Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006565.1 Hibiscus syriacus cultivar Beakdansim tig00016066_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: 1014065
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:826441 original size:32 final size:31
Alignment explanation
Indices: 826405--826496 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 31
826395 ACTGGATACT
* *
826405 AGTCAAGTTTGCATTTAGATAATGCACAACAG
1 AGTC-AGTTTGCATTCAGATAATGCACAACAA
* * *
826437 AGTCAGTGTTGTAGTCAGATAATGAACAACAA
1 AGTCAGT-TTGCATTCAGATAATGCACAACAA
* *
826469 AGTCAGTTTTACATTCAGACAATGCACA
1 AGTCAG-TTTGCATTCAGATAATGCACA
826497 TGAATGCCAG
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
31 3 0.06
32 44 0.92
33 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.27
Consensus pattern (31 bp):
AGTCAGTTTGCATTCAGATAATGCACAACAA
Found at i:833485 original size:24 final size:24
Alignment explanation
Indices: 833464--833513 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
833454 AGTCCTTGGT
* *
833464 TTGAATGATTAAATGAACCTTGAA
1 TTGAATGATGAAATCAACCTTGAA
*
833488 TTGGATGATGAAATCAACCTTGAA
1 TTGAATGATGAAATCAACCTTGAA
833512 TT
1 TT
833514 ATTTGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (24 bp):
TTGAATGATGAAATCAACCTTGAA
Found at i:835459 original size:54 final size:54
Alignment explanation
Indices: 835400--835685 Score: 356
Period size: 54 Copynumber: 5.3 Consensus size: 54
835390 TTTGAGATGA
* * * *
835400 ACACTTAGTGCCTATACGGTCATTCATTATCATATGATGAATTCCGTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
***
835454 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTTGTGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
* * *
835508 ACACTTAGTGTCTATATGGTCGTTCATCAACATATGATGAATTCTATGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
* * * * * * *
835562 ACACTTAGTGCCTATATGGTCATTCATCAGCGTACGATAAATCCCATGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
* * * * *
835616 ACAGTTAGTGCCTACACAGTCGTTCATCAACATATTATGAATTACATGGGTTGC
1 ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
* *
835670 AGACTCAGTGCCTATA
1 ACACTTAGTGCCTATA
835686 GTACACATAG
Statistics
Matches: 199, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 199 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (54 bp):
ACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCCATGGGTTGC
Found at i:842218 original size:54 final size:54
Alignment explanation
Indices: 842082--842472 Score: 446
Period size: 54 Copynumber: 7.3 Consensus size: 54
842072 TTCTTTGAGA
* * * * * *
842082 TGCACACGTAGTGCCTATACAGTCATTCATCAACATATGATTAATTATGT-AGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * *
842135 TGCACACTTAGTGTCTATACGATCTTTCATCAACATATGATGAATTCTGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* *
842189 TGCACACTTAGTGCCTATGCGGTCATTCATCAACATATGATGAATT-TCGTGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCT-GTGGGT
* * * **
842243 TGCACACTTAGTGCCTATACGGACGTTCATTAACATATGATGAA-TATGTAAGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* **
842296 TGCACACTTAGTGCCTATACGGCCGTTCATCAACATATGATGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * * * * ** *
842350 TGCACACTTAGTGCCTATACGATCGTTCATCAGCGTACGATGAATCCCATGGTT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
* * * * **
842404 TGCACAGTTAGTGCCTATATGGTCGTTCATCAATATATTATGAATTCCATGGGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
*
842458 TACACACTTAGTGCC
1 TGCACACTTAGTGCC
842473 CATAGTACAC
Statistics
Matches: 290, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
53 91 0.31
54 199 0.69
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (54 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:842222 original size:107 final size:107
Alignment explanation
Indices: 842082--842472 Score: 450
Period size: 107 Copynumber: 3.6 Consensus size: 107
842072 TTCTTTGAGA
* * * *
842082 TGCACACGTAGTGCCTATACAGTCATTCATCAACATATGATTAATTATGTAGTTGCACACTTAGT
1 TGCACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTATGTGGTTGCACACTTAGT
* *
842147 GTCTATACGATCTTTCATCAACATATGATGAATTCTGTGGGT
66 GCCTATACGATCGTTCATCAACATATGATGAATTCTGTGGGT
*
842189 TGCACACTTAGTGCCTATGCGGTCATTCATCAACATATGATGAATT-TCGTGGGTTGCACACTTA
1 TGCACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTAT-GT-GGTTGCACACTTA
* * **
842253 GTGCCTATACGGA-CGTTCATTAACATATGATGAA-TATGTAAGT
64 GTGCCTATAC-GATCGTTCATCAACATATGATGAATTCTGTGGGT
* *
842296 TGCACACTTAGTGCCTATACGGCCGTTCATCAACATATGATGAATTCCATG-GGTTGCACACTTA
1 TGCACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATT--ATGTGGTTGCACACTTA
* * * * ** *
842360 GTGCCTATACGATCGTTCATCAGCGTACGATGAATCCCATGGTT
64 GTGCCTATACGATCGTTCATCAACATATGATGAATTCTGTGGGT
* * * * * *
842404 TGCACAGTTAGTGCCTATATGGTCGTTCATCAATATATTATGAATTCCATG-GGTTACACACTTA
1 TGCACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATT--ATGTGGTTGCACACTTA
842468 GTGCC
64 GTGCC
842473 CATAGTACAC
Statistics
Matches: 245, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
106 3 0.01
107 133 0.54
108 105 0.43
109 3 0.01
110 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (107 bp):
TGCACACTTAGTGCCTATACGGTCATTCATCAACATATGATGAATTATGTGGTTGCACACTTAGT
GCCTATACGATCGTTCATCAACATATGATGAATTCTGTGGGT
Found at i:842351 original size:161 final size:160
Alignment explanation
Indices: 842082--842448 Score: 482
Period size: 161 Copynumber: 2.3 Consensus size: 160
842072 TTCTTTGAGA
* * * *
842082 TGCACACGTAGTGCCTATACAGTCATTCATCAACATATGATTAATTATGTAGTTGCACACTTAGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAA-TATGTAGTTGCACACTTAGT
* * * ** * *
