCCATTATCCCTGTGTTGACCTGTTAGC
* *
23991 TTAGTCT-C--TGAACCTTC
65 TCAGTCTCCGATCAACCTTC
* * * * * *
24008 ATCCTTTGTTTACGTATCGACTCAGTCCC-CGATAAACCCATTAT-CCTATGGTGACCTGTCAGC
1 ATCCTTTGTTTACCTATCGGCTCAGTCCCTAG-TAAACCCATTATCCCTGTGTTGACCTGTTAGC
24071 TCA
65 TCA
24074 ATCCTCGGTC
Statistics
Matches: 383, Mismatches: 83, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
79 6 0.02
80 53 0.14
82 58 0.15
83 94 0.25
84 102 0.27
85 69 0.18
86 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.37
Consensus pattern (84 bp):
ATCCTTTGTTTACCTATCGGCTCAGTCCCTAGTAAACCCATTATCCCTGTGTTGACCTGTTAGCT
CAGTCTCCGATCAACCTTC
Found at i:23642 original size:42 final size:42
Alignment explanation
Indices: 23464--23901 Score: 151
Period size: 41 Copynumber: 10.4 Consensus size: 42
23454 GGAAACACCT
* ** * *
23464 TTTATCCTTTGTTTACCTATCGATTCAGTCT-TGGGAAACACC
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAAC-CC
* * * *
23506 TTTTATCCTTTGTTTACCTACCGGCTCAATCCCTAGTAAACCC
1 -TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAACCC
* * * * ** *
23549 ATTATCCCTGTGTTGACTTGTTAGCTCAGTCTCTAGTCAA-CC
1 TTTAT-CCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAACCC
* *
23591 TTCATCCTTTGTTGACCTATCGGCTTAGTC-CTCAGTAAACCC
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTCT-AGTAAACCC
* *** * * * *
23633 TTTATCCTTTGGTGACCTATTAACTCAGTCTC-CG-ATCAGCT
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTA-AACCC
* * * * *
23674 TTTATCTTTTATTTACCTATCGGCTTAGTC-CTTGGTAAACCAC
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTC-TAGTAAACC-C
* * * * * * * * *
23717 -TTATCCCTTGGTG-CTTGTCAGCTTAGTCTTTGGTCAA-CC
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAACCC
* * * * * *
23756 TTCATCCTTTGTTTACCTGTCGACTCAGTCCCTGGTAAACCC
1 TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAACCC
* * * ** * *
23798 ATTACCCCTGTGTTGACCTATTAGCTCAGTCTC-CGATCAA-CC
1 TTTA-TCCTTTGTTGACCTATCGGCTCAGTCTCTAG-TAAACCC
* * * * * *
23840 TTTATCCTTTGTTTACCTGTCGGCACAATCCCCCAGTAAACCC
1 TTTATCCTTTGTTGACCTATCGGCTCAGT-CTCTAGTAAACCC
* *
23883 ATTACCCTTGTGTTGACCT
1 TTTATCCTT-TGTTGACCT
23902 GTCAGCTTAG
Statistics
Matches: 278, Mismatches: 97, Indels: 39
0.67 0.23 0.09
Matches are distributed among these distances:
39 1 0.00
40 14 0.05
41 101 0.36
42 61 0.22
43 87 0.31
44 14 0.05
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (42 bp):
TTTATCCTTTGTTGACCTATCGGCTCAGTCTCTAGTAAACCC
Found at i:24007 original size:249 final size:248
Alignment explanation
Indices: 23510--24050 Score: 647
Period size: 249 Copynumber: 2.2 Consensus size: 248
23500 AACACCTTTT
* * * * * * *
23510 ATCCTTTGTTTACCTACCGGCTCAATCCCTAGTAAACCCATTATCCCTGTGTTGACTTGTTAGCT
1 ATCCTTTGTTTACCTATCGACTCAGTCCCTGGTAAACCCATTACCCCTGTGTTGACCTATTAGCT
* ** * * * *
23575 CAGTCTCTAGTCAACCTTCATCCTTTGTTGACCTATCGGCTTAGTCCTCAGTAAACCCTTTATCC
66 CAGTCTCGAGTCAACCTTCATCCTTTGTTGACCTATCGGCACAATCCCCAGTAAACCCATTACCC
* * *
23640 TTTGGTGACCTATTAACTCAGTCTCCGATCAGCTTTTATCTTTTATTTACCTATCGGCTTAGTCC
131 TTTGGTGACCTATCAACTCAGTCTCCAATCAACTTTTATCTTTTATTTACCTATCGGCTTAGTCC
*** * *
23705 TTGGTAAACCACTTATCCCTTGGTGCTTGTCAGCTTAGTCTTTGGTCAACCTTC
196 ACAGTAAACCACTTATCCCTTGGTGCCTGTCAGCTTAGTCTCTGG-CAACCTTC
*
23759 ATCCTTTGTTTACCTGTCGACTCAGTCCCTGGTAAACCCATTACCCCTGTGTTGACCTATTAGCT
1 ATCCTTTGTTTACCTATCGACTCAGTCCCTGGTAAACCCATTACCCCTGTGTTGACCTATTAGCT
* * *
23824 CAGTCTCCGA-TCAACCTTTATCCTTTGTTTACCTGTCGGCACAATCCCCCAGTAAACCCATTAC
66 CAGTCT-CGAGTCAACCTTCATCCTTTGTTGACCTATCGGCACAAT-CCCCAGTAAACCCATTAC
* * * * * * * * *
23888 CCTTGTGTTGACCTGTCAGCTTAGTTTTCAATCAACTTTTATCTTTTGTTTACCTGTCTGCTTAG
129 CCTT-TGGTGACCTATCAACTCAGTCTCCAATCAACTTTTATCTTTTATTTACCTATCGGCTTAG
* * *
23953 TTCACAGTAAACCCCTTATCGCTTGGTGACCTGTCAGCTTAGTCTCT-G-AACCTTC
193 TCCACAGTAAACCACTTATCCCTTGGTG-CCTGTCAGCTTAGTCTCTGGCAACCTTC
* * *
24008 ATCCTTTGTTTACGTATCGACTCAGTCCCCGATAAACCCATTA
1 ATCCTTTGTTTACCTATCGACTCAGTCCCTGGTAAACCCATTA
24051 TCCTATGGTG
Statistics
Matches: 246, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
249 138 0.56
250 21 0.09
251 71 0.29
252 16 0.07
ACGTcount: A:0.20, C:0.29, G:0.14, T:0.37
Consensus pattern (248 bp):
ATCCTTTGTTTACCTATCGACTCAGTCCCTGGTAAACCCATTACCCCTGTGTTGACCTATTAGCT
CAGTCTCGAGTCAACCTTCATCCTTTGTTGACCTATCGGCACAATCCCCAGTAAACCCATTACCC
TTTGGTGACCTATCAACTCAGTCTCCAATCAACTTTTATCTTTTATTTACCTATCGGCTTAGTCC
ACAGTAAACCACTTATCCCTTGGTGCCTGTCAGCTTAGTCTCTGGCAACCTTC
Found at i:27468 original size:13 final size:13
Alignment explanation
Indices: 27450--27475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27440 AAATTCCCAG
27450 ATGTATCGATACA
1 ATGTATCGATACA
27463 ATGTATCGATACA
1 ATGTATCGATACA
27476 TTGAGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:28545 original size:13 final size:13
Alignment explanation
Indices: 28527--28552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28517 AATTTTTTGG
28527 TGTATCGATACAT
1 TGTATCGATACAT
28540 TGTATCGATACAT
1 TGTATCGATACAT
28553 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:29364 original size:57 final size:57
Alignment explanation
Indices: 29296--29410 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
29286 AAAATCTCCC
29296 CCTTAATTAAGTAATTCACACACATATTAAAAATTTATTTGCACACATATCTATTTT
1 CCTTAATTAAGTAATTCACACACATATTAAAAATTTATTTGCACACATATCTATTTT
29353 CCTTAATTAAGTAATTCACACACATATTAAAAATTTATTTGCACACATATCTATTTT
1 CCTTAATTAAGTAATTCACACACATATTAAAAATTTATTTGCACACATATCTATTTT
29410 C
1 C
29411 TCCCCCTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.40
Consensus pattern (57 bp):
CCTTAATTAAGTAATTCACACACATATTAAAAATTTATTTGCACACATATCTATTTT
Found at i:30728 original size:21 final size:20
Alignment explanation
Indices: 30699--30737 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30689 GGCTAGTGTG
*
30699 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
30720 GGGAGTGCCGGTCGCGAC
1 GGGACTGCCGGTCGCGAC
30738 TTGGTGGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.10, C:0.31, G:0.44, T:0.15
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:31201 original size:13 final size:13
Alignment explanation
Indices: 31183--31221 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
31173 ATAATCTCCC
*
31183 TGTATCGATACAG
1 TGTATCGATACAA
31196 TGTATCGATACAA
1 TGTATCGATACAA
31209 TGTATCGATACAA
1 TGTATCGATACAA
31222 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:32766 original size:75 final size:75
Alignment explanation
Indices: 32643--32793 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
32633 TTTTGATCAA
32643 AAACTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGTTTCAAACCATACAAAGCTTTTGAGA
1 AAACTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGTTTCAAACCATACAAAGCTTTTGAGA
32708 GTTTAAACAC
66 GTTTAAACAC
32718 AAACTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGTTTCAAACCATACAAAGCTTTTGAGA
1 AAACTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGTTTCAAACCATACAAAGCTTTTGAGA
32783 GTTTAAACAC
66 GTTTAAACAC
32793 A
1 A
32794 TGATTCAGAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (75 bp):
AAACTTTGAAAGCCTTTCATACCAAGCTCGAGGAGCTTGTTTCAAACCATACAAAGCTTTTGAGA
GTTTAAACAC
Found at i:37536 original size:51 final size:51
Alignment explanation
Indices: 37472--37590 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
37462 TGAAAATAAT
*
37472 GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTTGAAATAAGGTC
1 GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAGGTC
** * * *
37523 GGGGTT-GAGGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTAGA-GTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAGGTC
* *
37574 GAGGTTGGAGTATCCCC
1 GGGGTTAGAGTATCCCC
37591 TTGGAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.03
51 54 0.93
52 2 0.03
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAGGTC
Found at i:37613 original size:28 final size:28
Alignment explanation
Indices: 37576--37649 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
37566 ATAAAGCCGA
*
37576 GGTTGGAGTATCCCC-TTGGAAATAACAG
1 GGTTGGAGTATCCCCGAT-GAAATAACAG
*
37604 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTGGAGTATCCCCGATGAAATAACAG
37632 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
37650 TATGAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACAG
Found at i:37699 original size:51 final size:51
Alignment explanation
Indices: 37632--37748 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
37622 GAAATAACGG
*
37632 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAGATCAGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAT-AGA
* * * * *
37684 -GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATAGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATAGA
37734 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
37749 TTGAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
50 3 0.05
51 54 0.95
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATAGA
Found at i:37736 original size:158 final size:159
Alignment explanation
Indices: 37445--37779 Score: 399
Period size: 158 Copynumber: 2.1 Consensus size: 159
37435 AATAGAATTG
* * * *
37445 GGGTTGAAGTATCCTCG-TGAAAATAATGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATT
1 GGGTTGGAGTATCCCCGATGAAAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATATT
* * * * * * * * *
37509 TTTGAAATAAGGTCGGGGTTGAGGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
66 TTAGAAATAAGATCAGAGTTGAGATATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACA
*
37574 GAGGTTGGAGTATCCCCTTGGAAATAACA
131 GAGGTTGGAGTATCCCCTTGAAAATAACA
* * * * *
37603 GGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTT
1 GGGTTGGAGTATCCCCGATGAAAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATATT
*** *
37667 TTAGAAATAAGATCAGAGTTG-GAATATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAATAAAA
66 TTAGAAATAAGATCAGAGTTGAG-ATATCCCCGATTGTGAGA-AATCAATATTTTAGAAATAAAA
* *
37730 TAGAGGTTGGAGTATCCCCTTGAAAATAACG
129 CAGAGGTTGGAGTATCCCCTTGAAAATAACA
37761 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
37780 TATGAAAAAT
Statistics
Matches: 149, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
157 3 0.02
158 144 0.97
159 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (159 bp):
GGGTTGGAGTATCCCCGATGAAAATAACGGGGTTAGAGTATCCCCAATTATGAAAAATCAATATT
TTAGAAATAAGATCAGAGTTGAGATATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACA
GAGGTTGGAGTATCCCCTTGAAAATAACA
Found at i:37775 original size:79 final size:78
Alignment explanation
Indices: 37684--37980 Score: 336
Period size: 79 Copynumber: 3.8 Consensus size: 78
37674 TAAGATCAGA
* * *
37684 GTTGGAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATAGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCC
37749 TTGAAAATAACGGG
65 TTGAAAATAACGGG
* * * * *
37763 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCC
*
37828 TCGAAAATAACGGG
65 TTGAAAATAACGGG
* * * * *
37842 GTTGGAGTATCCCCGA---TGAAAATTGGTGTTTTCGAAATAAAACCGGGGTTGGAGTGTCTCC-
1 GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCCT
* *
37903 TCAGAAATAACAGG
66 TGA-AAATAACGGG
* *
37917 GTTGGAGTATCCCTGATTGTGAAAATTCGGTGTTTT-GAAAATAAAATCAGA-GTTGGAATATCC
1 GTTGGAGTATCCCCGATTGTGAAAATT-GGTGTTTTAG-AAATAAAA-CAGAGGTTGGAGTATCC
37980 C
63 C
37981 TGATTATGGA
Statistics
Matches: 187, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
74 1 0.01
75 62 0.33
76 2 0.01
78 10 0.05
79 110 0.59
80 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (78 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCCT
TGAAAATAACGGG
Found at i:38083 original size:51 final size:50
Alignment explanation
Indices: 37917--38093 Score: 189
Period size: 51 Copynumber: 3.5 Consensus size: 50
37907 AAATAACAGG
* * *
37917 GTTGGAGTATCCCTGATTGTGAAAATTCGGTGTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAATT-GGTGTTTTGAAAATAAAATCGGA
* * *
37968 GTTGGAATATCCCTGATTATGGAAAATGGGTGTTTT-AGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTGGTGTTTTGA-AAATAAAATCGGA
* * * *
38019 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGAAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATG-AAAATTGGTGTTTTGAAAATAAAATCGGA
*
38069 GATTGGAGTATCCCCG-TGATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
38094 ATCTAGAAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
49 4 0.04
50 6 0.06
51 91 0.84
52 7 0.06
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:40447 original size:20 final size:20
Alignment explanation
Indices: 40424--40463 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
40414 TACATTGTAA
**
40424 AATGTATCGGTACAATGAGC
1 AATGTATCAATACAATGAGC
40444 AATGTATCAATACAATGAGC
1 AATGTATCAATACAATGAGC
40464 GATACACTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGTATCAATACAATGAGC
Found at i:45536 original size:12 final size:12
Alignment explanation
Indices: 45517--45546 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45507 TGCATTTAAT
45517 TCACCATATGAC
1 TCACCATATGAC
*
45529 TTACCATATGAC
1 TCACCATATGAC
45541 TCACCA
1 TCACCA
45547 ATTCATGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (12 bp):
TCACCATATGAC
