Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 243 of 345
Found at i:71452546 original size:26 final size:27
Alignment explanation
Indices: 71452492--71452569 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
71452482 ATGACGATTT
*
71452492 TACCCTCATAAGGTAAAATGA-TAGAAA
1 TACCCCCATAAGGTAAAATGACT-GAAA
*
71452519 TACCCCCATAAGGT-AAATGACTGTAA
1 TACCCCCATAAGGTAAAATGACTGAAA
* *
71452545 TACCCCTACAAGGTAAAATGACTGA
1 TACCCCCATAAGGTAAAATGACTGA
71452570 TTTGCTCTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 21 0.48
27 23 0.52
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (27 bp):
TACCCCCATAAGGTAAAATGACTGAAA
Found at i:71455540 original size:81 final size:81
Alignment explanation
Indices: 71455423--71455614 Score: 214
Period size: 81 Copynumber: 2.4 Consensus size: 81
71455413 TTAGAGTGCC
* * * * *
71455423 CCACAAAGGCATCCAT-TCATAAATCGCC-ACAAAGGC-TTCATTTTCATAGAT-AGCCAGAAAG
1 CCACAAAGGCTTCCATCTCTTATATCGCCAAC-TAGGCTTTCA-TCTCATAGATCA-CCAGAAAG
* *
71455484 GCTTCCATCTCTTAGATTG
63 GCTTCCATATCTTAGATCG
* * *
71455503 CCACAAAGGCTTTCATCTCTTA-AGTCGCCAACTAGGCTTTCATCTCTTAGATCACCATAAAGGC
1 CCACAAAGGCTTCCATCTCTTATA-TCGCCAACTAGGCTTTCATCTCATAGATCACCAGAAAGGC
71455567 TTCCATATCTTAGATCG
65 TTCCATATCTTAGATCG
*
71455584 CCATAAAGGCTTCCATCTCTTATATCGCCAA
1 CCACAAAGGCTTCCATCTCTTATATCGCCAA
71455615 AAAAGCTTCC
Statistics
Matches: 95, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
80 15 0.16
81 72 0.76
82 8 0.08
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (81 bp):
CCACAAAGGCTTCCATCTCTTATATCGCCAACTAGGCTTTCATCTCATAGATCACCAGAAAGGCT
TCCATATCTTAGATCG
Found at i:71455627 original size:27 final size:27
Alignment explanation
Indices: 71455427--71455628 Score: 185
Period size: 27 Copynumber: 7.5 Consensus size: 27
71455417 AGTGCCCCAC
* * * *
71455427 AAAGGCATCCAT-TCATAAATCGCCAC
1 AAAGGCTTCCATCTCTTAGATCGCCAA
* * * *
71455453 AAAGGCTT-CATTTTCATAGATAGCCAG
1 AAAGGCTTCCA-TCTCTTAGATCGCCAA
* *
71455480 AAAGGCTTCCATCTCTTAGATTGCCAC
1 AAAGGCTTCCATCTCTTAGATCGCCAA
*
71455507 AAAGGCTTTCATCTCTTA-AGTCGCCAA
1 AAAGGCTTCCATCTCTTAGA-TCGCCAA
** * * *
71455534 CTAGGCTTTCATCTCTTAGATCACCAT
1 AAAGGCTTCCATCTCTTAGATCGCCAA
* *
71455561 AAAGGCTTCCATATCTTAGATCGCCAT
1 AAAGGCTTCCATCTCTTAGATCGCCAA
*
71455588 AAAGGCTTCCATCTCTTATATCGCCAA
1 AAAGGCTTCCATCTCTTAGATCGCCAA
*
71455615 AAAAGCTTCCATCT
1 AAAGGCTTCCATCT
71455629 TTTTGGTGTG
Statistics
Matches: 147, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 9 0.06
27 133 0.90
28 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
AAAGGCTTCCATCTCTTAGATCGCCAA
Found at i:71458982 original size:21 final size:21
Alignment explanation
Indices: 71458958--71459000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
71458948 ATTTTTCTTA
* *
71458958 GGATTTGAATTGAATTGAATT
1 GGATGTGAATTGAATTAAATT
*
71458979 GGATGTGAATTGTATTAAATT
1 GGATGTGAATTGAATTAAATT
71459000 G
1 G
71459001 AGCTAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.42
Consensus pattern (21 bp):
GGATGTGAATTGAATTAAATT
Found at i:71459710 original size:25 final size:25
Alignment explanation
Indices: 71459632--71459710 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 25
71459622 TCTCGATTAT
* *
71459632 GGCTCTTATGAGCTTCTAGTTATAC
1 GGCTCATATGAGCTTCCAGTTATAC
** * * * *
71459657 AACTCAGATAAGCTTCCCGTTACAC
1 GGCTCATATGAGCTTCCAGTTATAC
*
71459682 GGCTCATATGAGCTTCCAGTTATAT
1 GGCTCATATGAGCTTCCAGTTATAC
71459707 GGCT
1 GGCT
71459711 GGAGAGAGGG
Statistics
Matches: 39, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
GGCTCATATGAGCTTCCAGTTATAC
Found at i:71470613 original size:47 final size:49
Alignment explanation
Indices: 71470542--71470708 Score: 157
Period size: 49 Copynumber: 3.4 Consensus size: 49
71470532 AGGGTATAAC
* *
71470542 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AA
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
* * * *
71470589 GTCGATGCCATGTTCCAGACATGGTCTTACAGTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATC-AAATCGAA
** * *
71470638 GCCGATGCCATGTTCTGGACATGGTCTTACACTAGCTC-TCACATATCTG-T
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCA-A-ATC-GAA
71470688 GCCGATGCCATG-TCCAAGACA
1 GCCGATGCCATGTTCC-AGACA
71470709 GTCTAAGGTG
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
46 3 0.03
47 33 0.34
48 4 0.04
49 37 0.38
50 19 0.20
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATCAAATCGAA
Found at i:71474781 original size:45 final size:46
Alignment explanation
Indices: 71474727--71474835 Score: 141
Period size: 47 Copynumber: 2.3 Consensus size: 46
71474717 TTCACACTTT
* * *
71474727 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCAGCCTTATCACATATAACACTTACACAT-TCA
*
71474773 TCACATTGGCCATTCAGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCAGCCTTATCACATATA-ACACTTACACATTCA
71474820 TCACATTGGCCATTCA
1 TCACATTGGCCATTCA
71474836 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 24 0.43
46 5 0.09
47 27 0.48
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCAGCCTTATCACATATAACACTTACACATTCA
Found at i:71477428 original size:22 final size:20
Alignment explanation
Indices: 71477388--71477428 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
71477378 AGTCCTATTA
*
71477388 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
71477408 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
71477429 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:71484197 original size:20 final size:21
Alignment explanation
Indices: 71484172--71484211 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
71484162 TTCTTGAAAC
* *
71484172 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCAGTGTGGA
71484192 AGGGCAACACGCCAGTGTGG
1 AGGGCAACACGCCAGTGTGG
71484212 CCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.25, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCAGTGTGGA
Found at i:71492505 original size:13 final size:13
Alignment explanation
Indices: 71492489--71492521 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71492479 TTCAATTAAA
*
71492489 TTAGTTAATTAGT
1 TTAGATAATTAGT
71492502 TTAGATAATTAGT
1 TTAGATAATTAGT
71492515 TTA-ATAA
1 TTAGATAA
71492522 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:71499201 original size:25 final size:26
Alignment explanation
Indices: 71499150--71499211 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
71499140 TGAAAGTCCT
* *
71499150 ATTATATGGCTCTTTGTGAGCTTCCTG
1 ATTA-ATGGCTCTTTGAGAGCTACCTG
71499177 ATTAATGGCTCTTT-AGAGCTACCTG
1 ATTAATGGCTCTTTGAGAGCTACCTG
*
71499202 -TTATTGGCTC
1 ATTAATGGCTC
71499212 GCATAAGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.28
25 9 0.28
26 10 0.31
27 4 0.12
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTAATGGCTCTTTGAGAGCTACCTG
Found at i:71499242 original size:25 final size:25
Alignment explanation
Indices: 71499208--71499261 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
71499198 CCTGTTATTG
* * *
71499208 GCTCGCATAAGCTTCTCGTTATATA
1 GCTCGAATAAGCTTCCCGTTACATA
71499233 GCTCGAATAAGCTTCCCGTTACATA
1 GCTCGAATAAGCTTCCCGTTACATA
71499258 GCTC
1 GCTC
71499262 ACATGAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (25 bp):
GCTCGAATAAGCTTCCCGTTACATA
Found at i:71499270 original size:25 final size:25
Alignment explanation
Indices: 71499208--71499273 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
71499198 CCTGTTATTG
* * *
71499208 GCTCGCATAAGCTTCTCGTTATATA
1 GCTCACATAAGCTTCCCGTTACATA
71499233 GCTCGA-ATAAGCTTCCCGTTACATA
1 GCTC-ACATAAGCTTCCCGTTACATA
*
71499258 GCTCACATGAGCTTCC
1 GCTCACATAAGCTTCC
71499274 TATTATGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (25 bp):
GCTCACATAAGCTTCCCGTTACATA
Found at i:71500729 original size:26 final size:26
Alignment explanation
Indices: 71500692--71500749 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
71500682 TGATACAAAT
71500692 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
71500718 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
71500744 TGATAA
1 TGATAA
71500750 GAATATCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:71502779 original size:136 final size:137
Alignment explanation
