Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 309 of 356
Found at i:100523298 original size:17 final size:18
Alignment explanation
Indices: 100523260--100523304 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
100523250 AAAATTATTT
100523260 TTAAAAA-ATAAAAATCA
1 TTAAAAATATAAAAATCA
100523277 TTAAAAATATTAAAAAT-A
1 TTAAAAATA-TAAAAATCA
100523295 -TAAAAATATA
1 TTAAAAATATA
100523305 TATAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 2 0.08
17 15 0.58
18 2 0.08
19 7 0.27
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAATATAAAAATCA
Found at i:100523319 original size:27 final size:26
Alignment explanation
Indices: 100523258--100523322 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
100523248 TAAAAATTAT
*
100523258 TTTTAAAAAATAAAAATCATTAAAAA
1 TTTTAAAATATAAAAATCATTAAAAA
* *
100523284 TATTAAAAATATAAAAAT-ATATATAATA
1 T-TTTAAAATATAAAAATCAT-TA-AAAA
100523312 TTTTAAAATAT
1 TTTTAAAATAT
100523323 TAATTAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.09
27 25 0.78
28 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TTTTAAAATATAAAAATCATTAAAAA
Found at i:100523669 original size:16 final size:17
Alignment explanation
Indices: 100523637--100523669 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
100523627 GTACAATCAG
*
100523637 AATATATTATCAAAATA
1 AATATATTATAAAAATA
100523654 AATATA-TATAAAAATA
1 AATATATTATAAAAATA
100523670 TTTAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATATTATAAAAATA
Found at i:100530837 original size:47 final size:49
Alignment explanation
Indices: 100530783--100530876 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
100530773 TTATTTTTCT
*
100530783 TATTTAATTTTAATT-A-ATACCAAATAAAATTTAGAACTTAAATTTTG
1 TATTTAATTTTAATTAATATACCAAACAAAATTTAGAACTTAAATTTTG
* *
100530830 TATTTAATTTTAATTAATATACGAAACAAAATTTATAACTTAAATTT
1 TATTTAATTTTAATTAATATACCAAACAAAATTTAGAACTTAAATTT
100530877 GATCCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
47 15 0.36
48 1 0.02
49 26 0.62
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (49 bp):
TATTTAATTTTAATTAATATACCAAACAAAATTTAGAACTTAAATTTTG
Found at i:100531321 original size:15 final size:16
Alignment explanation
Indices: 100531297--100531329 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
100531287 ATAATTTAAC
100531297 TTCAGAACTT-ATTTT
1 TTCAGAACTTAATTTT
*
100531312 TTCAGTACTTAATTTT
1 TTCAGAACTTAATTTT
100531328 TT
1 TT
100531330 ATATTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (16 bp):
TTCAGAACTTAATTTT
Found at i:100531458 original size:22 final size:21
Alignment explanation
Indices: 100531430--100531476 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
100531420 ATAAATTCAA
* *
100531430 TTATTTATCATTTTATTATATT
1 TTATTTAACATTATATTAT-TT
100531452 TTATTTAACATTATATTATTT
1 TTATTTAACATTATATTATTT
100531473 TTAT
1 TTAT
100531477 AAAAAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (21 bp):
TTATTTAACATTATATTATTT
Found at i:100537622 original size:21 final size:21
Alignment explanation
Indices: 100537572--100537628 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
100537562 AAGTTGAAAT
*
100537572 TTTTATTTTTATTT-AATATA
1 TTTTAATTTTATTTAAATATA
*
100537592 TTATATATTTTATTTAAAT-TAA
1 TTTTA-ATTTTATTTAAATAT-A
100537614 TTTTAATTTT-TTTAA
1 TTTTAATTTTATTTAA
100537629 CTTACTTATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.29
21 14 0.45
22 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAATTTTATTTAAATATA
Found at i:100543246 original size:13 final size:13
Alignment explanation
Indices: 100543228--100543252 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100543218 TGAACGTGAG
100543228 TAGGTGATTCGAA
1 TAGGTGATTCGAA
100543241 TAGGTGATTCGA
1 TAGGTGATTCGA
100543253 CGTAGTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.32, T:0.32
Consensus pattern (13 bp):
TAGGTGATTCGAA
Found at i:100548221 original size:14 final size:16
Alignment explanation
Indices: 100548207--100548238 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
100548197 GATATATTAT
100548207 ATTTTT-TAAAATATA
1 ATTTTTATAAAATATA
100548222 ATTTTTATAAAA-ATA