Found at i:45665 original size:17 final size:17
Alignment explanation
Indices: 45625--45668 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
45615 ATTATACCGT
45625 AAAAATTAATAAAAATG
1 AAAAATTAATAAAAATG
*
45642 ACTAAATT-ATAAAAAATG
1 A-AAAATTAAT-AAAAATG
45660 AAAAATTAA
1 AAAAATTAA
45669 ATTAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (17 bp):
AAAAATTAATAAAAATG
Found at i:47204 original size:19 final size:21
Alignment explanation
Indices: 47127--47201 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
47117 CTGCCAATTT
47127 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
47148 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
**
47169 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGTC
47188 CATGTATCGATACA
1 CATGTATCGATACA
47202 TTGTATCGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
19 16 0.31
20 1 0.02
21 34 0.67
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (21 bp):
CATGTATCGATACAATTTGTC
Found at i:47208 original size:13 final size:13
Alignment explanation
Indices: 47190--47214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47180 ACATTGAACA
47190 TGTATCGATACAT
1 TGTATCGATACAT
47203 TGTATCGATACA
1 TGTATCGATACA
47215 AAGCAGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47230 original size:33 final size:32
Alignment explanation
Indices: 47171--47235 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
47161 AATTTGTCCA
**
47171 TGTATCGATACATTGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
47203 TGTATCGATACAAAGCAGCATGTATCGATACAT
1 TGTATCGATACAAAG-AACATGTATCGATACAT
47236 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:47777 original size:18 final size:19
Alignment explanation
Indices: 47754--47820 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
47744 GTTTTCGTTT
47754 TTCT-CCCCTTAAAAAATA
1 TTCTCCCCCTTAAAAAATA
*
47772 TTCTCCCCCTT--AAACTA
1 TTCTCCCCCTTAAAAAATA
* *
47789 TTATCTCCTCTT-AAAAA-A
1 TTCTC-CCCCTTAAAAAATA
47807 TTCTCCCCCTTAAA
1 TTCTCCCCCTTAAA
47821 CGATTATCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
17 14 0.36
18 16 0.41
19 9 0.23
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (19 bp):
TTCTCCCCCTTAAAAAATA
Found at i:47817 original size:35 final size:37
Alignment explanation
Indices: 47755--47829 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 37
47745 TTTTCGTTTT
*
47755 TCTCCCCTTAAAAAATATTCTCCCCCTTAAACTATTA
1 TCTCCCCTTAAAAAATATTCTCCCCCTTAAACGATTA
*
47792 TCTCCTCTT-AAAAA-ATTCTCCCCCTTAAACGATTA
1 TCTCCCCTTAAAAAATATTCTCCCCCTTAAACGATTA
47827 TCT
1 TCT
47830 TCTCCCCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 23 0.64
36 5 0.14
37 8 0.22
ACGTcount: A:0.31, C:0.32, G:0.01, T:0.36
Consensus pattern (37 bp):
TCTCCCCTTAAAAAATATTCTCCCCCTTAAACGATTA
Found at i:49931 original size:29 final size:29
Alignment explanation
Indices: 49895--49954 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
49885 TATCCAAAGA
49895 AAACATCAAAAGTGCACTAATTTATTCCT
1 AAACATCAAAAGTGCACTAATTTATTCCT
49924 AAACATCAAAAGTGCACTAATTTATTCCT
1 AAACATCAAAAGTGCACTAATTTATTCCT
49953 AA
1 AA
49955 TGACCAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (29 bp):
AAACATCAAAAGTGCACTAATTTATTCCT
Found at i:54235 original size:3 final size:3
Alignment explanation
Indices: 54227--54263 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
54217 TCTGAGTCAC
*
54227 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
54264 GTCCTTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:55977 original size:13 final size:13
Alignment explanation
Indices: 55959--55983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55949 AATTTGTCCA
55959 TGTATCGATACAT
1 TGTATCGATACAT
55972 TGTATCGATACA
1 TGTATCGATACA
55984 AAGCAGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:61739 original size:20 final size:20
Alignment explanation
Indices: 61714--61788 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
61704 AAAAAAGTAG
*
61714 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTAAAA
* *
61734 AATGTATCGATACATTCATA
1 AATGTATCGATACATTAAAA
* *
61754 CATGTATCGATTCATTAAAA
1 AATGTATCGATACATTAAAA
61774 AATGTATCGATACAT
1 AATGTATCGATACAT
61789 CTGGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTAAAA
Found at i:67485 original size:19 final size:19
Alignment explanation
Indices: 67461--67523 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
67451 AGCGATACAT
*
67461 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
67480 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
67493 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
67512 TGTATCGATACA
1 TGTATCGATACA
67524 TTTACTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 20 0.54
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:67494 original size:32 final size:32
Alignment explanation
Indices: 67448--67525 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
67438 GCAGTAGCTT
*
67448 TGTAGCGATACATTGTATCAATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
*
67480 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCAATACAACACTTA
67512 TGTATCGATACATT
1 TGTATCGATACATT
67526 TACTGTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCAATACAACACTTA
Found at i:67498 original size:13 final size:13
Alignment explanation
Indices: 67480--67504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67470 ACAACACTTA
67480 TGTATCGATACAT
1 TGTATCGATACAT
67493 TGTATCGATACA
1 TGTATCGATACA
67505 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69153 original size:101 final size:101
Alignment explanation
Indices: 68907--69256 Score: 412
Period size: 101 Copynumber: 3.5 Consensus size: 101
68897 AAACAGACCA
* *
68907 AAAAAAAGCAATTAAGCAAAAAGGAGAAATAACAATTCATGCATGAAATTAAAGCAAGTAAC-GC
1 AAAAAAAGCAATTAAGCAAAAAGGAGAAACAGCAATTCATGCATGAAATTAAAGCAAGTAACAGC
* * * * *
68971 AACTTAAAAGGAAGAAACCAAAAACTGCAGGAAAAG
66 AGCTTAAAAGGAAGAAACCGAAAGCTGTAGCAAAAG
* * * *
69007 -AAAAAA-CAATTAAGCAAAGAGAAGAAAC-GACAATTCATGCATGAAATTAAAACAAGTAGCAG
1 AAAAAAAGCAATTAAGCAAAAAGGAGAAACAG-CAATTCATGCATGAAATTAAAGCAAGTAACAG
* * * *
69069 TAGCTCAAAAGGAAGAAACCGACAGCTGTAGTAAAAG
65 CAGCTTAAAAGGAAGAAACCGAAAGCTGTAGCAAAAG
* * *
69106 AAAAAAAGTAATTAAGTAAAAAGGAGAAACAGTAATTCATGCATGAAATTAAAGCAAGTAACAGC
1 AAAAAAAGCAATTAAGCAAAAAGGAGAAACAGCAATTCATGCATGAAATTAAAGCAAGTAACAGC
* * *
69171 AGCTTAAAAGGAAGAAATCGATAGC--T-GCAACA-
66 AGCTTAAAAGGAAGAAACCGAAAGCTGTAGCAAAAG
**
69203 AAAAAAAGCAATTAAGCAAAGAA-GAGAAATGGCAATTCATGCATGAAATTAAAG
1 AAAAAAAGCAATTAAGCAAA-AAGGAGAAACAGCAATTCATGCATGAAATTAAAG
69257 TAAGAAGAAT
Statistics
Matches: 212, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
97 46 0.22
98 53 0.25
99 37 0.17
100 6 0.03
101 69 0.33
102 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.18, T:0.15
Consensus pattern (101 bp):
AAAAAAAGCAATTAAGCAAAAAGGAGAAACAGCAATTCATGCATGAAATTAAAGCAAGTAACAGC
AGCTTAAAAGGAAGAAACCGAAAGCTGTAGCAAAAG
Found at i:69564 original size:14 final size:13
Alignment explanation
Indices: 69545--69581 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
69535 ACAACAATGG
69545 TAGCAAGCAACAAA
1 TAGCAAGCAAC-AA
69559 TAGCAAGCAACAA
1 TAGCAAGCAACAA
*
69572 CAGCAAGCAA
1 TAGCAAGCAA
69582 ACAACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.54, C:0.24, G:0.16, T:0.05
Consensus pattern (13 bp):
TAGCAAGCAACAA
Found at i:69584 original size:14 final size:13
Alignment explanation
Indices: 69546--69587 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
69536 CAACAATGGT
*
69546 AGCAAGCAACAAAT
1 AGCAAGCAAC-AAC
69560 AGCAAGCAACAAC
1 AGCAAGCAACAAC
69573 AGCAAGCAAACAAC
1 AGCAAGC-AACAAC
69587 A
1 A
69588 AAAACAGTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.57, C:0.26, G:0.14, T:0.02
Consensus pattern (13 bp):
AGCAAGCAACAAC
Found at i:72519 original size:14 final size:15
Alignment explanation
Indices: 72494--72524 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
72484 TAACTGTTTT
72494 ATTTTTCATTTTTGC
1 ATTTTTCATTTTTGC
72509 ATTTTTC-TTTTTGC
1 ATTTTTCATTTTTGC
72523 AT
1 AT
72525 GCATACACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
ATTTTTCATTTTTGC
Found at i:83764 original size:49 final size:49
Alignment explanation
Indices: 83696--83929 Score: 245
Period size: 49 Copynumber: 4.7 Consensus size: 49
83686 AGGAATGTTA
* * *
83696 AAGATGCCAATATTCTGATTCAGGGCCAATGATATCGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG
* * * *
83745 AAGATACCAATGTGTTGATTCAAAGCCAGTGATATCGGACTTAAAGATG
1 AAGATGCCAATGTGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG
* * * *
83794 AAGATGTCAATGTGCTGATTCAAGGCCGACGACATTC-GACTTAAAGATGG
1 AAGATGCCAATGTGCTGATTCAAGGCCAATGATA-TCGGACTTAAAGAT-G
* * * * *
83844 TTAAGGTGCCAATGTGCTGATTCAAGGCTAATGACATCAGTCTTAAAGATG
1 --AAGATGCCAATGTGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG
* * * *
83895 AAGGTGCCAATATGCTAATTCAAGGCCAACGATAT
1 AAGATGCCAATGTGCTGATTCAAGGCCAATGATAT
83930 TGGGCTTGTG
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 109 0.71
50 3 0.02
51 3 0.02
52 39 0.25
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (49 bp):
AAGATGCCAATGTGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG
Found at i:84027 original size:87 final size:87
Alignment explanation
Indices: 83849--84101 Score: 337
Period size: 87 Copynumber: 2.9 Consensus size: 87
83839 GATGGTTAAG
* ** ** * *
83849 GTGCCAATGTGCTGATTCAAGGCTAATGACATCAGTCTTAAAGATGAAGGTGCCAATATGCTAAT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
* * *
83914 TCAAGGCCAACGATATTGGGCTT
65 TCAAGGCCAGCGATACTAGGCTT
*
83937 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
84002 CAAGGCCAGCGATACTAGGCTT
66 CAAGGCCAGCGATACTAGGCTT
* * * *
84024 GTGCTAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAA-ATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
84088 GAAGGCCAGTGATA
66 CAAGGCCAGCGATA
84102 TTGGACTTAA
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 19 0.13
87 89 0.61
88 39 0.27
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATACTAGGCTT
Found at i:84253 original size:33 final size:33
Alignment explanation
Indices: 84110--84455 Score: 247
Period size: 34 Copynumber: 10.8 Consensus size: 33
84100 TATTGGACTT
* * * *
84110 AAAGGTGCGATGGAGTTGTAGACTTACAA-GAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
84142 AAAGGGATGCCACAGAGGTGTGGGCTTAAAAGGGAA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GGAA
* * * * *
84178 AAGGGAGTCACGGAGTCGTGGACTTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
*
84210 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
84243 CAAGGTGCCACGGAGTTGTGGACTT-CAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
84275 AAAGATGCCACGGAGTTGTGGACTCAAAA-G--
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
84305 ---GGTGCCACGGAATTGTAGACTTAAAAGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* * * *
84335 AAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAA
*
84370 AAAGGTGCCATGGAGTTGTGGACTT------AA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
84397 AAAGGTGCCACAGAGTTGTAGACTTTGAAAA-GAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
* **
84431 AAAGGTGCCACAGAGTCATGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
84456 TGGGAAGAGA
Statistics
Matches: 243, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
27 44 0.18
28 2 0.01
32 58 0.24
33 34 0.14
34 86 0.35
35 14 0.06
36 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:84389 original size:95 final size:91
Alignment explanation
Indices: 84209--84456 Score: 291
Period size: 95 Copynumber: 2.6 Consensus size: 91
84199 ACTTAAAAAG
* ** * * * *
84209 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGCAAGGTGCCACGGAGTTGTGGAC-TTCAAGG
1 AAAAGGTGCCACGGAGTTGTAGACTTAAAA-GAAAAAGGTGCCACAGAGTTATGGACTTTAAAAG
84273 AAAAAGATGCCACGGAGTTGTGGACTC
65 AAAAAGATGCCACGGAGTTGTGGACTC
* *
84300 AAAAGGGTGCCACGGAATTGTAGACTTAAAAGAAAAAAGAGTGCCACAGAGTTATGGGCTTTAAA
1 AAAA-GGTGCCACGGAGTTGTAGACTTAAAAG-AAAAAG-GTGCCACAGAGTTATGGACTTT-AA
* * *
84365 AAGAAAAAGGTGCCATGGAGTTGTGGACTTA
62 AAGAAAAAGATGCCACGGAGTTGTGGAC-TC
* *
84396 AAAAGGTGCCACAGAGTTGTAGACTTTGAAAAGAAAAAGGTGCCACAGAGTCATGGACTTT
1 AAAAGGTGCCACGGAGTTGTAGAC-TT-AAAAGAAAAAGGTGCCACAGAGTTATGGACTTT
84457 GGGAAGAGAT
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
91 5 0.04
92 28 0.21
93 16 0.12
94 2 0.02
95 64 0.48
96 13 0.10
97 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (91 bp):
AAAAGGTGCCACGGAGTTGTAGACTTAAAAGAAAAAGGTGCCACAGAGTTATGGACTTTAAAAGA
AAAAGATGCCACGGAGTTGTGGACTC
Found at i:84402 original size:27 final size:27
Alignment explanation
Indices: 84368--84421 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
84358 CTTTAAAAAG
** *
84368 AAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACAGAGTTGTAGACTT
84395 AAAAAGGTGCCACAGAGTTGTAGACTT
1 AAAAAGGTGCCACAGAGTTGTAGACTT
84422 TGAAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCACAGAGTTGTAGACTT
Found at i:84453 original size:61 final size:62
Alignment explanation
Indices: 84333--84455 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 62
84323 ACTTAAAAGA
