Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004117.1 Hibiscus syriacus cultivar Beakdansim tig00009009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2456583
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 4 of 9
Found at i:888613 original size:214 final size:216
Alignment explanation
Indices: 887631--888689 Score: 2088
Period size: 216 Copynumber: 4.9 Consensus size: 216
887621 CTCGATGAAC
*
887631 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCATGTCGAACA
1 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
887696 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
66 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
887761 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
131 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
887826 ATTCATATCCAAAATCCTTTG
196 ATTCATATCCAAAATCCTTTG
887847 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
1 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
887912 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
66 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
887977 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
131 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
888042 ATTCATATCCAAAATCCTTTG
196 ATTCATATCCAAAATCCTTTG
888063 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
1 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
888128 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
66 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
888193 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
131 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
888258 ATTCATATCCAAAATCCTTTG
196 ATTCATATCCAAAATCCTTTG
888279 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
1 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
888344 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCC-AATCGACCAAGTTAA
66 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
888408 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
131 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
888473 ATTCATATCC-AAATCCTTTG
196 ATTCATATCCAAAATCCTTTG
888493 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
1 CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
888558 CTGCCATTGAATCTAGAATA-CCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
66 CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
888622 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
131 CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
888687 ATT
196 ATT
888690 ACATTCTTCC
Statistics
Matches: 841, Mismatches: 1, Indels: 4
0.99 0.00 0.00
Matches are distributed among these distances:
213 28 0.03
214 178 0.21
215 90 0.11
216 545 0.65
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (216 bp):
CTCCAAAATTAACCATGGAGCTATTCTACTTCCTGGACTGACTAGATCGAGAACCACGTCGAACA
CTGCCATTGAATCTAGAATACCCTGACTGTACTGAAGAATCCACTATCCAAATCGACCAAGTTAA
CGTCTACCACTCGATACAGTTCAGCTGTAGATTCCTTGACAACCTTGGTCTTCATGATCATCATA
ATTCATATCCAAAATCCTTTG
Found at i:889361 original size:30 final size:30
Alignment explanation
Indices: 889313--889394 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 30
889303 GTAGTTCCTT
889313 TTTAGATAAATA--AATTTAAACCCTA-AA
1 TTTAGATAAATATCAATTTAAACCCTACAA
* *
889340 TTTAGATAAAATATCAATTTAAACCTTACAC
1 TTTAGAT-AAATATCAATTTAAACCCTACAA
889371 TTTAGATAAA-ATCAATTTAAACCC
1 TTTAGATAAATATCAATTTAAACCC
889395 CTAGATCCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.15
28 5 0.10
29 13 0.27
30 15 0.31
31 8 0.17
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.34
Consensus pattern (30 bp):
TTTAGATAAATATCAATTTAAACCCTACAA
Found at i:892110 original size:16 final size:16
Alignment explanation
Indices: 892044--892113 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
892034 GGTATTACCC
*
892044 GACCTGTTTTCAATCT
1 GACCTGTTTTCAACCT
892060 GA-CTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* * *
892075 AACTTGTTTTTAACCT
1 GACCTGTTTTCAACCT
*
892091 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
892107 GACCTGT
1 GACCTGT
892114 AAATAATCCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 13 0.28
16 34 0.72
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:892685 original size:48 final size:49
Alignment explanation
Indices: 892633--892727 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
892623 ACGGTTTACG
** * *
892633 GTTTCTATAAACTATATACTTTA-TTACTTTATATAGTTTATGTATAGT
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATAGT
*
892681 GTTTCTATAAACTATATAAGTAATTTATTTTATATAGTTTATATATA
1 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
892728 TTTATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 20 0.49
49 21 0.51
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (49 bp):
GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATAGT
Found at i:892755 original size:24 final size:23
Alignment explanation
Indices: 892721--892769 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
892711 TATATAGTTT
892721 ATATATATTTATATATACTATAC
1 ATATATATTTATATATACTATAC
892744 ATATATAGTTTATATATACTATAC
1 ATATATA-TTTATATATACTATAC
892768 AT
1 AT
892770 GGTTTATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATATTTATATATACTATAC
Found at i:892774 original size:20 final size:21
Alignment explanation
Indices: 892728--892782 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
892718 TTTATATATA
892728 TTTATATATACTATACATATATAG
1 TTTATATATACTATAC--A-ATAG
*
892752 TTTATATATACTATAC-ATGG
1 TTTATATATACTATACAATAG
*
892772 TTTATACATAC
1 TTTATATATAC
892783 ATATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.45
24 16 0.55
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTATATATACTATACAATAG
Found at i:892833 original size:25 final size:21
Alignment explanation
Indices: 892785--892824 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
892775 ATACATACAT
892785 ATTATATAAAATTATTTAATA
1 ATTATATAAAATTATTTAATA
892806 ATT-TAATAAAATTATTTAA
1 ATTAT-ATAAAATTATTTAA
892825 ATATAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTATATAAAATTATTTAATA
Found at i:893277 original size:2 final size:2
Alignment explanation
Indices: 893272--893336 Score: 78
Period size: 2 Copynumber: 32.0 Consensus size: 2
893262 ATAGTTTATT
**
893272 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GG T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
893313 TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA -TA TA TA TA TA -TA TA
893337 CATGGTTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
1 1 0.02
2 51 0.93
3 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:893285 original size:21 final size:20
Alignment explanation
Indices: 893249--893336 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 20
893239 ACTATATAAG
*
893249 TAATATAT-TTTATATAGTT
1 TAATATATATATATATAGTT
*
893268 T-AT-T-TATATATATA-TA
1 TAATATATATATATATAGTT
*
893284 T-ATATATATATATATAGGT
1 TAATATATATATATATAGTT
893303 TATATATATATATATATAGTT
1 TA-ATATATATATATATAGTT
893324 T-ATATATACTATA
1 TAATATATA-TATA
893337 CATGGTTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
16 5 0.09
17 9 0.16
18 12 0.21
19 9 0.16
20 4 0.07
21 18 0.32
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (20 bp):
TAATATATATATATATAGTT
Found at i:894192 original size:14 final size:14
Alignment explanation
Indices: 894173--894227 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
894163 TTTCATTAGG
*
894173 GTTTATGGTTTAAT
1 GTTTATGGTTTAAA
*
894187 GTTTATAGTTTAAA
1 GTTTATGGTTTAAA
* *
894201 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAA
*
894215 GTTTATGATTTAA
1 GTTTATGGTTTAA
894228 GATTTAAGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
GTTTATGGTTTAAA
Found at i:894228 original size:14 final size:14
Alignment explanation
Indices: 894172--894233 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
894162 TTTTCATTAG
*
894172 GGTTTATGGTTTAA
1 GGTTTATGATTTAA
*
894186 TGTTTAT-AGTTTAA
1 GGTTTATGA-TTTAA
* * *
894200 AGTTTAGGGTTTAA
1 GGTTTATGATTTAA
894214 GGTTTATGATTTAA
1 GGTTTATGATTTAA
*
894228 GATTTA
1 GGTTTA
894234 AGGTTTCTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (14 bp):
GGTTTATGATTTAA
Found at i:894782 original size:4 final size:4
Alignment explanation
Indices: 894773--896470 Score: 3085
Period size: 4 Copynumber: 427.2 Consensus size: 4
894763 TATAGTTTAT
894773 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
894821 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
894869 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATGC ATGC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
894917 ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
894965 ATAC ATGC ATAC ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895013 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895061 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
895109 ATAC ATAC ATAC ATGC ATTC ATAC ATGC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
895157 ATGC ATTC ATAC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
895205 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
895253 ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATGC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895301 ATAC AT-- ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895346 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895394 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895442 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895490 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895537 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895585 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895633 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895681 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895729 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895777 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895825 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895873 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895921 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
