Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 194 of 444
Found at i:54219700 original size:16 final size:16
Alignment explanation
Indices: 54219652--54219701 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
54219642 GAAAAATTTT
54219652 TATTTTAATTAAATAA
1 TATTTTAATTAAATAA
54219668 TA-TTT-A-TAAA-AA
1 TATTTTAATTAAATAA
54219680 TTATTTTAATTAAATAA
1 -TATTTTAATTAAATAA
54219697 TATTT
1 TATTT
54219702 AAATAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.07
13 6 0.21
14 4 0.14
15 4 0.14
16 11 0.38
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATTTTAATTAAATAA
Found at i:54219731 original size:194 final size:195
Alignment explanation
Indices: 54219255--54219733 Score: 840
Period size: 196 Copynumber: 2.5 Consensus size: 195
54219245 ATAATATTTA
54219255 TAAAAA-TTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATAAA
1 TAAAAATTTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATAAA
*
54219319 TTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAAGTCTAAAACCGTATAAGATGAAAT
66 TTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAAGTCGAAAACCGTATAAGATGAAAT
* *
54219384 GTCAACTTTGTTCCTTGGAAAAAGAAATAATTAAAATAAAATTTGACGATGTGGAAAATCACATG
131 GTCAACTTTGTTCCTTGG-AAAAGAAATAATAAAAATAAAATTTGACGATGTGCAAAATCACATG
54219449 G
195 G
* *
54219450 TAAAAATTTATTTTAATTAAATAATATTTATAAAAATTATATTAATTATATAATATTTAAATAAA
1 TAAAAATTTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATAAA
* *
54219515 TTAATCTAAATTATATAATTTAAAAAATTGTGTATAAAAAAGTCGAAAACCGTATGAGATGAAAT
66 TTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAAGTCGAAAACCGTATAAGATGAAAT
54219580 GTCAACTTTGTTCCTTGG-AAA-AAATAATAAAAATAAAATTTGACGATGTGCAAAATCACATGG
131 GTCAACTTTGTTCCTTGGAAAAGAAATAATAAAAATAAAATTTGACGATGTGCAAAATCACATGG
54219643 -AAAAATTTTTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATA
1 TAAAAA--TTTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATA
54219707 AATTAATCCAAATTATATAATTTAAAA
64 AATTAATCCAAATTATATAATTTAAAA
54219734 TAAGATTGAA
Statistics
Matches: 271, Mismatches: 10, Indels: 7
0.94 0.03 0.02
Matches are distributed among these distances:
192 5 0.02
193 40 0.15
194 84 0.31
195 6 0.02
196 136 0.50
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (195 bp):
TAAAAATTTATTTTAATTAAATAATATTTATAAAAATTATTTTAATTAAATAATATTTAAATAAA
TTAATCCAAATTATATAATTTAAAAAATTGTGTATAAAAAAGTCGAAAACCGTATAAGATGAAAT
GTCAACTTTGTTCCTTGGAAAAGAAATAATAAAAATAAAATTTGACGATGTGCAAAATCACATGG
Found at i:54219978 original size:24 final size:24
Alignment explanation
Indices: 54219946--54219992 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
54219936 TTTACTTAAA
*
54219946 TGATAAAAC-GAACGATAATATTTG
1 TGATAAAACAG-ACGAGAATATTTG
54219970 TGATAAAACAGACGAGAATATTT
1 TGATAAAACAGACGAGAATATTT
54219993 CAATAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (24 bp):
TGATAAAACAGACGAGAATATTTG
Found at i:54221250 original size:42 final size:42
Alignment explanation
Indices: 54221191--54221271 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
54221181 CTTAGCTTGC
*
54221191 TTAATTGGAGATTGAAACTAAACTTAGTAGCTAAATAGTATA
1 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
*
54221233 TTAATTGGAGATTGAAACTAAACTTAGTAACTGAATAGT
1 TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGT
54221272 GTGTTTTGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (42 bp):
TTAATTGGAGATTGAAACTAAACTTAGTAACTAAATAGTATA
Found at i:54222618 original size:73 final size:71
Alignment explanation
Indices: 54222536--54222674 Score: 172
Period size: 73 Copynumber: 1.9 Consensus size: 71
54222526 GGAAAATAAT
*
54222536 TTGGGGAAGACACACTTAGAGAAAATGAGAGAAAAGAAATTGGGCAAATGGGGGGAATGAAATC-
1 TTGGGGAAGACACACTTAGAGAAAATCAGAG--AAGAAATTGGG-AAATGGGGGGAATGAAATCA
54222600 GGGTTTAAG
63 GGGTTTAAG
** * * * * *
54222609 TTGGGGAAGATGCAGTTAGGGAAAATCTGAGAAGAAATTGGGAAATTGGGGGTATGAAATCAGGG
1 TTGGGGAAGACACACTTAGAGAAAATCAGAGAAGAAATTGGGAAATGGGGGGAATGAAATCAGGG
54222674 T
66 T
54222675 AATCTGATTT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
70 17 0.30
71 15 0.26
73 25 0.44
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.20
Consensus pattern (71 bp):
TTGGGGAAGACACACTTAGAGAAAATCAGAGAAGAAATTGGGAAATGGGGGGAATGAAATCAGGG
TTTAAG
Found at i:54223571 original size:14 final size:14
Alignment explanation
Indices: 54223554--54223606 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
54223544 TTTTTAAGAT
54223554 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
* **
54223568 TTTAAGAGTTTAGGG
1 TTT-AGGGTTTATAG
54223583 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
54223597 TTTAGGGTTT
1 TTTAGGGTTT
54223607 GGGATTTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:54223587 original size:29 final size:29
Alignment explanation
Indices: 54223554--54223645 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
54223544 TTTTTAAGAT
*
54223554 TTTAGGGTTTATAGTTTAAGAGTTTAGGG
1 TTTAGGGTTTATAGTTTAAGGGTTTAGGG
54223583 TTTAGGGTTTATAGTTT-AGGGTTT-GGG
1 TTTAGGGTTTATAGTTTAAGGGTTTAGGG
* ** *
54223610 ATTTAGTGTCCATAGTTTATGGGTTTAGGG
1 -TTTAGGGTTTATAGTTTAAGGGTTTAGGG
*
54223640 GTTAGG
1 TTTAGG
54223646 AGTTAGTGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.06
28 20 0.38
29 27 0.51
30 3 0.06
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (29 bp):
TTTAGGGTTTATAGTTTAAGGGTTTAGGG
Found at i:54223592 original size:22 final size:22
Alignment explanation
Indices: 54223546--54223614 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
54223536 AAAATTTATT
* **
54223546 TTTAAGATTTTAGGGTTTATAG
1 TTTAAGAGTTTAGGGTTTAGGG
54223568 TTTAAGAGTTTAGGGTTTAGGG
1 TTTAAGAGTTTAGGGTTTAGGG
*
54223590 TTT-ATAGTTTAGGGTTT-GGG
1 TTTAAGAGTTTAGGGTTTAGGG
54223610 ATTTA
1 -TTTA
54223615 GTGTCCATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.07
21 16 0.39
22 22 0.54
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
TTTAAGAGTTTAGGGTTTAGGG
Found at i:54224251 original size:15 final size:16
Alignment explanation
Indices: 54224221--54224253 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54224211 TAAACCCCAA
54224221 CCCTTAAACACATAAT
1 CCCTTAAACACATAAT
*
54224237 CCCTT-AACCCATAAT
1 CCCTTAAACACATAAT
54224252 CC
1 CC
54224254 ATAAACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.24
Consensus pattern (16 bp):
CCCTTAAACACATAAT
Found at i:54229343 original size:43 final size:43
Alignment explanation
Indices: 54229215--54229366 Score: 157
Period size: 43 Copynumber: 3.6 Consensus size: 43
54229205 CAATACCGTA
* * * * * *
54229215 TCCCAGATATGGTCTTACATGTTAT-AACATATCGATGCAACTG
1 TCCCAGACATGGTCTTACACGTAATCAAAATA-CAATGCAAATG
* * **
54229258 TCCCAGACAGGGCCTTACACG-AATCATTATACAATGTC-AATG
1 TCCCAGACATGGTCTTACACGTAATCAAAATACAATG-CAAATG
54229300 TCCCAGACATGGTCTTACACGTAATCAAAATACAATGCAAATG
1 TCCCAGACATGGTCTTACACGTAATCAAAATACAATGCAAATG
* *
54229343 TCTCAGACATGGTCTTACATGTAA
1 TCCCAGACATGGTCTTACACGTAA
54229367 ACACTTCTCG
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 29 0.32
43 61 0.68
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCAAAATACAATGCAAATG
Found at i:54232035 original size:16 final size:16
Alignment explanation
Indices: 54232016--54232046 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54232006 CTTCTTCACT
54232016 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
54232032 TACTTACTTACTTAA
1 TACTCACTTACTTAA
54232047 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:54232052 original size:20 final size:20
Alignment explanation
Indices: 54232013--54232052 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54232003 AAACTTCTTC
* *
54232013 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
54232033 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
54232053 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:54232426 original size:55 final size:53
Alignment explanation
Indices: 54232238--54232489 Score: 223
Period size: 55 Copynumber: 4.8 Consensus size: 53
54232228 ACACGGGTAC
* * * * *
54232238 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTT-TTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG-AA
* * **
54232287 CTTACCATTGCCATGTCGCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAA
* * *
54232340 CTCACCAATGTCATGCCTTGGCATGGTCTTACATAGG-ACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACAT-GGTACC-TTGCCTTATAG-AA
* * * *
54232395 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTTAGA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGG-TACCTTGCCTTATAGAA
*
54232448 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTACC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTACC
54232490 CTTAAACCCT
Statistics
Matches: 166, Mismatches: 23, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
49 33 0.20
52 2 0.01
53 42 0.25
54 20 0.12
55 67 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAA
Found at i:54235430 original size:22 final size:22
Alignment explanation
Indices: 54235380--54235431 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
54235370 CGCCCATGTT
**
54235380 GCCTGGCCGTGTGGATCACGTA
1 GCCTGGCCGTGTGGATCACACA
* *
54235402 GCTTGGCCGTGTGGATCACACG
1 GCCTGGCCGTGTGGATCACACA
54235424 GCCTGGCC
1 GCCTGGCC
54235432 CAGAATCCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.31, G:0.37, T:0.21
Consensus pattern (22 bp):
GCCTGGCCGTGTGGATCACACA
Found at i:54240402 original size:16 final size:16
Alignment explanation
Indices: 54240383--54240413 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54240373 CTTCTTCACT
54240383 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
54240399 TACTTACTTACTTAA
1 TACTCACTTACTTAA
54240414 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:54240419 original size:20 final size:20
Alignment explanation