842147 GTCTATACGATCTTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATGCGGT
65 GCCTATACGACCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTGCCTATACGAT
* ** *
842212 CATTCATCAACATATGATGAATTTCGTGGGT
130 CATTCATCAACATACGATGAATCCCATGGGT
* *
842243 TGCACACTTAGTGCCTATACGGACGTTCATTAACATATGATGAATATGTAAGTTGCACACTTAGT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATATGT-AGTTGCACACTTAGT
*
842308 GCCTATACGGCCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTGCCTATACGAT
65 GCCTATACGACCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTGCCTATACGAT
* * * *
842373 CGTTCATCAGCGTACGATGAATCCCATGGTT
130 CATTCATCAACATACGATGAATCCCATGGGT
* * * *
842404 TGCACAGTTAGTGCCTATATGGTCGTTCATCAATATATTATGAAT
1 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAAT
842449 TCCATGGGTT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
160 5 0.03
161 172 0.97
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (160 bp):
TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATATGTAGTTGCACACTTAGTG
CCTATACGACCGTTCATCAACATATGATGAATTCCATGGGTTGCACACTTAGTGCCTATACGATC
ATTCATCAACATACGATGAATCCCATGGGT
Found at i:842829 original size:20 final size:21
Alignment explanation
Indices: 842801--842854 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
842791 AAACTCGATT
*
842801 GTATCGATAC-CTTTACTATG
1 GTATCGATACTCTATACTATG
*
842821 GTATTGATACTTCTATACTATG
1 GTATCGATAC-TCTATACTATG
*
842843 GTACCGATACTC
1 GTATCGATACTC
842855 CCTTGCAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (21 bp):
GTATCGATACTCTATACTATG
Found at i:846000 original size:24 final size:24
Alignment explanation
Indices: 845973--846018 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
845963 CTTGGTTTAA
845973 ATGATTAAATCAACCTTGAATTGG
1 ATGATTAAATCAACCTTGAATTGG
*
845997 ATGATTAAATCAGCCTTGAATT
1 ATGATTAAATCAACCTTGAATT
846019 CTTTGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (24 bp):
ATGATTAAATCAACCTTGAATTGG
Found at i:846629 original size:20 final size:20
Alignment explanation
Indices: 846591--846629 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
846581 CAATTTAATG
* *
846591 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
846611 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
846630 AGTATAAGAT
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:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:849738 original size:24 final size:24
Alignment explanation
Indices: 849717--849766 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
849707 AACCCTTGGT
849717 TTGAATGATTAAATCAACCTTGAA
1 TTGAATGATTAAATCAACCTTGAA
849741 TTGAATGATTAAATCAGA-CTTGAA
1 TTGAATGATTAAATCA-ACCTTGAA
849765 TT
1 TT
849767 CTTTGAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (24 bp):
TTGAATGATTAAATCAACCTTGAA
Found at i:850212 original size:18 final size:18
Alignment explanation
Indices: 850170--850213 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
850160 ATATAAAGAG
*
850170 CTAGTTT-AATTAATGAA
1 CTAGTTTAAATGAATGAA
* *
850187 CCAATTTAAATGAATGAA
1 CTAGTTTAAATGAATGAA
850205 CTAGTTTAA
1 CTAGTTTAA
850214 TTAGTCAACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (18 bp):
CTAGTTTAAATGAATGAA
Found at i:850377 original size:20 final size:20
Alignment explanation
Indices: 850339--850377 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
850329 CAACTTAATG
* *
850339 TCATGCAAATTTATTAACAC
1 TCATGCAAATTCATGAACAC
850359 TCATGCAAATTCATGAACA
1 TCATGCAAATTCATGAACA
850378 AGTAAAAGAT
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:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (20 bp):
TCATGCAAATTCATGAACAC
Found at i:860620 original size:25 final size:25
Alignment explanation
Indices: 860586--860665 Score: 151
Period size: 25 Copynumber: 3.2 Consensus size: 25
860576 CATGAGGGCT
860586 AGGAGGAGACTCGCACCTCCTTGGC
1 AGGAGGAGACTCGCACCTCCTTGGC
*
860611 AGGAGGAGACTCGCATCTCCTTGGC
1 AGGAGGAGACTCGCACCTCCTTGGC
860636 AGGAGGAGACTCGCACCTCCTTGGC
1 AGGAGGAGACTCGCACCTCCTTGGC
860661 AGGAG
1 AGGAG
860666 CTTTTAGGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (25 bp):
AGGAGGAGACTCGCACCTCCTTGGC
Found at i:871564 original size:23 final size:23
Alignment explanation
Indices: 871530--871629 Score: 78
Period size: 23 Copynumber: 4.3 Consensus size: 23
871520 AGTCGAGGAT
*
871530 TCTACGCGGTCCTTCTGGACAAA
1 TCTACGCAGTCCTTCTGGACAAA
* *
871553 TCTATGCAGTCCTTCATGG-CAAT
1 TCTACGCAGTCCTTC-TGGACAAA
** *
871576 TCTACGTGGTCCTTCAGGACAAA
1 TCTACGCAGTCCTTCTGGACAAA
* *
871599 TCATACGC-GTTCATTCGGGACAAA
1 TC-TACGCAG-TCCTTCTGGACAAA
871623 TTCTACG
1 -TCTACG
871630 TGGCACTTCG
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.03
23 34 0.56
24 23 0.38
25 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (23 bp):
TCTACGCAGTCCTTCTGGACAAA
Found at i:871639 original size:24 final size:24
Alignment explanation
Indices: 871573--871648 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
871563 CCTTCATGGC
*
871573 AATTCTACGTGGTC-CTTCAGGACA
1 AATTCTACGTGG-CACTTCGGGACA
* *
871597 AA-TCATACGCGTTCA-TTCGGGACA
1 AATTC-TACGTG-GCACTTCGGGACA
871621 AATTCTACGTGGCACTTCGGTG-CA
1 AATTCTACGTGGCACTTCGG-GACA
871645 AATT
1 AATT
871649 ATATATGCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
23 4 0.10
24 34 0.83
25 3 0.07
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (24 bp):
AATTCTACGTGGCACTTCGGGACA
Found at i:875193 original size:21 final size:20
Alignment explanation
Indices: 875167--875208 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
875157 TGAATCATTT
875167 TTCTTAGCTCCTTAATA-TTAG
1 TTCTTAGCT--TTAATACTTAG
875188 TTCTTAGCTTTAATACTTAG