Indices: 71502533--71502818 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
71502523 GAGTAGTCTC
71502533 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
71502598 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGG-TCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
71502662 ACTGTTA
131 ACTGTTA
71502669 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
71502734 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
*
71502799 ACTGTTG
131 ACTGTTA
**
71502806 CCTGAATGGGCTT
1 CCCAAATGGGCTT
71502819 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 114 0.79
137 30 0.21
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
ACTGTTA
Found at i:71506624 original size:26 final size:26
Alignment explanation
Indices: 71506556--71506663 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
71506546 TGATACAAAT
71506556 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
71506581 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
71506606 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
71506632 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
71506658 TGATAA
1 TGATAA
71506664 GAATATCATG
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
24 13 0.16
25 18 0.22
26 49 0.61
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:71514189 original size:13 final size:13
Alignment explanation
Indices: 71514171--71514195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71514161 AAGCTAGAAA
71514171 TAGCTTCATTTTC
1 TAGCTTCATTTTC
71514184 TAGCTTCATTTT
1 TAGCTTCATTTT
71514196 GTCCACACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.08, T:0.56
Consensus pattern (13 bp):
TAGCTTCATTTTC
Found at i:71520101 original size:13 final size:13
Alignment explanation
Indices: 71520085--71520117 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71520075 TTTAATCAAA
*
71520085 TTAGTTAATTAGT
1 TTAGATAATTAGT
71520098 TTAGATAATTAGT
1 TTAGATAATTAGT
71520111 TTA-ATAA
1 TTAGATAA
71520118 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:71525499 original size:10 final size:9
Alignment explanation
Indices: 71525484--71525610 Score: 81
Period size: 8 Copynumber: 14.0 Consensus size: 9
71525474 CTCCTATCTT
71525484 TTTATTCTTA
1 TTTATT-TTA
71525494 TTTATTTTA
1 TTTATTTTA
*
71525503 TTT-TTAT-
1 TTTATTTTA
71525510 TTTATTTTA
1 TTTATTTTA
71525519 TTT-TTTTA
1 TTTATTTTA
71525527 TTTATTTTTA
1 TTTA-TTTTA
71525537 TTTATTTTTAA
1 TTTA-TTTT-A
*
71525548 TTT-TTTAA
1 TTTATTTTA
*
71525556 TTT-TTTAA
1 TTTATTTTA
71525564 TTTTAATTTT-
1 -TTT-ATTTTA
71525574 TTTATTTTTA
1 TTTA-TTTTA
*
71525584 TTT-TTTCA
1 TTTATTTTA
71525592 TTTCAATTTTA
1 TTT--ATTTTA
71525603 -TTATTTTA
1 TTTATTTTA
71525611 GTTTGAAAGA
Statistics
Matches: 98, Mismatches: 6, Indels: 28
0.74 0.05 0.21
Matches are distributed among these distances:
7 3 0.03
8 37 0.38
9 22 0.22
10 25 0.26
11 11 0.11
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTATTTTA
Found at i:71525507 original size:6 final size:6
Alignment explanation
Indices: 71525482--71525588 Score: 68
Period size: 6 Copynumber: 17.8 Consensus size: 6
71525472 TCCTCCTATC
*
71525482 TTTTTA TTCTTA --TTTA -TTTTA TTTTTA -TTTTA -TTTTA TTTTT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
71525524 TTATTTA TTTTTA --TTTA TTTTTAA TTTTTTAA TTTTTTAA TTTTAATT
1 TT-TTTA TTTTTA TTTTTA TTTTT-A -TTTTT-A -TTTTT-A TTTT--TA
71525572 TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTT
71525589 TCATTTCAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
4 7 0.08
5 16 0.19
6 36 0.42
7 7 0.08
8 19 0.22
9 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:71525523 original size:22 final size:21
Alignment explanation
Indices: 71525482--71525588 Score: 94
Period size: 22 Copynumber: 5.0 Consensus size: 21
71525472 TCCTCCTATC
*
71525482 TTTTTATTCTTATTTA-TTTTA
1 TTTTTATT-TTTTTTATTTTTA
71525503 TTTTTATTTTATTTTATTTTT-
1 TTTTTATTTT-TTTTATTTTTA
71525524 TTATTTATTTTTATTTATTTTTAA
1 TT-TTTATTTTT-TTTATTTTT-A
* * *
71525548 TTTTTTAATTTTTTAATTTTAA
1 -TTTTTATTTTTTTTATTTTTA
*
71525570 TTTTT-TTATTTTTATTTTT
1 TTTTTATTTTTTTTATTTTT
71525589 TCATTTCAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 15
0.76 0.09 0.16
Matches are distributed among these distances:
20 12 0.17
21 20 0.28
22 22 0.31
23 7 0.10
24 8 0.11
25 2 0.03
ACGTcount: A:0.20, C:0.01, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTTTTTATTTTTA
Found at i:71525533 original size:28 final size:29
Alignment explanation
Indices: 71525483--71525609 Score: 104
Period size: 28 Copynumber: 4.4 Consensus size: 29
71525473 CCTCCTATCT
*
71525483 TTTTATTCTTATTTATTTTATTTTTATTTTA
1 TTTTATTATT-TTTA-TTTATTTTTATTTTA
71525514 TTTTATT-TTTTTATTTATTTTTA-TTTA
1 TTTTATTATTTTTATTTATTTTTATTTTA
* * *
71525541 TTTT-TAATTTTTTAATT-TTTTAATTTTAA
1 TTTTATTA-TTTTTATTTATTTTTATTTT-A
* * *
71525570 TTTTTTTATTTTTA-TT-TTTTCATTTCAA
1 TTTTATTATTTTTATTTATTTTTATTT-TA
71525598 TTTTATTATTTT
1 TTTTATTATTTT
71525610 AGTTTGAAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.01
27 13 0.16
28 43 0.52
29 15 0.18
30 4 0.05
31 7 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (29 bp):
TTTTATTATTTTTATTTATTTTTATTTTA
Found at i:71531236 original size:40 final size:39
Alignment explanation
Indices: 71531192--71531419 Score: 240
Period size: 40 Copynumber: 5.7 Consensus size: 39
71531182 AATTATTGTA
* * **
71531192 TGAATGCACATACATGCACCTGTTTGTACTTCGGTACCTT
1 TGAATGCACATACGTGC-CCTGTTTGTACTTTGGTACCCC
* *
71531232 TGAATGCATATACGTGCCACTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCC-CTGTTTGTACTTTGGTACCCC
* * * *
71531272 TGAATGCATAGACGTCCTCCAGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGC-CCTGTTTGTACTTTGGTACCCC
*
71531312 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTG-CCCTGTTTGTACTTTGGTACCCC
* * * * * * *
71531352 TGAATGCGCATATGTGTCCCTATTTATAATTCGGTATCCC
1 TGAATGCACATACGTG-CCCTGTTTGTACTTTGGTACCCC
71531392 TGAATGCACATACGTGCCACTGTTTGTA
1 TGAATGCACATACGTGCC-CTGTTTGTA
71531420 ATTTAATACT
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.97
41 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (39 bp):
TGAATGCACATACGTGCCCTGTTTGTACTTTGGTACCCC
Found at i:71531351 original size:20 final size:20
Alignment explanation
Indices: 71531293--71531353 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
71531283 ACGTCCTCCA
71531293 GTTTGTACTTTGGTACCCCT
1 GTTTGTACTTTGGTACCCCT
** * * *
71531313 GAATGCACATAT-GTGCCCCT
1 GTTTGTAC-TTTGGTACCCCT
71531333 GTTTGTACTTTGGTACCCCT
1 GTTTGTACTTTGGTACCCCT
71531353 G
1 G
71531354 AATGCGCATA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (20 bp):
GTTTGTACTTTGGTACCCCT
Found at i:71531417 original size:120 final size:120
Alignment explanation
Indices: 71531192--71531419 Score: 271
Period size: 120 Copynumber: 1.9 Consensus size: 120
71531182 AATTATTGTA
** *
71531192 TGAATGCACATACATGCACCTGTTTGTACTTCGGTACCTTTGAATGCATATACGTGCCACTATTT
1 TGAATGCACATACATGCACCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCACTATTT
* * * * *
71531257 GTACTTTGGTACCCCTGAATGCATAGACGTCCTCCAGTTTGTACTTTGGTACCCC
66 ATAATTCGGTACCCCTGAATGCACAGACGTCCTACAGTTTGTACTTTGGTACCCC
** * * * *
71531312 TGAATGCACATATGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCGCATATGTGTCC-CTATT
1 TGAATGCACATACATGCACCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG-CCACTATT
* * *
71531376 TATAATTCGGTATCCCTGAATGCACATACGTGCC-ACTGTTTGTA
65 TATAATTCGGTACCCCTGAATGCACAGACGT-CCTACAGTTTGTA
71531420 ATTTAATACT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
120 85 0.96
121 4 0.04
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (120 bp):
TGAATGCACATACATGCACCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCACTATTT
ATAATTCGGTACCCCTGAATGCACAGACGTCCTACAGTTTGTACTTTGGTACCCC
Found at i:71541132 original size:29 final size:29
Alignment explanation
Indices: 71541099--71541158 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
71541089 ATAACCAAAC
*
71541099 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
71541128 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
71541157 CT
1 CT
71541159 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:71541151 original size:15 final size:15