1 ATTTTTATAAAATATA
100548237 AT
1 AT
100548239 AATATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTTATAAAATATA
Found at i:100549891 original size:9 final size:9
Alignment explanation
Indices: 100549873--100549950 Score: 70
Period size: 9 Copynumber: 8.7 Consensus size: 9
100549863 GAAAATGGGA
*
100549873 CCAGGTGGG
1 CCAGGAGGG
100549882 CCAGGAGGG
1 CCAGGAGGG
*
100549891 CCACCG-GGG
1 CCA-GGAGGG
* *
100549900 CCAGGTGGA
1 CCAGGAGGG
100549909 CCAGGAGGG
1 CCAGGAGGG
100549918 CCAGGAGGG
1 CCAGGAGGG
**
100549927 CCTCCG-GGG
1 CC-AGGAGGG
100549936 CCAGGAGGG
1 CCAGGAGGG
100549945 CCAGGA
1 CCAGGA
100549951 TGGGGCGGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.18, C:0.28, G:0.50, T:0.04
Consensus pattern (9 bp):
CCAGGAGGG
Found at i:100549902 original size:18 final size:18
Alignment explanation
Indices: 100549879--100549947 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
100549869 GGGACCAGGT
100549879 GGGCCAGGAGGGCCACCG
1 GGGCCAGGAGGGCCACCG
* * *
100549897 GGGCCAGGTGGACCA-GG
1 GGGCCAGGAGGGCCACCG
*
100549914 AGGGCCAGGAGGGCCTCCG
1 -GGGCCAGGAGGGCCACCG
100549933 GGGCCAGGAGGGCCA
1 GGGCCAGGAGGGCCA
100549948 GGATGGGGCG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.51, T:0.03
Consensus pattern (18 bp):
GGGCCAGGAGGGCCACCG
Found at i:100549919 original size:36 final size:36
Alignment explanation
Indices: 100549870--100549950 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
100549860 GGAGAAAATG
* *
100549870 GGACCAGGTGGGCCAGGAGGGCCACCGGGGCCAGGT
1 GGACCAGGAGGGCCAGGAGGGCCACCGGGGCCAGGA
*
100549906 GGACCAGGAGGGCCAGGAGGGCCTCCGGGGCCAGGA
1 GGACCAGGAGGGCCAGGAGGGCCACCGGGGCCAGGA
*
100549942 GGGCCAGGA
1 GGACCAGGA
100549951 TGGGGCGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.19, C:0.27, G:0.51, T:0.04
Consensus pattern (36 bp):
GGACCAGGAGGGCCAGGAGGGCCACCGGGGCCAGGA
Found at i:100549927 original size:27 final size:27
Alignment explanation
Indices: 100549873--100549950 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
100549863 GAAAATGGGA
*
100549873 CCAGGTGGGCCAGGAGGGCCACCG-GGG-
1 CCAGGT-GGCCAGGAGGGCCA-GGAGGGC
100549900 CCAGGTGGACCAGGAGGGCCAGGAGGGC
1 CCAGGTGG-CCAGGAGGGCCAGGAGGGC
*
100549928 CTCCGG-GGCCAGGAGGGCCAGGA
1 C-CAGGTGGCCAGGAGGGCCAGGA
100549951 TGGGGCGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
26 3 0.07
27 36 0.80
28 3 0.07
29 3 0.07
ACGTcount: A:0.18, C:0.28, G:0.50, T:0.04
Consensus pattern (27 bp):
CCAGGTGGCCAGGAGGGCCAGGAGGGC
Found at i:100550094 original size:39 final size:39
Alignment explanation
Indices: 100549936--100550081 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
100549926 GCCTCCGGGG
100549936 CCAGGAGGGCCA---GGATGGGGCGGTCCTCCACCCGGA
1 CCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCCGGA
*
100549972 CCAGGAGGGCCACCAGGATGGGGCGGTCCTCCACCCGGA
1 CCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCCGGA
* *
100550011 CCAGGAGGGCCACCGGGATGGGGGGGTCCTCCTCCCGGA
1 CCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCCGGA
* *
100550050 CCAGG-GGGACCACCGGGGTGGGGCGGCCCTCC
1 CCAGGAGGG-CCACCGGGATGGGGCGGTCCTCC
100550082 GGTCGGACCA
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
36 12 0.12
38 3 0.03
39 85 0.85
ACGTcount: A:0.14, C:0.35, G:0.42, T:0.08
Consensus pattern (39 bp):
CCAGGAGGGCCACCGGGATGGGGCGGTCCTCCACCCGGA
Found at i:100553579 original size:17 final size:16
Alignment explanation
Indices: 100553548--100553578 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100553538 GTCGGTTACT
100553548 TTTTTTTTTCATTTTG
1 TTTTTTTTTCATTTTG
100553564 TTTTTTTTTCATTTT
1 TTTTTTTTTCATTTT
100553579 TCTCTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTCATTTTG
Found at i:100555700 original size:7 final size:7
Alignment explanation
Indices: 100555673--100555722 Score: 59
Period size: 7 Copynumber: 7.1 Consensus size: 7
100555663 TTCAAATGTC
100555673 GAATTTT
1 GAATTTT
100555680 -AAGTTTT
1 GAA-TTTT
100555687 -AAGTTTT
1 GAA-TTTT
100555694 GAATTTT
1 GAATTTT
100555701 GAATTTT
1 GAATTTT
100555708 GAATTTT
1 GAATTTT
*
100555715 GAGTTTT
1 GAATTTT
100555722 G
1 G