895969 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896017 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896061 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896109 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896157 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896205 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896253 ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896299 ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896346 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896394 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
896442 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
896471 GAAAATTAAA
Statistics
Matches: 1655, Mismatches: 28, Indels: 22
0.97 0.02 0.01
Matches are distributed among these distances:
2 8 0.00
3 9 0.01
4 1638 0.99
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:896710 original size:20 final size:19
Alignment explanation
Indices: 896656--896722 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
896646 ATAAAATCTC
*
896656 AATTCTCAATTTCCCTCTAA
1 AATTTTCAATTTCCCTCT-A
896676 AATTTT--ATATTCCCTCTA
1 AATTTTCAAT-TTCCCTCTA
896694 AATTTCTCAATTTCCCTCTA
1 AATTT-TCAATTTCCCTCTA
896714 AATTTTCAA
1 AATTTTCAA
896723 AATTTCCTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
18 8 0.19
19 13 0.31
20 19 0.45
21 2 0.05
ACGTcount: A:0.30, C:0.25, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTCAATTTCCCTCTA
Found at i:896752 original size:29 final size:29
Alignment explanation
Indices: 896693--896752 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
896683 TATTCCCTCT
**
896693 AAATTTCTCAATTTCCCTCTAAATTTTCA
1 AAATTTCTCAATTTCCCTCTAAATTCCCA
896722 AAATTTC-CTAATTTCCCTCTAAATTCCCA
1 AAATTTCTC-AATTTCCCTCTAAATTCCCA
896751 AA
1 AA
896753 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATTTCTCAATTTCCCTCTAAATTCCCA
Found at i:896833 original size:2 final size:2
Alignment explanation
Indices: 896826--896860 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
896816 TTGAATAATA
896826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
896861 TAATGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:896928 original size:30 final size:28
Alignment explanation
Indices: 896903--897008 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 28
896893 TTTTATAGTT
896903 TATA-AGTTTATGCATATATAGTTTATACA
1 TATATAGTTTAT--ATATATAGTTTATACA
* *
896932 TATATAGTTTATATATATAGTTCATATA
1 TATATAGTTTATATATATAGTTTATACA
* * * *
896960 AACATAATTTATATATATAACTTATAATA-A
1 TATATAGTTTATATATAT-AGTT-T-ATACA
896990 TTATATAGTTTATA-ATATA
1 -TATATAGTTTATATATATA
897009 AATATAGTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
28 29 0.47
29 8 0.13
30 12 0.19
31 13 0.21
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (28 bp):
TATATAGTTTATATATATAGTTTATACA
Found at i:896959 original size:11 final size:13
Alignment explanation
Indices: 896915--896953 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
896905 TAAGTTTATG
896915 CATATATAGTTTATA
1 CATATATAG-TT-TA
896930 CATATATAGTTTA
1 CATATATAGTTTA
*
896943 TATATATAGTT
1 CATATATAGTT
896954 CATATAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (13 bp):
CATATATAGTTTA
Found at i:896959 original size:15 final size:15
Alignment explanation
Indices: 896833--897023 Score: 97
Period size: 15 Copynumber: 12.4 Consensus size: 15
896823 ATAATATATA
*
896833 TATATATATATA-TA
1 TATATATATATAGTT
896847 TATATATACTATA-TT
1 TATATATA-TATAGTT
* * *
896862 AATGTAAATTATAGTT
1 TATATATA-TATAGTT
* *
896878 TATAAACTATATACTT
1 TATATA-TATATAGTT
* *
896894 TTTATAGTTTATAAGTT
1 TATATA-TATAT-AGTT
**
896911 TATGCATATATAGTT
1 TATATATATATAGTT
*
896926 TATACATATATAG-T
1 TATATATATATAGTT
896940 T-TATATATATAGTT
1 TATATATATATAGTT
* * * *
896954 CATATAAACATAATT
1 TATATATATATAGTT
*
896969 TATATATATA-A-CT
1 TATATATATATAGTT
896982 TATAATAATTATATAGTT
1 TAT-AT-A-TATATAGTT
897000 TATAATATAAATATAGTT
1 TAT-ATAT--ATATAGTT
897018 TATATA
1 TATATA
897024 AACTTATATT
Statistics
Matches: 134, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
13 14 0.10
14 14 0.10
15 48 0.36
16 28 0.21
17 12 0.09
18 18 0.13
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATATATATAGTT
Found at i:897041 original size:46 final size:46
Alignment explanation
Indices: 896940--897041 Score: 113
Period size: 46 Copynumber: 2.2 Consensus size: 46
896930 CATATATAGT
*
896940 TTATATATATAGTTCATATAAACATAATTTATATATATAACTTATA
1 TTATATATATAGTTCATATAAACATAAGTTATATATATAACTTATA
* *
896986 ATA-ATTATATAGTTTATAATATAA-ATATAGTT-TATATA-AACTTATA
1 TTATA-TATATAGTTCAT-ATA-AACATA-AGTTATATATATAACTTATA
897032 TTATATATAT
1 TTATATATAT
897042 TATATTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
45 1 0.02
46 28 0.60
47 13 0.28
48 5 0.11
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (46 bp):
TTATATATATAGTTCATATAAACATAAGTTATATATATAACTTATA
Found at i:897917 original size:64 final size:64
Alignment explanation
Indices: 897725--897895 Score: 324
Period size: 64 Copynumber: 2.7 Consensus size: 64
897715 GAACTGAAAA
* *
897725 TGACCTGACCTGAACCCGATCTGGATATGGTGTCAAATCAACCCGAAAATAACCCGAACTGATT
1 TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACCCGAAAATAACCCGAACTGATT
897789 TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACCCGAAAATAACCCGAACTGATT
1 TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACCCGAAAATAACCCGAACTGATT
897853 TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACC
1 TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACC
897896 TGAGTTGACC
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 105 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (64 bp):
TGACCTAACCTGAACCCGATCTGGATTTGGTGTCAAATCAACCCGAAAATAACCCGAACTGATT
Found at i:898514 original size:30 final size:31
Alignment explanation
Indices: 898439--898515 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
898429 GATTCATGGG
* *
898439 TTAAATTAGTATTTTATCTAAAGTTTAAGGG
1 TTAAATTAATATTTTATCTAAAGTTTAAGGA
* *
898470 TTAAATTGATATTTTATCTAATGTTT-AGGA
1 TTAAATTAATATTTTATCTAAAGTTTAAGGA
*
898500 TTTAATTAATATTTTA
1 TTAAATTAATATTTTA
898516 CAAAAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 17 0.43
31 23 0.57
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.51
Consensus pattern (31 bp):
TTAAATTAATATTTTATCTAAAGTTTAAGGA
Found at i:899496 original size:34 final size:34
Alignment explanation
Indices: 899458--899526 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
899448 AGCCAACCAG
*
899458 AATTGAAAAACTTTTCTAGTCCTCTCACTTTCAT
1 AATTGAAAAACTTTTCTAGTCCTCTCACTTCCAT
899492 AATTGAAAAACTTTTCTAGTCCTCTCACTTCCAT
1 AATTGAAAAACTTTTCTAGTCCTCTCACTTCCAT
899526 A
1 A
899527 CTTTTAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (34 bp):
AATTGAAAAACTTTTCTAGTCCTCTCACTTCCAT
Found at i:915140 original size:20 final size:22
Alignment explanation
Indices: 915115--915168 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
915105 TTTGATAATA
*
915115 ATTATAATTTATT-ATTTTA-T
1 ATTATAATTTATTCATATTATT
915135 ATTATAATTTTATTCATATTATT
1 ATTATAA-TTTATTCATATTATT
*
915158 ATTATTATTTA
1 ATTATAATTTA
915169 GTTAATCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 9 0.31
23 7 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATAATTTATTCATATTATT
Found at i:917042 original size:28 final size:28
Alignment explanation
Indices: 916988--917042 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
916978 ATGCTAAGGA
* *
916988 TTTTAAATTTCAAAATTAAATTATATTG
1 TTTTAAATTTCAAAATAAAATAATATTG
*
917016 TTTT-AATTTTAAAATAAAATAACTATT
1 TTTTAAATTTCAAAATAAAATAA-TATT
917043 AAATTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTTAAATTTCAAAATAAAATAATATTG
Found at i:918042 original size:140 final size:139
Alignment explanation
Indices: 917785--919052 Score: 1518
Period size: 140 Copynumber: 9.2 Consensus size: 139
917775 TTAAGCATTC
*
917785 TATTAAAGATGAGAGAGTAACACTATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCTA-CTTAC
1 TATTGAAGATGAGAGAGTAACAC-ATGCTCTTGTTGAGAGTTGAACTCAAGACCTCC-AGCTTAC
** * *
917849 TAAATAGGTGCTCTAACCAACTGAA-CTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGC
64 TAAACGGGTGCTCTGACCAACT-AAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGA
*
917913 ATAAGATAGATA
128 ATAAGAGAGATA
* * * ** *
917925 TATTGAAGATGAAAGAGTAACAACATACTCTTGTTTAGAGTCAAACTCAAGACTTCCAGCTTACT
1 TATTGAAGATGAGAGAGTAAC-ACATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
* *
917990 AAACGGGTGCTCTAACCAACTAAGCTACGAGAGTTAATTGATGAATGTAACATGAGTTAGAGAAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
918055 AAGAGAGATA
130 AAGAGAGATA
* * *
918065 TATTGAAGATAAGAAAGTAACACTACT-CTCTTGTTGAGAGTTGAATTCAAGACCTCCCA-CTTA
1 TATTGAAGATGAGAGAGTAACAC-A-TGCTCTTGTTGAGAGTTGAACTCAAGACCT-CCAGCTTA
*
918128 CTAAA-GTGGTGCTCTGA-C--C-AA-CT----GAGCTAATTGATGAATGTAAAATGAGTTAGAG
63 CTAAACG-GGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAG
* *
918183 CATAAAAGAGATA
127 AATAAGAGAGATA
* * *
918196 TA-TGAAGATGTGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
1 TATTGAAGATGAGAGAGTAACA-CATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
* * * * **
918260 AAACGGGTACTCTAACCCACTAAGCTACAAGAGCTACCTGATGAATGTAACATGAGTTAGAGAAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
* *
918325 AAGATATATA
130 AAGAGAGATA
* * * * *
918335 TATTGAAGATAAGAGAGTGACATTATGCTTTTGTTGCGAGTTGAACTCAAGACCTCCCA-CTTAC
1 TATTGAAGATGAGAGAGTAACA-CATGCTCTTGTTGAGAGTTGAACTCAAGACCT-CCAGCTTAC
* * * *
918399 TAAATGGGTGCTCTGACC-ACTTGAGCTACGAGAGCTAATTGATGAATGTAATATGAGTCAGAGA
64 TAAACGGGTGCTCTGACCAAC-TAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGA
*
918463 ATAA-A-AGAGA
128 ATAAGAGAGATA
* * *
918473 TATTGAAGATGAGAGAGTAACACTATGTTTTTGTTGAGAGTTGAACTCAAGACCTCC-CCTTACT
1 TATTGAAGATGAGAGAGTAACAC-ATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
** * * *
918537 AAACAAGTGCTCTGACCAATTAAGCTACAAGAGCTAATTGATGAATGTAACATGAGTTAGAGCAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
*
918602 AAGGGAGATAA
130 AAGAGAGAT-A
* * ** * *
918613 TATTGAAGATAAGAGAGTAACACCATGCTCTTGTTGATAGTCAAACTCAAGACCTCCCGTTTACT