Indices: 54240380--54240419 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54240370 AAACTTCTTC
* *
54240380 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
54240400 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
54240420 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:54240788 original size:55 final size:53
Alignment explanation
Indices: 54240607--54240858 Score: 209
Period size: 55 Copynumber: 4.8 Consensus size: 53
54240597 CGTGTACCTT
* * * *
54240607 ACCATTGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTC
* * *
54240656 ACCATTGCCATGTCTCGACATGGTCTTCCATGGTATCCTTGCCTTATGAACTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
* *
54240709 ACCAATGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAACAT-
1 ACCAATGCCATGTCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTAT-G-AAC-TC
* *
54240764 ATCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTTA-GAAAC-C
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTC
* * * *
54240816 GTACCAATTTCCATGCCTTGGCATGGACTTACATGGTATCCTT
1 --ACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTT
54240859 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
49 34 0.20
50 1 0.01
52 2 0.01
53 46 0.28
54 11 0.07
55 69 0.42
56 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTC
Found at i:54245710 original size:28 final size:28
Alignment explanation
Indices: 54245670--54245737 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
54245660 TAGAGGTGCT
*
54245670 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATGCAAAATGACC
54245698 ATTATACCCCTATGTATGCAAAATGACC
1 ATTATACCCCTATGTATGCAAAATGACC
*
54245726 TTTATACCCCTA
1 ATTATACCCCTA
54245738 GGGTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATGCAAAATGACC
Found at i:54245886 original size:28 final size:28
Alignment explanation
Indices: 54245855--54245932 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
54245845 GGTGGCTATG
*
54245855 CCACAAATTATCTGTTCTGGTGGCCCTA
1 CCACAAATTATCTGTTCTGGTGGCACTA
*
54245883 CCACAAATCATCTGTTCTGGTGGCACTA
1 CCACAAATTATCTGTTCTGGTGGCACTA
* *
54245911 CCACAAAATATCTATATCTGGT
1 CCACAAATTATCTGT-TCTGGT
54245933 TACTCTGTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 38 0.86
29 6 0.14
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (28 bp):
CCACAAATTATCTGTTCTGGTGGCACTA
Found at i:54246424 original size:18 final size:18
Alignment explanation
Indices: 54246385--54246425 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
54246375 TAATAGGGCC
* **
54246385 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATAA
54246403 TTTTAATTACTTTTATAA
1 TTTTAATTACTTTTATAA
54246421 TTTTA
1 TTTTA
54246426 TTTTACTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTAATTACTTTTATAA
Found at i:54253518 original size:28 final size:28
Alignment explanation
Indices: 54253478--54253545 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
54253468 TAGAGGTGCT
* *
54253478 ATTATACCCCTATGTATGCAAAATTACC
1 ATTATACCCCTATGTATACAAAATGACC
54253506 ATTATACCCCTATGTATACAAAATGACC
1 ATTATACCCCTATGTATACAAAATGACC
*
54253534 TTTATACCCCTA
1 ATTATACCCCTA
54253546 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTATACCCCTATGTATACAAAATGACC
Found at i:54253752 original size:29 final size:28
Alignment explanation
Indices: 54253652--54253741 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
54253642 GGAAGCGTCT
54253652 TGGTGGCTA-TGCCACAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAATTATCTGTTC
*
54253680 TGGTGGCCCTGCCACAAATTATCTGTTC
1 TGGTGGCACTGCCACAAATTATCTGTTC
*
54253708 TGGTGGCACTGCCACAAAATATCTGTATC
1 TGGTGGCACTGCCACAAATTATCTGT-TC
54253737 TGGTG
1 TGGTG
54253742 ACTCTGTCAC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
TGGTGGCACTGCCACAAATTATCTGTTC
Found at i:54253766 original size:56 final size:55
Alignment explanation
Indices: 54253652--54253766 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 55
54253642 GGAAGCGTCT
* *
54253652 TGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTTC
1 TGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTTC
* * *
54253708 TGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTATC
1 TGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-TC
54253764 TGG
1 TGG
54253767 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
55 9 0.18
56 28 0.55
57 14 0.27
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
TGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTTC
Found at i:54255593 original size:29 final size:29
Alignment explanation
Indices: 54255560--54255691 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
54255550 GTGACGAGAT
*
54255560 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
54255589 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
54255618 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
54255647 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
54255676 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54255692 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:54263327 original size:29 final size:29
Alignment explanation
Indices: 54263294--54263425 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
54263284 GTGACGAGAT
*
54263294 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
54263323 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
54263352 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
54263381 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
54263410 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54263426 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:54265201 original size:18 final size:18
Alignment explanation
Indices: 54265178--54265221 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
54265168 TAATAAGTCC
* *
54265178 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
54265196 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
54265214 TTTTAATT
1 TTTTAATT
54265222 TACTATGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:54269259 original size:21 final size:20
Alignment explanation
Indices: 54269233--54269274 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
54269223 ACTATAAACG
*
54269233 GTGTAACGCCCCCATACCCGA
1 GTGTAACACCCCCA-ACCCGA
*
54269254 GTGTAACACCCCGAACCCGA
1 GTGTAACACCCCCAACCCGA
54269274 G
1 G
54269275 ACCATTGCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.12
Consensus pattern (20 bp):
GTGTAACACCCCCAACCCGA
Found at i:54270663 original size:40 final size:39
Alignment explanation
Indices: 54270618--54270825 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
54270608 CGGAATACAA
*
54270618 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54270658 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54270698 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
54270738 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
54270778 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
54270818 CCGGATAT
1 CCGGATAT
54270826 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54270758 original size:80 final size:80
Alignment explanation
Indices: 54270618--54270824 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
54270608 CGGAATACAA
* * *
54270618 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
54270682 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
54270698 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
54270762 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
54270778 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
54270825 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:54278683 original size:39 final size:40
Alignment explanation
Indices: 54278640--54278845 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
54278630 CGGAATACAA
*
54278640 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
54278679 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
54278719 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *** * *
54278759 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAAT-GCCTTCGGGTCTTAGC
** * ** * *
54278799 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
54278838 CCGGATAT
1 CCGGATAT
54278846 CATTCAATTG
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 52 0.37
40 84 0.60
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:54278829 original size:80 final size:80
Alignment explanation
Indices: 54278640--54278844 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 80
54278630 CGGAATACAA
* * *
54278640 CCGGATATAACCAC-ATGCACGAATGCCTTCGGGTCTTAG-CCGGATAGAACGACTTGCACAAAT
1 CCGGATATAACAACTA-GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAAT
*
54278703 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * * * **
54278719 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAAAT
*
54278782 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
** * * *
54278799 CCGGATATAATTACTAGCATAAATGTCTTC-GGACTTAGCCCGGATA
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
54278845 TCATTCAATT
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
79 52 0.50
80 50 0.48
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:54284386 original size:30 final size:30
Alignment explanation
Indices: 54284351--54284410 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
54284341 CAAGAAAAAT
* *
54284351 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
54284381 GAATAAAGAAATCCAAAATAAAGAAACCCA
1 GAATAAAGAAATCCAAAATAAAGAAACCCA
54284411 AGATACGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.17, G:0.13, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAAATAAAGAAACCCA
Found at i:54284411 original size:15 final size:15
Alignment explanation
Indices: 54284352--54284411 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