Alignment explanation
Indices: 71541105--71541152 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
71541095 AAACCTACAA
*
71541105 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
71541120 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
71541134 AAACTTCATATCCAT
1 AAACTTCATATCCAT
71541149 AAAC
1 AAAC
71541153 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:71541567 original size:10 final size:10
Alignment explanation
Indices: 71541534--71541582 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
71541524 AAAAAGGAAT
*
71541534 GAGCTGAAAC
1 GAGCTCAAAC
71541544 GAGCT-AAATTC
1 GAGCTCAAA--C
71541555 GAGCTCAAAC
1 GAGCTCAAAC
*
71541565 GAGCTAAAAC
1 GAGCTCAAAC
71541575 GAGCTCAA
1 GAGCTCAA
71541583 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:71541589 original size:20 final size:21
Alignment explanation
Indices: 71541534--71541582 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
71541524 AAAAAGGAAT
* *
71541534 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
71541555 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
71541575 GAGCTCAA
1 GAGCTCAA
71541583 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:71543977 original size:20 final size:21
Alignment explanation
Indices: 71543954--71543999 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
71543944 AGCTCCAACA
71543954 AGCTCACTTGAGCTTG-TTTT
1 AGCTCACTTGAGCTTGATTTT
**
71543974 AGCTCGTTTGAGCTTGATTTT
1 AGCTCACTTGAGCTTGATTTT
*
71543995 TGCTC
1 AGCTC
71544000 GTTTTAGCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (21 bp):
AGCTCACTTGAGCTTGATTTT
Found at i:71543999 original size:21 final size:20
Alignment explanation
Indices: 71543961--71544008 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
71543951 ACAAGCTCAC
71543961 TTGAGCTTGTTTTAGCTCGT
1 TTGAGCTTGTTTTAGCTCGT
*
71543981 TTGAGCTTGATTTTTGCTCGT
1 TTGAGCTTG-TTTTAGCTCGT
*
71544002 TTTAGCT
1 TTGAGCT
71544009 CATTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.52
Consensus pattern (20 bp):
TTGAGCTTGTTTTAGCTCGT
Found at i:71546740 original size:27 final size:27
Alignment explanation
Indices: 71546702--71546755 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
71546692 TCTAGAAAAA
*
71546702 AATCAAGAAGCTTCATTGGAGTTTCCT
1 AATCAAGAAGCTTCATGGGAGTTTCCT
*
71546729 AATCAAGAAGCTTCGTGGGAGTTTCCT
1 AATCAAGAAGCTTCATGGGAGTTTCCT
71546756 CCTTGCTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCAAGAAGCTTCATGGGAGTTTCCT
Found at i:71547479 original size:14 final size:14
Alignment explanation
Indices: 71547462--71547501 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
71547452 CGAATGGAAT
*
71547462 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
71547476 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
71547490 GATATGAACAAA
1 GGTAGGAACAAA
71547502 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:71554123 original size:22 final size:21
Alignment explanation
Indices: 71554082--71554123 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
71554072 AAAAAATCAT
*
71554082 AATTTAAATCAATAACTAAAC
1 AATTTAAAGCAATAACTAAAC
*
71554103 AATTTAAAAGCAATAATTAAA
1 AATTT-AAAGCAATAACTAAA
71554124 TTTAGACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
AATTTAAAGCAATAACTAAAC
Found at i:71554268 original size:11 final size:12
Alignment explanation
Indices: 71554236--71554268 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
71554226 GAGCTGTAGC
71554236 AAACTTAATTAT
1 AAACTTAATTAT
*
71554248 AAACTGAATTA-
1 AAACTTAATTAT
71554259 AAACTTAATT
1 AAACTTAATT
71554269 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:71554336 original size:20 final size:21
Alignment explanation
Indices: 71554300--71554338 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71554290 AGCTGAATCA
*
71554300 AGCTGAATTCTAGCTCAAACG
1 AGCTGAATTCAAGCTCAAACG
71554321 AGCTGAA-TCAAGCTCAAA
1 AGCTGAATTCAAGCTCAAA
71554339 TGAACTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (21 bp):
AGCTGAATTCAAGCTCAAACG
Found at i:71557338 original size:93 final size:93
Alignment explanation
Indices: 71557179--71557349 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
71557169 GGATGGTTGA
*
71557179 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
*
71557244 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
71557272 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
71557337 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71557350 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71557352 original size:46 final size:46
Alignment explanation
Indices: 71557183--71557354 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
71557173 GGTTGAGCAT
* *
71557183 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
71557229 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
71557274 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
71557322 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71557355 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 59 0.56
47 27 0.25
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:71561707 original size:11 final size:12
Alignment explanation
Indices: 71561675--71561707 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
71561665 GAGCTACAGC
71561675 AAACTTAATTAT
1 AAACTTAATTAT
*
71561687 AAACTGAATTA-
1 AAACTTAATTAT
71561698 AAACTTAATT
1 AAACTTAATT
71561708 TATTAGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (12 bp):
AAACTTAATTAT
Found at i:71561775 original size:20 final size:21
Alignment explanation
Indices: 71561739--71561777 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
71561729 AGCTGAATCA
*
71561739 AGCTGAATTCTAGCTCAAACG
1 AGCTGAATTCGAGCTCAAACG
71561760 AGCTGAA-TCGAGCTCAAA
1 AGCTGAATTCGAGCTCAAA
71561778 TGAACTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
AGCTGAATTCGAGCTCAAACG
Found at i:71564107 original size:26 final size:26
Alignment explanation
Indices: 71564077--71564183 Score: 160
Period size: 26 Copynumber: 4.1 Consensus size: 26
71564067 AAAATTAGTA
* *
71564077 AAATTACCGAAATACCCCTGTAGGGT
1 AAATTATCGAAATACCCCTATAGGGT
*
71564103 AAATTATCGAAATACCCTTATAGGGT
1 AAATTATCGAAATACCCCTATAGGGT
* *
71564129 AAATTATCGAAATACCCTTATAGTGT
1 AAATTATCGAAATACCCCTATAGGGT
*
71564155 AAATTATCAAAATACCCCTATAGGGT
1 AAATTATCGAAATACCCCTATAGGGT
71564181 AAA
1 AAA
71564184 ATGACTGTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (26 bp):
AAATTATCGAAATACCCCTATAGGGT
Found at i:71565994 original size:30 final size:30
Alignment explanation
Indices: 71565947--71566040 Score: 172
Period size: 30 Copynumber: 3.2 Consensus size: 30
71565937 CAAGTAGCTG
71565947 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
*
71565976 AAGCTAGTTTAGATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
71566006 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
71566036 AAGCT
1 AAGCT
71566041 TCCGATTCAT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
29 7 0.11
30 55 0.89
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:71576003 original size:10 final size:10
Alignment explanation
Indices: 71575988--71576014 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71575978 TACTCCTTCA
71575988 AGCTCAAATC
1 AGCTCAAATC
71575998 AGCTCAAATC
1 AGCTCAAATC
71576008 AGCTCAA
1 AGCTCAA
71576015 CTTCAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:71580902 original size:19 final size:19
Alignment explanation
Indices: 71580878--71580917 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71580868 AGCTCCCATG
*
71580878 TAGCTCCATACCAGCTCAT
1 TAGCTCCAGACCAGCTCAT
**
71580897 TAGCTCGGGACCAGCTCAT
1 TAGCTCCAGACCAGCTCAT
71580916 TA
1 TA
71580918 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (19 bp):
TAGCTCCAGACCAGCTCAT
Found at i:71581516 original size:31 final size:32
Alignment explanation
Indices: 71581463--71581522 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
71581453 AATTCGTTCA
*
71581463 CACCTATGTTCACATGGCAAGACTATTCAGTT
1 CACCTATGTTCACATAGCAAGACTATTCAGTT
*
71581495 CACCT-TGTTCACACTAG-AAGACTCTTCA
1 CACCTATGTTCACA-TAGCAAGACTATTCA