1 TATTGAAGATGAGAGAGTAACA-CATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
** * * * *
918678 AAACGCCTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAATTAGAGAAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
918743 AAGAGAGATA
130 AAGAGAGATA
* *
918753 TATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTGAACTCAAGACCTCCCGCTTACT
1 TATTGAAGATGAGAGAGTAACAC-ATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
* * * * *
918818 AAATGGGTGCTCTGACCAACTGAGCTACGAGAGCTAACTGATAAATGTAACATGAGTTTGAGAAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
*
918883 AAGAGATATA
130 AAGAGAGATA
* * *
918893 TATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTAAACTCAAGACCTCCCGCTTACT
1 TATTGAAGATGAGAGAGTAACAC-ATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACT
* * * * *
918958 AAACGGGTGCTCTGACCAACTGAGCTACAAGAGCTAGTTGATGAATGTAACATGACTTAGAGCAT
65 AAACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAAT
919023 AAGAGAG--A
130 AAGAGAGATA
*
919031 TATTGAAGATGGGAGAGTAACA
1 TATTGAAGATGAGAGAGTAACA
919053 TTGTGCTTTT
Statistics
Matches: 976, Mismatches: 120, Indels: 66
0.84 0.10 0.06
Matches are distributed among these distances:
129 3 0.00
130 60 0.06
131 46 0.05
133 1 0.00
134 2 0.00
135 4 0.00
136 2 0.00
137 65 0.07
138 75 0.08
139 54 0.06
140 587 0.60
141 77 0.08
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (139 bp):
TATTGAAGATGAGAGAGTAACACATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCAGCTTACTA
AACGGGTGCTCTGACCAACTAAGCTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGAATA
AGAGAGATA
Found at i:918740 original size:418 final size:416
Alignment explanation
Indices: 917785--919052 Score: 1722
Period size: 418 Copynumber: 3.1 Consensus size: 416
917775 TTAAGCATTC
* * * **
917785 TATTAAAGATGAGAGAGTAACACTATGCTCTTGTTGAGAGTTGAACTCAAGACCTCCTACTTACT
1 TATTGAAGATGAGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
* * * *
917850 AAATAGGTGCTCTAACCAACTGAACTACGAGAGCTAATTGATGAATGTAACATGAGTTAGAGCAT
66 AAA-CGGTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAGTTAGAGAAT
* * * * **
917915 AAGATAGATATATTGAAGATGAA-AGAGTAACAACATACTCTTGTTTAGAGTCAAACTCAAGA-C
130 AAGATAGATATATTGAAGAT-AAGAGAGTAACAATATGCTTTTGTTGAGAGTTGAACTCAAGACC
* * * * *
917978 TTCCAGCTTACTAAACGGGTGCTCTAACCAACTAAGCTACGAGAGTTAATTGATGAATGTAACAT
194 TCCCA-CTTACTAAATGGGTGCTCTGACCAACTGAGCTACGAGAGCTAATTGATGAATGTAACAT
* * *
918043 GAGTTAGAGAATAAGAGAGATATATTGAAGATAAGAAAGTAACACTACT-CTCTTGTTGAGAGTT
258 GAGTTAGAGAATAAGAGAGATATATTGAAGATGAGAGAGTAACACTA-TGCTTTTGTTGAGAGTT
* **
918107 GAATTCAAGACCTCCCACTTACTAAAGTGGTGCTCTGACC---AA-CT----GAGCTAATTGATG
322 GAACTCAAGACCTCCCACTTACTAAACAGGTGCTCTGACCAATAAGCTACAAGAGCTAATTGATG
*
918164 AATGTAAAATGAGTTAGAGCATAAAAGAGATA
387 AATGTAACATGAGTTAGAGCAT--AAGAGATA
*
918196 TA-TGAAGATGTGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
1 TATTGAAGATGAGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
* * * * *
918260 AAACGGGTACTCTAACCCACTAAGCTACAAGAGCTACCTGATGAATGTAACATGAGTTAGAGAAT
66 AAAC-GGTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAGTTAGAGAAT
* * * *
918325 AAGATATATATATTGAAGATAAGAGAGTGACATTATGCTTTTGTTGCGAGTTGAACTCAAGACCT
130 AAGATAGATATATTGAAGATAAGAGAGTAACAATATGCTTTTGTTGAGAGTTGAACTCAAGACCT
*
918390 CCCACTTACTAAATGGGTGCTCTGACC-ACTTGAGCTACGAGAGCTAATTGATGAATGTAATATG
195 CCCACTTACTAAATGGGTGCTCTGACCAAC-TGAGCTACGAGAGCTAATTGATGAATGTAACATG
* * *
918454 AGTCAGAGAATAA-A-AGAGATATTGAAGATGAGAGAGTAACACTATGTTTTTGTTGAGAGTTGA
259 AGTTAGAGAATAAGAGAGATATATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTGA
*
918517 ACTCAAGACCTCCC-CTTACTAAACAAGTGCTCTGACCAATTAAGCTACAAGAGCTAATTGATGA
324 ACTCAAGACCTCCCACTTACTAAACAGGTGCTCTGACCAA-TAAGCTACAAGAGCTAATTGATGA
918581 ATGTAACATGAGTTAGAGCATAAGGGAGATAA
388 ATGTAACATGAGTTAGAGCATAA--GAGAT-A
* * * *
918613 TATTGAAGATAAGAGAGTAACACCATGCTCTTGTTGATAGTCAAACTCAAGACCTCCCGTTTACT
1 TATTGAAGATGAGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
* *
918678 AAACGCCTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAATTAGAGAAT
66 AAACG-GTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAGTTAGAGAAT
* * *
918743 AAGAGAGATATATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTGAACTCAAGACCT
130 AAGATAGATATATTGAAGATAAGAGAGTAACAATATGCTTTTGTTGAGAGTTGAACTCAAGACCT
* * *
918808 CCCGCTTACTAAATGGGTGCTCTGACCAACTGAGCTACGAGAGCTAACTGATAAATGTAACATGA
195 CCCACTTACTAAATGGGTGCTCTGACCAACTGAGCTACGAGAGCTAATTGATGAATGTAACATGA
* * *
918873 GTTTGAGAATAAGAGATATATATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTAAA
260 GTTAGAGAATAAGAGAGATATATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTGAA
* * * *
918938 CTCAAGACCTCCCGCTTACTAAACGGGTGCTCTGACCAACTGAGCTACAAGAGCTAGTTGATGAA
325 CTCAAGACCTCCCACTTACTAAACAGGTGCTCTGACCAA-TAAGCTACAAGAGCTAATTGATGAA
* *
919003 TGTAACATGACTTAGAGCATAAGAGAGA
389 TGTAACATGAGTTAGAGCATAAGAGATA
*
919031 TATTGAAGATGGGAGAGTAACA
1 TATTGAAGATGAGAGAGTAACA
919053 TTGTGCTTTT
Statistics
Matches: 755, Mismatches: 79, Indels: 39
0.86 0.09 0.04
Matches are distributed among these distances:
407 21 0.03
408 55 0.07
409 5 0.01
410 224 0.30
411 9 0.01
412 2 0.00
414 2 0.00
416 39 0.05
417 4 0.01
418 261 0.35
419 7 0.01
420 59 0.08
421 67 0.09
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (416 bp):
TATTGAAGATGAGAGAGTAACACCATGCTCTTGTTGAGAGTCGAACTCAAGACCTCCCGCTTACT
AAACGGTGCTCTAACCAACTGAGCTACGAGAGCTAACTGATGAATGTAACATGAGTTAGAGAATA
AGATAGATATATTGAAGATAAGAGAGTAACAATATGCTTTTGTTGAGAGTTGAACTCAAGACCTC
CCACTTACTAAATGGGTGCTCTGACCAACTGAGCTACGAGAGCTAATTGATGAATGTAACATGAG
TTAGAGAATAAGAGAGATATATTGAAGATGAGAGAGTAACACTATGCTTTTGTTGAGAGTTGAAC
TCAAGACCTCCCACTTACTAAACAGGTGCTCTGACCAATAAGCTACAAGAGCTAATTGATGAATG
TAACATGAGTTAGAGCATAAGAGATA
Found at i:924621 original size:21 final size:21
Alignment explanation
Indices: 924596--924636 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
924586 TGCTCAACTC
*
924596 GACTCGTTGCTTGTTAAGCTA
1 GACTCGTTGCTCGTTAAGCTA
924617 GACTCGTTGCTCGTTAAGCT
1 GACTCGTTGCTCGTTAAGCT
924637 CACTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (21 bp):
GACTCGTTGCTCGTTAAGCTA
Found at i:924799 original size:7 final size:7
Alignment explanation
Indices: 924787--924825 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
924777 ATATTAGTTA
924787 ATTTATT
1 ATTTATT
924794 ATTTATT
1 ATTTATT
924801 ATTTATT
1 ATTTATT
*
924808 A-TTAAT
1 ATTTATT
*
924814 AATTATT
1 ATTTATT
924821 ATTTA
1 ATTTA
924826 GATTTAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (7 bp):
ATTTATT
Found at i:924799 original size:41 final size:40
Alignment explanation
Indices: 924724--924823 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
924714 GTTTTTTTGG
924724 TATT-AAAATAATATTATTAGTTAATAATATTTTATTATT
1 TATTAAAAATAATATTATTAGTTAATAATATTTTATTATT
*
924763 TATTAAAAACTAATA-TATTAGTTAAT-TTATTATTTATTATT
1 TATTAAAAA-TAATATTATTAGTTAATAATA-T-TTTATTATT
**
924804 TATTATTAATAATTATTATT
1 TATTAAAAATAA-TATTATT
924824 TAGATTTAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
39 6 0.12
40 19 0.37
41 23 0.44
42 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (40 bp):
TATTAAAAATAATATTATTAGTTAATAATATTTTATTATT
Found at i:925660 original size:17 final size:17
Alignment explanation
Indices: 925635--925667 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
925625 CAAACAAAAA
*
925635 ATATCGTTTTAATTAAC
1 ATATAGTTTTAATTAAC
925652 ATATAGTTTTAATTAA
1 ATATAGTTTTAATTAA
925668 TGAAGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
ATATAGTTTTAATTAAC
Found at i:927710 original size:40 final size:40
Alignment explanation
Indices: 927659--927734 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
927649 GGGTATATAT
927659 ATTTAAATTAAATATATAAATATTATATATATATATTTTA
1 ATTTAAATTAAATATATAAATATTATATATATATATTTTA
* * *
927699 ATTTAATTTAAATTTATTAATATTATATATATATAT
1 ATTTAAATTAAATATATAAATATTATATATATATAT
927735 ATAATAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (40 bp):
ATTTAAATTAAATATATAAATATTATATATATATATTTTA
Found at i:927751 original size:42 final size:40
Alignment explanation
Indices: 927654--927739 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
927644 GGGCCGGGTA
* *
927654 TATATATTTAAATTAAATATATAAATATTATATATATATAT
1 TATA-ATTTAATTTAAATTTATAAATATTATATATATATAT
* *
927695 TTTAATTTAATTTAAATTTATTAATATTATATATATATA-
1 TATAATTTAATTTAAATTTATAAATATTATATATATATAT
927734 TATAAT
1 TATAAT
927740 AATTATTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 5 0.12
40 32 0.80
41 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (40 bp):
TATAATTTAATTTAAATTTATAAATATTATATATATATAT
Found at i:929391 original size:2 final size:2
Alignment explanation
Indices: 929384--929413 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
929374 ATCTATTATT
929384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
929414 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:935440 original size:5 final size:5
Alignment explanation
Indices: 935430--935509 Score: 79
Period size: 5 Copynumber: 14.8 Consensus size: 5
935420 AACGGTCAAC
* *
935430 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
935479 GGTCG GGTCG GGTCAAA GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
935510 AGACCGGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
5 51 0.81
7 12 0.19
ACGTcount: A:0.09, C:0.21, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:935451 original size:22 final size:22
Alignment explanation
Indices: 935423--935509 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
935413 AACGGTCAAC
935423 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
935445 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
935467 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
935489 GGTCAAAGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
935510 AGACCGGTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:935524 original size:9 final size:9
Alignment explanation
Indices: 935506--935604 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
935496 GGTCGGGTCG
*
935506 GGTCAGACC
1 GGTCAAACC
935515 GGTCAAACC
1 GGTCAAACC
* *
935524 GATTCAGACC
1 G-GTCAAACC
935534 GGTCAAACC
1 GGTCAAACC
*
935543 GGTTCGAACC
1 GG-TCAAACC