54284342 AAGAAAAATG
*
54284352 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
* * *
54284367 GATAGAGAAACCCAG
1 AATAAAGAAACCCAA
*
54284382 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
54284397 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
54284412 GATACGATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.62, C:0.17, G:0.12, T:0.10
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:54287931 original size:7 final size:7
Alignment explanation
Indices: 54287919--54288014 Score: 156
Period size: 7 Copynumber: 13.7 Consensus size: 7
54287909 GAGAGTTTGA
54287919 AGGGTTT
1 AGGGTTT
54287926 AGGGTTT
1 AGGGTTT
54287933 AGGGTTT
1 AGGGTTT
*
54287940 ATGGTTT
1 AGGGTTT
54287947 AGGGTTT
1 AGGGTTT
*
54287954 ATGGTTT
1 AGGGTTT
*
54287961 ATGGTTT
1 AGGGTTT
*
54287968 AAGGTTT
1 AGGGTTT
54287975 AGGGTTT
1 AGGGTTT
54287982 AGGGTTT
1 AGGGTTT
54287989 AGGGTTT
1 AGGGTTT
54287996 AGGGTTT
1 AGGGTTT
54288003 AGGGTTT
1 AGGGTTT
54288010 AGGGT
1 AGGGT
54288015 AAGCTGAGCC
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 84 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.45
Consensus pattern (7 bp):
AGGGTTT
Found at i:54288466 original size:20 final size:20
Alignment explanation
Indices: 54288441--54288478 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54288431 GTTTATTCGC
*
54288441 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
54288461 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
54288479 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:54290139 original size:28 final size:28
Alignment explanation
Indices: 54290107--54290203 Score: 178
Period size: 28 Copynumber: 3.5 Consensus size: 28
54290097 GCGTAGATCA
54290107 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54290135 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54290163 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54290191 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54290204 GGGTTTTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 8 0.12
28 60 0.88
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54295022 original size:9 final size:9
Alignment explanation
Indices: 54295010--54295066 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
54295000 TTTGATAAAC
54295010 ATGATATGT
1 ATGATATGT
*
54295019 ATGATATGC
1 ATGATATGT
*
54295028 ACCTGACATGT
1 A--TGATATGT
*
54295039 ATGATATGCAC
1 ATGATATG--T
54295050 ATGATATGT
1 ATGATATGT
54295059 ATGATATG
1 ATGATATG
54295067 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:54295040 original size:20 final size:20
Alignment explanation
Indices: 54295008--54295078 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
54294998 ATTTTGATAA
*
54295008 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
54295028 ACCTGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
54295048 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
*
54295068 ACATGAGATGT
1 ACATGACATGT
54295079 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:54295155 original size:23 final size:23
Alignment explanation
Indices: 54295125--54295315 Score: 283
Period size: 24 Copynumber: 8.1 Consensus size: 23
54295115 AGGAAGTGCA
*
54295125 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
54295148 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
54295171 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
54295195 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
54295219 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
54295242 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
54295266 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
54295289 AAAGGGCTTTTTGCCCCAGTTATT
1 AAAGGGC-TTATGCCCCAGTTATT
54295313 AAA
1 AAA
54295316 AGAGGCAAGG
Statistics
Matches: 155, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
23 72 0.46
24 83 0.54
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:54295238 original size:71 final size:70
Alignment explanation
Indices: 54295123--54295315 Score: 323
Period size: 71 Copynumber: 2.7 Consensus size: 70
54295113 GGAGGAAGTG
*
54295123 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
*
54295188 GTTAT
66 GTGAT
*
54295193 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCC
54295258 AGTGAT
65 AGTGAT
* *
54295264 CAAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGC-TTATGCCCCAGTTATTAAA
54295316 AGAGGCAAGG
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
70 30 0.26
71 85 0.74
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (70 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
GTGAT
Found at i:54301672 original size:49 final size:49
Alignment explanation
Indices: 54301619--54301941 Score: 474
Period size: 49 Copynumber: 6.7 Consensus size: 49
54301609 GATTCTACGC
* *
54301619 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
*
54301668 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
*
54301717 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
* * *
54301766 GATGAACGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
* * *
54301815 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
54301864 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
*
54301911 GATGGATGTGAAAGTGTAT-AA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAAATATGTGATAAG
54301942 TCCCGAAGGG
Statistics
Matches: 258, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 51 0.20
48 1 0.00
49 206 0.80
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:54303948 original size:38 final size:38
Alignment explanation
Indices: 54303883--54303976 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
54303873 TCAATCATGC
* *
54303883 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
54303922 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
54303960 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
54303977 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:54304214 original size:24 final size:24
Alignment explanation
Indices: 54304168--54304262 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
54304158 GCTTTATCAT
*
54304168 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
54304193 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
54304217 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
54304240 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
54304263 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54304247 original size:47 final size:49
Alignment explanation
Indices: 54304168--54304261 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
54304158 GCTTTATCAT
*
54304168 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
54304217 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
54304262 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:54304338 original size:20 final size:20
Alignment explanation
Indices: 54304313--54304372 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
54304303 TATGATTACC
54304313 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
54304333 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
54304353 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
54304373 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54304447 original size:25 final size:25
Alignment explanation
Indices: 54304415--54304462 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54304405 ATACATAAAC
* * *
54304415 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54304440 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54304463 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54312986 original size:62 final size:68
Alignment explanation
Indices: 54312920--54313101 Score: 207
Period size: 70 Copynumber: 2.7 Consensus size: 68
54312910 TAGTACCACT
* *
54312920 CATGCGACCCAAC-CGATTTGTC-TC-GTAGCTCTC-TGTCT-CAT-G-GTCCTTCACTTGGAAT
1 CATGCGACCCAACAC-ATTTATCTTCACTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
54312978 CACG
65 CACG
* *
54312982 CATGCGACCTAGCTACATTTATCTTTCACTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAA
1 CATGCGACCCAAC-ACATTTATC-TTCACTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAA
54313047 TCACG
64 TCACG
* *
54313052 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCCAAC-ACATTTATC-TTCAC-TAGCTCTCTTGTCTACATGG
54313102 ATACATCTCG
Statistics
Matches: 106, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
62 11 0.10
63 6 0.06
64 1 0.01
65 2 0.02
66 8 0.08
67 5 0.05
68 3 0.03
69 1 0.01
70 49 0.46
71 20 0.19
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (68 bp):
CATGCGACCCAACACATTTATCTTCACTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:54313054 original size:70 final size:70
Alignment explanation
Indices: 54312943--54313101 Score: 281
Period size: 70 Copynumber: 2.3 Consensus size: 70
54312933 CGATTTGTCT
54312943 CGTAGCTCTC-TGTCT-CAT-GGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 CGTAGCTCTCTTGTCTACATGGGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
54313005 TTTCA
66 TTTCA
54313010 C-TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGG-GTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
54313074 CTTTCA
65 CTTTCA
54313080 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
54313102 ATACATCTCG
Statistics
Matches: 87, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
66 8 0.09
67 6 0.07
68 3 0.03
69 1 0.01
70 49 0.56
71 20 0.23
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:54313138 original size:70 final size:69
Alignment explanation
Indices: 54312969--54313134 Score: 212
Period size: 70 Copynumber: 2.4 Consensus size: 69
54312959 ATGGTCCTTC
* * *
54312969 ACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACTAGCTCTCTTGTCTACATGGTGT