71581523 ACATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (32 bp):
CACCTATGTTCACATAGCAAGACTATTCAGTT
Found at i:71582176 original size:14 final size:14
Alignment explanation
Indices: 71582157--71582196 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
71582147 AACCGACCAA
*
71582157 TTTGTTCATATCCT
1 TTTGTTCATACCCT
*
71582171 TTTGTTCCTACCCT
1 TTTGTTCATACCCT
*
71582185 TTTGTTCCTACC
1 TTTGTTCATACC
71582197 ATTCCATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.30, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTGTTCATACCCT
Found at i:71588143 original size:10 final size:10
Alignment explanation
Indices: 71588128--71588154 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
71588118 TAAGTTGAAG
71588128 TTGAGCTGAT
1 TTGAGCTGAT
71588138 TTGAGCTGAT
1 TTGAGCTGAT
71588148 TTGAGCT
1 TTGAGCT
71588155 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:71592054 original size:10 final size:10
Alignment explanation
Indices: 71592041--71592068 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
71592031 TATGAATAGA
71592041 CTAGAATGTT
1 CTAGAATGTT
71592051 CTAGAATGTT
1 CTAGAATGTT
71592061 CTAGAATG
1 CTAGAATG
71592069 AGCTGAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (10 bp):
CTAGAATGTT
Found at i:71592712 original size:10 final size:10
Alignment explanation
Indices: 71592699--71592743 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
71592689 AAGCTCGGTT
71592699 GAGCTCAAAC
1 GAGCTCAAAC
*
71592709 GAGCTGAAAC
1 GAGCTCAAAC
* *
71592719 AAGCTGAAAC
1 GAGCTCAAAC
*
71592729 GAGCTCAAAT
1 GAGCTCAAAC
71592739 GAGCT
1 GAGCT
71592744 GAGTTGAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.13
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:71592743 original size:20 final size:20
Alignment explanation
Indices: 71592698--71592745 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
71592688 TAAGCTCGGT
* *
71592698 TGAGCTCAAACGAGCTGAAA
1 TGAGCTGAAACGAGCTCAAA
**
71592718 CAAGCTGAAACGAGCTCAAA
1 TGAGCTGAAACGAGCTCAAA
71592738 TGAGCTGA
1 TGAGCTGA
71592746 GTTGAGCTGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.15
Consensus pattern (20 bp):
TGAGCTGAAACGAGCTCAAA
Found at i:71597111 original size:15 final size:15
Alignment explanation
Indices: 71597091--71597138 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
71597081 TCAAAGATGG
71597091 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
71597106 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
71597121 -TTTATGGATATAAA
1 GTTTATGGATATGAA
71597135 GTTT
1 GTTT
71597139 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:71597118 original size:29 final size:29
Alignment explanation
Indices: 71597085--71597144 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
71597075 AAGGATTCAA
* *
71597085 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATTTATGGATATAAAGTTTATGT
*
71597114 AGATGGATTTATGGATATAAAGTTTTTGT
1 AGATGGATTTATGGATATAAAGTTTATGT
71597143 AG
1 AG
71597145 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGATTTATGGATATAAAGTTTATGT
Found at i:71600294 original size:15 final size:15
Alignment explanation
Indices: 71600274--71600321 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
71600264 TCAAAGATGG
71600274 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
71600289 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
71600303 GTTTATGGATATGAA
1 GTTTATGGATATGAA
71600318 GTTT
1 GTTT
71600322 TTGTAGGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:71600301 original size:29 final size:29
Alignment explanation
Indices: 71600268--71600327 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
71600258 AAGGGTTCAA
71600268 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
*
71600297 AGATGGGTTTATGGATATGAAGTTTTTGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
71600326 AG
1 AG
71600328 GTTCGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATGAAGTTTATGT
Found at i:71600308 original size:14 final size:14
Alignment explanation
Indices: 71600268--71600311 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
71600258 AAGGGTTCAA
71600268 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
71600282 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
71600297 AGATGGGTTTATGG
1 AGATGGGTTTATGG
71600311 A
1 A
71600312 TATGAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:71601007 original size:30 final size:30
Alignment explanation
Indices: 71600931--71601016 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
71600921 TTCAACTCAC
* *
71600931 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTAAG
* * *
71600961 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCT-AAG
* *
71600992 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
71601017 TAAACCCAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 8 0.18
30 34 0.76
31 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTAAG
Found at i:71603636 original size:16 final size:16
Alignment explanation
Indices: 71603604--71603645 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
71603594 TCTTGTAATG
71603604 AGAAAAC-AAAGAAAA
1 AGAAAACGAAAGAAAA
*
71603619 AGAAAACGAAATAAAA
1 AGAAAACGAAAGAAAA
71603635 AGAAAA-GAAAG
1 AGAAAACGAAAG
71603646 GCAAAAGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (16 bp):
AGAAAACGAAAGAAAA
Found at i:71603721 original size:13 final size:12
Alignment explanation
Indices: 71603690--71603721 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
71603680 TTGAGAGAAC
71603690 TTGAAAAAGCAT
1 TTGAAAAAGCAT
*
71603702 TTGAAAAAGCCT
1 TTGAAAAAGCAT
71603714 TTGAAAAA
1 TTGAAAAA
71603722 CAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCAT
Found at i:71614192 original size:26 final size:26
Alignment explanation
Indices: 71614161--71614268 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
71614151 TGAAATTCCC
*
71614161 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
71614187 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71614213 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71614239 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71614265 ATCA
1 ATCA
71614269 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71618280 original size:13 final size:13
Alignment explanation
Indices: 71618262--71618286 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71618252 AATAGTTGTG
71618262 TGTTATTTAATTA
1 TGTTATTTAATTA
71618275 TGTTATTTAATT
1 TGTTATTTAATT
71618287 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:71620107 original size:29 final size:29
Alignment explanation
Indices: 71620074--71620130 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
71620064 ATAACCAAAC
*
71620074 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
71620103 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
71620131 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:71620363 original size:9 final size:9
Alignment explanation
Indices: 71620349--71620383 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
71620339 AGTAAGTTTA
71620349 AAAAAAACG
1 AAAAAAACG
71620358 AAAAAAACG
1 AAAAAAACG
71620367 AAAAAAAACG
1 -AAAAAAACG
*
71620377 AACAAAA
1 AAAAAAA
71620384 TTTCAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.80, C:0.11, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAACG
Found at i:71620363 original size:10 final size:10
Alignment explanation
Indices: 71620348--71620383 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
71620338 AAGTAAGTTT
71620348 AAAAAAAACG
1 AAAAAAAACG
71620358 -AAAAAAACG
1 AAAAAAAACG
71620367 AAAAAAAACG
1 AAAAAAAACG
*
71620377 AACAAAA
1 AAAAAAA
71620384 TTTCAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.81, C:0.11, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAACG
Found at i:71622615 original size:30 final size:30
Alignment explanation
Indices: 71622581--71622677 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
71622571 TAAACTAAAA
71622581 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
71622611 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
71622641 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