* * ** **
84333 AAAAAGAGTGCCACAGAGTTATGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGAGTGCCACAGAGTTATAGACTTTAAAAAGAAAAAGGTGCCACAGAGTCATGGACTT
* *
84395 AAAAAG-GTGCCACAGAGTTGTAGACTTTGAAAAGAAAAAGGTGCCACAGAGTCATGGACTT
1 AAAAAGAGTGCCACAGAGTTATAGACTTTAAAAAGAAAAAGGTGCCACAGAGTCATGGACTT
84456 TGGGAAGAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 47 0.89
62 6 0.11
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (62 bp):
AAAAAGAGTGCCACAGAGTTATAGACTTTAAAAAGAAAAAGGTGCCACAGAGTCATGGACTT
Found at i:84477 original size:30 final size:30
Alignment explanation
Indices: 84436--84959 Score: 517
Period size: 31 Copynumber: 17.0 Consensus size: 30
84426 AAGAAAAAGG
* * *
84436 TGCCACAGAGTCATGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
84466 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
84496 TTGCCACTGAGTCGTGGACTTTGGGAAGACA
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * ** *
84527 TGCCATTGAATCGTGGACTTAAAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
84557 AGCCACTAAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
84588 TGCCACTGAGTCATGGACTTTGGGAAGAGT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
84618 TGCCACTAAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* *
84651 TGCCACTGAGTCATGGACTTTGAGGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGA-GAAGA-GA
** * *
84683 TGCCACTGAGTCACGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * *
84713 GGCCACTGAGTTGTAGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
84744 TGCCACTGAGTCATAGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
84774 TGCCACTGAGTCATAGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
*
84807 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* *
84838 TGCCCCTGAGTCGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
84869 TGCCACTGAGTCGTAGACTTTGGGAGGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
84899 TGCCATTGAGTCGTGAACTTTGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
84929 TTGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAGAAGAGA
84960 GATTTGAAGA
Statistics
Matches: 413, Mismatches: 69, Indels: 23
0.82 0.14 0.05
Matches are distributed among these distances:
30 166 0.40
31 169 0.41
32 24 0.06
33 54 0.13
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:84508 original size:61 final size:60
Alignment explanation
Indices: 84430--84959 Score: 515
Period size: 61 Copynumber: 8.6 Consensus size: 60
84420 TTTGAAAAGA
* * *
84430 AAAAGGTGCCACAGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAG
* * * * * *
84490 AAGAGATTGCCACTGAGTCGTGGACTTTGGGAAGACATGCCATTGAATCGTGGAC-TTAAA
1 AAAAGA-TGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAG
* * * * * * *
84550 AAAGAGAAGCCACTAAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGGG
1 AAA-AGATGCCACTGAGTCGTGGACTTTG-GGAAGAGATGCCACTGAGTCGTGGACTTTGAG
* * * * * * *
84612 AAGAGTTGCCACTAAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTTGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTTG--G-GAAGAGATGCCACTGAGTCGTGGACTTTGA-G
** * ** * * *
84676 AAAAGGATGCCACTGAGTCACGGACTTAGAAAAGAGAGGCCACTGAGTTGTAGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTG-AG
* * * *
84738 AAAAGATGCCACTGAGTCATAGACTTTGGGAAGAGATGCCACTGAGTCATAGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTG-AG
* * *
84799 AAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCCCTGAGTCGTGGACTTTGAAG
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-GGAAGAGATGCCACTGAGTCGTGGACTTTG-AG
* * * *
84863 AAAAGATGCCACTGAGTCGTAGACTTTGGGAGGAGATGCCATTGAGTCGTGAACTTTGA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAG
*
84922 AAAGAGATTGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 AAA-AGA-TGCCACTGAGTCGTGGACTTTGGGAAGAGA
84960 GATTTGAAGA
Statistics
Matches: 390, Mismatches: 66, Indels: 27
0.81 0.14 0.06
Matches are distributed among these distances:
59 3 0.01
60 32 0.08
61 187 0.48
62 61 0.16
63 55 0.14
64 32 0.08
65 20 0.05
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (60 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAG
Found at i:84739 original size:156 final size:155
Alignment explanation
Indices: 84369--84952 Score: 691
Period size: 156 Copynumber: 3.8 Consensus size: 155
84359 TTTAAAAAGA
* * * *
84369 AAAAGGTGCCA-TGGAGTTGTGGACTTA-AAAAG-G-TGCCACAGAGTTGTAGACTTTGAAAAGA
1 AAAAGATGCCACT-GAGTCGTGGACTTAGAAAAGAGAAGCCACTGAGTTGTAGACTTTG--AAG-
* * *
84430 AAAAGGTGCCACAGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTG-AG--AA
62 AAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAA
*
84492 GAGATTGCCACTGAGTCGTGGACTTTG-GG
127 AAGA-TGCCACTGAGTCGTGGACTTTGAGG
* * * * * * *
84521 AAGACATGCCATTGAATCGTGGACTTAAAAAAGAGAAGCCACTAAGTTGTGGACTTTGAAGAAAA
1 AAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGAAGCCACTGAGTTGTAGACTTTGAAGAAAA
* *
84586 GATGCCACTGAGTCATGGACTTTGGGAAGAGTTGCCACTAAGTCATGGACTTTGAAGAAAAAAGA
66 GATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
*
84651 TGCCACTGAGTCATGGACTTTGAGG
131 TGCCACTGAGTCGTGGACTTTGAGG
** *
84676 AAAAGGATGCCACTGAGTCACGGACTTAGAAAAGAGAGGCCACTGAGTTGTAGACTTTGAAGAAA
1 AAAA-GATGCCACTGAGTCGTGGACTTAGAAAAGAGAAGCCACTGAGTTGTAGACTTTGAAGAAA
* *
84741 AGATGCCACTGAGTCATAGACTTTGGGAAGAGATGCCACTGAGTCATAGACTTTGAAGAAAAAAG
65 AGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAG
*
84806 ATGCCACTGAGTCGTGGACTTTGAAG
130 ATGCCACTGAGTCGTGGACTTTGAGG
* * * * * * **
84832 AAAAGATGCCCCTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTAGACTTTG-GGAGG
1 AAAAGATGCCACTGAGTCGTGGACTTAGAA-AAGAGAAGCCACTGAGTTGTAGACTTTGAAGAAA
* * * ** *
84896 AGATGCCATTGAGTCGTGAACTTTGAAAAGAGATTGCCACTGAGTCGTGGACTTTGA
65 AGATGCCACTGAGTCATGGACTTTGGGAAGAGA-TGCCACTGAGTCATGGACTTTGA
84953 GAAGAGAGAT
Statistics
Matches: 371, Mismatches: 50, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
152 73 0.20
153 11 0.03
154 22 0.06
155 79 0.21
156 186 0.50
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (155 bp):
AAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGAAGCCACTGAGTTGTAGACTTTGAAGAAAA
GATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
TGCCACTGAGTCGTGGACTTTGAGG
Found at i:86242 original size:6 final size:6
Alignment explanation
Indices: 86233--86274 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
86223 TTTGCACTTT
86233 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TGTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG T-TTTT
86275 TACTTTCGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:86250 original size:24 final size:24
Alignment explanation
Indices: 86209--86280 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
86199 TTTTGTTCCC
* **
86209 TTTTTGATTTTGCCTTTGCACTTT-
1 TTTTTGTTTTTGTTTTTG-ACTTTG
**
86233 TTTTTGTTTTTGTTTTTGTTTTTG
1 TTTTTGTTTTTGTTTTTGACTTTG
*
86257 TTTTTGTTTTTGTGTTTTTACTTT
1 TTTTTGTTTTTGT-TTTTGACTTT
86281 CGACTTTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 3 0.08
24 28 0.74
25 7 0.18
ACGTcount: A:0.04, C:0.07, G:0.14, T:0.75
Consensus pattern (24 bp):
TTTTTGTTTTTGTTTTTGACTTTG
Found at i:90945 original size:21 final size:19
Alignment explanation
Indices: 90898--90953 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
90888 GCAGGGTAGC
90898 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
90917 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
90937 GTTTGTATCGATTACAA
1 -TTTGTATCGA-TACAA
90954 ATTCTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 9 0.31
22 4 0.14
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:94610 original size:21 final size:22
Alignment explanation
Indices: 94584--94632 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
94574 TTTTATTCGC
94584 CAAAAAGCCTGATATC-TTTGG
1 CAAAAAGCCTGATATCTTTTGG
* *
94605 CAAAAAGCTTGATTTCTTTTGG
1 CAAAAAGCCTGATATCTTTTGG
94627 -AAAAAG
1 CAAAAAG
94633 ATCCCATACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (22 bp):
CAAAAAGCCTGATATCTTTTGG
Found at i:95279 original size:42 final size:42
Alignment explanation
Indices: 95206--96443 Score: 566
Period size: 42 Copynumber: 29.5 Consensus size: 42
95196 AAACCTTTTT
* * * * * *
95206 TTTTTTACCTTTTGTTTGCCCATCAGCTTTGACTTGGGAAAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
*
95248 TTCTTTT-CCTTTTATCTGCCCATCGGTTTTGACCTGAGAGAC
1 TT-TTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* *
95290 TTTTTTACCCTTTATCTGCCCATCGGCTTTGACCTGCGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * * * * *
95332 TTTTTTTCCCTTTGTCTACCTATAGGCTTTAACC-CAGGAGAA
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGA-GAGAC
* * * * *
95374 TTTTTTTCCCTTTATCAGTCCATCGGCTTTAACCT-AGGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGA-GAGAC
* * * * * * * *
95416 TTCTTTACCCTTTGTTTGCCCGTCGACTTTAACCTGGGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * *
95458 TTCTTTACTTTTTGTCTACCCGTCGGCTTTGACC-CAGAAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAG-AGAC
** * * * * ** *
95500 TTCATTACCTCTTGTCTGCTCGTCATCTTTAACCTGAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * * * *
95542 TTTTTTACCCTTTACCTACCCGTCGACTTTAACCCGAGAGGC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * ** * *** *
95584 TTCTTTACCCTTGGTTTGCCCATCAATTTTAACCT-AGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * *
95625 TTTTTTACTTTTTGTCTACCTATCGGCTTTGACCTGAAAAAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * *
95667 TTCTTTACCTTTTGTTTGCCCGTCGACTTTGA-CTAAGGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGA-GAGAC
* ** * * * ** * * *
95709 TTCTTTACCCATTCTCTACCTATCAACTTCGACCCGAAAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * * *
95751 TTCTTTACCTCTTGTCTACCCGTCAGCTTTGACCCGAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* ** * *
95793 TTTTTTACCTTTTGTCTGCCTGTCGGCTTTGACCCGA-AGGGC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGA-GAC
* * * *
95835 TTTTTTACCTTTTGTCTACCCGTCGACTTTGACCTGAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * *
95877 TTCTTCACTCTTTGT-T-TGCCCATCGGTTTTGACCTTGA-AAAC
1 TTTTTTAC-CTTT-TATCTGCCCATCGGCTTTGACC-TGAGAGAC
* * * *
95919 TTTTTTACCTTTTGTTTGCCCGTCGGCTTT-AACTCGAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCT-GAGAGAC
* * ** * *
95961 TTCTTTACCTCTTATCTGCCTGTCGACTTTGACCTGGGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
** * * **
96003 TTAATTACCTTTTGTCTGCCCATTGGCTTTGACCCAAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * * *
96045 TTCTTTACCTTTTGTCTGTCCGTCAGCTTTGACCTGGGAAAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * ** ** *
96087 TTCTTGACCTCTTGTCTACTTATCGGCTTTGACCCCAGAAAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * * *
96129 TTCTTTACTTTTTGTCTGCCCGTCGACTTTGACCAGAAAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * *
96171 TTCTTTACCCTTTGTCTGCCCATCAGCTTTGA-CTTAGGACAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGA-GAGAC
* *** *
96213 TTCTTTACCCTTTT-TCTGCTTGTCGGCTTTGACCTGAAAGAC
1 TTTTTTA-CCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * * * *
96255 TTCTTTACCTCTTGTCTGCCCATCGGCTTT-AACTCAAAAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCT-GAGAGAC
* * * ** * **
96297 TTTTTTACCTCTTGTCTTCCTGTCGACTTTGACCCAAGAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
* * * *
96339 TTCTTTACCTTTTGTCTGCCCATCGACTTTGGCCTG-GAAGAC
1 TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAG-AGAC
* * ** *
96381 TTTTTTA-GTCTTTATCTGCTCATCGATTTTGACCTTGA-AAAC
1 TTTTTTACCT-TTTATCTGCCCATCGGCTTTGACC-TGAGAGAC
** *
96423 TTTTTTATGTTTTGTCTGCCC
1 TTTTTTACCTTTTATCTGCCC
96444 GTCCACTTTA
Statistics
Matches: 923, Mismatches: 242, Indels: 62
0.75 0.20 0.05
Matches are distributed among these distances:
40 2 0.00
41 59 0.06
42 827 0.90
43 34 0.04
44 1 0.00
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTTTTACCTTTTATCTGCCCATCGGCTTTGACCTGAGAGAC
Found at i:95800 original size:126 final size:125
Alignment explanation
Indices: 95246--96478 Score: 675
Period size: 126 Copynumber: 9.8 Consensus size: 125
95236 GACTTGGGAA
* * * * * * * *
95246 ACTTCTTTTCCTTTTATCTGCCCATCGGTTTTGACCTGAGAGACTTTTTTACCCTTTATCTGCCC
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * * * * * *
95311 ATCGGCTTTGACCT-GCGAGACTTTTTTTCCCTTTGTCTACCTATAGGCTTTAACCC-AGGAG
66 GTCGACTTTGACCTAG-GAGACTTCTTTACCC-TTGTCTACCTGTCGACTTTGACCCGA-AAG
* * * * * * * * * *
95372 AATTTTTTTCC-CTTTATCAGTCCATCGGCTTT-AACCTAGGAGACTTCTTTACCCTTTGTTTGC
1 ACTTCTTTACCTC-TTGTCTGCCCATCGGCTTTGACCCGA-GAGACTTCTTTACCTTTTGTCTGC
* * ** * *
95435 CCGTCGACTTTAACCTGGGAGACTTCTTTACTTTTTGTCTACCCGTCGGCTTTGACCC-AGAAG
64 CCGTCGACTTTGACCTAGGAGACTTCTTTAC-CCTTGTCTACCTGTCGACTTTGACCCGA-AAG
* * * ** * * * * ** *
95498 ACTTCATTACCTCTTGTCTGCTCGTCATCTTTAACCTGAGAGACTTTTTTACCCTTTACCTACCC
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * * ** * * * * *
95563 GTCGACTTTAACC-CGAGAGGCTTCTTTACCCTTGGTTTGCCCATC-AATTTTAACCTAGAG
66 GTCGACTTTGACCTAG-GAGACTTCTTTACCCTT-GTCTACCTGTCGACTTTGACCCGAAAG
* * * * * * * * *
95623 ACTTTTTTACTTTTTGTCTACCTATCGGCTTTGACCTGAAAAACTTCTTTACCTTTTGTTTGCCC
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * *
95688 GTCGACTTTGA-CTAAGGAGACTTCTTTACCCATTCTCTACCTATCAACTTCGACCCGAAAG
66 GTCGACTTTGACCT-AGGAGACTTCTTTACCC-TTGTCTACCTGTCGACTTTGACCCGAAAG
* * * * *
95749 ACTTCTTTACCTCTTGTCTACCCGTCAGCTTTGACCCGAGAGACTTTTTTACCTTTTGTCTGCCT
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * * * *
95814 GTCGGCTTTGACCCGAAGG-G-CTTTTTTACCTTTTGTCTACCCGTCGACTTTGACCTGAGAG
66 GTCGACTTTGA-CC-TAGGAGACTTCTTTACC-CTTGTCTACCTGTCGACTTTGACCCGAAAG
* * * * * * *
95875 ACTTCTTCA-CTCTTTGTTTGCCCATCGGTTTTGACCTTGA-AAACTTTTTTACCTTTTGTTTGC
1 ACTTCTTTACCTC-TTGTCTGCCCATCGGCTTTGACC-CGAGAGACTTCTTTACCTTTTGTCTGC
* * * * * * **
95938 CCGTCGGCTTT-AACTCGAGAGACTTCTTTACCTCTTATCTGCCTGTCGACTTTGACCTGGGAG
64 CCGTCGACTTTGACCTAG-GAGACTTCTTTACC-CTTGTCTACCTGTCGACTTTGACCCGAAAG
** * * * *
96001 ACTTAATTACCTTTTGTCTGCCCATTGGCTTTGACCCAAGAGACTTCTTTACCTTTTGTCTGTCC
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * * * *
96066 GTC-AGCTTTGACCTGGGAAACTTCTTGACCTCTTGTCTACTTATCGGCTTTGACCCCAGAA-
66 GTCGA-CTTTGACCTAGGAGACTTCTTTACC-CTTGTCTACCTGTCGACTTTGACCCGA-AAG
* * * * * * *
96127 ACTTCTTTACTTTTTGTCTGCCCGTCGACTTTGACCAGAAAGACTTCTTTACCCTTTGTCTGCCC
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * * * * *
96192 ATC-AGCTTTGACTTAGGACACTTCTTTACCCTTTTTCTGCTTGTCGGCTTTGACCTGAAAG
66 GTCGA-CTTTGACCTAGGAGACTTCTTTACCC-TTGTCTACCTGTCGACTTTGACCCGAAAG
* * * * * * * *
96253 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTAACTCAAAAGACTTTTTTACCTCTTGTCTTCCT
1 ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
* * * * ** * * *
96318 GTCGACTTTGACCCAAGAGACTTCTTTACCTTTTGTCTGCCCATCGACTTTGGCCTGGAAG
66 GTCGACTTTGACCTAGGAGACTTCTTTACC-CTTGTCTACCTGTCGACTTTGACCCGAAAG
* * * * ** * * * **
96379 ACTTTTTTA-GTCTTTATCTGCTCATCGATTTTGACCTTGA-AAACTTTTTTATGTTTTGTCTGC
1 ACTTCTTTACCTC-TTGTCTGCCCATCGGCTTTGACC-CGAGAGACTTCTTTACCTTTTGTCTGC
* * * *
96442 CCGTCCACTTTAACCCCTGGGAGACTTCTTTTCCCTT
64 CCGTCGACTTTGA--CCTAGGAGACTTCTTTACCCTT
96479 TGTGTTCTTG
Statistics
Matches: 846, Mismatches: 226, Indels: 69
0.74 0.20 0.06
Matches are distributed among these distances:
123 1 0.00
124 3 0.00
125 102 0.12
126 702 0.83
127 19 0.02
128 19 0.02
ACGTcount: A:0.17, C:0.28, G:0.16, T:0.39
Consensus pattern (125 bp):
ACTTCTTTACCTCTTGTCTGCCCATCGGCTTTGACCCGAGAGACTTCTTTACCTTTTGTCTGCCC
GTCGACTTTGACCTAGGAGACTTCTTTACCCTTGTCTACCTGTCGACTTTGACCCGAAAG
Found at i:97492 original size:20 final size:20
Alignment explanation
Indices: 97467--97551 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
97457 TTTTCACAAT
97467 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
97487 TTGTATCGATACATTTTTGGTTTTACCCA
1 TTGTATCGATACA---TT-G--TT---CA
*
97516 GATGTATCGATACATTGTTCA
1 -TTGTATCGATACATTGTTCA
97537 TTGTATCGATACATT
1 TTGTATCGATACATT
97552 CTGGGTTTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
20 27 0.51
21 2 0.04
23 2 0.04
24 3 0.06
26 3 0.06
27 2 0.04
29 2 0.04
30 12 0.23
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:97543 original size:50 final size:50
Alignment explanation
Indices: 97468--97600 Score: 207
Period size: 49 Copynumber: 2.7 Consensus size: 50
97458 TTTCACAATT
* *
97468 TGTATCGATACATTGTTCATTGTATCGATACATTTTTGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTTCTGGGTTTACCCAGA
97518 TGTATCGATACATTGTTCATTGTATCGATACA-TTCTGGGTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTTCTGGGTTTACCCAGA
* *
97567 TGCATCGATACATT-TTGCAATGTATCGATACATT
1 TGTATCGATACATTGTT-CATTGTATCGATACATT
97601 CAGGCATTCT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
48 2 0.03
49 42 0.55
50 33 0.43
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTTCTGGGTTTACCCAGA
Found at i:100071 original size:51 final size:52
Alignment explanation
Indices: 100011--100126 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 52
100001 TTATTTCCGA
* *
100011 GGGATACTCCAACCTCAG-TTTTATTTCTAAAACATCAATTTTTCACAATCG
1 GGGATACTCCAACCTCAGATTTTATTTCCAAAACACCAATTTTTCACAATCG
* *
100062 GGGATACTCCAA-CTCCGATTTTATTTCCAAAACACCAATTTTTTACAATCG
1 GGGATACTCCAACCTCAGATTTTATTTCCAAAACACCAATTTTTCACAATCG
100113 GGGATACTCCAACC
1 GGGATACTCCAACC
100127 CCGTTATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 4 0.07
51 54 0.92
52 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCTCAGATTTTATTTCCAAAACACCAATTTTTCACAATCG
Found at i:100181 original size:129 final size:129
Alignment explanation
Indices: 99952--100425 Score: 619
Period size: 129 Copynumber: 3.7 Consensus size: 129
99942 TCATTCATGT
* * * *
99952 TTTTATTTCCAAAACACTAATTTTTTACAATCGTGGATACTCCAA-CCTGTTATTTCCGAGGGAT
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
*
100016 ACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCCGA
66 ACTCCAACCTCAGTTTTATTTCTAAAACATAAATTTTTCACAATCGGGGATACTCCAACTCCGA
*
100080 TTTTATTTCCAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
* * * *
100145 ACTCCAACCTCAGTTTTATTTCTAAAACATAAATTTTCCGCAATCAGGGATACTCCAACTCTGA
66 ACTCCAACCTCAGTTTTATTTCTAAAACATAAATTTTTCACAATCGGGGATACTCCAACTCCGA
* * *
100209 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGA
* * * ** * *
100274 TACTCCAACCTC-GACTTTCTTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
65 TACTCCAACCTCAG-TTTTATTTCTAAAACATAAATTTTTCACAATCGGGGATACTCCAACTCCG
*
100338 G
129 A
** ** * * * * *
100339 CCTTATTTATAAAGCATCGATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGG-A
* *
100404 TACTCCAACCCCAATTTTATTT
65 TACTCCAACCTCAGTTTTATTT
100426 TCAAAATATC
Statistics
Matches: 304, Mismatches: 37, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
128 43 0.14
129 137 0.45
130 124 0.41
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
ACTCCAACCTCAGTTTTATTTCTAAAACATAAATTTTTCACAATCGGGGATACTCCAACTCCGA
Found at i:100199 original size:51 final size:52
Alignment explanation
Indices: 100139--100255 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 52
100129 GTTATTTCCG
*
100139 AGGGATACTCCAACCTCAG-TTTTA-TTTCTAAAACATAAATTTTCCGCAATC
1 AGGGATACTCCAACCTCAGATTTTATTTTC-AAAACATAAATTTTCCACAATC
* * *
100190 AGGGATACTCCAA-CTCTGATTTTATTTTCAAAACATCAATTTTTCACAATC
1 AGGGATACTCCAACCTCAGATTTTATTTTCAAAACATAAATTTTCCACAATC
*
100241 GGGGATACTCCAACC
1 AGGGATACTCCAACC
100256 CCGTTATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
50 4 0.07
51 49 0.84
52 5 0.09
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (52 bp):
AGGGATACTCCAACCTCAGATTTTATTTTCAAAACATAAATTTTCCACAATC
Found at i:100332 original size:51 final size:51
Alignment explanation
Indices: 100269--100388 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
100259 TTATTTCTGA
* * * * * *
100269 GGGGATACTCCAACCTCGACTTTCTTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTATAAAACATCGATTTCTCACAATC
* * * *
100320 GGGGATACTCCAACCCCGGCCTTATTTATAAAGCATCGATTTTTCACAATT
1 GGGGATACTCCAACCCCGACCTTATTTATAAAACATCGATTTCTCACAATC
100371 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
100389 TTATTTTCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACCTTATTTATAAAACATCGATTTCTCACAATC
Found at i:100362 original size:130 final size:127
Alignment explanation
Indices: 99952--100465 Score: 586
Period size: 130 Copynumber: 4.0 Consensus size: 127
99942 TCATTCATGT
* * * *
99952 TTTTATTTCCAAAACA-CTAATTTTTTACAATCGTGGATACTCCAA-CCTGTTATTTCCGAGGGA
1 TTTTATTT-TAAAACATC-AATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGA
* *
100015 TACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCCGA
64 TACTCCAACCTCAGTTTTATTTCTAAAACATCAA-TTTTCACAATCAGGGATACTCCAACCCCGA
* * *
100080 TTTTATTTCCAAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
1 TTTTATTT-TAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGAT
* * * *
100145 ACTCCAACCTCAGTTTTATTTCTAAAACATAAATTTTCCGCAATCAGGGATACTCCAACTCTGA
65 ACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTT-CACAATCAGGGATACTCCAACCCCGA
*
100209 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGA
1 TTTTATTTT-AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGA
* * * ** *
100274 TACTCCAACCTC-GACTTTCTTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
64 TACTCCAACCTCAG-TTTTATTTCTAAAACATCAATTT-TCACAATCAGGGATACTCCAACCCCG
*
100338 G
127 A
** * * * *
100339 CCTTATTTATAAAGCATCGATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
1 TTTTATTT-TAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGG-A
* * * * * *
100404 TACTCCAACCCCAATTTTATTT-TCAAAATATCGATTTTCTATAATCAAGGATACTCCAACCC
64 TACTCCAACCTCAGTTTTATTTCT-AAAACATCAATTTTC-ACAATCAGGGATACTCCAACCC
100466 TGTTATTTCC
Statistics
Matches: 339, Mismatches: 35, Indels: 22
0.86 0.09 0.06
Matches are distributed among these distances:
128 46 0.14
129 136 0.40
130 155 0.46
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (127 bp):
TTTTATTTTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGATA
CTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTCACAATCAGGGATACTCCAACCCCGA
Found at i:100456 original size:79 final size:79
Alignment explanation
Indices: 100373--100548 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 79
100363 TCACAATTGG
* * * *
100373 GGATACTCCAACCCCGTTATTTTCGAGGGAATACTCCAACCCCAATTTTATTTTCAAAATATCGA
1 GGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAATTTTATTTCCAAAACACCGA
*
100438 TTTTCTATAATCAA
66 TTTTCCATAATCAA
* * * * * *
100452 GGATACTCCAACCCTGTTATTTCCGAGGGGATACTCTAATCCCGATTTTATTTCCAGAACACCGA
1 GGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAATTTTATTTCCAAAACACCGA
*
100517 TTTTCCATAATCAG
66 TTTTCCATAATCAA
*
100531 GGATACTCCAGCCCCGTT
1 GGATACTCCAACCCCGTT
100549 GTTATCTCCA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 83 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCCGAGGGAATACTCCAACCCCAATTTTATTTCCAAAACACCGA
TTTTCCATAATCAA
Found at i:101973 original size:9 final size:9
Alignment explanation
Indices: 101959--102044 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
101949 AAAACAAAAG
101959 CAGCAGCAA
1 CAGCAGCAA
101968 CAGCAGCCATA
1 CAGCAG-CA-A
*
101979 CTAGCAACAA
1 C-AGCAGCAA
*
101989 CAACAGCAA
1 CAGCAGCAA
*
101998 CAAC-GACAA
1 CAGCAG-CAA
102007 CAGCA-C--
1 CAGCAGCAA
102013 CAGCAGCAA
1 CAGCAGCAA
* *
102022 TAGTAGCAA
1 CAGCAGCAA
*
102031 CAGCAACAA
1 CAGCAGCAA
102040 CAGCA
1 CAGCA
102045 ACAAACATCA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
6 5 0.08
7 1 0.02
8 2 0.03
9 40 0.67
10 4 0.07
11 4 0.07
12 4 0.07
ACGTcount: A:0.47, C:0.33, G:0.16, T:0.05
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:101992 original size:24 final size:24
Alignment explanation
Indices: 101957--102043 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 24
101947 GCAAAACAAA
*
101957 AGCAGCAGCAACAGCAGCCATACT
1 AGCAACAGCAACAGCAGCCATACT
* * *
101981 AGCAACAACAACAGCA-ACA-ACG
1 AGCAACAGCAACAGCAGCCATACT
* * *
102003 A-CAACAGCACCAGCAGCAATAGT
1 AGCAACAGCAACAGCAGCCATACT
*
102026 AGCAACAGCAACAACAGC
1 AGCAACAGCAACAGCAGC
102044 AACAAACATC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
21 12 0.25
22 4 0.08
23 4 0.08
24 28 0.58
ACGTcount: A:0.46, C:0.32, G:0.17, T:0.05
Consensus pattern (24 bp):
AGCAACAGCAACAGCAGCCATACT
Found at i:102006 original size:15 final size:15
Alignment explanation
Indices: 101983--102048 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
101973 GCCATACTAG
101983 CAACAACAACAGCAA
1 CAACAACAACAGCAA
*
101998 CAACGACAACAGCACCA
1 CAACAACAACAGCA--A
* * **
102015 GCAGCAATAGTAGCAA
1 -CAACAACAACAGCAA
*
102031 CAGCAACAACAGCAA
1 CAACAACAACAGCAA
102046 CAA
1 CAA
102049 ACATCAGTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
15 27 0.71
16 1 0.03
17 1 0.03
18 9 0.24
ACGTcount: A:0.52, C:0.32, G:0.14, T:0.03
Consensus pattern (15 bp):
CAACAACAACAGCAA
Found at i:108134 original size:166 final size:166
Alignment explanation
Indices: 107892--108287 Score: 478
Period size: 166 Copynumber: 2.4 Consensus size: 166
107882 AAATTATAGG
* * * * * *
107892 ATTTTCTTCTCCGTAAAATTTTTTGGGAGGA-TTTTCATGAGTTTAAAATTTTTAAAGTTCATAA
1 ATTTTCTACTCCATAAATTTTTTTGGG-GGATTTTTCTTG-GTTTAAAATTTTTAAAATTCATCA
* * * *
107956 AATATTATTATTTAATTCATATTAAATCAATTTTTAGAAATGCATTCATTTTCATGAGTTTTTGA
64 AATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATGCATTCATATTCATGAGTTTCT--
* *
108021 ATTTTTTTCTTGAAATTTTCC-TATT-TCCAAAATAC-GAA
127 ATTTTTTTCTTGAAATTTCCCTTATTATCCAAAAAACTG-A
**
108059 ATTTTCTACTCCATAAATTTTTTTGAGGGGATTTTTCTTGGTTTTTAA-TTTTAAAATTCATCAA
1 ATTTTCTACTCCATAAATTTTTTTG-GGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAA
* * * *
108123 ATATTATTATTTATTTCATATTCAATCAATTTTCAAAAATTCATTCATATTCATGAGTTTCTCTT
65 ATATTATTATTTAATTCATATTAAATCAATTTTCAAAAATGCATTCATATTCATGAGTTTCTATT
*
108188 TTTTTCTTGAAATTTCCCTTTTTATCCAAAAAACTGA
130 TTTTTCTTGAAATTTCCCTTATTATCCAAAAAACTGA
* * ** *
108225 GTTTTCTATTTTATAAATTTTGTTGGGGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATC
1 ATTTTCTACTCCATAAATTTT-TTTGGGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATC
108288 CAACATTTTC
Statistics
Matches: 196, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
164 19 0.10
165 3 0.02
166 116 0.59
167 49 0.25
168 9 0.05
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (166 bp):