1 TTCTTAGCTTTAATACTTAG
875208 T
1 T
875209 AGGACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 5 0.25
21 9 0.45
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.50
Consensus pattern (20 bp):
TTCTTAGCTTTAATACTTAG
Found at i:885576 original size:21 final size:20
Alignment explanation
Indices: 885552--885606 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
885542 ATGAGAACAT
885552 GAGGATAAGATTTATCTCACC
1 GAGG-TAAGATTTATCTCACC
* *
885573 GAGGTTAGATTTATCTCACT
1 GAGGTAAGATTTATCTCACC
*
885593 GAGGCAAGATTTAT
1 GAGGTAAGATTTAT
885607 TTGAAGAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (20 bp):
GAGGTAAGATTTATCTCACC
Found at i:889933 original size:20 final size:20
Alignment explanation
Indices: 889908--889982 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
889898 TTTATCAGTC
*
889908 TGGGGGTATCGATACCGGCA
1 TGGGGGTATCGATACCGGTA
*
889928 TGGGGGTATCGATACCAGTA
1 TGGGGGTATCGATACCGGTA
889948 TGGGGGTATCGATACCGGTA
1 TGGGGGTATCGATACCGGTA
**
889968 TATGGGTATCGATAC
1 TGGGGGTATCGATAC
889983 TAAACAGTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (20 bp):
TGGGGGTATCGATACCGGTA
Found at i:906332 original size:29 final size:30
Alignment explanation
Indices: 906295--906357 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
906285 CATTCATAAT
*
906295 TTTTCCAAAATTTCCA-AATTGGTCCCCAAA
1 TTTTCCAAAAATTCCATAA-TGGTCCCCAAA
* *
906325 TTTT-CAAAAATTGCATAATGGTCCCCATA
1 TTTTCCAAAAATTCCATAATGGTCCCCAAA
906354 TTTT
1 TTTT
906358 TCTATGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAAATTCCATAATGGTCCCCAAA
Found at i:909191 original size:25 final size:25
Alignment explanation
Indices: 909157--909206 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
909147 CCCAAGCCAT
909157 TATGAGATGCATCACTATACACCAC
1 TATGAGATGCATCACTATACACCAC
909182 TATGAGATGCATCACTATACACCAC
1 TATGAGATGCATCACTATACACCAC
909207 ATACTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (25 bp):
TATGAGATGCATCACTATACACCAC
Found at i:912556 original size:24 final size:24
Alignment explanation
Indices: 912524--912596 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
912514 AGTCTTCCAG
*
912524 ATGATGTATAAAACATCCATGTAC
1 ATGATGTATAAAACATCTATGTAC
912548 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
*
912572 ATGATGTAAAAAACATCTATGTAC
1 ATGATGTATAAAACATCTATGTAC
912596 A
1 A
912597 ATGTCATGCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGTAC
Found at i:914280 original size:29 final size:31
Alignment explanation
Indices: 914210--914282 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
914200 TAAAATTACC
**
914210 ATTTTGGTCCCTAAACTTTTCCAAAGTTTAT
1 ATTTTGGTTACTAAACTTTTCCAAAGTTTAT
* * * *
914241 ACTTTGTTTACTAAAC-TTT-CAAATTTTGT
1 ATTTTGGTTACTAAACTTTTCCAAAGTTTAT
914270 ATTTTGGTTACTA
1 ATTTTGGTTACTA
914283 TATAAAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 19 0.56
30 3 0.09
31 12 0.35
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (31 bp):
ATTTTGGTTACTAAACTTTTCCAAAGTTTAT
Found at i:915300 original size:13 final size:12
Alignment explanation
Indices: 915284--915329 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 12
915274 TTTTTAAAAT
915284 TAAATATAAGAAA
1 TAAATA-AAGAAA
*
915297 TAAATAAAAGATA
1 TAAAT-AAAGAAA
*
915310 TAAATAAATAAA
1 TAAATAAAGAAA
915322 TAAATAAA
1 TAAATAAA
915330 TAAAAGAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 13 0.45
13 15 0.52
14 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:915303 original size:4 final size:4
Alignment explanation
Indices: 915284--915333 Score: 57
Period size: 4 Copynumber: 12.0 Consensus size: 4
915274 TTTTTAAAAT
*
915284 TAAA TATAA GAAA TAAA TAAA -AGATA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TA-AA TAAA TAAA TAAA TA-A-A TAAA TAAA TAAA TAAA TAAA TAAA
915334 AGAGATTGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 1 0.03
4 33 0.82
5 5 0.12
6 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:916117 original size:76 final size:77
Alignment explanation
Indices: 915986--916135 Score: 207
Period size: 77 Copynumber: 2.0 Consensus size: 77
915976 TTTTAAATCC
* *
915986 TAATTAAAATACTAAAACCTATTTAAACTAAAATTCCTAAAACAAAGATAAAATA-TAAAAATAA
1 TAATTAAAATACTAAAACCTATTTAAACTAAAAATACTAAAACAAAGATAAAATATTAAAAATAA
916050 TATCCTAAAACT
66 TATCCTAAAACT
* * *
916062 TAATTAAAATACTAAAAACCTATTTAAACTAAAAATAC-AAAGATAAA-ATATAATATTTAAAAT
1 TAATTAAAATACT-AAAACCTATTTAAACTAAAAATACTAAA-ACAAAGATAAAATATTAAAAAT
*
916125 ATTATCCTAAA
64 AATATCCTAAA
916136 CTTGAGTTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
76 23 0.35
77 42 0.65
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.29
Consensus pattern (77 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAAATACTAAAACAAAGATAAAATATTAAAAATAA
TATCCTAAAACT
Found at i:917760 original size:6 final size:5
Alignment explanation
Indices: 917742--917826 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
917732 TGTTCAGAGA
*
917742 AAAAT AAAAT AAAATT AAAA- AACTGAT AAAAT AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAA-T AAAAT AA--AAT AAAAT AAAAT AAAAT AAAAT
** * * *
917788 GGAAT GAAAT GAAAT GAAAT -AAAT AAAAT GAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
917827 CGAAATGGGT
Statistics
Matches: 69, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
4 10 0.14
5 46 0.67
6 11 0.16
7 2 0.03
ACGTcount: A:0.71, C:0.01, G:0.08, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:917797 original size:19 final size:18
Alignment explanation
Indices: 917770--917825 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
917760 AAAACTGATA
917770 AAATAAAATAAAATAAAT