71622671 TGAGCTA
1 TGAGCTA
71622678 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:71623887 original size:29 final size:29
Alignment explanation
Indices: 71623821--71623877 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
71623811 GATTCAAAGA
* *
71623821 TGGGTTTATGGGTATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
71623850 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
71623878 GTTTGGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:71624215 original size:15 final size:15
Alignment explanation
Indices: 71624195--71624242 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
71624185 TCAAAGATGG
71624195 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
71624210 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
71624224 GTTTATGGATATAAA
1 GTTTATGGATATGAA
71624239 GTTT
1 GTTT
71624243 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:71624229 original size:14 final size:14
Alignment explanation
Indices: 71624189--71624232 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
71624179 AAGGATTCAA
71624189 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
71624203 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
71624218 AGATGGGTTTATGG
1 AGATGGGTTTATGG
71624232 A
1 A
71624233 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:71624258 original size:29 final size:29
Alignment explanation
Indices: 71624189--71624248 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
71624179 AAGGATTCAA
*
71624189 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
71624218 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
71624247 AG
1 AG
71624249 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:71624368 original size:371 final size:371
Alignment explanation
Indices: 71623685--71624427 Score: 1371
Period size: 371 Copynumber: 2.0 Consensus size: 371
71623675 GCTGAATTTA
71623685 TTGATACGATCCGCCTCGGGGTAAGTCGAGTCGTATGTGAATTTGCCCGATCGTCTATGAAGAAG
1 TTGATACGATCCGCCTCGGGGTAAGTCGAGTCGTATGTGAATTTGCCCGATCGTCTATGAAGAAG
* * *
71623750 TAGCGTTCGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGTAGGAGCTATGTAAAAGGATT
66 TAGCGTACGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCAGAAGCTATGTAAAAGGATT
* *
71623815 CAAAGATGGGTTTATGGGTATGAAGTTTATGTAGTTGGGTTTATGGATATAAAGTTTTTGTAGGT
131 CAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGGATATAAAGTTTTTGTAGGT
*
71623880 TTGGTTATAATGAAACGAAAAGTTGGAATGGAATGGAAATGAAAATGATCTCAAAAACAAACACG
196 TTGGTTATAATGAAACGAAAAGATGGAATGGAATGGAAATGAAAATGATCTCAAAAACAAACACG
71623945 AACCAATATTAGAAAATATTGACCCAAATGTTTATAAGTTTTCAAGGTGGTCGGATGGAGAATAT
261 AACCAATATTAGAAAATATTGACCCAAATGTTTATAAGTTTTCAAGGTGGTCGGATGGAGAATAT
*
71624010 GAGAACCTCGACCCACTACTTAGCAAAGTAGGAACCTTGGCATGTT
326 GAGAACCTCGACCCACTACTTAGCAAAATAGGAACCTTGGCATGTT
* *
71624056 TTGATACGATCCGCCTCGGGGTGAGTCGAGTCGTATGTGAGTTTGCCCGATCGTCTATGAAGGAA
1 TTGATACGATCCGCCTCGGGGTAAGTCGAGTCGTATGTGAATTTGCCCGATCGTCTATGAA-GAA
71624121 -TAGCGTACGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCAGAAGCTATGTAAAAGGAT
65 GTAGCGTACGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCAGAAGCTATGTAAAAGGAT
71624185 TCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGGATATAAAGTTTTTGTAGG
130 TCAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGGATATAAAGTTTTTGTAGG
71624250 TTTGGTTATAATGAAACGAAAAGATGGAATGGAATGGAAATGAAAATGATCTCAAAAACAAACAC
195 TTTGGTTATAATGAAACGAAAAGATGGAATGGAATGGAAATGAAAATGATCTCAAAAACAAACAC
71624315 GAACCAATATTAGAAAATATTGACCCAAATGTTTATAAGTTTTCAAGGTGGTCGGATGGAGAATA
260 GAACCAATATTAGAAAATATTGACCCAAATGTTTATAAGTTTTCAAGGTGGTCGGATGGAGAATA
* *
71624380 TGAGAACCTCGACCCGCTACTTAGCAAAATAGGAACCTTGGTATGTT
325 TGAGAACCTCGACCCACTACTTAGCAAAATAGGAACCTTGGCATGTT
71624427 T
1 T
71624428 GAACGCCACA
Statistics
Matches: 360, Mismatches: 11, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
371 357 0.99
372 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (371 bp):
TTGATACGATCCGCCTCGGGGTAAGTCGAGTCGTATGTGAATTTGCCCGATCGTCTATGAAGAAG
TAGCGTACGATTTGTTCAAAAGGATGTTTTAACGTAAATAATGGCAGAAGCTATGTAAAAGGATT
CAAAGATGGGTTTATGGATATGAAGTTTATGTAGATGGGTTTATGGATATAAAGTTTTTGTAGGT
TTGGTTATAATGAAACGAAAAGATGGAATGGAATGGAAATGAAAATGATCTCAAAAACAAACACG
AACCAATATTAGAAAATATTGACCCAAATGTTTATAAGTTTTCAAGGTGGTCGGATGGAGAATAT
GAGAACCTCGACCCACTACTTAGCAAAATAGGAACCTTGGCATGTT
Found at i:71625268 original size:14 final size:14
Alignment explanation
Indices: 71625226--71625270 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
71625216 TTAAAGAAGC
71625226 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
71625240 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
71625253 AACTCATTTAATTA
1 AACTCATTAAATTA
71625267 AACT
1 AACT
71625271 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:71628822 original size:26 final size:25
Alignment explanation
Indices: 71628779--71628887 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 25
71628769 CATGAAATTC
71628779 TTATCATGAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCCA
71628804 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCCA
*
71628830 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCCA
*
71628856 TTATCATTGAACATTTACCTAACCTA
1 TTATCA-TGAACATTTACCTAACCCA
71628882 TTATCA
1 TTATCA
71628888 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
25 8 0.10
26 70 0.88
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCCA
Found at i:71631743 original size:30 final size:28
Alignment explanation
Indices: 71631690--71631745 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
71631680 TTCTTCCACG
* *
71631690 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
71631718 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
71631746 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:71632797 original size:17 final size:19
Alignment explanation
Indices: 71632775--71632809 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
71632765 TATGTTCAAA
71632775 TTTTCAG-A-TTTTGTTTT
1 TTTTCAGAATTTTTGTTTT
71632792 TTTTCAGAATTTTTGTTT
1 TTTTCAGAATTTTTGTTT
71632810 GAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (19 bp):
TTTTCAGAATTTTTGTTTT
Found at i:71633121 original size:29 final size:29
Alignment explanation
Indices: 71633055--71633111 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
71633045 GATTCAAACA
*
71633055 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
71633084 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
71633112 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:71635568 original size:30 final size:30
Alignment explanation
Indices: 71635534--71635631 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
71635524 AGCTCACTCC
*
71635534 TAGCTCATATTCAGCTCATGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
71635564 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
71635594 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
71635624 TAGCTCAT
1 TAGCTCAT
71635632 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:71640383 original size:31 final size:29
Alignment explanation
Indices: 71640327--71640384 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 29
71640317 TTTCTTCCAC
* *
71640327 ACTTTCTTTTTGCTCACTCTCTTTTTCAA
1 ACTTTCTTTTTGCACACACTCTTTTTCAA
71640356 ACTTTACTTTCTTGCACACACTCTTTTTC
1 ACTTT-CTTT-TTGCACACACTCTTTTTC
71640385 TTTTTCGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 4 0.16
31 16 0.64
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.52
Consensus pattern (29 bp):
ACTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:71643907 original size:39 final size:39
Alignment explanation
Indices: 71643851--71644005 Score: 265
Period size: 39 Copynumber: 4.0 Consensus size: 39
71643841 TTCAGTGATG
* *
71643851 TATATCCGGACTGAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
71643890 TATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
71643929 TATATCCGGACATAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
71643968 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
71644006 ATATGTTCGG
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:71644049 original size:78 final size:79