ATTTTCTACTCCATAAATTTTTTTGGGGGATTTTTCTTGGTTTAAAATTTTTAAAATTCATCAAA
TATTATTATTTAATTCATATTAAATCAATTTTCAAAAATGCATTCATATTCATGAGTTTCTATTT
TTTTCTTGAAATTTCCCTTATTATCCAAAAAACTGA
Found at i:108884 original size:17 final size:17
Alignment explanation
Indices: 108864--108902 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
108854 ATAGAGAGAA
108864 AAAAAGAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAG
* *
108881 AAAAAGAGAGAAAAAAG
1 AAAAAGAAAAAAAAAAG
108898 AAAAA
1 AAAAA
108903 TTAAGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAG
Found at i:108895 original size:11 final size:11
Alignment explanation
Indices: 108850--108898 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 11
108840 TTGATCGGAA
108850 AAAAATAGAGAG
1 AAAAA-AGAGAG
108862 AAAAAA-AGA-
1 AAAAAAGAGAG
*
108871 AAAAAA-AAAG
1 AAAAAAGAGAG
108881 -AAAAAGAGAG
1 AAAAAAGAGAG
108891 AAAAAAGA
1 AAAAAAGA
108899 AAAATTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 13 0.41
10 6 0.19
11 8 0.25
12 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:110040 original size:166 final size:163
Alignment explanation
Indices: 109840--110239 Score: 391
Period size: 165 Copynumber: 2.4 Consensus size: 163
109830 AAATTACGGG
* *
109840 GTTTTCTTCTCTATAAATTTTTTCGGGAGGA-TTTTCATGGGTTTAAAATTTTTAAAATTCATCA
1 GTTTTCTACTCTATAAATTTTTTCGGGAGGATTTTTCATGGATTT-AAATTTTTAAAATTCATCA
* * * * * * *
109904 CATATTATTATTT-ATTTCATATTACATCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTG
65 AATATCATTATTTCA-TTCATATTAAATCA-TTTTAAAAAATTAAATCATTTTCATAAG--TTTG
109968 AATTTTTTCTTAAAATTCTCTTGTTTTCGAAAAATATA
126 AATTTTTTCTTAAAATTCTCTTGTTTTCGAAAAATATA
* * **
110006 GTTTTCTACTCTGT-AATTTTTTCCCGGG-GGATTTTTCTTGGATTTTTATTTTTAAAATTCATC
1 GTTTTCTACTCTATAAATTTTTT--CGGGAGGATTTTTCATGGATTTAAATTTTTAAAATTCATC
* *
110069 AAATATCATTATTTCATTCCTATTAAATCATTTTAAAAAATTAAATCATTTTCATAAGTTTGGAT
64 AAATATCATTATTTCATTCATATTAAATCATTTTAAAAAATTAAATCATTTTCATAAGTTTGAAT
* * * **
110134 TTTTTCTTTGAAATGC-CTTTTTTTCTAGAAAAATCGA
129 TTTTTC-TTAAAATTCTCTTGTTTTC--GAAAAATATA
* * * * * * *
110171 GTTTTATACTCCATAAATTTTTTTGGG-GCAATTTTT-TTCGATTTAAAATTTTTAGAATTCATC
1 GTTTTCTACTCTATAAATTTTTTCGGGAG-GATTTTTCATGGATTT-AAATTTTTAAAATTCATC
*
110234 TAATAT
64 AAATAT
110240 TGTCATTAAA
Statistics
Matches: 194, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
163 20 0.10
164 18 0.09
165 77 0.40
166 63 0.32
167 16 0.08
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50
Consensus pattern (163 bp):
GTTTTCTACTCTATAAATTTTTTCGGGAGGATTTTTCATGGATTTAAATTTTTAAAATTCATCAA
ATATCATTATTTCATTCATATTAAATCATTTTAAAAAATTAAATCATTTTCATAAGTTTGAATTT
TTTCTTAAAATTCTCTTGTTTTCGAAAAATATA
Found at i:110831 original size:13 final size:12
Alignment explanation
Indices: 110803--110869 Score: 59
Period size: 11 Copynumber: 5.6 Consensus size: 12
110793 TCTTCAGTTG
110803 AAAAAGAGAG-A
1 AAAAAGAGAGAA
110814 AAAAAGAGAGAA
1 AAAAAGAGAGAA
*
110826 AGAAAAGAAAGGAA
1 A-AAAAGAGA-GAA
*
110840 AAAAAGA-AAAA
1 AAAAAGAGAGAA
*
110851 GAAAAAGA-AAAA
1 -AAAAAGAGAGAA
110863 AAAAAGA
1 AAAAAGA
110870 CAAATTAGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
11 19 0.38
12 14 0.28
13 13 0.26
14 4 0.08
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAGAA
Found at i:110831 original size:24 final size:23
Alignment explanation
Indices: 110804--110866 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
110794 CTTCAGTTGA
*
110804 AAAAGAGAGAAAAAAGAGAGAAAG
1 AAAAGAGAGAAAAAA-AGAAAAAG
*
110828 AAAAGAAAGGAAAAAAAGAAAAAG
1 AAAAGAGA-GAAAAAAAGAAAAAG
*
110852 AAAA-AGAAAAAAAAA
1 AAAAGAGAGAAAAAAA
110867 AGACAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 7 0.21
23 2 0.06
24 18 0.53
25 7 0.21
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAAGAGAGAAAAAAAGAAAAAG
Found at i:110851 original size:6 final size:6
Alignment explanation
Indices: 110814--110869 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
110804 AAAAGAGAGA
110814 AAAAAG AGAGAAAG -AAAAG AAAGGAA- AAAAAG AAAAAG AAAAAG AAAAA-
1 AAAAAG A-A-AAAG AAAAAG AAA--AAG AAAAAG AAAAAG AAAAAG AAAAAG
110863 AAAAAG A
1 AAAAAG A
110870 CAAATTAGGA
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 11 0.26
6 22 0.51
7 4 0.09
8 6 0.14
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:115090 original size:18 final size:18
Alignment explanation
Indices: 115067--115101 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
115057 AGATACTGCC
115067 TTAATTTT-TCTAAAAATT
1 TTAATTTTAT-TAAAAATT
115085 TTAATTTTATTAAAAAT
1 TTAATTTTATTAAAAAT
115102 ATTGATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTTTATTAAAAATT
Found at i:117111 original size:5 final size:5
Alignment explanation
Indices: 117065--117095 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
117055 ACTTTCATGA
117065 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
117096 ATGATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:117120 original size:20 final size:19
Alignment explanation
Indices: 117069--117111 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 19
117059 TCATGATTTA
117069 TTTTATTTTATT-T--TA-
1 TTTTATTTTATTATGATAT
117084 TTTTATTTTATTATGATAT
1 TTTTATTTTATTATGATAT
117103 TTTTATTTT
1 TTTTATTTT
117112 TGATTTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
18 2 0.08
19 9 0.38
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTTATTATGATAT
Found at i:117931 original size:80 final size:81
Alignment explanation
Indices: 117831--118004 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 81
117821 AGGTGAGCTG
* * * * * *
117831 GGCTAAACCATTATAATTAACTAAAAATGGGGTTAACCAGGGTTAAACCATTACAATCAACAAGT
1 GGCTAAACCATTACAATTAACTAAAAAAGGAGTTAACCAAGGATAAACCATTACAATAAACAAGT
**
117896 TAGAAGG-TTGACCAA
66 TAGAAGGATCAACCAA
* * *
117911 GGCTAAACCATTACAGTTAACTAAAAAAGGAGTTAACCAAGGATAAACCATTATAGTAAACAAGT
1 GGCTAAACCATTACAATTAACTAAAAAAGGAGTTAACCAAGGATAAACCATTACAATAAACAAGT
* *
117976 TAGAGGGATCAACCAG
66 TAGAAGGATCAACCAA
117992 GGCTAAACCATTA
1 GGCTAAACCATTA
118005 TAGTCAACAA
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 62 0.77
81 18 0.22
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.22
Consensus pattern (81 bp):
GGCTAAACCATTACAATTAACTAAAAAAGGAGTTAACCAAGGATAAACCATTACAATAAACAAGT
TAGAAGGATCAACCAA
Found at i:117999 original size:41 final size:41
Alignment explanation
Indices: 117863--118206 Score: 201
Period size: 41 Copynumber: 8.5 Consensus size: 41
117853 AAAAATGGGG
* * * * *
117863 TTAACCAGGGTTAAACCATTACAATCAACAAGTTAGAAGG-
1 TTAACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGGGA
* * * * *
117903 TTGACCAAGGCTAAACCATTACAGTTAACTAA---AAAAGGA
1 TTAACCAAGGCTAAACCATTATAGTCAAC-AAGTTAGAGGGA
* *
117942 GTTAACCAAGGATAAACCATTATAGTAAACAAGTTAGAGGGA
1 -TTAACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGGGA
* * * *
117984 TCAACCAGGGCTAAACCATTATAGTCAACAAGCTAGATAGG-
1 TTAACCAAGGCTAAACCATTATAGTCAACAAGTTAGA-GGGA
* * * * ** *
118025 TTGACCAGGGCTAAACCATTAAAGTTTATTAA--AAGAGGGA
1 TTAACCAAGGCTAAACCATTATAG-TCAACAAGTTAGAGGGA
* * *
118065 TTGACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGTGC
1 TTAACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGGGA
* * * * * *
118106 TTGATCAAGGCTAAACCATTACAATTAACTAA---AGAGATG-
1 TTAACCAAGGCTAAACCATTATAGTCAAC-AAGTTAGAG-GGA
* * *
118145 TTGA-CTAGTGCTAAACCAATATAGTCAACAAGTTAGAGAGG-
1 TTAACCAAG-GCTAAACCATTATAGTCAACAAGTTAGAG-GGA
*
118186 TTAACTAAGGCTAAACCATTA
1 TTAACCAAGGCTAAACCATTA
118207 CAGCCAACTA
Statistics
Matches: 238, Mismatches: 48, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
38 10 0.04
39 32 0.13
40 76 0.32
41 105 0.44
42 15 0.06
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (41 bp):
TTAACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGGGA
Found at i:118058 original size:122 final size:121
Alignment explanation
Indices: 117865--118130 Score: 345
Period size: 122 Copynumber: 2.2 Consensus size: 121
117855 AAATGGGGTT
* * *
117865 AACCAGGGTTAAACCATTACAATCAACAAGTTAGAAGGTTGACCAAGGCTAAACCATTACAGTTA
1 AACCAGGGCTAAACCATTACAATCAACAAGCTAGAAGGTTGACCAAGGCTAAACCATTAAAGTTA
117930 ACTAAAAAA-GGAGTTAACCAAGGATAAACCATTATAGTAAACAAGTTAGAGGGATC
66 ACTAAAAAAGGGA-TTAACCAAGGATAAACCATTATAGTAAACAAGTTAGAGGGATC
* * *
117986 AACCAGGGCTAAACCATTATAGTCAACAAGCTAGATAGGTTGACCAGGGCTAAACCATTAAAGTT
1 AACCAGGGCTAAACCATTACAATCAACAAGCTAGA-AGGTTGACCAAGGCTAAACCATTAAAGTT
* * * * * * * * *
118051 TATTAAAAGAGGGATTGACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGTGCTT
65 AACTAAAAAAGGGATTAACCAAGGATAAACCATTATAGTAAACAAGTTAGAGGGATC
* * *
118108 GATCAAGGCTAAACCATTACAAT
1 AACCAGGGCTAAACCATTACAAT
118131 TAACTAAAGA
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
121 31 0.25
122 89 0.72
123 3 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (121 bp):
AACCAGGGCTAAACCATTACAATCAACAAGCTAGAAGGTTGACCAAGGCTAAACCATTAAAGTTA
ACTAAAAAAGGGATTAACCAAGGATAAACCATTATAGTAAACAAGTTAGAGGGATC
Found at i:118063 original size:81 final size:80
Alignment explanation
Indices: 117977--118208 Score: 263
Period size: 81 Copynumber: 2.9 Consensus size: 80
117967 TAAACAAGTT
** * *
117977 AGAGGGATCAACCAGGGCTAAACCATTATAGTCAACAAGCTAGATAGGTTGACCAGGGCTAAACC
1 AGAGGGATTGACCAGGGCTAAACCATTATAGTCAACAAGTTAGATAGGTTGACCAAGGCTAAACC
* *
118042 ATTA-AAGTTTATTAAA
66 ATTACAA-TTAACT-AA
* * *
118058 AGAGGGATTGACCAAGGCTAAACCATTATAGTCAACAAGTTAGAGT-GCTTGATCAAGGCTAAAC
1 AGAGGGATTGACCAGGGCTAAACCATTATAGTCAACAAGTTAGA-TAGGTTGACCAAGGCTAAAC
118122 CATTACAATTAACTAA
65 CATTACAATTAACTAA
* * * * * * *
118138 AGAGATG-TTGACTAGTGCTAAACCAATATAGTCAACAAGTTAGAGAGGTTAACTAAGGCTAAAC
1 AGAG-GGATTGACCAGGGCTAAACCATTATAGTCAACAAGTTAGATAGGTTGACCAAGGCTAAAC
118202 CATTACA
65 CATTACA
118209 GCCAACTAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
80 60 0.47
81 65 0.51
82 3 0.02
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (80 bp):
AGAGGGATTGACCAGGGCTAAACCATTATAGTCAACAAGTTAGATAGGTTGACCAAGGCTAAACC
ATTACAATTAACTAA
Found at i:118099 original size:202 final size:202
Alignment explanation
Indices: 117830--118206 Score: 471
Period size: 202 Copynumber: 1.9 Consensus size: 202
117820 AAGGTGAGCT
* * *
117830 GGGCTAAACCATTATAATTAACTAAAAATGGGGTTAACCAGGGTTAAACCATTACAATCAACAAG
1 GGGCTAAACCATTATAATTAACTAAAAATGGGATTAACCAAGGCTAAACCATTACAATCAACAAG
*
117895 TTAGAAG-G-TTGACCAAGGCTAAACCATTACAGTTAACTAAAAAAGGA-GTTAACCAAG-GATA
66 TTAG-AGTGCTTGACCAAGGCTAAACCATTACAATTAACT-AAAAA-GATGTTAA-CAAGTGATA
* *
117956 AACCATTATAGTAAACAAGTTAGAG-GGATCAACCAGGGCTAAACCATTATAGTCAACAAGCTAG
127 AACCAATATAGTAAACAAGTTAGAGAGG-TCAACCAAGGCTAAACCATTATAGTCAACAAGCTAG
118020 ATAGGTTGACCA
191 ATAGGTTGACCA
* * * * *
118032 GGGCTAAACCATTA-AAGTTTATTAAAAGA-GGGATTGACCAAGGCTAAACCATTATAGTCAACA
1 GGGCTAAACCATTATAA-TTAACTAAAA-ATGGGATTAACCAAGGCTAAACCATTACAATCAACA
* * * * *
118095 AGTTAGAGTGCTTGATCAAGGCTAAACCATTACAATTAACTAAAGAGATGTTGACTAGTGCTAAA
64 AGTTAGAGTGCTTGACCAAGGCTAAACCATTACAATTAACTAAAAAGATGTTAACAAGTGATAAA
* * *
118160 CCAATATAGTCAACAAGTTAGAGAGGTTAACTAAGGCTAAACCATTA
129 CCAATATAGTAAACAAGTTAGAGAGGTCAACCAAGGCTAAACCATTA
118207 CAGCCAACTA
Statistics
Matches: 149, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
201 9 0.06
202 109 0.73
203 31 0.21
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (202 bp):
GGGCTAAACCATTATAATTAACTAAAAATGGGATTAACCAAGGCTAAACCATTACAATCAACAAG
TTAGAGTGCTTGACCAAGGCTAAACCATTACAATTAACTAAAAAGATGTTAACAAGTGATAAACC
AATATAGTAAACAAGTTAGAGAGGTCAACCAAGGCTAAACCATTATAGTCAACAAGCTAGATAGG
TTGACCA
Found at i:118541 original size:41 final size:41
Alignment explanation
Indices: 118507--118676 Score: 178
Period size: 41 Copynumber: 4.1 Consensus size: 41
118497 GCTAAAGTAG
* *
118507 TACAACCAACAAGTTATAGGGGTTAACCAGGGCTAAACAAT
1 TACAATCAACAAGTTAGAGGGGTTAACCAGGGCTAAACAAT
* * **
118548 TACAATCAATAAGTTAGAGGAGTTAATTAGGGCTAAACAAT
1 TACAATCAACAAGTTAGAGGGGTTAACCAGGGCTAAACAAT
** * *
118589 TACAATCAACAAGTTAGACTGGTTAACCAGGGCTAGACTAT
1 TACAATCAACAAGTTAGAGGGGTTAACCAGGGCTAAACAAT
* * * ** ** *
118630 TACAGTCAATAAGTTAAAGGGGTTGGCCAGGTTTAAACCAT
1 TACAATCAACAAGTTAGAGGGGTTAACCAGGGCTAAACAAT
118671 TACAAT
1 TACAAT
118677 TAATTAAAAT
Statistics
Matches: 103, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (41 bp):
TACAATCAACAAGTTAGAGGGGTTAACCAGGGCTAAACAAT
Found at i:118667 original size:82 final size:82
Alignment explanation
Indices: 118507--118676 Score: 196
Period size: 82 Copynumber: 2.1 Consensus size: 82
118497 GCTAAAGTAG
* * * *
118507 TACAACCAACAAGTTATAGGGGTTAACCAGGGCTAAACAATTACAATCAATAAGTTAGAGGAGTT
1 TACAATCAACAAGTTAGACGGGTTAACCAGGGCTAAACAATTACAATCAATAAGTTAAAGGAGTT
**
118572 AATTAGGGCTAAACAAT
66 AACCAGGGCTAAACAAT
* * * * *
118589 TACAATCAACAAGTTAGACTGGTTAACCAGGGCTAGACTATTACAGTCAATAAGTTAAAGGGGTT
1 TACAATCAACAAGTTAGACGGGTTAACCAGGGCTAAACAATTACAATCAATAAGTTAAAGGAGTT
** ** *
118654 GGCCAGGTTTAAACCAT
66 AACCAGGGCTAAACAAT
118671 TACAAT
1 TACAAT
118677 TAATTAAAAT
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (82 bp):
TACAATCAACAAGTTAGACGGGTTAACCAGGGCTAAACAATTACAATCAATAAGTTAAAGGAGTT
AACCAGGGCTAAACAAT
Found at i:119972 original size:11 final size:11
Alignment explanation