1 AAATAAAATAAAATAAAT
* * *
917788 GGAATGAAATGAAATGAAAT
1 -AAATAAAATAAAAT-AAAT
917808 AAATAAAATGAAAATAAA
1 AAATAAAAT-AAAATAAA
917826 ACGAAATGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
19 21 0.72
20 8 0.28
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (18 bp):
AAATAAAATAAAATAAAT
Found at i:917802 original size:24 final size:24
Alignment explanation
Indices: 917743--917826 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
917733 GTTCAGAGAA
*
917743 AAATAAAATAAAATTAAA-AAACTGATA
1 AAATAAAATAAAA-TAAATAAA---ATG
**
917770 AAATAAAATAAAATAAATGGAATG
1 AAATAAAATAAAATAAATAAAATG
* *
917794 AAATGAAATGAAATAAATAAAATG
1 AAATAAAATAAAATAAATAAAATG
917818 AAAATAAAA
1 -AAATAAAA
917827 CGAAATGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 22 0.47
25 7 0.15
26 4 0.09
27 14 0.30
ACGTcount: A:0.70, C:0.01, G:0.08, T:0.20
Consensus pattern (24 bp):
AAATAAAATAAAATAAATAAAATG
Found at i:920830 original size:18 final size:18
Alignment explanation
Indices: 920803--920842 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
920793 ATTGTTTTTT
*
920803 TAAAATTAAATATAA-AAA
1 TAAAAATAAATA-AATAAA
920821 TAAAAATAAATAAATAAA
1 TAAAAATAAATAAATAAA
920839 TAAA
1 TAAA
920843 TAAGTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TAAAAATAAATAAATAAA
Found at i:921513 original size:19 final size:19
Alignment explanation
Indices: 921457--921519 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
921447 CTATTTAAAC
**
921457 TAAAATACTTAAAAAATAAT
1 TAAAATAC-TAAAACCTAAT
* * *
921477 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
921497 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
921516 TAAA
1 TAAA
921520 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:921614 original size:76 final size:75
Alignment explanation
Indices: 921477--921641 Score: 208
Period size: 76 Copynumber: 2.2 Consensus size: 75
921467 AAAAAATAAT
* * * *
921477 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAATAAAGAT
1 ATAATATCCTAAAACATAATTAAAATACTAAAACCTATTTAAACTAAAATA-CAAAAATAAA-AT
921542 AAAATA-TAAAA
64 AAAATATTAAAA
921553 ATAATATCCTAAAACATAATTAAAATACTAAAAACCTATTTAAACTAAAATA-AAAAGATAAAAT
1 ATAATATCCTAAAACATAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAA-ATAAAAT
* * *
921617 ATAGTATTTAAA
64 AAAATATTAAAA
*
921629 ATATTATCCTAAA
1 ATAATATCCTAAA
921642 CTTGAGTTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
75 9 0.12
76 47 0.60
77 22 0.28
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAAACATAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAAATAAAATAA
AATATTAAAA
Found at i:924908 original size:21 final size:23
Alignment explanation
Indices: 924878--924923 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
924868 CTGGACATGG
*
924878 AAAATCAAAAAT-AAAATTA-AT
1 AAAATAAAAAATAAAAATTATAT
924899 AAAATAAAAAATAAAAATTATAT
1 AAAATAAAAAATAAAAATTATAT
924922 AA
1 AA
924924 CGATATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.50
22 7 0.32
23 4 0.18
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAATAAAAAATAAAAATTATAT
Found at i:924941 original size:2 final size:2
Alignment explanation
Indices: 924926--925059 Score: 85
Period size: 2 Copynumber: 70.5 Consensus size: 2
924916 TTATATAACG
* *
924926 AT AT A- AT AT A- AT AT AT AA AT A- AT AT AT AT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * *
924966 A- AT AT AT A- AT TT AA AT AT AT A- AT AT AT A- AC AT ACT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
925005 AT AT AT AT ACT AT AT A- AT AT AT A- AT A- AT A- AT AT ACT AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
925045 CAT AT A- AT AT AT AT A
1 -AT AT AT AT AT AT AT A
925060 ATTTATAATA
Statistics
Matches: 104, Mismatches: 11, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
1 12 0.12
2 83 0.80
3 9 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:924956 original size:27 final size:27
Alignment explanation
Indices: 924926--925057 Score: 110
Period size: 27 Copynumber: 4.6 Consensus size: 27
924916 TTATATAACG
924926 ATATAATATAATATATAAATAATATAT
1 ATATAATATAATATATAAATAATATAT
*
924953 ATATATATAAACTAATATATAATTTAA-ATAT
1 ATATA-AT--A-TAATATATAA-ATAATATAT
*
924984 ATA-ATATATAACATACTAAAT-ATATAT
1 ATATA-ATATAATATA-TAAATAATATAT
925011 ATACT-ATATAATATATAATAATAATATACT
1 ATA-TAATATAATATAT-A-AATAATATA-T
*
925041 ATATCATATAATATATA
1 ATATAATATAATATATA
925058 TAATTTATAA
Statistics
Matches: 87, Mismatches: 4, Indels: 26
0.74 0.03 0.22
Matches are distributed among these distances:
26 2 0.02
27 29 0.33
28 9 0.10
29 7 0.08
30 20 0.23
31 17 0.20
32 3 0.03
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
ATATAATATAATATATAAATAATATAT
Found at i:925008 original size:25 final size:24
Alignment explanation
Indices: 924917--925067 Score: 111
Period size: 23 Copynumber: 6.3 Consensus size: 24
924907 AAATAAAAAT
924917 TATATAACGATATAATATA-ATATA
1 TATATAAC-ATATAATATATATATA
* * *
924941 TAAATAATATAT-ATATATATAAA
1 TATATAACATATAATATATATATA
*
924964 CTAATATATA-ATTTAA-ATATATA-A
1 -T-ATATA-ACATATAATATATATATA
924988 TATATAACATACTAAATATATATATA
1 TATATAACATA-T-AATATATATATA
*
925014 CTATATAATATATAATA-ATA-ATA
1 -TATATAACATATAATATATATATA
*
925037 TACTATATCATATAATATATATA-A
1 TA-TATAACATATAATATATATATA
*
925061 TTTATAA
1 TATATAA
925068 TAATGTACCA
Statistics
Matches: 102, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
21 1 0.01
22 14 0.14
23 29 0.28
24 18 0.18
25 26 0.25
26 4 0.04
27 10 0.10
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (24 bp):
TATATAACATATAATATATATATA
Found at i:925068 original size:36 final size:35
Alignment explanation