Alignment explanation
Indices: 71643869--71644033 Score: 244
Period size: 78 Copynumber: 2.1 Consensus size: 79
71643859 GACTGAGGGT
* * *
71643869 CTGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTTCGCAGGCTATGTGCTGGAATTATAT
1 CTGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATAT
**
71643934 CCGGACATAGGGTC
66 CCGGACATAAAGTC
*
71643948 C-GCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATGT
1 CTGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATAT
* *
71644012 TCGGGC-TAAAGTC
66 CCGGACATAAAGTC
71644025 CTGCAGGCT
1 CTGCAGGCT
71644034 TCGAGCTGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 6 0.08
78 70 0.91
79 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (79 bp):
CTGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAATATAT
CCGGACATAAAGTC
Found at i:71650944 original size:39 final size:39
Alignment explanation
Indices: 71650890--71650976 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
71650880 TTCAGTGGTG
* * *
71650890 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAA
*
71650929 TATATCCGGACTTAGGGTCCGCAGGCTACGTGTTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAA
*
71650968 TATGTCCGG
1 TATATCCGG
71650977 GCTAAAGTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTACGTGCTGGAAA
Found at i:71652499 original size:15 final size:15
Alignment explanation
Indices: 71652479--71652526 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
71652469 TCAAAGATGG
71652479 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
71652494 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
71652508 GTTTATGGATATGAA
1 GTTTATGGATATGAA
71652523 GTTT
1 GTTT
71652527 TTGTAAGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:71652506 original size:29 final size:29
Alignment explanation
Indices: 71652473--71652531 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
71652463 AAGGGTTCAA
71652473 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
*
71652502 AGATGGGTTTATGGATATGAAGTTTTTGT
1 AGATGGGTTTATGGATATGAAGTTTATGT
71652531 A
1 A
71652532 AGTTCGGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATGAAGTTTATGT
Found at i:71652513 original size:14 final size:14
Alignment explanation
Indices: 71652473--71652516 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
71652463 AAGGGTTCAA
71652473 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
71652487 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
71652502 AGATGGGTTTATGG
1 AGATGGGTTTATGG
71652516 A
1 A
71652517 TATGAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:71652542 original size:29 final size:29
Alignment explanation
Indices: 71652473--71652540 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
71652463 AAGGGTTCAA
*
71652473 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATCGGTTTATGGATATGAAGTTTATGT
* *
71652502 AGATGGGTTTATGGATATGAAGTTTTTGT
1 AGATCGGTTTATGGATATGAAGTTTATGT
*
71652531 AAGTTCGGTT
1 -AGATCGGTT
71652541 ATAGAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 28 0.80
30 7 0.20
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.43
Consensus pattern (29 bp):
AGATCGGTTTATGGATATGAAGTTTATGT
Found at i:71654403 original size:6 final size:6
Alignment explanation
Indices: 71654276--71654383 Score: 51
Period size: 6 Copynumber: 17.2 Consensus size: 6
71654266 TTTTTTTCCA
* * * *
71654276 TTTTCT TTTTCTT CTTCTTCT TTTTCT TTTATC- ATTTCC TTTTCT CTCTCT
1 TTTTCT TTTTC-T -TT-TTCT TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT
* * * *
71654327 TTTGCT ATTTT-T ATGTTCT TTTTCT CATTTCT TTTTCA TTTTC- TTTTCT
1 TTTTCT -TTTTCT -TTTTCT TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT
71654376 TTCTTCT T
1 TT-TTCT T
71654384 CAAATTCATT
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
5 7 0.09
6 46 0.59
7 19 0.24
8 3 0.04
9 3 0.04
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTTCT
Found at i:71659590 original size:33 final size:33
Alignment explanation
Indices: 71659547--71659610 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
71659537 CATGTAACAA
* * * *
71659547 GTCATGCATGAATCCTTCTAAGCCTTGAACCTG
1 GTCATACATGAATCCTCCCAAGCATTGAACCTG
71659580 GTCATACATGAATCCTCCCAAGCATTGAACC
1 GTCATACATGAATCCTCCCAAGCATTGAACC
71659611 AAGCCGTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (33 bp):
GTCATACATGAATCCTCCCAAGCATTGAACCTG
Found at i:71664084 original size:46 final size:46
Alignment explanation
Indices: 71664034--71664206 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
71664024 TGGTTGAGCA
*
71664034 TCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71664080 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71664125 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * ** *
71664173 CCCGAGCTTATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71664207 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.54
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71664190 original size:93 final size:93
Alignment explanation
Indices: 71664031--71664201 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
71664021 GGATGGTTGA
* * *
71664031 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
71664096 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
71664124 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTATTGAGT
1 GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
71664189 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
71664202 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:71671719 original size:46 final size:46
Alignment explanation
Indices: 71671652--71671820 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
71671642 AACCCGCCCC
* * * *
71671652 TAAGTGAACTCGAACTCAACTCAATGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * * *
71671698 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-AAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * *
71671745 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
71671790 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
71671821 AGATGCTCAA
Statistics
Matches: 97, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 2 0.02
46 82 0.85
47 2 0.02
48 1 0.01
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:71671826 original size:92 final size:92
Alignment explanation
Indices: 71671657--71671826 Score: 268
Period size: 92 Copynumber: 1.8 Consensus size: 92
71671647 GCCCCTAAGT
* * * *
71671657 GAACTCGAACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
**
71671722 CGAGTTTGGATGCCTAGTTAATTTCAC
66 CGAGTTCAGATGCCTAGTTAATTTCAC
* *
71671749 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71671814 CGAGTTCAGATGC
66 CGAGTTCAGATGC
71671827 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (92 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTAATTTCAC
Found at i:71672280 original size:30 final size:30
Alignment explanation
Indices: 71672246--71672305 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
71672236 ATTTGATACG
71672246 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
*** *
71672276 AACTTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
71672306 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:71673294 original size:30 final size:30
Alignment explanation
Indices: 71673260--71673356 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
71673250 AGCTCACTCC
*
71673260 TAGCTCACTTTCAACTCACGAGCTAAACCT
1 TAGCTCACTTTCAGCTCACGAGCTAAACCT
* * * * * *
71673290 TAGCTTAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGC-TCACTTTCAGCTCACGAGCTAAACCT
* *
71673320 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTC-ACTTTCAGCTCACGAGCTAAACCT
71673350 TAGCTCA
1 TAGCTCA
71673357 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 7
0.68 0.23 0.10
Matches are distributed among these distances:
29 2 0.04
30 41 0.85
31 5 0.10
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCACTTTCAGCTCACGAGCTAAACCT
Found at i:71675037 original size:40 final size:39
Alignment explanation
Indices: 71674993--71675118 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
71674983 GGGACTCAAC