100555723 TGTCTTGAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
6 2 0.05
7 36 0.90
8 2 0.05
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (7 bp):
GAATTTT
Found at i:100555730 original size:28 final size:28
Alignment explanation
Indices: 100555673--100555743 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
100555663 TTCAAATGTC
* *
100555673 GAATTTT-AAGTTTTAAGTTTTGAATTTT
1 GAATTTTGAA-TTTTGAGTTTTGAATCTT
**
100555701 GAATTTTGAATTTTGAGTTTTGTGTCTT
1 GAATTTTGAATTTTGAGTTTTGAATCTT
100555729 GAA-TTTGATATTTTG
1 GAATTTTGA-ATTTTG
100555744 TATCTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.14
28 30 0.81
29 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.18, T:0.56
Consensus pattern (28 bp):
GAATTTTGAATTTTGAGTTTTGAATCTT
Found at i:100557631 original size:24 final size:23
Alignment explanation
Indices: 100557604--100557661 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
100557594 CATACTAATG
*
100557604 AATAGAAATATTTTTTATAAATA-T
1 AATA-AAATATTTATT-TAAATATT
100557628 AATAAATTATATTTATTTAAATATT
1 AATAAA--ATATTTATTTAAATATT
100557653 AATAAAATA
1 AATAAAATA
100557662 AGTGTTTTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 5 0.17
24 10 0.33
25 15 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
AATAAAATATTTATTTAAATATT
Found at i:100557639 original size:25 final size:25
Alignment explanation
Indices: 100557611--100557658 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
100557601 ATGAATAGAA
*
100557611 ATATTTTTTATAAATA-TAATAAATT
1 ATATTTATT-TAAATATTAATAAATT
100557636 ATATTTATTTAAATATTAATAAA
1 ATATTTATTTAAATATTAATAAA
100557659 ATAAGTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATTTATTTAAATATTAATAAATT
Found at i:100559070 original size:19 final size:21
Alignment explanation
Indices: 100559026--100559072 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
100559016 ATTGAGTGGT
100559026 TAATTAGACTTTAATTAAGTA
1 TAATTAGACTTTAATTAAGTA
*
100559047 AAATTAG-C-TTAATTAAG-A
1 TAATTAGACTTTAATTAAGTA
100559065 GTAATTAG
1 -TAATTAG
100559073 TGGAAAGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 1 0.04
21 6 0.26
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (21 bp):
TAATTAGACTTTAATTAAGTA
Found at i:100559271 original size:21 final size:22
Alignment explanation
Indices: 100559241--100559281 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
100559231 TATTATTATT
*
100559241 ATATTGTAAT-TTATATTAATG
1 ATATTATAATATTATATTAATG
*
100559262 ATATTATAATATTATTTTAA
1 ATATTATAATATTATATTAA
100559282 CAATTGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
ATATTATAATATTATATTAATG
Found at i:100559337 original size:24 final size:23
Alignment explanation
Indices: 100559309--100559356 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
100559299 TAAATACATG
*
100559309 TGTAATA-AATTAAATACATATACT
1 TGTAATACAACTAAATA-AT-TACT
100559333 TGTAATACAACTAAATAATTACT
1 TGTAATACAACTAAATAATTACT
100559356 T
1 T
100559357 AAAATATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 9 0.41
25 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (23 bp):
TGTAATACAACTAAATAATTACT
Found at i:100559398 original size:5 final size:5
Alignment explanation
Indices: 100559374--100559429 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
100559364 AAGAAATTGT
* *
100559374 TATTA TATGA TATTA TTATTA TATTA TAGTA TATTATA TATTA TATTA
1 TATTA TATTA TATTA -TATTA TATTA TATTA TA-T-TA TATTA TATTA
100559422 TATTA TAT
1 TATTA TAT
100559430 AAATAAGTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 34 0.77
6 6 0.14
7 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:100559415 original size:17 final size:17
Alignment explanation
Indices: 100559387--100559430 Score: 70
Period size: 17 Copynumber: 2.5 Consensus size: 17
100559377 TATATGATAT
100559387 TATTATTATATTATAGTA
1 TATTA-TATATTATAGTA
*
100559405 TATTATATATTATATTA
1 TATTATATATTATAGTA
100559422 TATTATATA
1 TATTATATA
100559431 AATAAGTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 20 0.80
18 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATATATTATAGTA
Found at i:100560764 original size:15 final size:15