Indices: 119958--119987 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
119948 AAAAATGTAT
119958 TTTTTTGTTTG
1 TTTTTTGTTTG
*
119969 TTTTTTGTTTT
1 TTTTTTGTTTG
119980 TTTTTTGT
1 TTTTTTGT
119988 AAGCCTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTGTTTG
Found at i:123081 original size:20 final size:20
Alignment explanation
Indices: 123021--123074 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
123011 TTTTACAATT
*
123021 TGTATTGATACAATAAGTTAA
1 TGTATTGATAC-ATAAGTGAA
123042 TGTATTGATACATAAGTGAA
1 TGTATTGATACATAAGTGAA
123062 TGTATTGATACAT
1 TGTATTGATACAT
123075 GCTTGAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATTGATACATAAGTGAA
Found at i:127455 original size:28 final size:27
Alignment explanation
Indices: 127421--127523 Score: 109
Period size: 28 Copynumber: 3.7 Consensus size: 27
127411 CAACTTCTGT
* *
127421 GGCTTTAAAAGGGTGCTACTGACTAAGG
1 GGCTTTAAAAGGATGCCACTGACT-AGG
* **
127449 GGCTTTAAAAGGATGCCATTGACTTATA
1 GGCTTTAAAAGGATGCCACTGAC-TAGG
*
127477 GGCTTTAAAAGGATGCCACTGACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTAG-G
127505 GGCTTTGAAAAGG-TGCCAC
1 GGCTTT-AAAAGGATGCCAC
127524 CAACTTGTGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
27 1 0.02
28 55 0.87
29 7 0.11
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (27 bp):
GGCTTTAAAAGGATGCCACTGACTAGG
Found at i:127567 original size:29 final size:28
Alignment explanation
Indices: 127498--127685 Score: 126
Period size: 28 Copynumber: 6.6 Consensus size: 28
127488 GATGCCACTG
* *
127498 ACTTGTGGGCTTTGAAAAGGTGCCACCA
1 ACTTGTGAGCTTTGAAAAGGTACCACCA
* **
127526 ACTTGTGGGCTTTGAAAATGGTACCATTA
1 ACTTGTGAGCTTTGAAAA-GGTACCACCA
* * * *
127555 ACTTTTGAGCTTTG-GAAGGGAGCCACTA
1 ACTTGTGAGCTTTGAAAAGGTA-CCACCA
* * * * *
127583 ATTTGTGGGCTTTGAAAGGGTGCCACCG
1 ACTTGTGAGCTTTGAAAAGGTACCACCA
* * * *
127611 ACTCGTGGGCTTTGAAAAGATACCACCG
1 ACTTGTGAGCTTTGAAAAGGTACCACCA
* * *
127639 ACTCGTGGGCTTTGAAAAAAAGATACCACCA
1 ACTTGTGAGCTTTG---AAAAGGTACCACCA
*
127670 ACTTGTGGGCTTTGAA
1 ACTTGTGAGCTTTGAA
127686 GGGGGTTGCC
Statistics
Matches: 130, Mismatches: 24, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
27 3 0.02
28 79 0.61
29 22 0.17
31 26 0.20
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (28 bp):
ACTTGTGAGCTTTGAAAAGGTACCACCA
Found at i:127567 original size:113 final size:113
Alignment explanation
Indices: 127450--127656 Score: 263
Period size: 113 Copynumber: 1.8 Consensus size: 113
127440 TGACTAAGGG
* * * *
127450 GCTTT-AAAAGGATGCCATTGACTTATAGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAA
1 GCTTTGAAAAGGA-GCCACTAACTTATAGGCTTTAAAAGGATGCCACCGACTCGTGGGCTTTGAA
* * *
127514 AAGGTGCCACCAACTTGTGGGCTTTGAAAATGGTACCATTAACTTTTGA
65 AAGATACCACCAACTCGTGGGCTTTGAAAATGGTACCATTAACTTTTGA
* * * * * * *
127563 GCTTTGGAAGGGAGCCACTAATTTGTGGGCTTTGAAAGGGTGCCACCGACTCGTGGGCTTTGAAA
1 GCTTTGAAAAGGAGCCACTAACTTATAGGCTTTAAAAGGATGCCACCGACTCGTGGGCTTTGAAA
*
127628 AGATACCACCGACTCGTGGGCTTTGAAAA
66 AGATACCACCAACTCGTGGGCTTTGAAAA
127657 AAAGATACCA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
113 73 0.94
114 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (113 bp):
GCTTTGAAAAGGAGCCACTAACTTATAGGCTTTAAAAGGATGCCACCGACTCGTGGGCTTTGAAA
AGATACCACCAACTCGTGGGCTTTGAAAATGGTACCATTAACTTTTGA
Found at i:127661 original size:31 final size:30
Alignment explanation
Indices: 127605--127685 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 30
127595 TGAAAGGGTG
127605 CCACCGACTCGTGGGCTTTG--AAAAGATA
1 CCACCGACTCGTGGGCTTTGAAAAAAGATA
127633 CCACCGACTCGTGGGCTTTGAAAAAAAGATA
1 CCACCGACTCGTGGGCTTTG-AAAAAAGATA
* *
127664 CCACCAACTTGTGGGCTTTGAA
1 CCACCGACTCGTGGGCTTTGAA
127686 GGGGGTTGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 20 0.42
30 2 0.04
31 26 0.54
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (30 bp):
CCACCGACTCGTGGGCTTTGAAAAAAGATA
Found at i:128041 original size:31 final size:30
Alignment explanation
Indices: 127311--128876 Score: 975
Period size: 30 Copynumber: 51.9 Consensus size: 30
127301 AAGGAGATGG
* *
127311 CACCAACTTGTGTGAGCTTTAGAGAAGGGTTAC
1 CACCAACTTGTGTGGGCTTTA-A-AAGGG-TGC
* ** * *
127344 CACTAGTTTGTATAGGCTTTGAAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGG-TGC
* ** *
127376 TACCGGCTTGTGTGGGGTTTAAAAAGAGGTGC
1 CACCAACTTGTGTGGGCTTT-AAAAG-GGTGC
*
127408 CACCAACTTCTGT-GGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* ** ** *
127437 TACTGAC-TAAG-GGGCTTTAAAAGGATGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
*** * * *
127465 CATTGAC-T-TATAGGCTTTAAAAGGATGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
**
127493 CACTGAC-T-TGTGGGCTTTGAAAA-GGTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGGTGC
* *
127521 CACCAAC-T-TGTGGGCTTTGAAAATGGTAC
1 CACCAACTTGTGTGGGCTTT-AAAAGGGTGC
** * ** *
127550 CATTAACTT-T-TGAGCTTTGGAAGGGAGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* *
127578 CACTAA-TT-TGTGGGCTTTGAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* * * *
127606 CACCGAC-T-CGTGGGCTTTGAAAA-GATAC
1 CACCAACTTGTGTGGGCTTT-AAAAGGGTGC
* * * * *
127634 CACCGAC-T-CGTGGGCTTTGAAAAAAAGATAC
1 CACCAACTTGTGTGGGCTTT---AAAAGGGTGC
**
127665 CACCAAC-T-TGTGGGCTTTGAAGGGGGTTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGG-TGC
** *
127695 CACTGACTTGTGTGGACTTTAGAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTA-AAAGGG-TGC
* *
127727 CACCAACTTGTGTGTGCTTTAGAAAAGGCTGC
1 CACCAACTTGTGTGGGCTTT--AAAAGGGTGC
* * * *
127759 CACCAACTTATGTGGACTTTAGAAGAGGTTTC
1 CACCAACTTGTGTGGGCTTTA-AA-AGGGTGC
* *
127791 CACCAACTTGTGTGGGCTTCTGAAAAAAAGATGC
1 CACCAACTTGTGTGGGCTT-T---AAAAGGGTGC
* * * * **
127825 CAACGACTTATGTGGACTTTGAAGGGGGTTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGG-TGC
* * * *
127857 CACCGACTTATGTGGACTTTAGAAAGGATGC
1 CACCAACTTGTGTGGGCTTTA-AAAGGGTGC
*** * * *
127888 CATTGAC-T-TATGGGCATTAAAAAGGGTGT
1 CACCAACTTGTGTGGGC-TTTAAAAGGGTGC
* *
127917 CACTAAC-T-TGTAGGCTTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGC-TTTAAAAGGGTGC
* * *
127946 CACTAAC-T-TGTGGGCTTTGAGAATGGTTGC
1 CACCAACTTGTGTGGGCTTT-A-AAAGGGTGC
* *
127976 CATCGACTTGTGTGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
*
128006 CACCAACTTATGTGGGCTTTAAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGG-TGC
*
128037 CACCAACTTGTGTAGGCTTTAAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGG-TGC
*
128068 CACCAACTTGTGTGGGCTTTAAAAGGGTGT
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* **
128098 TACTGACTTGTGTGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* * * *
128128 CATCAGCTTGTTTGGGCTTTAAAAAGGTTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGGTGC
* * **
128159 CACCGACTTGTATGGGCTTTAAAAAAGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
128189 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* * * **
128219 CATCGACTTGTGTGGGCTTAAAAAATGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* *
128249 CACCAACTTGTAT-CGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* * * *
128278 CACCAACTTATGTAGGCTTTAAAATGGTGT
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
*
128308 CACCAATTTGTGTGGGCTTTAAAAGGGTTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGG-TGC
* *
128339 CACCAGCTTGTGTGGGCTTTAAAGGGGTCGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGT-GC
*** * *
128370 CATTGAC-TAT-TGGGCTTTAGAAAAGGTTGC
1 CACCAACTTGTGTGGGCTTT--AAAAGGGTGC
* * *
128400 CACCAGCATGTGTAGGCTTTAGAAA-GGTGC
1 CACCAACTTGTGTGGGCTTTA-AAAGGGTGC
* *
128430 CACTAAC-T-TGTGGGCTTTGAGAAGGGTTGC
1 CACCAACTTGTGTGGGCTTT-AAAAGGG-TGC
** * *
128460 CACTGACTTGTATGGACTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* *
128490 CACTAACTTGTGTGGGCTTTAAAAGGTTTGC
1 CACCAACTTGTGTGGGCTTTAAAAGG-GTGC
*
128521 CACCAACTTGTGTGGCCTTTAAAAGGGGTTGC
1 CACCAACTTGTGTGGGCTTTAAAA-GGG-TGC
* *
128553 CA-CAGACTTATATGGGCTTTAAAAGGGTTGC
1 CACCA-ACTTGTGTGGGCTTTAAAAGGG-TGC
* * *
128584 CACCGACTTGTGTGAGCTTTAAAAAGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
**
128614 CACCAACTTGTGTGGGCTCAAAAAGGGGTTGC
1 CACCAACTTGTGTGGGCTTTAAAA-GGG-TGC
* *
128646 CACCGACTTATGTGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* * *
128676 CACCAACTTATGTAGGCTTTAAAAAGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* ** *
128706 CACCGACTTGTGTAAGCTTTAAAAGTGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
* *
128736 CACCGACTTGTATGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
** *
128766 CACTGAC-T-TGTGGGCTTTTAAAAGGATGC
1 CACCAACTTGTGTGGGC-TTTAAAAGGGTGC
** * *
128795 CACTGAC-T-TATGGGCTTTGAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
***
128823 CATTGAC-T-TGTGGGCTTTAAAAGGGTGC
1 CACCAACTTGTGTGGGCTTTAAAAGGGTGC
***
128851 CACTGGC-T-TGTGGGCTTTAAAAGGGT
1 CACCAACTTGTGTGGGCTTTAAAAGGGT
128877 ACCATGTAGT
Statistics
Matches: 1235, Mismatches: 243, Indels: 115
0.78 0.15 0.07
Matches are distributed among these distances:
27 3 0.00
28 219 0.18
29 146 0.12
30 374 0.30
31 235 0.19
32 210 0.17
33 24 0.02
34 21 0.02
35 2 0.00
36 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (30 bp):
CACCAACTTGTGTGGGCTTTAAAAGGGTGC
Found at i:128047 original size:61 final size:61
Alignment explanation
Indices: 127358--128876 Score: 1060
Period size: 61 Copynumber: 25.2 Consensus size: 61
127348 AGTTTGTATA
* * * *
127358 GGCTTTGAAAAGGGTTGCTACCGGCTTGTGTGGGGTTTAAAAAGAGGTGCCACCAACTTCTGT-
1 GGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAAG-GGTGCCACCAACTTATGTG
* * ** * *** *
127421 GGCTTTAAAAGGG-TGCTACTGAC-TAAG-GGGCTTTAAAAGGATGCCATTGACTTA--TA
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* *
127477 GGCTTTAAAA-GGATGCCACTGAC-T-TGTGGGCTTTGAAAA-GGTGCCACCAAC-T-TGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGGTGCCACCAACTTATGTG
* * *** * ** * *
127533 GGCTTTGAAAATGG-TACCATTAACTT-T-TGAGCTTTGGAAGGGAGCCACTAA-TT-TGTG
1 GGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * * * * *
127590 GGCTTTGAAAGGG-TGCCACCGAC-T-CGTGGGCTTTGAAAA-GATACCACCGAC-T-CGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGGTGCCACCAACTTATGTG
** * * * ** ** *
127646 GGCTTTGAAAAAAAGATACCACCAAC-T-TGTGGGCTTTGAAGGGGGTTGCCACTGACTTGTGTG
1 GGCTTT--AAAAGGGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGG-TGCCACCAACTTATGTG
* * * *
127709 GACTTTAGAAAGGGTTGCCACCAACTTGTGTGTGCTTTAGAAAAGGCTGCCACCAACTTATGTG
1 GGCTTTA-AAAGGGTTGCCACCGACTTGTGTGGGCTTT--AAAAGGGTGCCACCAACTTATGTG
* * * * * * * *
127773 GACTTTAGAAGAGGTTTCCACCAACTTGTGTGGGCTTCTGAAAAAAAGATGCCAACGACTTATGT
1 GGCTTTAAAAG-GGTTGCCACCGACTTGTGTGGGCTT-T---AAAAGGGTGCCACCAACTTATGT
127838 G
61 G
* ** * * * ***
127839 GACTTTGAAGGGGGTTGCCACCGACTTATGTGGACTTTAGAAAGGATGCCATTGACTTA--TG
1 GGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTA-AAAGGGTGCCACCAACTTATGTG
* * ** * *
127900 GGCATTAAAAAGGG-TGTCACTAAC-T-TGTAGGCTTTTAAAAGGGTGCCACTAAC-T-TGTG
1 GGC-TTTAAAAGGGTTGCCACCGACTTGTGTGGGC-TTTAAAAGGGTGCCACCAACTTATGTG
* * *
127958 GGCTTTGAGAATGGTTGCCATCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
1 GGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * *
128020 GGCTTTAAAAGGGTTGCCACCAACTTGTGTAGGCTTTAAAAGGGTTGCCACCAACTTGTGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGG-TGCCACCAACTTATGTG
** * * * * *
128082 GGCTTTAAAAGGG-TGTTACTGACTTGTGTGGGCTTTAAAAGGGTGCCATCAGCTTGTTTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * ** *
128142 GGCTTTAAAAAGGTTGCCACCGACTTGTATGGGCTTTAAAAAAGTGCCACCAACTTGTGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * ** * *
128203 GGCTTTAAAAGGG-TGCCATCGACTTGTGTGGGCTTAAAAAATGTGCCACCAACTTGTAT-
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * * * * * * *
128262 CGCTTTAAAAGGG-TGCCACCAACTTATGTAGGCTTTAAAATGGTGTCACCAATTTGTGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* ***
128322 GGCTTTAAAAGGGTTGCCACC-AGCTTGTGTGGGCTTTAAAGGGGTCGCCATTGAC-TAT-TG
1 GGCTTTAAAAGGGTTGCCACCGA-CTTGTGTGGGCTTTAAAAGGGT-GCCACCAACTTATGTG
* * * *
128382 GGCTTTAGAAAAGGTTGCCACC-AGCATGTGTAGGCTTTAGAAA-GGTGCCACTAAC-T-TGTG
1 GGCTTTA-AAAGGGTTGCCACCGA-CTTGTGTGGGCTTTA-AAAGGGTGCCACCAACTTATGTG
* * * * * *
128442 GGCTTTGAGAAGGGTTGCCACTGACTTGTATGGACTTTAAAAGGGTGCCACTAACTTGTGTG
1 GGCTTT-AAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * * *
128504 GGCTTTAAAAGGTTTGCCACCAACTTGTGTGGCCTTTAAAAGGGGTTGCCA-CAGACTTATATG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAA-GGG-TGCCACCA-ACTTATGTG
* * *
128567 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGAGCTTTAAAAAGGTGCCACCAACTTGTGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
** * *
128628 GGCTCAAAAAGGGGTTGCCACCGACTTATGTGGGCTTTAAAAGGGTGCCACCAACTTATGTA
1 GGCTTTAAAA-GGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* ** * * * *
128690 GGCTTTAAAAAGG-TGCCACCGACTTGTGTAAGCTTTAAAAGTGTGCCACCGACTTGTATG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
* * **
128750 GGCTTTAAAAGGG-TGCCACTGAC-T-TGTGGGCTTTTAAAAGGATGCCACTGACTTA--TG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGC-TTTAAAAGGGTGCCACCAACTTATGTG
* ** ***
128807 GGCTTTGAAAGGG-TGCCATTGAC-T-TGTGGGCTTTAAAAGGGTGCCACTGGC-T-TGTG
1 GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
128863 GGCTTTAAAAGGGT