*
71674993 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
71675033 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
71675073 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
71675113 CCGGAT
1 CCGGAT
71675119 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:71675077 original size:80 final size:80
Alignment explanation
Indices: 71674932--71675118 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
71674922 GCTACACATT
* * *
71674932 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
71674996 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
71675012 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
71675075 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
71675093 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
71675119 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:71683060 original size:40 final size:39
Alignment explanation
Indices: 71683016--71683141 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
71683006 GGGACTCAAC
*
71683016 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
71683056 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
71683096 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
71683136 CCGGAT
1 CCGGAT
71683142 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:71683100 original size:80 final size:80
Alignment explanation
Indices: 71682955--71683141 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
71682945 GCTACACATT
* * *
71682955 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
71683019 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
71683035 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
71683098 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
71683116 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
71683142 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:71685244 original size:24 final size:23
Alignment explanation
Indices: 71685212--71685320 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
71685202 ACCAAACGTT
* **
71685212 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
71685236 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
71685260 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
71685284 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
71685308 GCACACATAGTGC
1 GCACACATAGTGC
71685321 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:71685286 original size:48 final size:48
Alignment explanation
Indices: 71685212--71685320 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
71685202 ACCAAACGTT
* **
71685212 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
71685260 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
71685308 GCACACATAGTGC
1 GCACACATAGTGC
71685321 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:71693076 original size:24 final size:23
Alignment explanation
Indices: 71693044--71693152 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
71693034 ACCAAACGTT
* **
71693044 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
71693068 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
71693092 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
71693116 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
71693140 GCACACATAGTGC
1 GCACACATAGTGC
71693153 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:71693118 original size:48 final size:48
Alignment explanation
Indices: 71693044--71693152 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
71693034 ACCAAACGTT
* **
71693044 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
71693092 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
71693140 GCACACATAGTGC
1 GCACACATAGTGC
71693153 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:71699979 original size:40 final size:40
Alignment explanation
Indices: 71699915--71700010 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
71699905 CTACCTCGGT
**
71699915 ATCGCACACTTAGTGCTTCCTATAGCTGAAGCTATTCCAA
1 ATCGCACACTTAGTGCTTCCTATAGCCCAAGCTATTCCAA
* * * *
71699955 TTTGCACACTTAGTGCTAT-TTATAGCCCAAGCTATTTCAA
1 ATCGCACACTTAGTGCT-TCCTATAGCCCAAGCTATTCCAA
71699995 ATCGCACACTTAGTGC
1 ATCGCACACTTAGTGC
71700011 CGAACATAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 46 0.98
41 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (40 bp):
ATCGCACACTTAGTGCTTCCTATAGCCCAAGCTATTCCAA
Found at i:71705941 original size:40 final size:40
Alignment explanation
Indices: 71705897--71705972 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
71705887 GAATGCCTCC
*
71705897 TATAGCTGAAGCTATTCCAATTCGCACACTTAGTGCTATT
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGCTATT
*
71705937 TATAGCTGAAGCTATTTCAAATCGCACACTTAGTGC
1 TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGC
71705973 CAAACATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (40 bp):
TATAGCTGAAGCTATTCCAAATCGCACACTTAGTGCTATT
Found at i:71710455 original size:17 final size:18
Alignment explanation
Indices: 71710413--71710461 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
71710403 AGTTGAAAAG
71710413 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
71710432 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
71710449 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
71710462 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:71711348 original size:40 final size:40
Alignment explanation
Indices: 71711282--71711448 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
71711272 AAATTGAATG
* * *
71711282 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
71711321 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
71711361 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
71711401 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
71711441 ATATCCGG
1 ATATCCGG
71711449 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:71728872 original size:56 final size:56
Alignment explanation
Indices: 71728782--71728949 Score: 219
Period size: 56 Copynumber: 3.0 Consensus size: 56
71728772 TCTTACATGT
* * * * * *
71728782 AATCACATATCGATGCCAATGTACTAGATGTGGTCTTACTCACACACATATATCGG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
* * * *
71728838 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGTACACAAATATCAA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
* * *
71728894 AATCACATATCGATGGCAACATATTAAACGTGGTCTTACTTGCACACATATATCGA
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
71728950 TCCCATGGTC
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 95 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGA
Found at i:71732993 original size:34 final size:33
Alignment explanation
Indices: 71732919--71732996 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
71732909 TTTACTGGCA
71732919 TACTG-TACTGAAATGGGCTAAAGCCCAGACTG
1 TACTGTTACTGAAATGGGCTAAAGCCCAGACTG
* * * *
71732951 TCATTGTTATTGAAATGGGCTAAGGCTCAGACTG
1 T-ACTGTTACTGAAATGGGCTAAAGCCCAGACTG
71732985 CTACTGTTACTG
1 -TACTGTTACTG
71732997 GGAAGGGGCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 1 0.03
33 3 0.08
34 32 0.86
35 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (33 bp):
TACTGTTACTGAAATGGGCTAAAGCCCAGACTG
Found at i:71744387 original size:34 final size:33
Alignment explanation
Indices: 71744313--71744400 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 33
71744303 TTTTCTTGCA
71744313 TACTG-TACTGAAATGGGCTAAGGCCCAGACTG
1 TACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* * *
71744345 TCATTGTTATTGAAATGGGCTAAGGCCTAGACTG
1 T-ACTGTTACTGAAATGGGCTAAGGCCCAGACTG
*
71744379 CTACTGTTACTAGAAAAGGGCT
1 -TACTGTTACT-GAAATGGGCT
71744401 GAAACTCCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
32 1 0.02
33 3 0.07
34 32 0.70
35 10 0.22
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (33 bp):
TACTGTTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:71749476 original size:58 final size:60
Alignment explanation
Indices: 71749344--71749492 Score: 179
Period size: 58 Copynumber: 2.6 Consensus size: 60
71749334 CATTAGGGTT
* * *
71749344 CAAGGATACCATGTAAGACCATG-C--TA-A-GGTATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATGGCAATTGGTAAGGTTTCTAACG