*
935553 GGTTGAAACC
1 GG-TCAAACC
935563 GGTCAAACC
1 GGTCAAACC
935572 GGTCAGAACC
1 GGTCA-AACC
*
935582 GGTTGAAAACC
1 GG-T-CAAACC
*
935593 GGTTAAACC
1 GGTCAAACC
935602 GGT
1 GGT
935605 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:935563 original size:29 final size:31
Alignment explanation
Indices: 935531--935605 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
935521 ACCGATTCAG
935531 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
935560 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
935590 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
935606 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:935583 original size:19 final size:19
Alignment explanation
Indices: 935506--935604 Score: 80
Period size: 19 Copynumber: 5.2 Consensus size: 19
935496 GGTCGGGTCG
935506 GGTCAG-ACCGGTCAAACC
1 GGTCAGAACCGGTCAAACC
*
935524 GATTCAG-ACCGGTCAAACC
1 G-GTCAGAACCGGTCAAACC
*
935543 GGTTC-GAACCGGTTGAAACC
1 GG-TCAGAACCGG-TCAAACC
935563 GGTCA-AACCGGTCAGAACC
1 GGTCAGAACCGGTCA-AACC
* * *
935582 GGTTGAAAACCGGTTAAACC
1 GG-TCAGAACCGGTCAAACC
935602 GGT
1 GGT
935605 TTCCAGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
18 4 0.06
19 39 0.58
20 16 0.24
21 8 0.12
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (19 bp):
GGTCAGAACCGGTCAAACC
Found at i:942785 original size:5 final size:5
Alignment explanation
Indices: 942775--942854 Score: 79
Period size: 5 Copynumber: 14.8 Consensus size: 5
942765 AACGGTCAAC
* *
942775 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
*
942824 GGTCG GGTCG GGTCAAA GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTC
942855 AGACCGGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
5 51 0.81
7 12 0.19
ACGTcount: A:0.09, C:0.21, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:942796 original size:22 final size:22
Alignment explanation
Indices: 942768--942854 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
942758 AACGGTCAAC
942768 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
942790 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
942812 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
942834 GGTCAAAGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
942855 AGACCGGTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.10, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:942869 original size:9 final size:9
Alignment explanation
Indices: 942851--942949 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
942841 GGTCGGGTCG
*
942851 GGTCAGACC
1 GGTCAAACC
942860 GGTCAAACC
1 GGTCAAACC
* *
942869 GATTCAGACC
1 G-GTCAAACC
942879 GGTCAAACC
1 GGTCAAACC
*
942888 GGTTCGAACC
1 GG-TCAAACC
*
942898 GGTTGAAACC
1 GG-TCAAACC
942908 GGTCAAACC
1 GGTCAAACC
942917 GGTCAGAACC
1 GGTCA-AACC
*
942927 GGTTGAAAACC
1 GG-T-CAAACC
*
942938 GGTTAAACC
1 GGTCAAACC
942947 GGT
1 GGT
942950 TTCCAGCAGC
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
9 36 0.49
10 30 0.41
11 7 0.09
12 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:942908 original size:29 final size:31
Alignment explanation
Indices: 942876--942950 Score: 120
Period size: 29 Copynumber: 2.5 Consensus size: 31
942866 ACCGATTCAG
942876 ACCGGTCAAACCGGTTC-GAACCGGTTG-AA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
942905 ACCGGTCAAACCGG-TCAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
*
942935 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
942951 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 2 0.05
29 24 0.57
30 15 0.36
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (31 bp):
ACCGGTCAAACCGGTTCAGAACCGGTTGAAA
Found at i:942928 original size:19 final size:19
Alignment explanation
Indices: 942851--942949 Score: 80
Period size: 19 Copynumber: 5.2 Consensus size: 19
942841 GGTCGGGTCG
942851 GGTCAG-ACCGGTCAAACC
1 GGTCAGAACCGGTCAAACC
*
942869 GATTCAG-ACCGGTCAAACC
1 G-GTCAGAACCGGTCAAACC
*
942888 GGTTC-GAACCGGTTGAAACC
1 GG-TCAGAACCGG-TCAAACC
942908 GGTCA-AACCGGTCAGAACC
1 GGTCAGAACCGGTCA-AACC
* * *
942927 GGTTGAAAACCGGTTAAACC
1 GG-TCAGAACCGGTCAAACC
942947 GGT
1 GGT
942950 TTCCAGCAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
18 4 0.06
19 39 0.58
20 16 0.24
21 8 0.12
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.16
Consensus pattern (19 bp):
GGTCAGAACCGGTCAAACC
Found at i:945278 original size:20 final size:20
Alignment explanation
Indices: 945253--945291 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
945243 TTAGTTAGCG
945253 AAAATAACATTTTAAGTAAA
1 AAAATAACATTTTAAGTAAA
* *
945273 AAAATAATATTTTAGGTAA
1 AAAATAACATTTTAAGTAA
945292 CGCTTTACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAATAACATTTTAAGTAAA
Found at i:949020 original size:44 final size:44
Alignment explanation
Indices: 948957--949046 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
948947 GTCTAACTCA
*
948957 ATTAGTAAAGTGCAAGGCTCTTAACCTTGTGATTATAGGATCGT
1 ATTAGTAAAGTGCAAGGCTCTTAACCTTGTGATCATAGGATCGT
949001 ATTAGTAAAGTGCAAGGCTCTTAACCTTGTGATCATAGGATCGT
1 ATTAGTAAAGTGCAAGGCTCTTAACCTTGTGATCATAGGATCGT
949045 AT
1 AT
949047 CTTACCGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (44 bp):
ATTAGTAAAGTGCAAGGCTCTTAACCTTGTGATCATAGGATCGT
Found at i:950526 original size:42 final size:41
Alignment explanation
Indices: 950480--950612 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 41
950470 ATACAAATGT
*
950480 CGCAAGTGGGTTAATCTATAGTGACATTTTTCCAACAAACGC
1 CGCAA-TGGGTTAATCTATATTGACATTTTTCCAACAAACGC
* ***
950522 CGCAATTGGGTTAATTTATATTGGTTTTTTTTTCCAACAAACGC
1 CGCAA-TGGGTTAATCTATATT-G-ACATTTTTCCAACAAACGC
* * *
950566 CACAATAGGTTTAATCTATATTGACGTTTTTCCAACAAACGC
1 CGCAAT-GGGTTAATCTATATTGACATTTTTCCAACAAACGC
950608 CGCAA
1 CGCAA
950613 CAGATTTGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 39 0.52
43 3 0.04
44 33 0.44
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (41 bp):
CGCAATGGGTTAATCTATATTGACATTTTTCCAACAAACGC
Found at i:950596 original size:44 final size:41
Alignment explanation
Indices: 950487--950608 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 41
950477 TGTCGCAAGT
* * *
950487 GGGTTAATCTATAGTGACATTTTTCCAACAAACGCCGCAATT
1 GGGTTAATCTATATTGAC-TTTTTCCAACAAACGCCACAATA
* **
950529 GGGTTAATTTATATTGGTTTTTTTTTCCAACAAACGCCACAATA
1 GGGTTAATCTATATT-G--ACTTTTTCCAACAAACGCCACAATA
*
950573 GGTTTAATCTATATTGACGTTTTTCCAACAAACGCC
1 GGGTTAATCTATATTGAC-TTTTTCCAACAAACGCC
950609 GCAACAGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
42 30 0.45
43 2 0.03
44 34 0.52
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (41 bp):
GGGTTAATCTATATTGACTTTTTCCAACAAACGCCACAATA
Found at i:952609 original size:2 final size:2
Alignment explanation
Indices: 952602--952632 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
952592 ATGGTTTGGG
952602 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
952633 AATTAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:953423 original size:21 final size:22
Alignment explanation
Indices: 953372--953423 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
953362 TCTACATATC
*
953372 TTCTTATTATATACTATTGTTT
1 TTCTTTTTATATACTATTGTTT
* * * *
953394 TTGTATTTAT-TATTATTTTTT
1 TTCTTTTTATATACTATTGTTT
953415 TTCTTTTTA
1 TTCTTTTTA
953424 AAAGCCACAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (22 bp):
TTCTTTTTATATACTATTGTTT
Found at i:953702 original size:29 final size:31
Alignment explanation
Indices: 953664--953730 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
953654 AATTTTAAAT
*
953664 AAAAATTTAATGATT-ATAATATA-A-ATTTG
1 AAAAGTTTAATGATTAAT-ATATACACATTTG
*
953693 AAAAGTTTAATGATTAATATATACACATTTT
1 AAAAGTTTAATGATTAATATATACACATTTG
953724 AAAAGTT
1 AAAAGTT
953731 CATATCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.40
Consensus pattern (31 bp):
AAAAGTTTAATGATTAATATATACACATTTG
Found at i:956413 original size:17 final size:17
Alignment explanation
Indices: 956393--956425 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
956383 TGAAATTTAT
956393 TTATTT-TTTGAATTAAA
1 TTATTTATTTG-ATTAAA
956410 TTATTTATTTGATTAA
1 TTATTTATTTGATTAA
956426 TTGTGTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TTATTTATTTGATTAAA
Found at i:963078 original size:12 final size:12
Alignment explanation
Indices: 963063--963118 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
963053 ATACAAATAC
*
963063 ACATATACGAAT
1 ACATATACGGAT
963075 ACATATACGGAT
1 ACATATACGGAT
*
963087 ACAGATACGGAT
1 ACATATACGGAT
*
963099 AC-TGATACAGAT
1 ACAT-ATACGGAT
*
963111 ACAGATAC
1 ACATATAC
963119 ATCATTACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (12 bp):
ACATATACGGAT
Found at i:963088 original size:6 final size:6
Alignment explanation
Indices: 963073--963119 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
963063 ACATATACGA
* * * *
963073 ATACAT ATACGG ATACAG ATACGG ATACTG ATACAG ATACAG ATACA
1 ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACAG ATACA
963120 TCATTACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (6 bp):
ATACAG
Found at i:963094 original size:18 final size:18
Alignment explanation
Indices: 963073--963118 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
963063 ACATATACGA
*
963073 ATACATATACGGATACAG
1 ATACAGATACGGATACAG
* *
963091 ATACGGATACTGATACAG
1 ATACAGATACGGATACAG
963109 ATACAGATAC
1 ATACAGATAC
963119 ATCATTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
ATACAGATACGGATACAG
Found at i:971369 original size:18 final size:17
Alignment explanation
Indices: 971346--971379 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
971336 TTAAATTTCT
971346 CTAGAATTACGATTGTTG
1 CTAGAATTACG-TTGTTG
971364 CTAGAATTACGTTGTT
1 CTAGAATTACGTTGTT
971380 ATAAGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (17 bp):
CTAGAATTACGTTGTTG
Found at i:972314 original size:60 final size:60
Alignment explanation
Indices: 972247--972359 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
972237 GGGTGACCAC
* *
972247 TTTGTAACTTTTAATAGTCGTGGGACTCAGCAAAGCAACA-CCCTATAGTCGAATAATCAT
1 TTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCC-ATAGTCGAATAATCAT
* * *