1 GGCTTTAAAAGGGT
128877 ACCATGTAGT
Statistics
Matches: 1177, Mismatches: 216, Indels: 132
0.77 0.14 0.09
Matches are distributed among these distances:
55 7 0.01
56 110 0.09
57 88 0.07
58 46 0.04
59 110 0.09
60 229 0.19
61 253 0.21
62 141 0.12
63 83 0.07
64 53 0.05
65 7 0.01
66 48 0.04
67 2 0.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (61 bp):
GGCTTTAAAAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAGGGTGCCACCAACTTATGTG
Found at i:128984 original size:34 final size:33
Alignment explanation
Indices: 128896--129089 Score: 162
Period size: 34 Copynumber: 5.9 Consensus size: 33
128886 TTGTGGACTT
* * * *
128896 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1 AAAAGGTTGCCATGGAGTTGTGGACTTTAATAG
** *
128929 GGAAGG-TGCCACGGAGTTGTGGACTTTAATAG
1 AAAAGGTTGCCATGGAGTTGTGGACTTTAATAG
** *
128961 AAAAAATGTGCTATGGAGTTGTGGAC-TTAA-AG
1 AAAAGGT-TGCCATGGAGTTGTGGACTTTAATAG
** * *
128993 GGAAGG-TGCCATAGAATTGTGGACTTTAATAG
1 AAAAGGTTGCCATGGAGTTGTGGACTTTAATAG
* * * *
129025 AAAAAGGTTACCACGGAGTTGTGGACTTCAACAG
1 -AAAAGGTTGCCATGGAGTTGTGGACTTTAATAG
*
129059 AAAATGGTTGCCTTGGAGTTGTGGACTTTAA
1 AAAA-GGTTGCCATGGAGTTGTGGACTTTAA
129090 AAAGAAATGC
Statistics
Matches: 125, Mismatches: 29, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
30 15 0.12
31 4 0.03
32 32 0.26
33 16 0.13
34 58 0.46
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (33 bp):
AAAAGGTTGCCATGGAGTTGTGGACTTTAATAG
Found at i:129043 original size:64 final size:65
Alignment explanation
Indices: 128896--129052 Score: 210
Period size: 64 Copynumber: 2.4 Consensus size: 65
128886 TTGTGGACTT
* * *
128896 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGGAAGGTGCCACGGAGTTGTGGACTTTAATAG
1 AAAAGGTTGCCACGGAGTTGTGGACTT-AAAAGGGAAGGTGCCACAGAATTGTGGACTTTAATAG
128961 A
65 A
* * * *
128962 AAAA-ATGTGCTATGGAGTTGTGGACTT-AAAGGGAAGGTGCCATAGAATTGTGGACTTTAATAG
1 AAAAGGT-TGCCACGGAGTTGTGGACTTAAAAGGGAAGGTGCCACAGAATTGTGGACTTTAATAG
129025 A
65 A
*
129026 AAAAGGTTACCACGGAGTTGTGGACTT
1 AAAAGGTTGCCACGGAGTTGTGGACTT
129053 CAACAGAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
64 55 0.71
65 1 0.01
66 22 0.28
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.25
Consensus pattern (65 bp):
AAAAGGTTGCCACGGAGTTGTGGACTTAAAAGGGAAGGTGCCACAGAATTGTGGACTTTAATAGA
Found at i:129098 original size:34 final size:31
Alignment explanation
Indices: 128878--129096 Score: 144
Period size: 34 Copynumber: 6.9 Consensus size: 31
128868 TAAAAGGGTA
*
128878 CCATGTAGTTGTGGACTT-AAAAG---GGTG
1 CCATGGAGTTGTGGACTTAAAAAGAAAGGTG
* *
128905 CCACGGAGTTGTGGACTTAAAAAGGGAAGGTG
1 CCATGGAGTTGTGGACTTAAAAA-GAAAGGTG
* * *
128937 CCACGGAGTTGTGGACTTTAATAGAAAAAATGTG
1 CCATGGAGTTGTGGAC-TTAA-A-AAGAAAGGTG
* * *
128971 CTATGGAGTTGTGGACTT-AAAGGGAAGGTG
1 CCATGGAGTTGTGGACTTAAAAAGAAAGGTG
* * *
129001 CCATAGAATTGTGGACTTTAATAGAA-AAAGGTTA
1 CCATGGAGTTGTGGAC-TTAA-A-AAGAAAGG-TG
* * *
129035 CCACGGAGTTGTGGACTTCAACAGAAAATGGTTG
1 CCATGGAGTTGTGGACTTAAAAAG-AAA-GG-TG
*
129069 CCTTGGAGTTGTGGACTTTAAAAAGAAA
1 CCATGGAGTTGTGGAC-TTAAAAAGAAA
129097 TGCAACTGAA
Statistics
Matches: 148, Mismatches: 27, Indels: 27
0.73 0.13 0.13
Matches are distributed among these distances:
27 16 0.11
28 4 0.03
29 1 0.01
30 19 0.13
31 4 0.03
32 23 0.16
33 17 0.11
34 56 0.38
35 8 0.05
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.26
Consensus pattern (31 bp):
CCATGGAGTTGTGGACTTAAAAAGAAAGGTG
Found at i:130489 original size:16 final size:17
Alignment explanation
Indices: 130470--130504 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
130460 TGCCTTTGCA
130470 TTTTTTT-TTTTGTG-T
1 TTTTTTTCTTTTGTGCT
130485 TTTTTTTCTTTTGTGCT
1 TTTTTTTCTTTTGTGCT
130502 TTT
1 TTT
130505 GCCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (17 bp):
TTTTTTTCTTTTGTGCT
Found at i:133160 original size:20 final size:21
Alignment explanation
Indices: 133113--133161 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
133103 TCATGTTAAC
133113 AGCTCATG-TTCATGCATTTTG
1 AGCT-ATGTTTCATGCATTTTG
133134 AGCTATGTTTCATGCACTTTT-
1 AGCTATGTTTCATGCA-TTTTG
133155 AG-TATGT
1 AGCTATGT
133162 CCAACACCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.31
21 14 0.54
22 4 0.15
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.45
Consensus pattern (21 bp):
AGCTATGTTTCATGCATTTTG
Found at i:140995 original size:21 final size:18
Alignment explanation
Indices: 140970--141060 Score: 66
Period size: 19 Copynumber: 5.1 Consensus size: 18
140960 TTTCAATAAT
140970 TTGTATCGATACAATGTA
1 TTGTATCGATACAATGTA
* *
140988 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACA-ATGTA
141010 TTGTATCGATAC-A---A
1 TTGTATCGATACAATGTA
* *
141024 -TGTATCGATACATAAGTG
1 TTGTATCGATACA-ATGTA
141042 TTGTATCGATACAATGTA
1 TTGTATCGATACAATGTA
141060 T
1 T
141061 CGTTACGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
13 11 0.19
15 1 0.02
17 1 0.02
18 5 0.09
19 23 0.40
21 12 0.21
22 4 0.07
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (18 bp):
TTGTATCGATACAATGTA
Found at i:141016 original size:19 final size:19
Alignment explanation
Indices: 140992--141054 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
140982 AATGTATAAC
140992 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
141011 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
141024 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
141043 TGTATCGATACA
1 TGTATCGATACA
141055 ATGTATCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:141029 original size:13 final size:13
Alignment explanation
Indices: 141011--141035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
141001 ACATAAGTGT
141011 TGTATCGATACAA
1 TGTATCGATACAA
141024 TGTATCGATACA
1 TGTATCGATACA
141036 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141033 original size:32 final size:32
Alignment explanation
Indices: 140992--141062 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
140982 AATGTATAAC
140992 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
141024 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
141056 TGTATCG
1 TGTATCG
141063 TTACGAAGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:155071 original size:22 final size:22
Alignment explanation
Indices: 155046--155092 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
155036 CCTCCACAAA
*
155046 AAAAAAAATAA-ACAAACAAAAC
1 AAAAAAAAGAAGACAAA-AAAAC
*
155068 AAAAAAAAGAAGAGAAAAAAAC
1 AAAAAAAAGAAGACAAAAAAAC
155090 AAA
1 AAA
155093 CAAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGAAGACAAAAAAAC
Found at i:156600 original size:28 final size:28
Alignment explanation
Indices: 156496--156592 Score: 142
Period size: 28 Copynumber: 3.4 Consensus size: 28
156486 CATCATTTCC
*
156496 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
*
156524 AAAGCCCACAAATCAGTGGCACCCTTTTTC-
1 AAAGCCCACAAATCAGTGGCAACC---TTCA
156554 AAAGCCCACAAATCAGTGGCAACCTTCA
1 AAAGCCCACAAATCAGTGGCAACCTTCA
156582 AAAGCCCACAA
1 AAAGCCCACAA
156593 GTCTGTGGTA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
27 3 0.05
28 33 0.53
30 23 0.37
31 3 0.05
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.15
Consensus pattern (28 bp):
AAAGCCCACAAATCAGTGGCAACCTTCA
Found at i:156729 original size:35 final size:34
Alignment explanation
Indices: 156674--156820 Score: 149
Period size: 35 Copynumber: 4.4 Consensus size: 34
156664 GTCAGCATAT
* *
156674 TGGCAC-C-TTTT-CTTTTAAGTCCACAACTCTG
1 TGGCACTCTTTTTCCTTTTAAGCCCACAACTCCG
* *
156705 TGGCACTCCTTTTT-TTTTCTAAGTCCACAACTCCG
1 TGGCACT-CTTTTTCCTTT-TAAGCCCACAACTCCG
* *
156740 TGGAACTCTTTTTCTTTTGTAAGCCCACAACTCCG
1 TGGCACTCTTTTTCCTTT-TAAGCCCACAACTCCG
* * *
156775 TGGTACTCTTTTTCCTTTTAAGCCCACAAGTCAG
1 TGGCACTCTTTTTCCTTTTAAGCCCACAACTCCG
*
156809 TGGCACCCTTTT
1 TGGCACTCTTTT
156821 CAAAAGCCCA
Statistics
Matches: 100, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
31 6 0.06
33 1 0.01
34 37 0.37
35 56 0.56
ACGTcount: A:0.18, C:0.29, G:0.14, T:0.39
Consensus pattern (34 bp):
TGGCACTCTTTTTCCTTTTAAGCCCACAACTCCG
Found at i:156820 original size:69 final size:68
Alignment explanation
Indices: 156674--156820 Score: 158
Period size: 69 Copynumber: 2.2 Consensus size: 68
156664 GTCAGCATAT
* * * *
156674 TGGCA-CC-TTTTCTTTTAAGTCCACAACTCTGTGGCACTCCTTTTTTTTTCTAAGTCCACAACT
1 TGGCACCCTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCCTTTTTCTTTCTAAGCCCACAACT
*
156737 CCG
66 CAG
* * *
156740 TGGAACTCTTTTTCTTTTGTAAGCCCACAACTCCGTGGTACT-CTTTTTCCTTT-TAAGCCCACA
1 TGGCACCCTTTTTC-TTT-TAAGCCCACAACTCCGTGGCACTCCTTTTT-CTTTCTAAGCCCACA
*
156803 AGTCAG
63 ACTCAG
156809 TGGCACCCTTTT
1 TGGCACCCTTTT
156821 CAAAAGCCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
66 4 0.06
67 1 0.02
68 5 0.08
69 32 0.49
70 23 0.35
ACGTcount: A:0.18, C:0.29, G:0.14, T:0.39
Consensus pattern (68 bp):
TGGCACCCTTTTTCTTTTAAGCCCACAACTCCGTGGCACTCCTTTTTCTTTCTAAGCCCACAACT
CAG
Found at i:156860 original size:28 final size:29
Alignment explanation
Indices: 156794--156863 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
156784 TTTTCCTTTT
*
156794 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTTCAA
*
156824 AAGCCCACAAGTCAGTGGTAACC-TTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTCAA
*
156852 AAGCACACAAGT
1 AAGCCCACAAGT
156864 TGGTGACGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 16 0.43
30 21 0.57
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.17
Consensus pattern (29 bp):
AAGCCCACAAGTCAGTGGCAACCTTTCAA
Found at i:157026 original size:87 final size:87
Alignment explanation
Indices: 156880--157662 Score: 1404
Period size: 87 Copynumber: 9.0 Consensus size: 87
156870 CGTCTTCTTT
* *
156880 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
156945 GCGTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
156967 TAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157032 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
157054 TAAGCCCAAAATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157119 GTCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
157141 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157206 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* **
157228 TAAGCCCAAAATCGCTGGCCTTGAATCATTATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157293 GTCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
157315 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157380 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
157402 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157467 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
157489 TAAGCCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157554 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
*
157576 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157641 GCCTTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGGCA
157663 CCTTGTCTCT
Statistics
Matches: 665, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 665 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:157720 original size:87 final size:87
Alignment explanation
Indices: 157624--158318 Score: 1174
Period size: 87 Copynumber: 8.0 Consensus size: 87
157614 ACCTTGTCTT
* * *
157624 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157689 GTCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
157711 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCCCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157776 GCCTTGAATCAGCACATTCGCA
66 GCCTTGAATCAGCACATTGGCA
157798 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
157863 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
157885 TAAGCCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
157950 GTCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
157972 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCCCTA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
158037 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* *
158059 TAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTCTAAGACCAATGTCGATG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
158124 GCCTTGAATCAGCACATTGGAA
66 GCCTTGAATCAGCACATTGGCA
* *
158146 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTTGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
158211 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * ** *
158233 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGTGCAATATCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
*
158298 GCCTTGAATCAACACATTGGC
66 GCCTTGAATCAGCACATTGGC
158319 GCCTTCATCT
Statistics
Matches: 570, Mismatches: 38, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 570 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:157728 original size:261 final size:261
Alignment explanation
Indices: 156928--158271 Score: 1185
Period size: 261 Copynumber: 5.1 Consensus size: 261
156918 ACCTTGTCTC
* * *
156928 TAAGACCAATGTCGCTAGCGTTGAATCAGCACATTGGCATAAGCCCAATATTGCTGGCCTTGAAT
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
156993 CAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