* * *
71749399 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATGGC-ATTGGTGA-G-TTCATAACG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATGGCAATTGGTAAGGTTTC-TAACG
71749457 CAAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCA
71749493 ATGGTAAGTT
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
55 21 0.26
56 1 0.01
57 3 0.04
58 40 0.50
59 8 0.10
60 7 0.09
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (60 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATGGCAATTGGTAAGGTTTCTAACG
Found at i:71749513 original size:49 final size:52
Alignment explanation
Indices: 71749344--71749549 Score: 199
Period size: 49 Copynumber: 3.9 Consensus size: 52
71749334 CATTAGGGTT
**
71749344 CAAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAA
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAA
* * *
71749397 GGCAAGGAAATCATGTAAGACCATGTCAAGACATGGCATGGCATTGGTGAG-TTCATAA
1 --CAAGGATACCATGTAAGACCATGTCAAGACATGGCA----ATTGGTAAGTTTC-TAA
71749455 CGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA
1 --CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAA
* * *
71749507 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
71749550 GTACCCGTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
49 40 0.30
52 2 0.02
53 6 0.05
54 4 0.03
55 30 0.23
56 1 0.01
57 3 0.02
58 39 0.30
59 7 0.05
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAA
Found at i:71755874 original size:27 final size:28
Alignment explanation
Indices: 71755819--71755981 Score: 122
Period size: 27 Copynumber: 6.0 Consensus size: 28
71755809 ACTACAAGGT
* **
71755819 TATTTCAG-TAATTTTACAAACCGAAGG
1 TATTTCAGATAATTTTACAAATCGGGGG
*
71755846 TATTTCAG-TAATTTTACAAGTCGGGGG
1 TATTTCAGATAATTTTACAAATCGGGGG
* * ***
71755873 TATTT-TGATAATTTCACAAATTAAGGG
1 TATTTCAGATAATTTTACAAATCGGGGG
* * **
71755900 TATTTC-GAAAATTTCACAAATTAGGGG
1 TATTTCAGATAATTTTACAAATCGGGGG
**
71755927 TATTTC-GATAATTTTACAACCCGGGGG
1 TATTTCAGATAATTTTACAAATCGGGGG
* * *
71755954 TATTTTAG-TAATTTTACGAATTGGGGG
1 TATTTCAGATAATTTTACAAATCGGGGG
71755981 T
1 T
71755982 CTTAACGACC
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 108 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (28 bp):
TATTTCAGATAATTTTACAAATCGGGGG
Found at i:71755913 original size:81 final size:81
Alignment explanation
Indices: 71755788--71755967 Score: 181
Period size: 81 Copynumber: 2.2 Consensus size: 81
71755778 TTACCTTATA
* * * * *
71755788 GGGGTATTTTGATAATTTTACACTACAAGGTTATTTCAGTAATTTTACAAACCGA-AGGTATTTC
1 GGGGTATTTTGATAATTTCACAATACAAGGGTATTTCAGAAATTTCACAAA-CGAGAGGTATTTC
**
71755852 -AGTAATTTTACAAGTCG
65 GA-TAATTTTACAACCCG
* ** *
71755869 GGGGTATTTTGATAATTTCACAA-ATTAAGGGTATTTC-GAAAATTTCACAAATTAGGGGTATTT
1 GGGGTATTTTGATAATTTCACAATA-CAAGGGTATTTCAG-AAATTTCACAAACGAGAGGTATTT
71755932 CGATAATTTTACAACCCG
64 CGATAATTTTACAACCCG
71755950 GGGGTATTTT-AGTAATTT
1 GGGGTATTTTGA-TAATTT
71755968 TACGAATTGG
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
80 4 0.05
81 78 0.94
82 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
GGGGTATTTTGATAATTTCACAATACAAGGGTATTTCAGAAATTTCACAAACGAGAGGTATTTCG
ATAATTTTACAACCCG
Found at i:71755981 original size:54 final size:53
Alignment explanation
Indices: 71755819--71755981 Score: 141
Period size: 54 Copynumber: 3.0 Consensus size: 53
71755809 ACTACAAGGT
* * *
71755819 TATTTC-AGTAATTTTACAAACCGAAGGTATTTCAGTAATTTTACAAGTCGGGGG
1 TATTTCGA-TAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAA-TTGGGGG
* * *** * * * *
71755873 TATTTTGATAATTTCACAAATTAAGGGTA-TTTCGAAAATTTCACAAATTAGGGG
1 TATTTCGATAATTTTACAAACCGAGGGTATTTTAG-TAATTTTAC-AATTGGGGG
* *
71755927 TATTTCGATAATTTTACAACCCGGGGGTATTTTAGTAATTTTACGAATTGGGGG
1 TATTTCGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTAC-AATTGGGGG
71755981 T
1 T
71755982 CTTAACGACC
Statistics
Matches: 81, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
53 3 0.04
54 71 0.88
55 7 0.09
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (53 bp):
TATTTCGATAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAATTGGGGG
Found at i:71756959 original size:27 final size:27
Alignment explanation
Indices: 71756921--71756972 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
71756911 CCAAAACTTG
*
71756921 ACAAAATTTGTATAGCATTACCACCGT
1 ACAAAATCTGTATAGCATTACCACCGT
*
71756948 ACAAAATCTGTATGGCATTACCACC
1 ACAAAATCTGTATAGCATTACCACC
71756973 TTGTTAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.27
Consensus pattern (27 bp):
ACAAAATCTGTATAGCATTACCACCGT
Found at i:71760452 original size:27 final size:26
Alignment explanation
Indices: 71760414--71760473 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
71760404 ATATATATAT
* *
71760414 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
71760440 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
71760467 ATATCTG
1 ATATCTG
71760474 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:71761845 original size:28 final size:28
Alignment explanation
Indices: 71761805--71761862 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
71761795 CCAAATAAAT
*
71761805 TACATTATAAAATTGAAAATATGCCCAA
1 TACATTATAAAATTAAAAATATGCCCAA
71761833 TACATTATAAAATTAAAAATATGCCCAA
1 TACATTATAAAATTAAAAATATGCCCAA
71761861 TA
1 TA
71761863 ATTGTTGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (28 bp):
TACATTATAAAATTAAAAATATGCCCAA
Found at i:71767368 original size:33 final size:33
Alignment explanation
Indices: 71767326--71767397 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
71767316 TAACTAACAG
71767326 TTCACATTTTCAATCATAATCTTATGTATGAAC
1 TTCACATTTTCAATCATAATCTTATGTATGAAC
71767359 TTCACATTTTCAATCATAATCTTATGTATGAAC
1 TTCACATTTTCAATCATAATCTTATGTATGAAC
71767392 TTCACA
1 TTCACA
71767398 ACTTCTTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (33 bp):
TTCACATTTTCAATCATAATCTTATGTATGAAC
Found at i:71781829 original size:27 final size:26
Alignment explanation
Indices: 71781785--71781836 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
71781775 CTCGCTGCAA
*
71781785 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
71781812 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
71781837 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:71782782 original size:28 final size:28
Alignment explanation
Indices: 71782750--71782805 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
71782740 CCCCGGTTTG
*
71782750 TAAAATTACCATAATGCCCCTATATGGT
1 TAAAATTACCATAATACCCCTATATGGT
*
71782778 TAAAATTACCGTAATACCCCTATATGGT
1 TAAAATTACCATAATACCCCTATATGGT
71782806 AGAATGACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (28 bp):
TAAAATTACCATAATACCCCTATATGGT
Found at i:71783260 original size:27 final size:27
Alignment explanation
Indices: 71783228--71783292 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
71783218 TGTATCTGAT
* *
71783228 ATTGATTCTG-TACTAGGCTTAGGCCCA
1 ATTGATTCTGAGAATAGGC-TAGGCCCA
* *
71783255 CTTGATTTTGAGAATAGGCTAGGCCCA
1 ATTGATTCTGAGAATAGGCTAGGCCCA
71783282 ATTGATTCTGA
1 ATTGATTCTGA
71783293 TGAGGGCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (27 bp):
ATTGATTCTGAGAATAGGCTAGGCCCA
Found at i:71786315 original size:22 final size:22
Alignment explanation
Indices: 71786287--71786336 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
71786277 CCTTTAACCA
**
71786287 TCCTGTCTAGGGTGTT-GAGCCG
1 TCCTGTCTACAGTGTTAG-GCCG
71786309 TCCTGTCTACAGTGTTAGGCCG
1 TCCTGTCTACAGTGTTAGGCCG
71786331 TCCTGT
1 TCCTGT
71786337 TGACTTAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.10, C:0.26, G:0.30, T:0.34
Consensus pattern (22 bp):
TCCTGTCTACAGTGTTAGGCCG
Found at i:71791487 original size:20 final size:20
Alignment explanation
Indices: 71791471--71791515 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
71791461 CACATGCCTT
71791471 TGTGGTTTGGGACATGCCCG
1 TGTGGTTTGGGACATGCCCG
* *
71791491 TGTGGTTTGGGACACGCCCA
1 TGTGGTTTGGGACATGCCCG
71791511 TGTGG
1 TGTGG
71791516 GTAGGTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.20, G:0.40, T:0.29
Consensus pattern (20 bp):
TGTGGTTTGGGACATGCCCG
Done.