Indices: 924928--925085 Score: 109
Period size: 36 Copynumber: 4.5 Consensus size: 35
924918 ATATAACGAT
* * *
924928 ATAATATAATATATAAATAATATATAT-ATATATAA
1 ATAATATACTATATATATAATATATATAATTTAT-A
924963 ACTAATATA-TA-AT-T-TAA-ATATATAA--TAT-
1 A-TAATATACTATATATATAATATATATAATTTATA
* *
924991 ATAACATACTAAATATATATATACTATATAATATATAATA
1 ATAATATACTATATATATA-ATA-TATATAAT-T-T-ATA
925031 ATAATATACTATATCATATAATATATATAATTTATA
1 ATAATATACTATAT-ATATAATATATATAATTTATA
* *
925067 ATAATGTACCATAATATAT
1 ATAATATACTAT-ATATAT
925086 TTTATAGTGT
Statistics
Matches: 100, Mismatches: 6, Indels: 33
0.72 0.04 0.24
Matches are distributed among these distances:
27 6 0.06
28 3 0.03
29 2 0.02
30 4 0.04
31 8 0.08
32 5 0.05
33 1 0.01
34 9 0.09
35 3 0.03
36 24 0.24
37 3 0.03
38 2 0.02
39 10 0.10
40 15 0.15
41 5 0.05
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (35 bp):
ATAATATACTATATATATAATATATATAATTTATA
Found at i:928895 original size:23 final size:23
Alignment explanation
Indices: 928850--928921 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
928840 CCTTCGAGAC
* *
928850 AAACTATATGGTCCTTC-GAGACA
1 AAACTATATGATCATTCAG-GACA
*
928873 AAACTATGTGATCATTCAGGACAA
1 AAACTATATGATCATTCAGGAC-A
* * *
928897 AAACTATATGGTCTTTCGGGACA
1 AAACTATATGATCATTCAGGACA
928920 AA
1 AA
928922 TATGTGGCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
23 20 0.50
24 20 0.50
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (23 bp):
AAACTATATGATCATTCAGGACA
Found at i:928902 original size:24 final size:24
Alignment explanation
Indices: 928850--928921 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
928840 CCTTCGAGAC
* *
928850 AAACTATATGGTCCTTC-GAGAC-A
1 AAACTATATGATCATTCAG-GACAA
*
928873 AAACTATGTGATCATTCAGGACAA
1 AAACTATATGATCATTCAGGACAA
* * *
928897 AAACTATATGGTCTTTCGGGACAA
1 AAACTATATGATCATTCAGGACAA
928921 A
1 A
928922 TATGTGGCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 17 0.43
24 23 0.57
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (24 bp):
AAACTATATGATCATTCAGGACAA
Found at i:934701 original size:16 final size:16
Alignment explanation
Indices: 934680--934720 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
934670 TTTTGACCAC
*
934680 TTTGGCCTATTCTTTA
1 TTTGGCCCATTCTTTA
934696 TTTGGCCCATTCTTTA
1 TTTGGCCCATTCTTTA
934712 TTTGGCCCA
1 TTTGGCCCA
934721 GCAAGCCTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.15, T:0.49
Consensus pattern (16 bp):
TTTGGCCCATTCTTTA
Found at i:936581 original size:20 final size:20
Alignment explanation
Indices: 936556--936607 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
936546 AGGTAAGGGA
936556 AGTATCGATACTCACTGGGT
1 AGTATCGATACTCACTGGGT
936576 AGTATCGATACTCACTGGGT
1 AGTATCGATACTCACTGGGT
936596 AGTATCGATACT
1 AGTATCGATACT
936608 ACCAGCATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCACTGGGT
Found at i:936707 original size:20 final size:21
Alignment explanation
Indices: 936682--936721 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
936672 CTTTGTATAG
936682 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
936702 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
936722 CCCAGCGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:941661 original size:18 final size:18
Alignment explanation
Indices: 941635--941704 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
941625 AATTCTAAAT
* *
941635 ATTTACAGTTATCATATT
1 ATTTACAGTTATCAGATG
* * *
941653 ATTTTCAGTGATTAGATG
1 ATTTACAGTTATCAGATG
*
941671 ATTTTCAGTTATCAGATG
1 ATTTACAGTTATCAGATG
941689 ATTTACAGTTATCAGA
1 ATTTACAGTTATCAGA
941705 AAATTTTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.44
Consensus pattern (18 bp):
ATTTACAGTTATCAGATG
Found at i:941710 original size:18 final size:18
Alignment explanation
Indices: 941671--941710 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
941661 TGATTAGATG
* **
941671 ATTTTCAGTTATCAGATG
1 ATTTACAGTTATCAGAAA
941689 ATTTACAGTTATCAGAAA
1 ATTTACAGTTATCAGAAA
941707 ATTT
1 ATTT
941711 TAAGATCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (18 bp):
ATTTACAGTTATCAGAAA
Found at i:941711 original size:36 final size:35
Alignment explanation
Indices: 941635--941738 Score: 86
Period size: 36 Copynumber: 2.9 Consensus size: 35
941625 AATTCTAAAT
* * * * * **
941635 ATTTACAGTTATCATATTATTTTCAGTGATTAGATG
1 ATTTTCAGTTATCAGA-TATTTACAGTTATCAGAAA
941671 ATTTTCAGTTATCAGATGATTTACAGTTATCAGAAA
1 ATTTTCAGTTATCAGAT-ATTTACAGTTATCAGAAA
* *
941707 ATTTTAAG--ATCAGATATTTCACAGATATCAGA
1 ATTTTCAGTTATCAGATATTT-ACAGTTATCAGA
941739 TACAAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
33 4 0.07
34 18 0.32
35 1 0.02
36 34 0.60
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (35 bp):
ATTTTCAGTTATCAGATATTTACAGTTATCAGAAA
Found at i:941897 original size:41 final size:41
Alignment explanation
Indices: 941835--941915 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
941825 AAGTGAGTTC
* * *
941835 TTATCAGTTCAGCATTGGTACATTTGTGTATCAATGTTCAG
1 TTATCAGTTCAACATTAGTACATTCGTGTATCAATGTTCAG
* *
941876 TTATCAGTTCAACTTTAGTACATTCGTGTATTAATGTTCA
1 TTATCAGTTCAACATTAGTACATTCGTGTATCAATGTTCA
941916 ACACCGTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (41 bp):
TTATCAGTTCAACATTAGTACATTCGTGTATCAATGTTCAG
Found at i:942282 original size:165 final size:168
Alignment explanation
Indices: 942008--942343 Score: 624
Period size: 165 Copynumber: 2.0 Consensus size: 168
941998 GCCTAGTGCG
942008 CAACTTAAACTCATGTAGCTTATATTCTCTTACATATACATTGGGATATAGCAGTAAAAATGAAA
1 CAACTTAAACTCATGTAGCTTATATTCTCTTACATATACATTGGGATATAGCAGTAAAAATGAAA