66 CAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
* * * *
157058 CCCAAAATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCTGGTCT
131 CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCT
* * * *
157123 TGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
196 TGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
157179 A
261 A
* *
157180 CCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAAAATCGCTG
1 ---------TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTG
** *
157245 GCCTTGAATCATTATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGTCTTGAATCAGCACAT
57 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
157310 TGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGT
122 TGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGT
* * *
157375 CGCTGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAG
187 CGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAG
*
157431 CATATTGGCA
252 CACATTGGCA
* * *
157441 CCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAAATCGCTG
1 ---------TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTG
*
157506 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAGCACAT
57 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
*
157571 TGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGT
122 TGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGT
* *
157636 CGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGTCTTGAATCAG
187 CGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAG
157701 CACATTGGCA
252 CACATTGGCA
* * * * * * *
157711 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGACCAATGTCCCTA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTG
* * * * *
157776 GCCTTGAATCAGCACATT-----C--G-C-ATAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
57 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * *
157832 TGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA---------TAA
122 TGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAA
* ** * *
157888 GCCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGTC
178 GACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCC
157953 TTGAATCAGCACATTGGCA
243 TTGAATCAGCACATTGGCA
* * * * * * *
157972 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCCCTA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTG
* * * * *
158037 GCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAGTATAT
57 GCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * * *
158093 TGGCACCTTGTCTCTAAGACCAATGTCGATGGCCTTGAATCAGCACATTGG-A--------ATAA
122 TGGCA---------TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAA
* * * *
158149 GCCCAATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTTGCTGGCC
178 GACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCC
158214 TTGAATCAGCACATTGGCA
243 TTGAATCAGCACATTGGCA
* *
158233 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA
1 TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCA
158272 CCTTGTCTTT
Statistics
Matches: 998, Mismatches: 53, Indels: 64
0.90 0.05 0.06
Matches are distributed among these distances:
260 1 0.00
261 895 0.90
262 1 0.00
263 1 0.00
265 1 0.00
270 99 0.10
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (261 bp):
TAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAG
CCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCT
TGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
A
Found at i:157734 original size:174 final size:167
Alignment explanation
Indices: 156879--158369 Score: 1036
Period size: 174 Copynumber: 8.5 Consensus size: 167
156869 ACGTCTTCTT
*
156879 TTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
* * * * * *
156944 AGCGTTGAATCAGCACATTGGCATAAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCT
66 GGCCTTGAATCAGCATATTGGCATAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---
*
157009 TGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
128 -----CTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
157054 -TAAGCCCAAAATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
* * * *
157118 GGTCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
66 GGCCTTGAATCAGCATATTGGCATAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---
* *
157183 TGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
128 -----CTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* **
157228 -TAAGCCCAAAATCGCTGGCCTTGAATCATTATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
* * * * *
157292 GGTCTTGAATCAGCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCT
66 GGCCTTGAATCAGCATATTGGCATAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---
*
157357 TGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
128 -----CTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
157402 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
* * * *
157466 GGCCTTGAATCAGCACATTGGCATAAGCCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCT
66 GGCCTTGAATCAGCATATTGGCATAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---
* *
157531 TGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
128 -----CTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
157576 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCT
1 TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
* * *
157640 GGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGTCTTGAATCAGCACA
66 GGCCTTGAATCAGCATATTGGCA---------TAAGACCAATATCGCTGGCCTTGAATCAGCACA
* *
157705 TTGGCA-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
122 TTGGCACTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * * *
157750 CTTTGTCTCTAAGACCAATGTCCCTAGCCTTGAATCAGCACATT-----C--G-C-ATAAGCCCA
1 -------T-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
* *
157806 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAA
58 ATGTCGCTGGCCTTGAATCAGCATATTGGCA---------TAAGACCAATATCGCTGGCCTTGAA
* * *
157871 TCAGCACATTGGCA-TAAGCCCAAAATCGCTGGCCTTGAATCAGCATATTGGCA
114 TCAGCACATTGGCACTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
157924 CCTTGTCTCTAAGACCAATGTCGTTGGTCTTGAATCAGCACATTGGCA---------TAAGCCCA
1 -------T-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
* * * *
157980 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCCCTAGCCTTGAA
58 ATGTCGCTGGCCTTGAATCAGCATATTGGCA---------TAAGACCAATATCGCTGGCCTTGAA
* * *
158045 TCAGCACATTGGCA-TAAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCA
114 TCAGCACATTGGCACTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* * * * * *
158098 CCTTGTCTCTAAGACCAATGTCGATGGCCTTGAATCAGCACATTGG-A--------ATAAGCCCA
1 -------T-TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCA
* * * *
158154 ATATCGCTGGCCTTGAATCAGCATATTGACACCTTGTCTCTAAGACCAATGTTGCTGGCCTTGAA
58 ATGTCGCTGGCCTTGAATCAGCATATTG-------G-C-ATAAGACCAATATCGCTGGCCTTGAA
* * *
158219 TCAGCACATTGGCA-TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCA
114 TCAGCACATTGGCACTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
** * * * * * *
158272 CCTTGTCTTTAAGTGCAATATCGCTGGCCTTGAATCAACACATTGGCGCCTTCATCTTTAAGTCC
1 --------TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTCTAAGACC
** * *
158337 AAAATTGTTGGCCTTGAATCAGCATATTGGCAT
57 AATGTCGCTGGCCTTGAATCAGCATATTGGCAT
158370 CTTTAACATT
Statistics
Matches: 1195, Mismatches: 78, Indels: 86
0.88 0.06 0.06
Matches are distributed among these distances:
173 1 0.00
174 1088 0.91
175 5 0.00
176 2 0.00
177 1 0.00
178 1 0.00
181 1 0.00
182 1 0.00
183 63 0.05
184 32 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (167 bp):
TTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
GGCCTTGAATCAGCATATTGGCATAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACTA
AGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:157866 original size:396 final size:396
Alignment explanation
Indices: 157239--158058 Score: 1505
Period size: 396 Copynumber: 2.1 Consensus size: 396
157229 AAGCCCAAAA
**
157239 TCGCTGGCCTTGAATCATTATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGTCTTGAATCA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGTCTTGAATCA
157304 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGAC
66 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGAC
* * *
157369 CAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCAT
131 CAATGTCCCTAGCCTTGAATCAGCACATTCGCATAAGCCCAATATCGCTGGCCTTGAATCAGCAT
157434 ATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAA
196 ATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAA
157499 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATC
261 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATC
*
157564 AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
326 AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
157629 CCAATG
391 CCAATG
*
157635 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGTCTTGAATCA
1 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGTCTTGAATCA
* *
157700 GCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGAC
66 GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGAC
157765 CAATGTCCCTAGCCTTGAATCAGCACATTCGCATAAGCCCAATATCGCTGGCCTTGAATCAGCAT
131 CAATGTCCCTAGCCTTGAATCAGCACATTCGCATAAGCCCAATATCGCTGGCCTTGAATCAGCAT
157830 ATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAA
196 ATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAA
* * *
157895 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGTTGGTCTTGAATC
261 ATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATC
157960 AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
326 AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
158025 CCAATG
391 CCAATG
* * *
158031 TCCCTAGCCTTGAATCAGCACATTGGCA
1 TCGCTGGCCTTGAATCAGCATATTGGCA
158059 TAAGCCCAAT
Statistics
Matches: 409, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
396 409 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (396 bp):
TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGTCTTGAATCA
GCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGAC
CAATGTCCCTAGCCTTGAATCAGCACATTCGCATAAGCCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAAA
ATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATC
AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGA
CCAATG
Found at i:158349 original size:49 final size:48
Alignment explanation
Indices: 158233--158368 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 48
158223 CACATTGGCA
* * * *
158233 TAAGCCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTT
1 TAAGTCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
* * * * *
158281 TAAGTGCAATATCGCTGGCCTTGAATCAACACATTGGCGCCTTCATCTT
1 TAAGTCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTT
* *
158330 TAAGTCCAAAATTGTTGGCCTTGAATCAGCATATTGGCA
1 TAAGTCCAAAATCGCTGGCCTTGAATCAGCATATTGGCA
158369 TCTTTAACAT
Statistics
Matches: 73, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 37 0.51
49 36 0.49
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (48 bp):
TAAGTCCAAAATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTT
Found at i:159243 original size:21 final size:20
Alignment explanation
Indices: 159219--159277 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
159209 TTTCAACAAT
159219 TTGTATCGATACAATGTATAA
1 TTGTATCGATACAATGTAT-A
* *
159240 TTGTATCGATAC-AT-AAGTG
1 TTGTATCGATACAATGTA-TA
159259 TTGTATCGATACAATGTAT
1 TTGTATCGATACAATGTAT
159278 CGCTACGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 13 0.41
20 6 0.19
21 13 0.41
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACAATGTATA
Found at i:165025 original size:15 final size:15
Alignment explanation
Indices: 165005--165039 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
164995 TTAATCATGA
165005 TGATTTGTT-TTTGGT
1 TGATTT-TTGTTTGGT
165020 TGATTTTTGTTTGGT
1 TGATTTTTGTTTGGT
165035 TGATT
1 TGATT
165040 CGAATTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.09, C:0.00, G:0.26, T:0.66
Consensus pattern (15 bp):
TGATTTTTGTTTGGT
Found at i:167760 original size:20 final size:21
Alignment explanation
Indices: 167726--167764 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
167716 AAGTCAAAAC
167726 CCTAGAAAGTATCGATACAGG
1 CCTAGAAAGTATCGATACAGG
167747 CCTAGAAA-TATCGATACA
1 CCTAGAAAGTATCGATACA
167765 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCGATACAGG
Found at i:167828 original size:20 final size:20
Alignment explanation
Indices: 167803--167840 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
167793 ATACACGCTC
167803 ATTGTATCGATACATAAAGA
1 ATTGTATCGATACATAAAGA
167823 ATTGTATCGATACATAAA
1 ATTGTATCGATACATAAA
167841 ACTGGCAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATAAAGA
Found at i:171994 original size:13 final size:13
Alignment explanation
Indices: 171976--172002 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
171966 ACATTATGCT
171976 TTGTATCGATACA
1 TTGTATCGATACA
171989 TTGTATCGATACA
1 TTGTATCGATACA
172002 T
1 T
172003 GTTTATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Done.