972307 TTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGTATCATCCCATAGTCGAA
1 TTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCCATAGTCGAA
972360 GGACTATTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (60 bp):
TTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACATCCCATAGTCGAATAATCAT
Found at i:972554 original size:24 final size:24
Alignment explanation
Indices: 972527--972590 Score: 110
Period size: 24 Copynumber: 2.7 Consensus size: 24
972517 ATTAGCCACT
*
972527 GTTCGTGTTCGATTATGTTCGTCC
1 GTTCGTGTTCGTTTATGTTCGTCC
*
972551 GTTCGTGTTCGTTTATGTTCGTTC
1 GTTCGTGTTCGTTTATGTTCGTCC
972575 GTTCGTGTTCGTTTAT
1 GTTCGTGTTCGTTTAT
972591 TATTTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.06, C:0.17, G:0.25, T:0.52
Consensus pattern (24 bp):
GTTCGTGTTCGTTTATGTTCGTCC
Found at i:976531 original size:15 final size:15
Alignment explanation
Indices: 976511--976540 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
976501 GTTAACCAAA
976511 TTAATTGAAATTTAT
1 TTAATTGAAATTTAT
976526 TTAATTGAAATTTAT
1 TTAATTGAAATTTAT
976541 AAATAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTAATTGAAATTTAT
Found at i:976633 original size:2 final size:2
Alignment explanation
Indices: 976626--976658 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
976616 AAGCTAAATA
976626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
976659 TAAATATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:978911 original size:16 final size:16
Alignment explanation
Indices: 978890--978920 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
978880 CAATACCTCA
*
978890 ATACGTATGTATGTAT
1 ATACGTATGCATGTAT
978906 ATACGTATGCATGTA
1 ATACGTATGCATGTA
978921 CCAGTTGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (16 bp):
ATACGTATGCATGTAT
Found at i:979838 original size:34 final size:34
Alignment explanation
Indices: 979779--979845 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
979769 TTCTTGAGAG
*
979779 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTCA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTCA
979813 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
979846 AATTCCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTCA
Found at i:982681 original size:17 final size:18
Alignment explanation
Indices: 982641--982683 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
982631 ATCTAGTGAC
982641 TAAAATAAAAATACATAAA
1 TAAAAT-AAAATACATAAA
*
982660 T-AAATAAAATA-GTAAA
1 TAAAATAAAATACATAAA
982676 TAAAATAA
1 TAAAATAA
982684 TTTATCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 12 0.55
18 4 0.18
19 1 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
TAAAATAAAATACATAAA
Found at i:982763 original size:6 final size:6
Alignment explanation
Indices: 982754--982780 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
982744 ATCATTTTTC
982754 TCCAAA TCCAAA TCCAAA TCCAAA TCC
1 TCCAAA TCCAAA TCCAAA TCCAAA TCC
982781 GATCCAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCAAA
Found at i:982854 original size:17 final size:19
Alignment explanation
Indices: 982820--982856 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
982810 CACCTAATAT
*
982820 AAAATCAAAATTTCATAAA
1 AAAATCAAAACTTCATAAA
982839 AAAATC-AAACTT-ATAAA
1 AAAATCAAAACTTCATAAA
982856 A
1 A
982857 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAATCAAAACTTCATAAA
Found at i:983639 original size:7 final size:7
Alignment explanation
Indices: 983629--983673 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
983619 CCAAAGTCCG
983629 AAAGAAA
1 AAAGAAA
983636 AAAGAAA
1 AAAGAAA
983643 AAAGAAA
1 AAAGAAA
*
983650 AAAGTAA
1 AAAGAAA
983657 AAAGAAA
1 AAAGAAA
983664 AAAGAAA
1 AAAGAAA
983671 AAA
1 AAA
983674 ATTTATAGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:984573 original size:27 final size:27
Alignment explanation
Indices: 984543--984597 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
984533 CAATTGTATA
984543 TATTTAAAAACTTTAGAATTAATTTTT
1 TATTTAAAAACTTTAGAATTAATTTTT
* * * * *
984570 TATTTTAATATTTTATATTTAATTTTT
1 TATTTAAAAACTTTAGAATTAATTTTT
984597 T
1 T
984598 TCCCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (27 bp):
TATTTAAAAACTTTAGAATTAATTTTT
Found at i:987619 original size:33 final size:32
Alignment explanation
Indices: 987542--987627 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 32
987532 GCTTAATTGG
* *
987542 TGACATGACACATGTCATGTTATCACTTTGGA
1 TGACATGACACATGTCATATTATCACTTTGCA
* * * *
987574 TGACATGTCACATGTCATATCTCTTATTTTGCA
1 TGACATGACACATGTCATAT-TATCACTTTGCA
* *
987607 TGACATGGCACATGCCATATT
1 TGACATGACACATGTCATATT
987628 CGCAATTGAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
32 19 0.42
33 26 0.58
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (32 bp):
TGACATGACACATGTCATATTATCACTTTGCA
Found at i:993037 original size:39 final size:39
Alignment explanation
Indices: 992963--993037 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
992953 TTGTTGGTTG
*
992963 CTGTTCGTTGTGTTCTTCTCCTCCTCTTTTTTTTCTGTT
1 CTGTTCGTTGTGTTCTTCTCCTCCTCTTTTCTTTCTGTT
* *
993002 CTGTTTGTTGTTGTTC-TCTGCT-CTCTTCTTCTTTCT
1 CTGTTCGTTG-TGTTCTTCTCCTCCTCTT-TTCTTTCT
993038 TGCAGGTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 5 0.16
39 21 0.68
40 5 0.16
ACGTcount: A:0.00, C:0.25, G:0.13, T:0.61
Consensus pattern (39 bp):
CTGTTCGTTGTGTTCTTCTCCTCCTCTTTTCTTTCTGTT
Found at i:993463 original size:3 final size:3
Alignment explanation
Indices: 993450--993534 Score: 125
Period size: 3 Copynumber: 28.0 Consensus size: 3
993440 GTAATATTTA
* *
993450 AAT AAT AAAT AAT ATT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
993496 AAT AAT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
993535 TTAAAATGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
3 71 0.96
4 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:993796 original size:76 final size:76
Alignment explanation
Indices: 993690--994452 Score: 1375
Period size: 76 Copynumber: 10.0 Consensus size: 76
993680 GGTCTTATGA
* *
993690 ATGACCCTG-AGGGTTTGAAAACATCCAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
*
993754 TAGGGCTTACAG
65 AAGGGCTTACAG
993766 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
993831 AGGGCTTACAG
66 AGGGCTTACAG
*
993842 ATGACCCGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
993907 AGGGCTTACAG
66 AGGGCTTACAG
*
993918 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
993983 AGGACTTACAG
66 AGGGCTTACAG
*
993994 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
994059 AGGACTTACAG
66 AGGGCTTACAG
*
994070 ATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
994135 AGGACTTACAG
66 AGGGCTTACAG
*
994146 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
994211 AGGGCTTACAG
66 AGGGCTTACAG
*
994222 ATGACCCGAAGGCTTTGACAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
994287 AGGGCTTACAG
66 AGGGCTTACAG
* *
994298 ATGCCCCGAAGGCTTTGACAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
994363 AGGGCTTACAG
66 AGGGCTTACAG
994374 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
994439 AGGACTTACAG
66 AGGGCTTACAG
994450 ATG
1 ATG
994453 TGAGAAATAG
Statistics
Matches: 671, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
75 1 0.00
76 670 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGGCTTACAG
Found at i:997989 original size:115 final size:113
Alignment explanation
Indices: 997772--997989 Score: 276
Period size: 115 Copynumber: 1.9 Consensus size: 113
997762 GATCATGCAG
* * **
997772 TTCATCTTTCAATTCCAATGATCAGTTCTGGGGTTCCTACCAAATTAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATCAGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
** * * *
997837 ACACTTCCAGAAGATGCTATTGGGTCTCCTTGTTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATT-GAACACATTATTTCTACCATGAGCAAA
* ** *
997886 TTCATCTTTCAAATCTAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATCAG-TTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
997951 AACACTTCCAGAAGATGCTATT-AACACATTCATCTTCTA
65 AACACTTCCAGAAGATGCTATTGAACACATT-AT-TTCTA
997990 AATTCATGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
113 4 0.05
114 22 0.25
115 62 0.70
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATCAGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAACACATTATTTCTACCATGAGCAAA
Found at i:1000276 original size:13 final size:13
Alignment explanation
Indices: 1000260--1000306 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
1000250 TCAATTTTCC
1000260 TTTTTC-TTTTTT
1 TTTTTCTTTTTTT
*
1000272 TTTTTCTTCTTTT
1 TTTTTCTTTTTTT
*
1000285 TTTTTCTTTTTCT
1 TTTTTCTTTTTTT
*
1000298 TCTTTCTTT
1 TTTTTCTTT
1000307 GTTGGATGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:1000288 original size:19 final size:20
Alignment explanation
Indices: 1000261--1000306 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1000251 CAATTTTCCT
*
1000261 TTTTCTTTTTTTTTTTCTTC
1 TTTTCTTTTTCTTTTTCTTC
1000281 TTTT-TTTTTCTTTTTCTTC
1 TTTTCTTTTTCTTTTTCTTC
1000300 -TTTCTTT
1 TTTTCTTT
1000307 GTTGGATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 17 0.71
20 4 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTCTTTTTCTTTTTCTTC
Found at i:1004999 original size:13 final size:15
Alignment explanation
Indices: 1004981--1005017 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
1004971 TCTAACAGAA
1004981 AAATAAAATA-ATG-
1 AAATAAAATATATGC
*
1004994 AAATAAAATATTTGC
1 AAATAAAATATATGC
1005009 AAATAAAAT
1 AAATAAAAT
1005018 GAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (15 bp):
AAATAAAATATATGC
Found at i:1005061 original size:30 final size:29
Alignment explanation
Indices: 1005016--1005082 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 29
1005006 TGCAAATAAA
*
1005016 ATGAAATATTAATAAGAAAATATATAAATATT
1 ATGAAA-ATTAATAAG--AATATATAAAAATT
*
1005048 ATGAAAA-TAATAAGTATATATAAAAATT
1 ATGAAAATTAATAAGAATATATAAAAATT
*
1005076 TTGAAAA
1 ATGAAAA
1005083 GAAAGAATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 18 0.56
30 7 0.22
31 1 0.03
32 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (29 bp):
ATGAAAATTAATAAGAATATATAAAAATT