942073 GTTATGACAATATATGAAAGAAAGGAATATAGAATTGAAAAGAAAGTTTTGAAACATGTTCGAAT
66 GTTATGACAATATATGAAAGAAAGGAATATAGAATTGAAAAGAAAGTTTTGAAACATGTTCGAAT
942138 GAAAAGAACAAAATG-TTATTATATTTGATGTTGATTT
131 GAAAAGAACAAAATGTTTATTATATTTGATGTTGATTT
942175 CAACTTAAACTCATGTAGCTTATA-T-TCTTACATATACATTGGGATATAGCAGTAAAAATGAAA
1 CAACTTAAACTCATGTAGCTTATATTCTCTTACATATACATTGGGATATAGCAGTAAAAATGAAA
942238 GTTATGACAATATATGAAAGAAAGGAATATAGAATTGAAAAGAAAGTTTTGAAACATGTTCGAAT
66 GTTATGACAATATATGAAAGAAAGGAATATAGAATTGAAAAGAAAGTTTTGAAACATGTTCGAAT
942303 GAAAAGAACAAAATGTTATTTATTATATTTGATGTTGATTT
131 GAAAAGAACAAAATG---TTTATTATATTTGATGTTGATTT
942344 ACATGATTTT
Statistics
Matches: 165, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
165 118 0.72
166 1 0.01
167 24 0.15
169 22 0.13
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (168 bp):
CAACTTAAACTCATGTAGCTTATATTCTCTTACATATACATTGGGATATAGCAGTAAAAATGAAA
GTTATGACAATATATGAAAGAAAGGAATATAGAATTGAAAAGAAAGTTTTGAAACATGTTCGAAT
GAAAAGAACAAAATGTTTATTATATTTGATGTTGATTT
Found at i:948684 original size:81 final size:81
Alignment explanation
Indices: 948576--949547 Score: 1521
Period size: 81 Copynumber: 12.0 Consensus size: 81
948566 ACAGTTCTAA
* * * * * *
948576 AGTAAAAGATTATTGGCCTTGATGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTTGATGAC
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
948641 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
948657 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTATCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
948722 AGGTAAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
948738 AGTAAAAGATTAATGGCATAGTTGTGCATTTGGCAGAAACGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
948803 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
948819 AGTAAATGATTAATGGCCTAGTTGTGCATTTGGCATAAATGTGTAAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
948884 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
948900 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
948965 AGGTTAAATACGTGTG
66 AGGTTAAATACCTTTG
* * * *
948981 AGTAAAAGATTAATGGCCTAGCTGTGTATTCGTCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
949046 AGGTTAAATAACTTTG
66 AGGTTAAATACCTTTG
* *
949062 AGTAAAAGATTAATGGCATAGTTGTGCATTTGGCAGAAACGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
949127 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
949143 AGTAAATGATTAATGGCCTAGTTGTGCATTTGGCATAAATGTGTAAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
949208 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
949224 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
949289 AGGTTAAATACGTGTG
66 AGGTTAAATACCTTTG
* * * *
949305 AGTAAAAGATTAATGGCCTAGCTGTGTATTCGTCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
949370 AGGTTAAATAACTTTG
66 AGGTTAAATACCTTTG
* * *
949386 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
949451 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
949467 TGTAAAAGATTAATGGCCTAGCTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTGGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
949532 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
949548 GGTATAAAAC
Statistics
Matches: 818, Mismatches: 73, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 818 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:952203 original size:2 final size:2
Alignment explanation
Indices: 952196--952260 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
952186 TGTCAGAAAG
952196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952238 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
952261 GCTTTTATAG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:956953 original size:20 final size:20
Alignment explanation
Indices: 956928--956968 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
956918 ACATCGAATG
*
956928 TATTGTGTGTA-CTGATACAC
1 TATTGTATGTATC-GATACAC
956948 TATTGTATGTATCGATACAC
1 TATTGTATGTATCGATACAC
956968 T
1 T
956969 CCCTACATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (20 bp):
TATTGTATGTATCGATACAC
Found at i:956958 original size:55 final size:54
Alignment explanation
Indices: 956880--957025 Score: 186
Period size: 55 Copynumber: 2.6 Consensus size: 54
956870 CATAAATGTA
* *
956880 TGTACCGATACACTCTTGGATGTATCGATACACCCCCTACATCGAATGTATTGTG
1 TGTACTGATACACTATT-GATGTATCGATACACCCCCTACATCGAATGTATTGTG
* * *
956935 TGTACTGATACACTATTGTATGTATCGATACACTCCCTACATTGAATGTATTTTG
1 TGTACTGATACACTATTG-ATGTATCGATACACCCCCTACATCGAATGTATTGTG
**
956990 TGTA-TCGATACACTGGCTGATGTATCGATACACCCC
1 TGTACT-GATACACT-ATTGATGTATCGATACACCCC
957026 TGGCTCCGAG
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
54 2 0.03
55 76 0.95
56 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (54 bp):
TGTACTGATACACTATTGATGTATCGATACACCCCCTACATCGAATGTATTGTG
Found at i:965454 original size:55 final size:53
Alignment explanation
Indices: 965343--965485 Score: 168
Period size: 55 Copynumber: 2.7 Consensus size: 53
965333 CATAAATGGA
* * * *
965343 TGTACTGATACACTCTTGGATGTATCGATGCACCCCTACATCGAATGTATTTTG
1 TGTACTGATACACTATT-GATGTACCGATACACCCCTACATCGAATGCATTTTG
965397 TGTACTGATACACTATTGTATGTACCGATACACTCTCC-ACATCGAATGCATTTTG
1 TGTACTGATACACTATTG-ATGTACCGATACAC-C-CCTACATCGAATGCATTTTG
*
965452 TGTA-TCGATACACTA--GATGTACCGATATACCCCT
1 TGTACT-GATACACTATTGATGTACCGATACACCCCT
965486 GGCTCCGAGA
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
50 2 0.03
51 1 0.01
52 13 0.16
53 2 0.03
54 29 0.37
55 30 0.38
56 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (53 bp):
TGTACTGATACACTATTGATGTACCGATACACCCCTACATCGAATGCATTTTG