1 ACTTCGAATCACACATGCGACCTAGCTACATTTATCTTTCACTAGCTCTCTTGTCTACATGGTAT
* *
54313034 CCTT
66 ACAT
* *
54313038 CACTTGGAATCACGCATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG-
1 -ACTTCGAATCACACATGCGACCTAGCTACATTTATCTTTCAC-TAGCTCTCTTGTCTACATGGT
54313102 ATACAT
64 ATACAT
* *
54313108 -C-TCGTATCACACATGTGACCTAGCTAC
1 ACTTCGAATCACACATGCGACCTAGCTAC
54313135 TACAGGGTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
67 22 0.25
68 1 0.01
70 45 0.51
71 20 0.23
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (69 bp):
ACTTCGAATCACACATGCGACCTAGCTACATTTATCTTTCACTAGCTCTCTTGTCTACATGGTAT
ACAT
Found at i:54317494 original size:43 final size:42
Alignment explanation
Indices: 54317443--54317536 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
54317433 TCCCAGACGT
* * * * * *
54317443 GGTCTTACATGTAATCAATTATCGATGGCACTGTCCCAGATAG
1 GGTCTTACATGAAATCAAATA-CGATGCCAATGTCCAAGACAG
*
54317486 GGTCTTACATGAAATCAAATACGATGCCAATGTCCAAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCAAGACAG
54317528 GGTCTTACA
1 GGTCTTACA
54317537 AATAAATCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCAAGACAG
Found at i:54317544 original size:43 final size:42
Alignment explanation
Indices: 54317424--54317580 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 42
54317414 AGCTCGTACA
** * * *
54317424 ATGCCAACATCCCAGACGTGGTCTTAC-ATGTAATCAATTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAAT-AAATCAAATA-CG
* * * *
54317467 ATGGCACTGTCCCAGATAGGGTCTTAC-ATGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACAAT-AAATCAAATACG
* *
54317509 ATGCCAATGTCCAAGACATGGTCTTACAAATAAATCATAAGT-TG
1 ATGCCAATGTCCCAGACATGGTCTTAC-AATAAATCA-AA-TACG
**
54317553 ATGCCAACATCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
54317581 CGAAAACACA
Statistics
Matches: 92, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 24 0.26
43 38 0.41
44 29 0.32
45 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACAATAAATCAAATACG
Found at i:54321560 original size:32 final size:32
Alignment explanation
Indices: 54321519--54321606 Score: 133
Period size: 32 Copynumber: 2.8 Consensus size: 32
54321509 TGACATTGAA
*
54321519 ATGGGTTAGGCCCAACTGATATTGCTTCTGAT-
1 ATGGGTTAGGCCCAACTGATATTGATTCT-ATG
54321551 ATGGGTTAGGCCCAACTGATATTGATTCTATG
1 ATGGGTTAGGCCCAACTGATATTGATTCTATG
* *
54321583 ATGGGTTAGGCCCAATTGAGATTG
1 ATGGGTTAGGCCCAACTGATATTG
54321607 TGATGGGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 2 0.04
32 50 0.96
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (32 bp):
ATGGGTTAGGCCCAACTGATATTGATTCTATG
Found at i:54322134 original size:36 final size:36
Alignment explanation
Indices: 54322087--54322159 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
54322077 AAAGTAAGGC
54322087 TGGTTTAAAATGGTTAACAAATAATTAAGTTGACTT
1 TGGTTTAAAATGGTTAACAAATAATTAAGTTGACTT
54322123 TGGTTTAAAATGGTTAACAAATAATTAAGTTGACTT
1 TGGTTTAAAATGGTTAACAAATAATTAAGTTGACTT
54322159 T
1 T
54322160 AGAATTAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.40
Consensus pattern (36 bp):
TGGTTTAAAATGGTTAACAAATAATTAAGTTGACTT
Found at i:54340611 original size:27 final size:27
Alignment explanation
Indices: 54340546--54340724 Score: 254
Period size: 27 Copynumber: 6.7 Consensus size: 27
54340536 TTTGGTTTAC
54340546 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
54340572 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
54340599 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
54340626 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
54340653 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
54340680 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
54340707 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
54340725 TCGACCTGTA
Statistics
Matches: 138, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.10
27 123 0.89
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:54340667 original size:81 final size:80
Alignment explanation
Indices: 54340546--54340778 Score: 272
Period size: 81 Copynumber: 2.9 Consensus size: 80
54340536 TTTGGTTTAC
* *
54340546 AAAATTACCAAAATACCCTGCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCTGATTTGTAAAATTATC-AAAATACCCTTGGTTTGTAAAATTACCAA
*
54340610 AATACCCCTAGTTTGT
65 AATACCCCTAATTTGT
* *
54340626 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATTACCAAAATA-CCCTGA-TTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCA
54340690 AAATACCCCTAATTTGT
64 AAATACCCCTAATTTGT
* ** ** ** * **
54340707 GAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
*
54340772 AGTACCC
65 AATACCC
54340779 TCGATTTATA
Statistics
Matches: 130, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 19 0.15
81 109 0.84
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:54340738 original size:27 final size:27
Alignment explanation
Indices: 54340708--54340782 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
54340698 CTAATTTGTG
54340708 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
54340735 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
54340762 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
54340783 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:54340793 original size:27 final size:27
Alignment explanation
Indices: 54340747--54341066 Score: 266
Period size: 27 Copynumber: 11.9 Consensus size: 27
54340737 ATTATTGAAA
* * ****
54340747 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCGTTT
* *
54340774 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
54340801 TACCCTCGATTTTTAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
54340828 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * * *
54340855 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTATAAAATTACCGTTT
* * *
54340882 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAAAATTACCGTTT
* * * *
54340909 TACCTTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* *
54340936 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* **
54340963 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * * *
54340990 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
* * ***
54341017 TACCCTCAATTTACAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCGTTT
* *
54341044 TACCCTCAATTTGTAAAATTACC
1 TACCCTCGATTTATAAAATTACC
54341067 AAAATACCCC
Statistics
Matches: 249, Mismatches: 42, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 247 0.99
28 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:54340832 original size:81 final size:81
Alignment explanation
Indices: 54340747--54341064 Score: 316
Period size: 81 Copynumber: 3.9 Consensus size: 81
54340737 ATTATTGAAA
* * **** * *
54340747 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
54340812 TTTAAAATTACCGTTT
66 TATAAAATTATCGTTT
* * * * *
54340828 TACCCTCAATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CAGA
1 TACCCTCGACTTATAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCGTTTTACCCTC-GA
* *
54340891 TTTACATAATTATCGTTT
64 TTTATAAAATTATCGTTT
* *
54340909 TACCTTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
* *
54340974 TATAGAATTATTGTTT
66 TATAAAATTATCGTTT
* * * * * * *** *
54340990 TACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCGAAATACCCTCAATT
1 TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
*
54341055 TGTAAAATTA
66 TATAAAATTA
54341065 CCAAAATACC
Statistics
Matches: 194, Mismatches: 39, Indels: 8
0.80 0.16 0.03
Matches are distributed among these distances:
80 2 0.01
81 190 0.98
82 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
TATAAAATTATCGTTT
Found at i:54341071 original size:27 final size:27
Alignment explanation
Indices: 54341017--54341103 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
54341007 ATTACTGTTT
*
54341017 TACCCTCAATTTACAAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
**
54341044 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*
54341071 TACCC-CTAATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
54341098 TACCCT
1 TACCCT
54341104 TGACTTTCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:54341075 original size:81 final size:81
Alignment explanation
Indices: 54340919--54341085 Score: 181
Period size: 81 Copynumber: 2.1 Consensus size: 81
54340909 TACCTTCGAC
* * *** * *
54340919 TTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTA
1 TTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTA
****** * *
54340984 TTGTTTTACCCTTGAT
66 CCAAAATACCCCTAAT
* *
54341000 TTACAGAATTACTGTTTTACCCTCAATTTACAAAATTACCGAAATACCCTCAATTTGTAAAATTA
1 TTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTA
54341065 CCAAAATACCCCTAAT
66 CCAAAATACCCCTAAT
54341081 TTACA
1 TTACA
54341086 AAGTTACAGA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
TTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTA
CCAAAATACCCCTAAT
Found at i:54341283 original size:27 final size:27
Alignment explanation
Indices: 54341219--54341283 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
54341209 ACCCCTAAAA
* *
54341219 GGTAAAAAGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
54341246 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
54341273 GGTAAAATGAC
1 GGTAAAATGAC
54341284 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:54342470 original size:25 final size:25
Alignment explanation
Indices: 54342441--54342488 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54342431 TTATAATATG
* * *
54342441 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54342466 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54342489 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:54342557 original size:20 final size:20
Alignment explanation
Indices: 54342532--54342590 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