Alignment explanation
Indices: 100560716--100560765 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
100560706 TTTATCAAAT
*
100560716 TTATATTGACTGAAA
1 TTATATTGATTGAAA
* * *
100560731 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
100560746 TTATATTGATTGAAA
1 TTATATTGATTGAAA
100560761 TTATA
1 TTATA
100560766 ATATATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:100561272 original size:29 final size:27
Alignment explanation
Indices: 100561214--100561310 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 27
100561204 AATGCCTTAT
*
100561214 TGGTGTGTTTGGGAGGATATGATATAC
1 TGGTGTGTTTGGGAGGATATAATATAC
*
100561241 TGGTGTGTTAT-GGAGGATTTATAATATTC
1 TGGTGTGTT-TGGGAGGA--TATAATATAC
*
100561270 TGGGTGTGTTTGGGTTGG--AT-AT-T-C
1 T-GGTGTGTTTGGG-AGGATATAATATAC
100561294 TGGTGTGTTTGGGAGGA
1 TGGTGTGTTTGGGAGGA
100561311 ATCCGCGTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
22 2 0.03
23 12 0.20
24 2 0.03
25 1 0.02
26 2 0.03
27 17 0.29
28 1 0.02
29 10 0.17
30 10 0.17
31 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.38, T:0.41
Consensus pattern (27 bp):
TGGTGTGTTTGGGAGGATATAATATAC
Found at i:100569366 original size:3 final size:3
Alignment explanation
Indices: 100569352--100569387 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
100569342 TCATAAGCTG
*
100569352 CCT CCT CTT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
100569388 TCTTATCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
CCT
Found at i:100574348 original size:4 final size:4
Alignment explanation
Indices: 100574334--100574372 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
100574324 GTAGGGACGA
* * *
100574334 ATAC GTAC ATAC ATAC ATAC ATTC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
100574373 TACATATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (4 bp):
ATAC
Found at i:100585124 original size:37 final size:38
Alignment explanation
Indices: 100585073--100585145 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
100585063 CTACATTGTA
*
100585073 ACTAAAGACATCCTT-ATTCTTTGAT-TTATATTCAAGG
1 ACTAAAGACATCCTTAATTCTTAGATATT-TATTCAAGG
100585110 ACTAAAGA-AGTCCTTAATTCTTAGATATTTATTCAA
1 ACTAAAGACA-TCCTTAATTCTTAGATATTTATTCAA
100585146 TAAAAGTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 1 0.03
37 13 0.41
38 16 0.50
39 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (38 bp):
ACTAAAGACATCCTTAATTCTTAGATATTTATTCAAGG
Found at i:100587028 original size:26 final size:26
Alignment explanation
Indices: 100586994--100587043 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
100586984 TTTTAATCTA
* * *
100586994 TTTATTTACTTTTTTTTACAATTTAT
1 TTTATTTACCTTCTGTTACAATTTAT
100587020 TTTATTTACCTTCTGTTACAATTT
1 TTTATTTACCTTCTGTTACAATTT
100587044 TAAATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTACCTTCTGTTACAATTTAT
Found at i:100588432 original size:17 final size:17
Alignment explanation
Indices: 100588404--100588478 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 17
100588394 TGTATCTTAT
100588404 TTATATATATTTTTATGC
1 TTATA-ATATTTTTATGC
100588422 TTATAATATTTTATAT--
1 TTATAATATTTT-TATGC
*
100588438 TTCA-AATTTTTTTATGC
1 TT-ATAATATTTTTATGC
100588455 ATTA-ACATATTTTT-TGC
1 -TTATA-ATATTTTTATGC
100588472 TATATAA
1 T-TATAA
100588479 CTCAAAAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
15 3 0.06
16 10 0.21
17 16 0.34
18 18 0.38
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (17 bp):
TTATAATATTTTTATGC
Found at i:100590563 original size:17 final size:17
Alignment explanation
Indices: 100590541--100590596 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
100590531 GATCAGTCAA
*
100590541 TTAAATTTAAATTCATT
1 TTAAATTTAAATTAATT
*
100590558 TTAAATATTAAA-AAATT
1 TTAAAT-TTAAATTAATT
*
100590575 TTAAATTTTAATTAATT
1 TTAAATTTAAATTAATT
*
100590592 ATAAA
1 TTAAA
100590597 ACATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 4 0.12
17 23 0.72
18 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:100590627 original size:16 final size:17
Alignment explanation
Indices: 100590558--100590633 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 17