Found at i:1005072 original size:18 final size:19
Alignment explanation
Indices: 1005031--1005074 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1005021 ATATTAATAA
1005031 GAAAATATATAAATATTAT
1 GAAAATATATAAATATTAT
*
1005050 GAAAATA-ATAAGTATATAT
1 GAAAATATATAAATAT-TAT
*
1005069 AAAAAT
1 GAAAAT
1005075 TTTGAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
GAAAATATATAAATATTAT
Found at i:1007355 original size:3 final size:3
Alignment explanation
Indices: 1007342--1007426 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
1007332 GTAATATTTA
* * *
1007342 AAT AAT AAAT AAT ATT ACT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
1007388 AAT AAT AAT AAT AAT AAT AAT AAT TTT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1007427 TTAAAATGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
3 70 0.96
4 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:1016317 original size:53 final size:53
Alignment explanation
Indices: 1016237--1016354 Score: 236
Period size: 53 Copynumber: 2.2 Consensus size: 53
1016227 CATAGGGGGT
1016237 ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1 ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1016290 ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1 ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1016343 ACCGATTCCCCC
1 ACCGATTCCCCC
1016355 CAAGGGGGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.20, C:0.30, G:0.26, T:0.24
Consensus pattern (53 bp):
ACCGATTCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
Found at i:1021640 original size:165 final size:162
Alignment explanation
Indices: 1021346--1021775 Score: 483
Period size: 165 Copynumber: 2.6 Consensus size: 162
1021336 TCTTCGAATG
* * * * * *
1021346 ACGGG-TCTGCTCCCTATTCTTTCAGGGAGTATAAGACTCAAACAATCTTCGGCAAACGTGTCTG
1 ACGGGTTC-GCTCTCTATTCTTTCA-GGAGTAT-GGACTCGAATAATCTTCAGCAATCGTGTCTG
* * * * *
1021410 CTCCCTATTCAGTCGGGGAGTATAAGACTCGAACAATCTTTAATAAATGAGTCCGCTCTCTATTT
63 CTCCCTATTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAATAAATGAGTCCGCTCCCTATTT
*
1021475 CTTCAGAGAGTAT-AGAACACGAACAATTTTC-ATAAA
127 CTTCAGAGAGTATAAG-ACACGAACAATCTTCAAT-AA
* * * *
1021511 ATGGGTTCGCTCTCTATTCTTTCAGAGAGTATGTGACTCGAATAATCTTCTGTAATCGGGTCTGC
1 ACGGGTTCGCTCTCTATTCTTTCAG-GAGTATG-GACTCGAATAATCTTCAGCAATCGTGTCTGC
* * *
1021576 TCCCTATTGCTTCAGAGAGTATGAGACTCGAACAATCTTCAAT-AATCGTGTCTGCTCCCTATTT
64 TCCCTATT-CTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAAT-GAGTCCGCTCCCTATTT
* *
1021640 CTTTAGAGAGTATAAGACTCGAACAATCTTCAATAA
127 CTTCAGAGAGTATAAGACACGAACAATCTTCAATAA
* *
1021676 ACGGGTTCGCTCCCTCT-TTCTTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTCT
1 ACGGGTTCGCT--CTCTATTCTTTCAGG-AGTAT-GGACTCGAATAATCTTCAGCAATCGTGTCT
1021740 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACA
62 GCTCCCTATT-CTTCAGAGAGTATAAGACTCGAACA
1021776 TATTCTCTTA
Statistics
Matches: 226, Mismatches: 28, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
164 4 0.02
165 138 0.61
166 79 0.35
167 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (162 bp):
ACGGGTTCGCTCTCTATTCTTTCAGGAGTATGGACTCGAATAATCTTCAGCAATCGTGTCTGCTC
CCTATTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAATGAGTCCGCTCCCTATTTCTTC
AGAGAGTATAAGACACGAACAATCTTCAATAA
Found at i:1021744 original size:56 final size:57
Alignment explanation
Indices: 1021324--1021775 Score: 397
Period size: 55 Copynumber: 8.2 Consensus size: 57
1021314 AGGATAAGCA
* * * *
1021324 AGACTTGAAAAATCTTCGAATGA-CGGGTCTGCTCCCTA-TTCTTTCAGGGAGTATA-
1 AGACTCGAACAATCTTC-AATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
* *** * * ** * *
1021379 AGACTCAAACAATCTTCGGCAAACGTGTCTGCTCCCTA-TTCAGTCGGGGAGTATA-
1 AGACTCGAACAATCTTCAATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
* * * *
1021434 AGACTCGAACAATCTTTAATAAAT-GAGTCCGCTCTCTATTTC-TTCAGAGAGTATAG
1 AGACTCGAACAATCTTCAAT-AATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
* * * *
1021490 A-ACACGAACAATTTTCATAAAAT-GGGT-TCGCTCTCTA-TTCTTTCAGAGAGTAT-G
1 AGACTCGAACAATCTTCA-ATAATCGGGTCT-GCTCCCTATTTCTTTCAGAGAGTATAG
* * ** *
1021544 TGACTCGAATAATCTTCTGTAATCGGGTCTGCTCCCTATTGC-TTCAGAGAGTAT-G
1 AGACTCGAACAATCTTCAATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
*
1021599 AGACTCGAACAATCTTCAATAATCGTGTCTGCTCCCTATTTCTTT-AGAGAGTATA-
1 AGACTCGAACAATCTTCAATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
* *
1021654 AGACTCGAACAATCTTCAATAAACGGGT-TCGCTCCCTCTTTCTTTCAG-GAAGTATAG
1 AGACTCGAACAATCTTCAATAATCGGGTCT-GCTCCCTATTTCTTTCAGAG-AGTATAG
* * * *
1021711 A-ACTCGAATAATCTTCAACAATCGTGTCTGCTCCCTA-TTCCTTCAGAGAGTATA-
1 AGACTCGAACAATCTTCAATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
1021765 AGACTCGAACA
1 AGACTCGAACA
1021776 TATTCTCTTA
Statistics
Matches: 323, Mismatches: 54, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
54 10 0.03
55 261 0.81
56 50 0.15
57 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (57 bp):
AGACTCGAACAATCTTCAATAATCGGGTCTGCTCCCTATTTCTTTCAGAGAGTATAG
Found at i:1021852 original size:54 final size:54
Alignment explanation
Indices: 1021767--1021999 Score: 441
Period size: 54 Copynumber: 4.3 Consensus size: 54
1021757 AGAGTATAAG
* *
1021767 ACTCGAACATATTC-TCTTACAGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1021820 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1021874 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1021928 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1 ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
1021982 ACTCGAACATCTTCTTCT
1 ACTCGAACATCTTCTTCT
1022000 GCTTTACTTC
Statistics
Matches: 177, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
53 13 0.07
54 164 0.93
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (54 bp):
ACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGA
Found at i:1022405 original size:37 final size:37
Alignment explanation
Indices: 1022299--1022412 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
1022289 ACTCTTCCGA
* * *
1022299 GAAGGCTTAAAAAGGATATGCTTCACTACTCTTCGGT
1 GAAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGT
*
1022336 GAAGGCTTAAGATGG-TTTGCTTCACTACTCTTTGGT
1 GAAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGT
* * *
1022372 GAAGGCTCAAAATGGATTTGCTTCACTGCTCTTTGTT
1 GAAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGT
1022409 GAAG
1 GAAG
1022413 ACTTGACTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.47
37 36 0.53
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (37 bp):
GAAGGCTTAAAATGGATTTGCTTCACTACTCTTTGGT
Found at i:1023774 original size:125 final size:125
Alignment explanation
Indices: 1023564--1023795 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 125
1023554 ATCTTATTCA
** *
1023564 GGTACGAGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATTTTCAATGCCTTCTTGGT
1 GGTACGAGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATTTTCAATGAATCCTTGGT
** *
1023629 CTGAATCTTATCATCTCAACATGATGTGGGTTCAGTCGTGCCTCGACTTTATCTCATACT
66 CCAAATCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCTCGACTTTATCTCATACT
* * *
1023689 GGTAC-AGTCCTTCAAAATGCCCCATCACCTCAATTTGTAAGGCTCATTCTTC-ATGAATCCTTG
1 GGTACGAGT-CTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATT-TTCAATGAATCCTTG
* *
1023752 GTCCAAATCTTGTCATCTCAACATGATGTGGGTTTAGTCATGCC
64 GTCCAAATCTTATCATCTCAACATGATGTGGGTTCAGTCATGCC
1023796 CCAATGTGGG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.03
125 88 0.94
126 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (125 bp):
GGTACGAGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCATTTTCAATGAATCCTTGGT
CCAAATCTTATCATCTCAACATGATGTGGGTTCAGTCATGCCTCGACTTTATCTCATACT
Found at i:1027229 original size:72 final size:72
Alignment explanation
Indices: 1027106--1027256 Score: 239
Period size: 72 Copynumber: 2.1 Consensus size: 72
1027096 CCCCTAATAG
*
1027106 GTTCTTGATCAGTTACTATCATCACATTGGTTGCACCACTAACATTCAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTACTATCATCACATTGGTTGCACCAATAACATTCAGATTCTCACCCGAAGTC
*
1027171 TTCATCT
66 TTCATAT
* * * *
1027178 GTTCTTGATCATTTGCTATCATCACATTGGTTGCACCAATAATATTTAGATTCTCACCCGAAGTC
1 GTTCTTGATCAGTTACTATCATCACATTGGTTGCACCAATAACATTCAGATTCTCACCCGAAGTC
1027243 TTCATAT
66 TTCATAT
*
1027250 TTTCTTG
1 GTTCTTG
1027257 TATAATAGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (72 bp):
GTTCTTGATCAGTTACTATCATCACATTGGTTGCACCAATAACATTCAGATTCTCACCCGAAGTC
TTCATAT
Found at i:1027978 original size:55 final size:55
Alignment explanation
Indices: 1027935--1028102 Score: 268
Period size: 55 Copynumber: 3.1 Consensus size: 55
1027925 TACTTTGTGG
* * *
1027935 ATCTGTCTTCAATCCGTTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
1 ATCTGTCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
*
1027990 ATC-GTTCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGCCATTCTTCATGA
1 ATCTG-TCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
1028045 ATCAT-TCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
1 ATC-TGTCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
1028100 ATC
1 ATC
1028103 ATCTGAACAC
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
54 1 0.01
55 104 0.99
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (55 bp):
ATCTGTCTTCAGTCAGGTTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGA
Found at i:1028103 original size:55 final size:55
Alignment explanation
Indices: 1027952--1028104 Score: 288
Period size: 55 Copynumber: 2.8 Consensus size: 55
1027942 TTCAATCCGT
*
1027952 TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCGTTCTTCAGTCAGG
1 TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCATTCTTCAGTCAGG
*
1028007 TTCAAATTTCTTCATTCATCGGATGCCATTCTTCATGAATCATTCTTCAGTCAGG
1 TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCATTCTTCAGTCAGG
1028062 TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCAT
1 TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCAT
1028105 CTGAACACCT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 95 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (55 bp):
TTCAAATTTCTTCATTCATCGGATGTCATTCTTCATGAATCATTCTTCAGTCAGG
Found at i:1034655 original size:19 final size:19