54342522 TAAATATGGT
54342532 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
54342552 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
54342572 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
54342591 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:54342668 original size:24 final size:24
Alignment explanation
Indices: 54342641--54342769 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
54342631 GAGGAAGTGA
54342641 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
54342665 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
54342689 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
54342712 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
54342736 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
54342760 AAAAGAGGCT
1 AAAAG-GGCT
54342770 AGGCCTCCAT
Statistics
Matches: 100, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 73 0.73
25 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:54342734 original size:47 final size:47
Alignment explanation
Indices: 54342641--54342769 Score: 204
Period size: 47 Copynumber: 2.7 Consensus size: 47
54342631 GAGGAAGTGA
54342641 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
54342689 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* *
54342736 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
54342770 AGGCCTCCAT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
47 43 0.57
48 29 0.38
49 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:54342783 original size:71 final size:71
Alignment explanation
Indices: 54342641--54342783 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
54342631 GAGGAAGTGA
*
54342641 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
54342706 AGTTAT
66 AGTTAT
** * *
54342712 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTAGGCC-
54342776 CCA-TTAT
64 CCAGTTAT
54342783 A
1 A
54342784 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
71 59 0.91
72 6 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
AGTTAT
Found at i:54343008 original size:31 final size:31
Alignment explanation
Indices: 54342973--54343067 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
54342963 CGTTTACAGT
*
54342973 AAAGGCTTCGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54343004 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
54343035 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
54343066 AA
1 AA
54343068 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54347261 original size:53 final size:54
Alignment explanation
Indices: 54347173--54347388 Score: 242
Period size: 55 Copynumber: 4.0 Consensus size: 54
54347163 TACGTGGTAT
* * * *
54347173 CCTTTTGAAACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * *
54347227 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * *
54347280 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTC
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* *
54347335 CCTTA-GAAACCTTACCAATTTCCAT-CCTTTGGCATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCC-TTGACATGGTCTTACATGGTATCCTT
54347389 AAACCCTAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 46 0.34
54 15 0.11
55 72 0.53
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:54347327 original size:108 final size:110
Alignment explanation
Indices: 54347181--54347381 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 110
54347171 ATCCTTTTGA
* *
54347181 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTA-GAAACCTCACCAA
54347244 -TGCCATGCC-TTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCAT-CCTTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
54347289 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTCCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAACCTCACCAAT
*
54347354 TTCCATCCTTTGGCATGGTCTTACATGG
66 TGCCATCCTTTGGCATGGTCTTACATGG
54347382 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 9 0.11
110 24 0.29
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTCCCTTAGAAACCTCACCAAT
TGCCATCCTTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:54354057 original size:24 final size:24
Alignment explanation
Indices: 54354025--54354097 Score: 146
Period size: 24 Copynumber: 3.0 Consensus size: 24
54354015 CATATGTATC
54354025 ATTCACAACCATGTTACAAGTTTA
1 ATTCACAACCATGTTACAAGTTTA
54354049 ATTCACAACCATGTTACAAGTTTA
1 ATTCACAACCATGTTACAAGTTTA
54354073 ATTCACAACCATGTTACAAGTTTA
1 ATTCACAACCATGTTACAAGTTTA
54354097 A
1 A
54354098 CTCTTTTCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (24 bp):
ATTCACAACCATGTTACAAGTTTA
Found at i:54358088 original size:11 final size:11
Alignment explanation
Indices: 54358072--54358096 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54358062 GCGATTATTG
54358072 TATTTATTGTA
1 TATTTATTGTA
54358083 TATTTATTGTA
1 TATTTATTGTA
54358094 TAT
1 TAT
54358097 AAATATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:54358614 original size:22 final size:20
Alignment explanation
Indices: 54358589--54358628 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
54358579 GATAGTGTTC
54358589 AATTAGAAGGATTTTAGAAGAG
1 AATTA-AAGGATTTT-GAAGAG
*
54358611 AATTAAGGGATTTTGAAG
1 AATTAAAGGATTTTGAAG
54358629 TGTGGGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (20 bp):
AATTAAAGGATTTTGAAGAG
Found at i:54360971 original size:42 final size:40
Alignment explanation
Indices: 54360892--54360980 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 40
54360882 AATTATGGAA
* * ** *
54360892 TACTGAATATTGTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTATGAATACTGAATTGAACGGTGAAAT
*
54360932 TACTGAATATTGTTATGTATATACTGCATTGAACGGTGAAAT
1 TACTGAATATTGTTATG-A-ATACTGAATTGAACGGTGAAAT
54360974 TACTGAA
1 TACTGAA
54360981 GTAATGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 16 0.39
41 1 0.02
42 24 0.59
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (40 bp):
TACTGAATATTGTTATGAATACTGAATTGAACGGTGAAAT
Found at i:54361238 original size:44 final size:46
Alignment explanation
Indices: 54361188--54361284 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 46
54361178 ACTATTGTTG
*
54361188 CTGTTACTC-CTACTGTTACTGATTT-GACACTTTGTGTGTCG-ATA
1 CTGTTACTCACTACTGTTACAGATTTAG-CACTTTGTGTGTCGAATA
* *
54361232 CTGTTAC-CATTACTGTTACAGATTTAGCACTTTGTGTGTTGAATA
1 CTGTTACTCACTACTGTTACAGATTTAGCACTTTGTGTGTCGAATA
*
54361277 TTGTTACT
1 CTGTTACT
54361285 GTTACTGCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.02
44 34 0.76
45 10 0.22
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (46 bp):
CTGTTACTCACTACTGTTACAGATTTAGCACTTTGTGTGTCGAATA
Found at i:54362539 original size:27 final size:27
Alignment explanation
Indices: 54362511--54362666 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
54362501 CCTTAATCGA
* *
54362511 TAAAATGACTATTTTGCCCCTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
54362537 ATAAAATGACTGTTTTGTCCTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* *
54362565 TAAAATAATTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
54362592 TAAAATGACTCTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
54362619 TAAAATAATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
54362646 TAAAATGACTATTTTTCCCTT
1 TAAAATGACTGTTTTGCCCTT
54362667 TTATAGTAAG
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 109 0.98
28 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:54362570 original size:54 final size:54
Alignment explanation
Indices: 54362522--54362666 Score: 220
Period size: 54 Copynumber: 2.7 Consensus size: 54
54362512 AAAATGACTA
* * *
54362522 TTTTGCCCCTATG-GGATAAAATGACTGTTTTGTCCTTATGAGGTAAAATAATTG
1 TTTTGCCCTTATGAGG-TAAAATGACTATTTTGCCCTTATGAGGTAAAATAATTG
*
54362576 TTTTGCCCTTATGAGGTAAAATGACTCTTTTGCCCTTATGAGGTAAAATAATTG
1 TTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATAATTG
* *
54362630 TTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTT
1 TTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTT
54362667 TTATAGTAAG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 82 0.98
55 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATAATTG
Found at i:54362684 original size:54 final size:54
Alignment explanation
Indices: 54362522--54362698 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 54
54362512 AAAATGACTA
*
54362522 TTTTGCCCCTATG-GGATAAAATGACTGTTTTGT-CCTTATGAGGTAAAATAATTG
1 TTTTGCCCCTATGTGG-TAAAATGACTATTTT-TCCCTTATGAGGTAAAATAATTG
* * * *
54362576 TTTTGCCCTTATGAGGTAAAATGACTCTTTTGCCCTTATGAGGTAAAATAATTG
1 TTTTGCCCCTATGTGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATAATTG
* * *
54362630 TTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTTTAT-A-GTAAGATGATTG
1 TTTTGCCCCTATGTGGTAAAATGACTATTTTTCCC--TTATGAGGTAAAATAATTG
*
54362684 TTTTACCCCTATGTG
1 TTTTGCCCCTATGTG
54362699 ATGTATGTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
54 102 0.94
55 3 0.03
56 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGCCCCTATGTGGTAAAATGACTATTTTTCCCTTATGAGGTAAAATAATTG
Found at i:54363075 original size:17 final size:18
Alignment explanation
Indices: 54363020--54363097 Score: 113
Period size: 18 Copynumber: 4.4 Consensus size: 18
54363010 TATTTGCTGC
54363020 TACTGCACTGTTTACTGT
1 TACTGCACTGTTTACTGT
54363038 TACTGCACTGTTTACTGT
1 TACTGCACTGTTTACTGT
* *
54363056 TACTGCATTG-TTACTTT
1 TACTGCACTGTTTACTGT
*
54363073 TACTGCATTGTTTACTGT
1 TACTGCACTGTTTACTGT
*
54363091 TATTGCA
1 TACTGCA
54363098 ATAGGCCAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
17 16 0.29
18 39 0.71
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (18 bp):
TACTGCACTGTTTACTGT
Found at i:54363076 original size:35 final size:36
Alignment explanation