100590548 TAAATTCATT
* *
100590558 TTAAATATTAAAAAATT
1 TTAAATATTTAAAAATA
*
100590575 TTAAAT-TTTAATTAATTA
1 TTAAATATTTAA--AAATA
* * *
100590593 TAAAACA-TT-AAAATG
1 TTAAATATTTAAAAATA
100590608 TT-AATATTTAAAAATA
1 TTAAATATTTAAAAATA
100590624 TTAAATATTT
1 TTAAATATTT
100590634 TTAAGAAGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
14 3 0.07
15 6 0.14
16 11 0.26
17 14 0.33
18 9 0.21
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (17 bp):
TTAAATATTTAAAAATA
Found at i:100590764 original size:24 final size:22
Alignment explanation
Indices: 100590742--100590786 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
100590732 TCTTTTATTA
100590742 ATTA-TAAAAT-ATAAAAATAT
1 ATTATTAAAATAATAAAAATAT
*
100590762 ATTATTAAAATAATAAAATTAT
1 ATTATTAAAATAATAAAAATAT
100590784 ATT
1 ATT
100590787 TTTATCGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTATTAAAATAATAAAAATAT
Found at i:100593258 original size:25 final size:25
Alignment explanation
Indices: 100593230--100593277 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
100593220 ATCAAAACCC
100593230 ATCTCCTAT-TTTCTATAAAGTTTCA
1 ATCT-CTATGTTTCTATAAAGTTTCA
* *
100593255 ATCTTTTTGTTTCTATAAAGTTT
1 ATCTCTATGTTTCTATAAAGTTT
100593278 TTGTTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.25, C:0.15, G:0.06, T:0.54
Consensus pattern (25 bp):
ATCTCTATGTTTCTATAAAGTTTCA
Found at i:100593346 original size:3 final size:3
Alignment explanation
Indices: 100593338--100593365 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
100593328 TACAAAAAAG
100593338 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
100593366 AACAGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:100597008 original size:29 final size:26
Alignment explanation
Indices: 100596949--100597005 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
100596939 TACAACTTCC
100596949 TTTT-TCTTCTTCACCATTATTTTCA
1 TTTTATCTTCTTCACCATTATTTTCA
100596974 TTTTATCTTCTTCACCATTATTTTCA
1 TTTTATCTTCTTCACCATTATTTTCA
100597000 TTTTAT
1 TTTTAT
100597006 TATATTCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.18, C:0.21, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTATCTTCTTCACCATTATTTTCA
Found at i:100597013 original size:26 final size:26
Alignment explanation
Indices: 100596949--100597013 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
100596939 TACAACTTCC
*
100596949 TTTT-TCTTCTTCACCATTATTTTCA
1 TTTTATCTTATTCACCATTATTTTCA
*
100596974 TTTTATCTTCTTCACCATTATTTTCA
1 TTTTATCTTATTCACCATTATTTTCA
100597000 TTTTAT-TATATTCA
1 TTTTATCT-TATTCA
100597014 ACAGCAAAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
25 5 0.14
26 32 0.86
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTATCTTATTCACCATTATTTTCA
Found at i:100597167 original size:31 final size:32
Alignment explanation
Indices: 100597123--100597187 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
100597113 ATAGCTTATA
100597123 TTTTTATAATTTTTAA-AGTATAAAAT-TAATT
1 TTTTTATAATTTTTAAGAGT-TAAAATGTAATT
* *
100597154 TTTTTTTATTTTTTAAGAGTTAAAATGTAATT
1 TTTTTATAATTTTTAAGAGTTAAAATGTAATT
100597186 TT
1 TT
100597188 ACCATTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 20 0.67
32 10 0.33
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (32 bp):
TTTTTATAATTTTTAAGAGTTAAAATGTAATT
Found at i:100598255 original size:16 final size:17
Alignment explanation
Indices: 100598224--100598257 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
100598214 AAAAATACAC
*
100598224 TATATTTGACATATAAT
1 TATATTAGACATATAAT
100598241 TATATTAGA-ATATAAT
1 TATATTAGACATATAAT
100598257 T
1 T
100598258 TAATTTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (17 bp):
TATATTAGACATATAAT
Found at i:100599761 original size:14 final size:14
Alignment explanation
Indices: 100599744--100599794 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
100599734 GTGTTTGAGG
100599744 TTTAAGGTTTAAAA
1 TTTAAGGTTTAAAA
*
100599758 TTT-AGAGTTCAAAA
1 TTTAAG-GTTTAAAA
*
100599772 TTTAAGATTTAAAGA
1 TTTAAGGTTTAAA-A
100599787 -TTAAGGTT
1 TTTAAGGTT