Alignment explanation
Indices: 1034631--1034668 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1034621 TTTTGGTGCA
*
1034631 GAGGGAATCGATCCCCCCT
1 GAGGGAACCGATCCCCCCT
*
1034650 GAGGGAACCGATTCCCCCT
1 GAGGGAACCGATCCCCCCT
1034669 TTGAAGGGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.37, G:0.26, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATCCCCCCT
Found at i:1037431 original size:54 final size:54
Alignment explanation
Indices: 1037349--1037469 Score: 233
Period size: 54 Copynumber: 2.2 Consensus size: 54
1037339 CATAGGGGGT
*
1037349 ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCTGAGGGA
1 ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1037403 ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1 ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
1037457 ACCGATTCCCCCC
1 ACCGATTCCCCCC
1037470 AAGGGGGTAC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.20, C:0.31, G:0.25, T:0.24
Consensus pattern (54 bp):
ACCGATTCCCCCCTGAATGGTTTGGCTCCGAGAATTCCAGTATGCTCGGAGGGA
Found at i:1053524 original size:25 final size:24
Alignment explanation
Indices: 1053479--1053530 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
1053469 AAAATCTATT
*
1053479 TTCGTTCCTCTAAAGTCTTATAAA
1 TTCGTTCCTCTAAAATCTTATAAA
* *
1053503 TTCGTTCTTCTTAAAATTTTATAAA
1 TTCGTTCCTC-TAAAATCTTATAAA
1053528 TTC
1 TTC
1053531 ACCCTCCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (24 bp):
TTCGTTCCTCTAAAATCTTATAAA
Found at i:1060886 original size:15 final size:15
Alignment explanation
Indices: 1060863--1061092 Score: 397
Period size: 15 Copynumber: 15.3 Consensus size: 15
1060853 AATGATCGAG
*
1060863 GAAGGTGAAAATCCT
1 GAAGATGAAAATCCT
*
1060878 GAAGATGAAAATTCT
1 GAAGATGAAAATCCT
1060893 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
*
1060908 AAAGATGAAAATCCT
1 GAAGATGAAAATCCT
* *
1060923 AAAGATGAAAATTCT
1 GAAGATGAAAATCCT
1060938 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
*
1060953 GAAGATGAAAATTCT
1 GAAGATGAAAATCCT
*
1060968 GAAGTTGAAAATCCT
1 GAAGATGAAAATCCT
1060983 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1060998 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061013 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061028 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061043 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061058 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061073 GAAGATGAAAATCCT
1 GAAGATGAAAATCCT
1061088 GAAGA
1 GAAGA
1061093 AGATCAAAGC
Statistics
Matches: 204, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 204 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (15 bp):
GAAGATGAAAATCCT
Found at i:1063426 original size:20 final size:22
Alignment explanation
Indices: 1063401--1063440 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1063391 AGTCTTATCT
1063401 AGTCG-TTGGGGATG-TTTTAG
1 AGTCGTTTGGGGATGATTTTAG
1063421 AGTCGTTTGGGGATGATTTT
1 AGTCGTTTGGGGATGATTTT
1063441 TCTACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.05, G:0.38, T:0.42
Consensus pattern (22 bp):
AGTCGTTTGGGGATGATTTTAG
Found at i:1063678 original size:21 final size:22
Alignment explanation
Indices: 1063654--1063704 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
1063644 AGTCACAGGC
1063654 GTATGGATACAC-CTGCAGGGT
1 GTATGGATACACACTGCAGGGT
* *
1063675 GTAT--ATCCACATTGCAGGGT
1 GTATGGATACACACTGCAGGGT
1063695 GTATGGATAC
1 GTATGGATAC
1063705 CTTTTGACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 5 0.21
20 12 0.50
21 4 0.17
22 3 0.12
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (22 bp):
GTATGGATACACACTGCAGGGT
Found at i:1063818 original size:32 final size:32
Alignment explanation
Indices: 1063782--1063849 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
1063772 TTTTTAAAAC
* *
1063782 TTTGAATAAATTTAATTCAAGTCCAAAAACAT
1 TTTGAATAAATTCAATTCAAATCCAAAAACAT
1063814 TTTGAATAAATTCAATTCAAATCCAAAAACAT
1 TTTGAATAAATTCAATTCAAATCCAAAAACAT
1063846 TTTG
1 TTTG
1063850 CCTTAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (32 bp):
TTTGAATAAATTCAATTCAAATCCAAAAACAT
Found at i:1067434 original size:24 final size:24
Alignment explanation
Indices: 1067407--1067513 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
1067397 AAACGGAGAT
*
1067407 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
1067431 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
1067455 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** *
1067479 ATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
1067503 ATCAGAAATCA
1 ATCAGAAATCA
1067514 GATAAAATAT
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:1067513 original size:48 final size:48
Alignment explanation
Indices: 1067407--1067515 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
1067397 AAACGGAGAT
* * * *
1067407 ATCAGAAATCAAAACATAATTCAGATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * *
1067455 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
1067503 ATCAGAAATCAGA
1 ATCAGAAATCAGA
1067516 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.20
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:1070040 original size:13 final size:13
Alignment explanation
Indices: 1069998--1070040 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
1069988 GCCGGTCAAC
1069998 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
1070011 GGTAAACGGGTCG
1 GGTCAACGGGTCG
1070024 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1070037 GGTC
1 GGTC
1070041 GGGTTGTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.21, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1072800 original size:15 final size:15
Alignment explanation
Indices: 1072781--1072890 Score: 62
Period size: 16 Copynumber: 7.0 Consensus size: 15
1072771 CCCTCTATTC
1072781 ATTTTATTTCGTTTTT
1 ATTTTATTTC-TTTTT
* *
1072797 -TTTTTTCATTCTTATT
1 ATTTTAT--TTCTTTTT
*
1072813 ATTTTTATTTATTTTT
1 A-TTTTATTTCTTTTT
*
1072829 ATTTTATTTATTTTTT
1 ATTTTATTT-CTTTTT
*
1072845 ATTTTATTTATTTTTT
1 ATTTTATTT-CTTTTT
* * **
1072861 ATATTATTACATTAAT
1 ATTTTATTTC-TTTTT
1072877 ATTTT-TTTCTTTTT
1 ATTTTATTTCTTTTT
1072891 TCATATTTAT
Statistics
Matches: 73, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
14 3 0.04
15 16 0.22
16 46 0.63
17 3 0.04
18 5 0.07
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (15 bp):
ATTTTATTTCTTTTT
Found at i:1072801 original size:16 final size:15
Alignment explanation
Indices: 1072782--1072860 Score: 70
Period size: 16 Copynumber: 5.0 Consensus size: 15
1072772 CCTCTATTCA
**
1072782 TTTTATTTCGTTTTT
1 TTTTATTTATTTTTT
*
1072797 TTTT-TTCATTCTTATT
1 TTTTATTTATT-TT-TT
*
1072813 ATTTTTATTTATTTTTA
1 -TTT-TATTTATTTTTT
1072830 TTTTATTTATTTTTT
1 TTTTATTTATTTTTT
1072845 ATTTTATTTATTTTTT
1 -TTTTATTTATTTTTT
1072861 ATATTATTAC
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 3 0.06
15 17 0.33
16 20 0.38
17 4 0.08
18 3 0.06
19 5 0.10
ACGTcount: A:0.15, C:0.04, G:0.01, T:0.80
Consensus pattern (15 bp):
TTTTATTTATTTTTT
Found at i:1072828 original size:31 final size:30
Alignment explanation
Indices: 1072781--1072860 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 30
1072771 CCCTCTATTC
*
1072781 ATTTTATTTCGTTTTTTTTT-TTCATTCTTATT
1 ATTTTATTT-ATTTTTTTTTATTCATT-TT-TT
*
1072813 ATTTTTATTTATTTTTATTTTATTTATTTTTT
1 A-TTTTATTTATTTTT-TTTTATTCATTTTTT
1072845 ATTTTATTTATTTTTT
1 ATTTTATTTATTTTTT
1072861 ATATTATTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 1 0.02
31 14 0.33
32 9 0.21
33 14 0.33
34 5 0.12
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.79
Consensus pattern (30 bp):
ATTTTATTTATTTTTTTTTATTCATTTTTT
Found at i:1072860 original size:11 final size:11
Alignment explanation
Indices: 1072814--1072868 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
1072804 ATTCTTATTA
1072814 TTTTTATTTA-
1 TTTTTATTTAT
1072824 TTTTTATTTTAT
1 TTTTTA-TTTAT
1072836 TTATTT-TTTA-
1 TT-TTTATTTAT
1072846 -TTTTATTTAT
1 TTTTTATTTAT
1072856 TTTTTATATTAT
1 TTTTTAT-TTAT
1072868 T
1 T
1072869 ACATTAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.08
9 5 0.13
10 6 0.16
11 14 0.37
12 7 0.18
13 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:1072860 original size:32 final size:33
Alignment explanation
Indices: 1072776--1072873 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 33
1072766 TTTTTCCCTC
*
1072776 TATTCATTTTATTTCGTTTTT-TTTT-TTCATTCT
1 TATT-ATTTTATTT-ATTTTTATTTTATTCATTCT
*
1072809 TATTATTTTTATTTATTTTTATTTTATTTATT-T
1 TATTA-TTTTATTTATTTTTATTTTATTCATTCT
*
1072842 T-TTATTTTATTTATTTTTTATATTATTACATT
1 TATTATTTTATTTA-TTTTTATTTTATT-CATT
1072874 AATATTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
31 9 0.16
32 21 0.38
33 21 0.38
34 5 0.09
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (33 bp):
TATTATTTTATTTATTTTTATTTTATTCATTCT
Found at i:1072861 original size:16 final size:16
Alignment explanation
Indices: 1072815--1072868 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
1072805 TTCTTATTAT
1072815 TTTTATTTA-TTTTTA
1 TTTTATTTATTTTTTA
1072830 TTTTATTTATTTTTTA
1 TTTTATTTATTTTTTA
1072846 TTTTATTTATTTTTTA
1 TTTTATTTATTTTTTA
*
1072862 TATTATT
1 TTTTATT
1072869 ACATTAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
15 9 0.24
16 28 0.76
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTATTTTTTA
Found at i:1074475 original size:35 final size:36
Alignment explanation
Indices: 1074403--1074487 Score: 145
Period size: 35 Copynumber: 2.4 Consensus size: 36
1074393 TTGTGGATGA
*
1074403 TAAACGGGGACGGGGATAGGGAAAAAATGAATTTTT
1 TAAACGGGGACGGGGATAGGGAAAAAATGAATGTTT
1074439 TAAACGGGGACGGGGATAGGG-AAAAATGAATGTTT
1 TAAACGGGGACGGGGATAGGGAAAAAATGAATGTTT
*
1074474 TAAACAGGGACGGG
1 TAAACGGGGACGGG
1074488 TTTGGTAATC
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 26 0.55
36 21 0.45
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.19
Consensus pattern (36 bp):
TAAACGGGGACGGGGATAGGGAAAAAATGAATGTTT
Found at i:1076613 original size:35 final size:34
Alignment explanation
Indices: 1076562--1076633 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
1076552 GATTACACCT