Indices: 54363020--54363097 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 36
54363010 TATTTGCTGC
54363020 TACTGCACTGTTTACTGTTACTGCACTGTTTACTGT
1 TACTGCACTGTTTACTGTTACTGCACTGTTTACTGT
* * *
54363056 TACTGCATTG-TTACTTTTACTGCATTGTTTACTGT
1 TACTGCACTGTTTACTGTTACTGCACTGTTTACTGT
*
54363091 TATTGCA
1 TACTGCA
54363098 ATAGGCCAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
35 29 0.76
36 9 0.24
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (36 bp):
TACTGCACTGTTTACTGTTACTGCACTGTTTACTGT
Found at i:54366045 original size:40 final size:41
Alignment explanation
Indices: 54366001--54366226 Score: 270
Period size: 40 Copynumber: 5.7 Consensus size: 41
54365991 GCTACTCGTT
* * *
54366001 CAAATACCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
54366041 CAAATGCCTTCGGGA-CTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
54366081 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
54366121 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
54366161 CAATTGCCTTC-GAATCTTAGTCCAGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
*
54366202 CAGA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
54366227 CATCATTCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:54372789 original size:77 final size:81
Alignment explanation
Indices: 54372649--54372829 Score: 248
Period size: 78 Copynumber: 2.3 Consensus size: 81
54372639 TACTCGTTCA
* *
54372649 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
*
54372713 TTTAGTAAC-TCGCAC
66 TTTAGTAACTTAGCAC
**
54372728 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACT-GCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
54372789 ATTTAGTCACTTAGCAC
65 ATTTAGTAACTTAGCAC
*
54372806 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
54372830 CATCATTCGA
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
76 3 0.03
77 31 0.34
78 33 0.36
79 24 0.26
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTTAGCAC
Found at i:54372829 original size:40 final size:40
Alignment explanation
Indices: 54372647--54372829 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
54372637 GCTACTCGTT
*
54372647 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54372687 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54372727 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
54372764 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54372805 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54372830 CATCATTCGA
Statistics
Matches: 128, Mismatches: 8, Indels: 14
0.85 0.05 0.09
Matches are distributed among these distances:
37 6 0.05
38 28 0.22
39 29 0.23
40 53 0.41
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54378710 original size:39 final size:39
Alignment explanation
Indices: 54378667--54378793 Score: 123
Period size: 39 Copynumber: 3.2 Consensus size: 39
54378657 CGGGACTTAA
*
54378667 CCGGATATCACGA-TTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAT-ACGACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54378706 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAG-
1 CCGGATA-TACGACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54378745 CCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CCGGATATA-CGACTAGCACAAATGCCTTCGGGTCTTAGC
*
54378785 CCGGTTATA
1 CCGGATATA
54378794 ATTTCCAGCA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
38 1 0.01
39 40 0.56
40 31 0.43
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATACGACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54378725 original size:78 final size:79
Alignment explanation
Indices: 54378583--54378788 Score: 193
Period size: 78 Copynumber: 2.6 Consensus size: 79
54378573 ACCTTCGGAG
* * ** * * * *
54378583 CTTAACCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCAC
1 CTTAACCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCAC
54378648 CAAGGCCTACGGGA
66 CAAGGCCTACGGGA
* * * *
54378662 CTTAACCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCGC
1 CTTAACCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCGC
* * * *
54378724 ACGAATGCCTTCGGGT
64 ACCAAGGCCTACGGGA
* * * *
54378740 CTTAGCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
54378789 TTATAATTTC
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
77 2 0.02
78 59 0.57
79 41 0.40
80 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (79 bp):
CTTAACCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCAC
CAAGGCCTACGGGA
Found at i:54378733 original size:40 final size:40
Alignment explanation
Indices: 54378682--54378788 Score: 126
Period size: 39 Copynumber: 2.7 Consensus size: 40
54378672 TATCACGATT
** *
54378682 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
54378722 GCACGAATGCCTTCGGGTCTTAG-CCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
54378761 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
54378789 TTATAATTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.54
40 26 0.46
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:54382717 original size:20 final size:21
Alignment explanation
Indices: 54382689--54382727 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54382679 TGGGCCCGTA
54382689 AGCCCATTG-GGCCCAATTTT
1 AGCCCATTGAGGCCCAATTTT
*
54382709 AGCCTATTGAGGCCCAATT
1 AGCCCATTGAGGCCCAATT
54382728 ACCGAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTTT
Found at i:54383999 original size:8 final size:8
Alignment explanation
Indices: 54383986--54384010 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54383976 AACCTAGTGG
54383986 TGCCACCT
1 TGCCACCT
54383994 TGCCACCT
1 TGCCACCT
54384002 TGCCACCT
1 TGCCACCT
54384010 T
1 T
54384011 TAATTTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.48, G:0.12, T:0.28
Consensus pattern (8 bp):
TGCCACCT
Found at i:54387471 original size:119 final size:120
Alignment explanation
Indices: 54387289--54387504 Score: 305
Period size: 119 Copynumber: 1.8 Consensus size: 120
54387279 TACTCGTTCA
**
54387289 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
54387354 TTAGTGAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
54387409 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
54387471 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTA
54387505 GCCCAGACAT
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 3 0.04
119 60 0.71
120 22 0.26
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:54387505 original size:40 final size:40
Alignment explanation
Indices: 54387268--54387508 Score: 285
Period size: 40 Copynumber: 6.0 Consensus size: 40
54387258 CGGAATTTAA
** *
54387268 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54387308 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54387348 CCGGATTTAGTGACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54387388 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54387427 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
54387467 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54387507 CC
1 CC
54387509 AGACATCATT
Statistics
Matches: 175, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 129 0.74
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54390067 original size:40 final size:40
Alignment explanation
Indices: 54390008--54390215 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
54389998 CAATTGAATG
* * * *
54390008 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
54390048 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * * **
54390088 ACATCAGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
54390128 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
54390168 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
54390208 ATATCCGG
1 ATATCCGG
54390216 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.01
40 134 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:54390148 original size:80 final size:80
Alignment explanation
Indices: 54390014--54390215 Score: 219
Period size: 80 Copynumber: 2.5 Consensus size: 80
54390004 AATGATATCC
* * ** * * *
54390014 GGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-TTGT
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CATTTGT
*
54390078 GCTAGT-GACCACATCA
65 GCAAGTCGACC-CATCA
* * *
54390094 GGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
** * *
54390159 CAAGTCGTTCTATCC
66 CAAGTCGACCCATCA
* *
54390174 GGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
54390216 TTGTATTCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 2 0.02
80 98 0.96
81 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATTTGTG
CAAGTCGACCCATCA
Found at i:54398662 original size:40 final size:40
Alignment explanation
Indices: 54398625--54398845 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
54398615 GCTACTCGTT
*
54398625 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
54398665 CAAATGCCTTC-GGACTTA-ACCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
54398703 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
54398743 CCAATGCCTTC-GG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
54398781 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54398822 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
54398846 CATCATTCGA
Statistics
Matches: 160, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 61 0.38
39 27 0.17
40 64 0.40
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54398735 original size:78 final size:77
Alignment explanation
Indices: 54398592--54398838 Score: 277
Period size: 78 Copynumber: 3.2 Consensus size: 77
54398582 GAATCACGTA
* * ** *
54398592 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGG-ACTTAACCGGATTTAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAG
54398656 TAACTCGCACAAATG
63 TAACTCGCACAAATG
*