100599795 CAGAGCTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 25 0.83
15 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (14 bp):
TTTAAGGTTTAAAA
Found at i:100606207 original size:52 final size:48
Alignment explanation
Indices: 100606188--100606390 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
100606178 TGACAAGTGG
* *
100606188 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100606234 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
100606286 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
100606332 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100606378 AAAGTGATAAGTG
1 AAAGTGATAAGTG
100606391 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:100606242 original size:98 final size:98
Alignment explanation
Indices: 100606122--100606390 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
100606112 TTTGAGTACT
*
100606122 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100606187 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
100606220 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100606285 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
100606318 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
100606383 GATAAGTG
65 GAAAAGTG
100606391 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:100606398 original size:37 final size:37
Alignment explanation
Indices: 100606354--100606482 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
100606344 GATAGCTTTA
*
100606354 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100606391 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
100606428 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100606465 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
100606483 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:100607831 original size:58 final size:58
Alignment explanation
Indices: 100607754--100607921 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
100607744 CATGTGAACA
100607754 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
100607813 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
100607869 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
100607920 TG
1 TG
100607922 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:100607863 original size:28 final size:28
Alignment explanation
Indices: 100607773--100607863 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
100607763 GTGATTCCGT
100607773 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
100607801 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
100607830 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
100607859 GTAAG
1 GTAAG
100607864 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:100607886 original size:49 final size:49
Alignment explanation
Indices: 100607814--100607956 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
100607804 AGTGATATGT
* *
100607814 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
100607863 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
100607912 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
100607957 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:100611159 original size:52 final size:48
Alignment explanation
Indices: 100611140--100611342 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
100611130 TGACAAGTGG
* *
100611140 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100611186 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
100611238 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
100611284 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100611330 AAAGTGATAAGTG
1 AAAGTGATAAGTG
100611343 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:100611194 original size:98 final size:98
Alignment explanation
Indices: 100611074--100611342 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
100611064 TTTGAGTACT
*
100611074 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100611139 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
100611172 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100611237 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