1076562 TTTGAAAAATTTAAATTATCGTATAATTTAGATA
1 TTTGAAAAATTTAAATTATCGTATAATTTAGATA
* *
1076596 TTTGAAAATTTTTAAATTCTCGTATAATTTAGATA
1 TTTGAAAA-ATTTAAATTATCGTATAATTTAGATA
1076631 TTT
1 TTT
1076634 TATACTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 8 0.23
35 27 0.77
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (34 bp):
TTTGAAAAATTTAAATTATCGTATAATTTAGATA
Found at i:1081642 original size:2 final size:2
Alignment explanation
Indices: 1081635--1081695 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1081625 CATAAATAAC
1081635 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1081677 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1081696 GCGACAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1083400 original size:5 final size:5
Alignment explanation
Indices: 1083390--1083434 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
1083380 GGATAATTAT
1083390 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1083435 GAAAAAGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:1083841 original size:16 final size:17
Alignment explanation
Indices: 1083816--1083848 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1083806 TAAAATTTAT
*
1083816 AAAATTATAAA-ATAAA
1 AAAATAATAAATATAAA
1083832 AAAATAATAAATATAAA
1 AAAATAATAAATATAAA
1083849 TTTTATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATAATAAATATAAA
Found at i:1083846 original size:22 final size:23
Alignment explanation
Indices: 1083790--1083848 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
1083780 TCTTAAACCT
**
1083790 ATAATATAATATAAAATAAAATTT
1 ATAATA-AATATAAAATAAAATAA
*
1083814 ATAA-AATTATAAAATAAAA-AA
1 ATAATAAATATAAAATAAAATAA
1083835 ATAATAAATATAAA
1 ATAATAAATATAAA
1083849 TTTTATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.13
22 21 0.70
23 1 0.03
24 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAATAAATATAAAATAAAATAA
Found at i:1096112 original size:15 final size:15
Alignment explanation
Indices: 1096092--1096181 Score: 153
Period size: 15 Copynumber: 6.0 Consensus size: 15
1096082 TCGAGAAAGG
1096092 TGAAAATCCTGAAGA
1 TGAAAATCCTGAAGA
*
1096107 TGAAAATTCTGAAGA
1 TGAAAATCCTGAAGA
1096122 TGAAAATCCTGAAGA
1 TGAAAATCCTGAAGA
*
1096137 TGAAAATTCTGAAGA
1 TGAAAATCCTGAAGA
*
1096152 TGAAAATTCTGAAGA
1 TGAAAATCCTGAAGA
1096167 TGAAAATCCTGAAGA
1 TGAAAATCCTGAAGA
1096182 AGATCAAAGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 71 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (15 bp):
TGAAAATCCTGAAGA
Found at i:1096156 original size:45 final size:45
Alignment explanation
Indices: 1096092--1096181 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
1096082 TCGAGAAAGG
1096092 TGAAAATCCTGAAGATGAAAATTCTGAAGATGAAAATCCTGAAGA
1 TGAAAATCCTGAAGATGAAAATTCTGAAGATGAAAATCCTGAAGA
*
1096137 TGAAAATTCTGAAGATGAAAATTCTGAAGATGAAAATCCTGAAGA
1 TGAAAATCCTGAAGATGAAAATTCTGAAGATGAAAATCCTGAAGA
1096182 AGATCAAAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAAAATCCTGAAGATGAAAATTCTGAAGATGAAAATCCTGAAGA
Found at i:1099687 original size:258 final size:257
Alignment explanation
Indices: 1099230--1099723 Score: 735
Period size: 258 Copynumber: 1.9 Consensus size: 257
1099220 AAATGAGTAT
* *
1099230 AATCAGTTGCGAAAATATAGAGGAGATAATACAAGGTGGGGACGATGATGATGATGAAATCAGTT
1 AATCAGTTGCCAAAATATAGAAGAGATAATACAAGGTGGGGACGATGATGATGATGAAATCAGTT
*
1099295 TCCCCCAACTCAACCGTTTGGAACTCAAAGGTCTACCAAAGATAGAAAGCTTCTGCTCATCAAGG
66 TCCCCCAACTCAACCATTTGGAACTCAAA-GTCTACCAAAGATAGAAAGCTTCTGCTCATCAAGG
* * * *
1099360 AATTTTACCTTTTCATTCCCATCCTTGGAAATTCTAGTCGTAGATAATTACCCGAAGATGCAGAT
130 AATTATACCTTTGCATTCCCATCCTTGGAAATTCTAGTCGTAGATAATTACCCAAAGATGAAGAT
*
1099425 GTTCTCTCAAGGACACTCAAACACTCCAAAGTTGCACAAAGGAATTTTACCTTTTCATTCCCA
195 GTTCTCTCAAGGACACTCAAACACTCCAAAGTTACACAAAGGAATTTTACCTTTTCATTCCCA
*
1099488 AATCAGTTGCCTAAATATAGAAGAGATAATACAAGGTGGGGACGATGATGATGATGAAATCAGTT
1 AATCAGTTGCCAAAATATAGAAGAGATAATACAAGGTGGGGACGATGATGATGATGAAATCAGTT
* * * *
1099553 TCCCCCAACTCAACCATTTGGAACTTGGAAA-TCTACCAAAGCTAGAAAGCTTCTGTTCATCAGG
66 TCCCCCAACTCAACCATTTGGAAC-T-CAAAGTCTACCAAAGATAGAAAGCTTCTGCTCATCAAG
* * * * *
1099617 GAATTATACCTTTGGATTCCCATCTTTGGAAGA-TCTATTTC-TACG-TGATTGCCCAAAGATGA
129 GAATTATACCTTTGCATTCCCATCCTTGGAA-ATTCTA-GTCGTA-GATAATTACCCAAAGATGA
*
1099679 AGATGTTCTCTCAAGGACACTCAAACACTCCAATGTTACACAAAG
191 AGATGTTCTCTCAAGGACACTCAAACACTCCAAAGTTACACAAAG
1099724 TACATGGGAG
Statistics
Matches: 212, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
258 204 0.96
259 5 0.02
260 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (257 bp):
AATCAGTTGCCAAAATATAGAAGAGATAATACAAGGTGGGGACGATGATGATGATGAAATCAGTT
TCCCCCAACTCAACCATTTGGAACTCAAAGTCTACCAAAGATAGAAAGCTTCTGCTCATCAAGGA
ATTATACCTTTGCATTCCCATCCTTGGAAATTCTAGTCGTAGATAATTACCCAAAGATGAAGATG
TTCTCTCAAGGACACTCAAACACTCCAAAGTTACACAAAGGAATTTTACCTTTTCATTCCCA
Found at i:1100097 original size:15 final size:15
Alignment explanation
Indices: 1100074--1100108 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1100064 AATGATCGAG
*
1100074 GAAGGTGAAAATCCT
1 GAAGATGAAAATCCT
*
1100089 GAAGATGAAAATTCT
1 GAAGATGAAAATCCT
1100104 GAAGA
1 GAAGA
1100109 AGATCAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.20
Consensus pattern (15 bp):
GAAGATGAAAATCCT
Found at i:1103834 original size:5 final size:5
Alignment explanation
Indices: 1103815--1103894 Score: 144
Period size: 5 Copynumber: 16.2 Consensus size: 5
1103805 TGCTAGTAGT
*
1103815 TATAA T-TAT TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1103864 TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA T
1103895 TAAAAGGGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
4 3 0.04
5 69 0.96
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:1104339 original size:13 final size:13
Alignment explanation
Indices: 1104309--1104341 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1104299 AAAAAAATAA
1104309 TAAATATAAATTT
1 TAAATATAAATTT
1104322 TAAATATAAATTT
1 TAAATATAAATTT
1104335 TAAATAT
1 TAAATAT
1104342 TTTTCTGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATATAAATTT
Found at i:1105458 original size:42 final size:42
Alignment explanation
Indices: 1105395--1105513 Score: 204
Period size: 42 Copynumber: 2.8 Consensus size: 42
1105385 TTTCCCGAAA
*
1105395 TCCCGTGTTTGTTTCATGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
1105437 TCCCGTGTTTGTTTCACGTAATTCG-TTTCTCGAAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTC-CGGAAAATGTTT
1105479 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1105514 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 4 0.06
42 64 0.89
43 4 0.06
ACGTcount: A:0.17, C:0.19, G:0.18, T:0.45
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:1105743 original size:21 final size:22
Alignment explanation
Indices: 1105702--1105759 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
1105692 TAATTATTAA
* *
1105702 AATATTTAAAAT-ATATTTATT
1 AATATTTATAATAATATATATT
1105723 AATATTTATAATAATA-ATATT
1 AATATTTATAATAATATATATT
*
1105744 -ATATTT-TAATATTATA
1 AATATTTATAATAATATA
1105760 AAATAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 7 0.22
20 7 0.22
21 15 0.47
22 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTATAATAATATATATT
Found at i:1105748 original size:26 final size:26
Alignment explanation
Indices: 1105714--1105869 Score: 89
Period size: 28 Copynumber: 5.9 Consensus size: 26
1105704 TATTTAAAAT
1105714 ATATT-TATTAATATTTATAATAATA
1 ATATTATATTAATATTTATAATAATA
1105739 ATATTATATTTTAATA-TTATAA-AATA
1 ATATTATA--TTAATATTTATAATAATA
* *
1105765 ATCAATTATATT-ATA-TAAT-ATAA-G
1 AT--ATTATATTAATATTTATAATAATA
**
1105789 ATATTATATTTTTATTTTAATAATATATA
1 ATATTATATTAATA-TTT-ATAATA-ATA
*
1105818 ATAATT-TTTTATATATTTAATAATGAATA
1 AT-ATTATATTA-ATATTT-ATAAT-AATA
1105847 ATATTAT-TTATATATTT-TAATAA
1 ATATTATATTA-ATATTTATAATAA
1105870 AGATATTTAA
Statistics
Matches: 106, Mismatches: 8, Indels: 34
0.72 0.05 0.23
Matches are distributed among these distances:
22 8 0.08
23 2 0.02
24 3 0.03
25 16 0.15
26 16 0.15
27 9 0.08
28 26 0.25
29 20 0.19
30 6 0.06
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
ATATTATATTAATATTTATAATAATA
Found at i:1105836 original size:29 final size:28
Alignment explanation
Indices: 1105797--1105869 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
1105787 AGATATTATA
1105797 TTTT-TAT-TTTAATAAT-ATATAATAATT
1 TTTTATATATTTAATAATGA-ATAAT-ATT
1105824 TTTTATATATTTAATAATGAATAATATT
1 TTTTATATATTTAATAATGAATAATATT
*
1105852 ATTTATATATTTTAATAA
1 TTTTATATA-TTTAATAA
1105870 AGATATTTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
27 4 0.10
28 14 0.34
29 22 0.54
30 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
TTTTATATATTTAATAATGAATAATATT
Found at i:1105855 original size:56 final size:53
Alignment explanation
Indices: 1105708--1105870 Score: 146
Period size: 51 Copynumber: 3.1 Consensus size: 53
1105698 TTAAAATATT
*
1105708 TAAAAT-AT-ATTTATTA-ATATTTATAAT-AATAATATTATATTTTAATATT-A
1 TAAAATAATAATTTATTATATATTTATAATGAATAATATTAT-TTTT-ATTTTAA
* *
1105758 TAAAATAATCAATTATATTATATA-ATATAA-G-ATATTA-TATTTTTATTTTAA
1 TAAAATAAT-AATT-TATTATATATTTATAATGAATAATATTATTTTTATTTTAA
*
1105809 TAATATATAATAATTTTTTATATATTTAATAATGAATAATATTATTTATATATTTTAA
1 TAA-A-ATAATAATTTATTATATATTT-ATAATGAATAATATTATTT-T-TATTTTAA
1105867 TAAA
1 TAAA
1105871 GATATTTAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
50 10 0.11
51 18 0.20
52 9 0.10
53 17 0.19
54 11 0.12
55 8 0.09
56 5 0.05
57 2 0.02
58 11 0.12
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (53 bp):
TAAAATAATAATTTATTATATATTTATAATGAATAATATTATTTTTATTTTAA
Found at i:1106245 original size:14 final size:14
Alignment explanation
Indices: 1106226--1106278 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
1106216 CCAGAGATAT
1106226 AATTCATTTTCCAG
1 AATTCATTTTCCAG
**
1106240 AATTCAAATTCCAG
1 AATTCATTTTCCAG
*
1106254 TAATTCATTTT-CATT
1 -AATTCATTTTCCA-G
1106269 AATTCATTTT
1 AATTCATTTT
1106279 TTGAAAAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 24 0.75
15 8 0.25
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (14 bp):
AATTCATTTTCCAG
Done.