54398671 CCTTCGGACTTAACCGGATTTAGTGACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 CCTTCGGACTTAACCGGATTTAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
54398736 ACTCGCACCAATG
65 ACTCGCACAAATG
* * * *
54398749 CCTTCGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAG
1 CCTTCGGACTTA-ACCGGATTTAGT-ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAG
* *
54398812 TCACTTAGCACAAA-G
63 TAAC-TCGCACAAATG
54398827 CCTTCGGACTTA
1 CCTTCGGACTTA
54398839 GCCCGGACAT
Statistics
Matches: 146, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
77 8 0.05
78 118 0.81
79 20 0.14
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (77 bp):
CCTTCGGACTTAACCGGATTTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAA
CTCGCACAAATG
Found at i:54411967 original size:26 final size:26
Alignment explanation
Indices: 54411938--54412019 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
54411928 TATGATCACG
54411938 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
54411964 TGTGTATTA-GATGGTG-AGG-TCAC-A
1 TGTGTAGTACTA-AGTGCAGGCT-ACTA
54411988 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
54412014 CGTGTA
1 TGTGTA
54412020 CCAGACTGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
24 13 0.30
25 12 0.28
26 18 0.42
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:54412058 original size:49 final size:49
Alignment explanation
Indices: 54411880--54412073 Score: 221
Period size: 49 Copynumber: 3.9 Consensus size: 49
54411870 TCTATTGTGA
* * *
54411880 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-AT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGTT
* * * ** *
54411931 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACT-GT-T
* *
54411981 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
*
54412030 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
54412074 TAGCTTCGGC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 41 0.34
50 41 0.34
51 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGTT
Found at i:54414919 original size:15 final size:15
Alignment explanation
Indices: 54414899--54414952 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
54414889 TATCGTATCT
54414899 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
54414914 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
54414928 TTGGGTTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
54414944 -GGTTTTCTT
1 TGGGTTTCTT
54414953 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 12 0.35
15 18 0.53
16 4 0.12
ACGTcount: A:0.06, C:0.13, G:0.20, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:54417189 original size:49 final size:49
Alignment explanation
Indices: 54416998--54417191 Score: 167
Period size: 50 Copynumber: 3.9 Consensus size: 49
54416988 TCTATTGTGA
* * *
54416998 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * * * * ** *
54417049 GATCACGTGTGTATTACTAGGTGTAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* **
54417099 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* * *
54417148 GGTCGCATATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
54417192 TAGCTTCGGC
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 38 0.34
50 39 0.35
51 32 0.28
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:54418616 original size:53 final size:54
Alignment explanation
Indices: 54418527--54418755 Score: 212
Period size: 53 Copynumber: 4.3 Consensus size: 54
54418517 ATACTAAGGA
** * * * *
54418527 TACATGGTAACCTTTCCTTTTA-AACTTACCATTGCCATGTCTTGACATGGTCT
1 TACATGGTGTCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCT
* * *
54418580 TACGTGGTGTCCTTGCCTTAT-GAACTTACCATTGCCATGCCTTGGCATGGTCT
1 TACATGGTGTCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCT
** ** * *
54418633 TACATGG-GATATTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCT
1 TACATGGTG-TCCTTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCT
* * * * * *
54418688 TACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCATGCCTTGGCATGGACT
1 TACATGGTGTCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCT
* *
54418742 TACTTGGTATCCTT
1 TACATGGTGTCCTT
54418756 AAACCCTAAT
Statistics
Matches: 140, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 61 0.44
54 37 0.26
55 41 0.29
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
TACATGGTGTCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCT
Found at i:54421643 original size:26 final size:27
Alignment explanation
Indices: 54421590--54421644 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
54421580 TTGCCTTAAG
* *
54421590 TTCAAATCTTTTTGAGTCATTAAGTAT
1 TTCAAATCTTTTTGAGTCAGTAAATAT
54421617 TTCAAA-CTTTTATGA-TCAGTAAATAT
1 TTCAAATCTTTT-TGAGTCAGTAAATAT
54421643 TT
1 TT
54421645 GTCACTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (27 bp):
TTCAAATCTTTTTGAGTCAGTAAATAT
Found at i:54425753 original size:28 final size:28
Alignment explanation
Indices: 54425692--54425789 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
54425682 TCACAAATTG
** * *
54425692 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
54425721 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
54425749 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
54425777 GCACTAAGTGTGC
1 GCACTAAGTGTGC
54425790 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:54433434 original size:28 final size:28
Alignment explanation
Indices: 54433373--54433470 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
54433363 TCACAAATTG
** * *
54433373 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
54433402 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
54433430 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
54433458 GCACTAAGTGTGC
1 GCACTAAGTGTGC
54433471 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:54436659 original size:53 final size:53
Alignment explanation
Indices: 54436579--54436774 Score: 140
Period size: 53 Copynumber: 3.6 Consensus size: 53
54436569 TTCCTTTTTA
* * * * *
54436579 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCCTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * **
54436632 AACTCACCATTGTCATGCCCTGGCATGGTCTTACATGGGATGTTTGCCTTATAG
1 AACTCACCATTGCCATGCCCTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
** * * * * * *** * *
54436686 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCATTGCCATGCCCTGACATGGTCTTACATGGGATCCTTGCCTTAT-G
* * * *
54436741 AACTTACCAATGCCATGCCTTGGCATGGTCTTAC
1 AACTCACCATTGCCATGCCCTGACATGGTCTTAC
54436775 TTTGTATCCT
Statistics
Matches: 111, Mismatches: 30, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 43 0.39
54 30 0.27
55 38 0.34
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCCTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:54441613 original size:12 final size:12
Alignment explanation
Indices: 54441592--54441621 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
54441582 ATATATGTCT
*
54441592 GTGTGCGTGTGC
1 GTGTGTGTGTGC
54441604 GTGTGTGTGTGC
1 GTGTGTGTGTGC
54441616 GTGTGT
1 GTGTGT
54441622 TAATATGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.10, G:0.50, T:0.40
Consensus pattern (12 bp):
GTGTGTGTGTGC
Found at i:54442047 original size:34 final size:34
Alignment explanation
Indices: 54442001--54442068 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
54441991 AACAGAAGAA
54442001 TAATCCAAAAATATATTCTAAGGGTTAATACATG
1 TAATCCAAAAATATATTCTAAGGGTTAATACATG
*
54442035 TAATCCAGAAATATATTCTAAGGGTTAATACATG
1 TAATCCAAAAATATATTCTAAGGGTTAATACATG
54442069 AATAGGTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (34 bp):
TAATCCAAAAATATATTCTAAGGGTTAATACATG
Found at i:54442486 original size:2 final size:2
Alignment explanation
Indices: 54442481--54442525 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
54442471 TCTCTCCCCT
54442481 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
54442523 TC T
1 TC T
54442526 AATTCCTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:54442689 original size:16 final size:17
Alignment explanation
Indices: 54442658--54442690 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
54442648 CTAAGATAAA
*
54442658 AAAATCATTTTTAAAAT
1 AAAATCATTTTAAAAAT
54442675 AAAAT-ATTTTAAAAAT
1 AAAATCATTTTAAAAAT
54442691 GCTGACATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATCATTTTAAAAAT
Found at i:54449790 original size:43 final size:43
Alignment explanation
Indices: 54449743--54449881 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
54449733 TCCCGGACGT
* *
54449743 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAATTCAATATCGATGCCTCTGTCCCAGACAC
* * * ** *
54449786 GGTCTTACACG-AAATCAGT-TACGATGTCGATGTCCCAGACAT
1 GGTCTTACACGTAATTCAATAT-CGATGCCTCTGTCCCAGACAC
* *
54449828 GGTCTTATACGTAAATCTC-A-ATCGAGGCCTGC-GTCCCAGACAC
1 GGTCTTACACGT-AAT-TCAATATCGATGCCT-CTGTCCCAGACAC
54449871 GGTCTTACACG
1 GGTCTTACACG
54449882 ATGACTCAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.45
43 35 0.47
44 3 0.04
45 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAATTCAATATCGATGCCTCTGTCCCAGACAC
Found at i:54456544 original size:27 final size:27
Alignment explanation
Indices: 54456514--54456798 Score: 338
Period size: 27 Copynumber: 10.6 Consensus size: 27
54456504 TTAGTTTATC
54456514 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
54456541 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
54456568 AAATCACTAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
54456595 AAATTACAAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
54456622 AAATTACCAAAATA-CCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * ** *
54456648 AAATTACTTAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
54456675 AAATTACTAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