Found at i:966341 original size:20 final size:20
Alignment explanation
Indices: 966292--966334 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
966282 AGGATAGAGC
** *
966292 ATCGATACCCAAGGATCGGT
1 ATCGATACTAAAGGATCAGT
966312 ATCGATACTAAAGGATCAGT
1 ATCGATACTAAAGGATCAGT
966332 ATC
1 ATC
966335 ACTACTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGATACTAAAGGATCAGT
Found at i:976540 original size:23 final size:23
Alignment explanation
Indices: 976483--976571 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
976473 CATTATGTGC
* *
976483 CATACTACACAAAGTACTAC-T-C
1 CATAGTACACAAAGTACT-CTTAA
*
976505 CA-AGTACAAAAAGTACTCTTAA
1 CATAGTACACAAAGTACTCTTAA
976527 CATAGTACACAAAGTACTCTTAA
1 CATAGTACACAAAGTACTCTTAA
976550 CATAGTACACAAAGTACTCTTA
1 CATAGTACACAAAGTACTCTTA
976572 CAAAAATGCA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
20 1 0.02
21 14 0.23
22 4 0.07
23 41 0.68
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.25
Consensus pattern (23 bp):
CATAGTACACAAAGTACTCTTAA
Found at i:976566 original size:46 final size:44
Alignment explanation
Indices: 976483--976571 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
976473 CATTATGTGC
*
976483 CATACTACACAAAGTACTACTCCAAGTACAAAAAGTACTCTTAA
1 CATACTACACAAAGTACTACTACAAGTACAAAAAGTACTCTTAA
* *
976527 CATAGTACACAAAGTACT-CTTAACATAGTACACAAAGTACTCTTA
1 CATACTACACAAAGTACTAC-T-ACA-AGTACAAAAAGTACTCTTA
976572 CAAAAATGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 2 0.05
46 18 0.46
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.25
Consensus pattern (44 bp):
CATACTACACAAAGTACTACTACAAGTACAAAAAGTACTCTTAA
Found at i:984874 original size:24 final size:25
Alignment explanation
Indices: 984847--984905 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
984837 AGGATGTTAC
984847 ATAATTAATATAA-AATTTAAAATT
1 ATAATTAATATAATAATTTAAAATT
* * *
984871 ATAATAAATTTAATATTTTAAAATT
1 ATAATTAATATAATAATTTAAAATT
984896 A-AATTCAATA
1 ATAATT-AATA
984906 CGTATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAATTAATATAATAATTTAAAATT
Found at i:985003 original size:22 final size:26
Alignment explanation
Indices: 984936--985079 Score: 128
Period size: 27 Copynumber: 5.3 Consensus size: 26
984926 ATTTTCAAAA
* * *
984936 TTAAACATAGTATATTATTAAATTAAAT
1 TTAAA-ATATTATA-TATTAAATTTATT
*
984964 TTAAAATGTTATA-ATATATAATTTATT
1 TTAAAATATTATATAT-TA-AATTTATT
984991 TTAAAATATTATACTATTAAATTTATT
1 TTAAAATATTATA-TATTAAATTTATT
*
985018 TTAAAATATTATGATATTAAGTTTATTT
1 TTAAAATATTAT-ATATTAAATTTA-TT
* * * *
985046 TTAAAACACTATAACATTAAATTTAAT
1 TTAAAATATTAT-ATATTAAATTTATT
985073 TTAAAAT
1 TTAAAAT
985080 TATTGAAGTT
Statistics
Matches: 97, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 61 0.63
28 30 0.31
29 2 0.02
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (26 bp):
TTAAAATATTATATATTAAATTTATT
Found at i:985009 original size:54 final size:55
Alignment explanation
Indices: 984936--985079 Score: 168
Period size: 54 Copynumber: 2.6 Consensus size: 55
984926 ATTTTCAAAA
* * * *
984936 TTAAACATAGTATATTATTAAATTAAATTTAAAATGTTATAATATATAA-TTTA-TT
1 TTAAA-ATACTATACTATTAAATTTAATTTAAAATATTATAATAT-TAAGTTTATTT
* * *
984991 TTAAAATATTATACTATTAAATTTATTTTAAAATATTATGATATTAAGTTTATTT
1 TTAAAATACTATACTATTAAATTTAATTTAAAATATTATAATATTAAGTTTATTT
*
985046 TTAAAACACTATAAC-ATTAAATTTAATTTAAAAT
1 TTAAAATACTAT-ACTATTAAATTTAATTTAAAAT
985080 TATTGAAGTT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
53 3 0.04
54 37 0.48
55 35 0.45
56 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (55 bp):
TTAAAATACTATACTATTAAATTTAATTTAAAATATTATAATATTAAGTTTATTT
Found at i:985111 original size:20 final size:20
Alignment explanation
Indices: 985088--985155 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
985078 ATTATTGAAG
985088 TTATTATAATATTAAATTTA
1 TTATTATAATATTAAATTTA
*
985108 TTATTATACATACTAAATTTA
1 TTATTATA-ATATTAAATTTA
* *
985129 GTT-TTAAAATATTAAATTTT
1 -TTATTATAATATTAAATTTA
985149 TTATTAT
1 TTATTAT
985156 TTTAAATCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 2 0.05
20 21 0.52
21 15 0.38
22 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (20 bp):
TTATTATAATATTAAATTTA
Found at i:986734 original size:19 final size:19
Alignment explanation
Indices: 986712--986749 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
986702 TAAGGCTTAT
986712 TTAGCGAAA-TAATAAGAAA
1 TTAG-GAAATTAATAAGAAA
*
986731 TTAGGAAATTAATTAGAAA
1 TTAGGAAATTAATAAGAAA
986750 ACAAATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (19 bp):
TTAGGAAATTAATAAGAAA
Found at i:991542 original size:18 final size:18
Alignment explanation
Indices: 991521--991561 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
991511 ATATGCATTC
991521 TATTTTATAAATTAAATG
1 TATTTTATAAATTAAATG
* *
991539 TATTGTATATATTAAATG
1 TATTTTATAAATTAAATG
991557 T-TTTT
1 TATTTT
991562 GATTGGTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (18 bp):
TATTTTATAAATTAAATG
Found at i:994331 original size:31 final size:29
Alignment explanation
Indices: 994261--994339 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 29
994251 TGGCTAGTGA
* *
994261 CCAAAATGTAAATTTTAAAAGTTTGGTAT
1 CCAAAATATAAATTTTAAAAGTTTGGGAT
*
994290 CCAAAGTATAAACTTTGTAAAAGTTTAGGGA-
1 CCAAAATATAAA-TTT-TAAAAGTTT-GGGAT
* *
994321 CTAAAATATAATTTTTAAA
1 CCAAAATATAAATTTTAAA
994340 TGTTATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 14 0.34
30 6 0.15
31 18 0.44
32 3 0.07
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (29 bp):
CCAAAATATAAATTTTAAAAGTTTGGGAT
Found at i:996691 original size:22 final size:22
Alignment explanation