54456702 AAACTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
54456729 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
54456756 AAATTACCAAAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
54456783 AAATTACTGAAATACC
1 AAATTACCAAAATACC
54456799 GTCGACCTGT
Statistics
Matches: 217, Mismatches: 40, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 21 0.10
27 196 0.90
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:54456810 original size:81 final size:81
Alignment explanation
Indices: 54456505--54456855 Score: 363
Period size: 81 Copynumber: 4.3 Consensus size: 81
54456495 TAGAATACTT
* * * * *
54456505 TAGTTTATCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTGTAAA
*
54456570 ATCACTAAAATACCCC
66 ATTACTAAAATACCCC
* * **
54456586 TAGTTTGTAAAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCT-GGTTTGTAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTGTAAA
* *
54456650 ATTACTTAAATACCCTT
66 ATTACTAAAATACCC-C
* * *
54456667 TA-TTTATAAAATTACTAAAATACCCCTGGTTTGTAAAACTACCAAAATACCC-CTGGTTTGTAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTC-GGTTTGTAA
54456730 AATTA-TCAAAATACCCC
65 AATTACT-AAAATACCCC
* * * ** * ***
54456747 TAGTTTGTAAAATTACCAAAATACCTCTGATTTGTGAAATTACTGAAATACCGTCGACCTGTAAA
1 TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTGTAAA
* *
54456812 ATTATTGAAATA-CCC
66 ATTACTAAAATACCCC
* *
54456827 TCGACTTGTAAAATTA-CAAAAGTACCCCT
1 TAG-TTTGTAAAATTACCAAAA-TACCCCT
54456856 AATTTATAGA
Statistics
Matches: 226, Mismatches: 35, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
80 79 0.35
81 145 0.64
82 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
TAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGGTTTGTAAA
ATTACTAAAATACCCC
Found at i:54456852 original size:27 final size:27
Alignment explanation
Indices: 54456514--54456853 Score: 246
Period size: 27 Copynumber: 12.6 Consensus size: 27
54456504 TTAGTTTATC
*
54456514 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
54456541 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
54456568 AAATCACTAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * **
54456595 AAATTACAAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
54456622 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** ** *
54456648 AAATTACTTAAATACCCTTTATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
54456675 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
54456702 AAACTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
54456729 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
54456756 AAATTACCAAAATA-CCTCTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** * **
54456783 AAATTACTGAAATACCGTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
54456810 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
54456837 AAATTA-CAAAAGTACCC
1 AAATTACCAAAA-TACCC
54456854 CTAATTTATA
Statistics
Matches: 255, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
26 27 0.11
27 224 0.88
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:54456928 original size:27 final size:27
Alignment explanation
Indices: 54456898--54457110 Score: 284
Period size: 27 Copynumber: 7.9 Consensus size: 27
54456888 ACAAAATTAT
*
54456898 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
54456925 CGAAATACCCCTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* * *
54456952 TGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
** *
54456979 TAAAATACCCCTGTAGGGTAGAAGTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
*
54457006 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
54457033 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* *
54457060 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAAATAC
* * *
54457087 CGAGATACCCTTGTGGGGTA-AAAT
1 CGAAATACCCCTGTAGGGTAGAAAT
54457111 TACCATTTTA
Statistics
Matches: 165, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 3 0.02
27 162 0.98
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAAATAC
Found at i:54456947 original size:81 final size:81
Alignment explanation
Indices: 54456899--54457110 Score: 345
Period size: 81 Copynumber: 2.6 Consensus size: 81
54456889 CAAAATTATC
* * *
54456899 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAATACTGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
54456964 ATAGGGTAGAATTACT
66 ATAGGGTAGAATTACT
* *
54456980 AAAATACCCCTGTAGGGTAGAAGTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
54457045 ATAGGGTAGAATTACT
66 ATAGGGTAGAATTACT
* * *
54457061 GAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAAT
54457111 TACCATTTTA
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 4 0.03
81 118 0.97
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
ATAGGGTAGAATTACT
Found at i:54457403 original size:27 final size:26
Alignment explanation
Indices: 54457359--54457410 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54457349 CTCGCTGCAA
*
54457359 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54457386 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
54457411 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:54457654 original size:6 final size:6
Alignment explanation
Indices: 54457645--54457828 Score: 110
Period size: 6 Copynumber: 29.8 Consensus size: 6
54457635 TTGCATTCAC
* *
54457645 ATTCTG ATTCTG ATTCTG -TTACCTA ATAT-TG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATT--CTG
* * * *
54457695 ATTCTA ATTCTG GTTCTG ATCCTG ATTCT- ATTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
54457744 ATTCTG -TTACCTG ATTTTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
54457794 ATTCTG ATTCTA ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
54457829 AGTTTTGATG
Statistics
Matches: 139, Mismatches: 22, Indels: 34
0.71 0.11 0.17
Matches are distributed among these distances:
5 11 0.08
6 107 0.77
7 12 0.09
8 8 0.06
9 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:54457698 original size:19 final size:19
Alignment explanation
Indices: 54457674--54457804 Score: 99
Period size: 19 Copynumber: 6.7 Consensus size: 19
54457664 TACCTAATAT
54457674 TGATTCTGATTCTGTTACC
1 TGATTCTGATTCTGTTACC
* *
54457693 TAATTCTAATTCTGGTTCTGATCC
1 TGATTCTGATTCT-G-T-T-A-CC
*
54457717 TGATTCT-ATTACCTGATA-C
1 TGATTCTGATT--CTGTTACC
54457736 TGATTCTGATTCTGTTACC
1 TGATTCTGATTCTGTTACC
* *
54457755 TGATTTTGATTCTGATT--T
1 TGATTCTGATTCTG-TTACC
* *
54457773 TGATTTTGATTCTGTCACC
1 TGATTCTGATTCTGTTACC
54457792 TGATTCTGATTCT
1 TGATTCTGATTCT
54457805 AATTCTGATT
Statistics
Matches: 90, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.01
18 19 0.21
19 45 0.50
20 6 0.07
21 2 0.02
22 2 0.02
23 4 0.04
24 9 0.10
25 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (19 bp):
TGATTCTGATTCTGTTACC
Found at i:54457704 original size:25 final size:25
Alignment explanation
Indices: 54457645--54457712 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
54457635 TTGCATTCAC
54457645 ATTCTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
54457670 ATAT-TGATTCTGATTCTGTTACCTA
1 AT-TCTGATTCTGATTCTGTTACCTA
* *
54457695 ATTCTAATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
54457713 ATCCTGATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:54457720 original size:37 final size:37
Alignment explanation
Indices: 54457674--54457759 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
54457664 TACCTAATAT
* * * *
54457674 TGATTCTGATTCTGTTACCTAATTCTAATTCTGGTTC
1 TGATCCTGATTCTATTACCTAATACTAATTCTGATTC
* *
54457711 TGATCCTGATTCTATTACCTGATACTGATTCTGATTC
1 TGATCCTGATTCTATTACCTAATACTAATTCTGATTC
*
54457748 TGTTACCTGATT
1 TGAT-CCTGATT
54457760 TTGATTCTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 34 0.83
38 7 0.17
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (37 bp):
TGATCCTGATTCTATTACCTAATACTAATTCTGATTC
Found at i:54457743 original size:62 final size:62
Alignment explanation
Indices: 54457645--54457811 Score: 217
Period size: 62 Copynumber: 2.7 Consensus size: 62
54457635 TTGCATTCAC
* *
54457645 ATTCTGATTCTGATTCTGTTACCTAATATTGATTCTGATTCTGTTACCTAATTCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * * * *
54457707 GTTCTGATCCTGATTCTATTACCTGATACTGATTCTGATTCTGTTACCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
* * * * *
54457769 ATTTTGATTTTGATTCTGTCACCTGATTCTGATTCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG
54457812 ATTCTCATTT
Statistics
Matches: 89, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 89 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (62 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTG
Found at i:54457744 original size:25 final size:25
Alignment explanation
Indices: 54457710--54457771 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
54457700 AATTCTGGTT
*
54457710 CTGATCCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTGATA
* *
54457735 CTGATTCTGATTCTGTTACCTGATT
1 CTGATTCTGATTCTATTACCTGATA
*
54457760 TTGATTCTGATT
1 CTGATTCTGATT
54457772 TTGATTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTGATA
Found at i:54457770 original size:37 final size:37
Alignment explanation
Indices: 54457715--54457816 Score: 125
Period size: 37 Copynumber: 2.7 Consensus size: 37
54457705 TGGTTCTGAT
* *
54457715 CCTGATTCT-ATTACCTGATACTGATTCTGATTCTGTTA
1 CCTGATTCTGATT--CTGATTCTGATTCTGATTCTGTCA
* * *
54457753 CCTGATTTTGATTCTGATTTTGATTTTGATTCTGTCA
1 CCTGATTCTGATTCTGATTCTGATTCTGATTCTGTCA
*
54457790 CCTGATTCTGATTCTAATTCTGATTCT
1 CCTGATTCTGATTCTGATTCTGATTCT
54457817 CATTTTGATT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
37 43 0.80
38 8 0.15
39 3 0.06
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (37 bp):
CCTGATTCTGATTCTGATTCTGATTCTGATTCTGTCA
Done.