Indices: 996660--996758 Score: 164
Period size: 22 Copynumber: 4.5 Consensus size: 22
996650 CTATGATAAT
* *
996660 TGAAAAGTGAAAGTATTGAATA
1 TGAAATGTGAAAGTATTGATTA
996682 TGAAATGTGAAAGTATTGATTA
1 TGAAATGTGAAAGTATTGATTA
996704 TGAAATGTGAAAGTATTGATTA
1 TGAAATGTGAAAGTATTGATTA
996726 TGAAATGTGAAAGTATTGATTA
1 TGAAATGTGAAAGTATTGATTA
996748 TGAGAAT-TGAA
1 TGA-AATGTGAA
996759 TATGTGATCG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
22 71 0.96
23 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (22 bp):
TGAAATGTGAAAGTATTGATTA
Found at i:1000572 original size:19 final size:19
Alignment explanation
Indices: 1000548--1000587 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
1000538 TAGGACCTAG
1000548 AAATCTAGAATAGTTAGCA
1 AAATCTAGAATAGTTAGCA
*
1000567 AAATCTAGAGTAGTTAGCA
1 AAATCTAGAATAGTTAGCA
1000586 AA
1 AA
1000588 TTTATCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (19 bp):
AAATCTAGAATAGTTAGCA
Found at i:1005740 original size:3 final size:3
Alignment explanation
Indices: 1005721--1005773 Score: 61
Period size: 3 Copynumber: 17.0 Consensus size: 3
1005711 TTGTAATATT
* **
1005721 TAA TAAA TAA TATA TAA TAA TTA TAA TAA TAA TAA TTT TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1005768 TAA TAA
1 TAA TAA
1005774 ACTTAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1005754 original size:15 final size:15
Alignment explanation
Indices: 1005727--1005771 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
1005717 TATTTAATAA
1005727 ATAATATATAATAATT
1 ATAATA-ATAATAATT
1005743 ATAATAATAATAATT
1 ATAATAATAATAATT
*
1005758 TTAATAATAATAAT
1 ATAATAATAATAAT
1005772 AAACTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 22 0.79
16 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATAATAATAATT
Found at i:1005961 original size:45 final size:45
Alignment explanation
Indices: 1005897--1005999 Score: 156
Period size: 45 Copynumber: 2.3 Consensus size: 45
1005887 GATGGAAATG
*
1005897 TTTGAAAACATCATGCACTGAAGGTA-TTACAGATGA-CCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGG-ACTTACAGATGACCCT-AAGGC
*
1005942 TTTGAAAAAATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
1005987 TTTGAAAACATCA
1 TTTGAAAACATCA
1006000 AAAAGCTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.02
45 49 0.92
46 3 0.06
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
Found at i:1006067 original size:76 final size:76
Alignment explanation
Indices: 1005941--1007192 Score: 2209
Period size: 76 Copynumber: 16.5 Consensus size: 76
1005931 GACCTGAAGG
* * *
1005941 TTTTGAAAAAATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1006006 TCTCGAAGGCT
66 TCCCGAAGGCT
*
1006017 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAAGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1006082 TCCCGAAAGCT
66 TCCCGAAGGCT
* * *
1006093 TTTTGGAAACATCATGCACTACATGACTTACAGATGACCCTAAGGATTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006158 TCCCGAAGGCT
66 TCCCGAAGGCT
1006169 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAA-C
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006233 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1006244 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAGAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006309 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1006320 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006385 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1006396 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006461 TCCCGAAGGCT
66 TCCCGAAGGCT
* * *
1006472 TTTTGGAAACATCATACACTGCAGGGCTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006537 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1006548 TTATGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006613 TCCCGAAGGCT
66 TCCCGAAGGCT
* *
1006624 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAAAATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006689 TCCCGAAGGCT
66 TCCCGAAGGCT
* *
1006700 TTTTGGAAACATCATGCACTGCAGGACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1006765 TCCCGAAGGTT
66 TCCCGAAGGCT
* *
1006776 TTTTGGAAACATCATGCACTGCAGGGCTTACAGATAACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006841 TCCCGAAGGCT
66 TCCCGAAGGCT
*
1006852 TTTTGGAAACATCATGCACTGCAGGACTTACTGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006917 TCCCGAAGGCT
66 TCCCGAAGGCT
* * *
1006928 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAAAATCAAAAAGT
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1006993 TCCCGAAGGCT
66 TCCCGAAGGCT
* *
1007004 TTTTGGAAACATCATGCACTGCAGGACTTACAAATGACCCTAAGGTTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1007069 TCCCGAAGGCT
66 TCCCGAAGGCT
1007080 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
*
1007145 TCCCGAAGGTTT
66 TCCCGAAGG-CT
*
1007157 TTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 TTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1007193 TGGGAAATAG
Statistics
Matches: 1124, Mismatches: 50, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
75 74 0.07
76 1014 0.90
77 36 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGC
TCCCGAAGGCT
Found at i:1007665 original size:22 final size:22
Alignment explanation
Indices: 1007640--1007694 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1007630 CATAAAGCTT
1007640 TTATCTTTGAAAAGAGAATCTA
1 TTATCTTTGAAAAGAGAATCTA
*
1007662 TTAT-TTTCAAAAAGAGAATCTA
1 TTATCTTT-GAAAAGAGAATCTA
*
1007684 TCATCTTTGAA
1 TTATCTTTGAA
1007695 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTATCTTTGAAAAGAGAATCTA
Done.