100611270 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
100611335 GATAAGTG
65 GAAAAGTG
100611343 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:100611350 original size:37 final size:37
Alignment explanation
Indices: 100611306--100611434 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
100611296 GATAGCTTTA
*
100611306 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100611343 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
100611380 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100611417 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
100611435 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:100612783 original size:58 final size:58
Alignment explanation
Indices: 100612706--100612873 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
100612696 CATGTGAACA
100612706 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
100612765 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
100612821 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
100612872 TG
1 TG
100612874 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:100612815 original size:28 final size:28
Alignment explanation
Indices: 100612725--100612815 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
100612715 GTGATTCCGT
100612725 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
100612753 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
100612782 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
100612811 GTAAG
1 GTAAG
100612816 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:100612838 original size:49 final size:49
Alignment explanation
Indices: 100612766--100612908 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
100612756 AGTGATATGT
* *
100612766 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
100612815 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
100612864 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
100612909 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:100616116 original size:52 final size:48
Alignment explanation
Indices: 100616097--100616299 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
100616087 TGACAAGTGG
* *
100616097 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100616143 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
100616195 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
100616241 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
100616287 AAAGTGATAAGTG
1 AAAGTGATAAGTG
100616300 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:100616151 original size:98 final size:98
Alignment explanation
Indices: 100616031--100616299 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
100616021 TTTGAGTACT
*
100616031 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100616096 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
100616129 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
100616194 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
100616227 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
100616292 GATAAGTG
65 GAAAAGTG
100616300 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:100616307 original size:37 final size:37
Alignment explanation
Indices: 100616263--100616391 Score: 240
Period size: 37 Copynumber: 3.5 Consensus size: 37
100616253 GATAGCTTTA
*
100616263 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100616300 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
100616337 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
100616374 GCTACACTTATCTGATCA
1 GCTACACTTATCTGATCA
100616392 GGGACAAGTG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 90 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:100618903 original size:26 final size:25
Alignment explanation
Indices: 100618841--100618922 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 25
100618831 TTGTGATAAA
*
100618841 TTTAAATTTAAATCTTAATATTTATTT
1 TTTAAA-TTAAAT-TTGATATTTATTT
100618868 TTT--ATT-AATTTGATATTTATTT
1 TTTAAATTAAATTTGATATTTATTT
*
100618890 TTTAAAGTTAAATTTGATTATTAATTT
1 TTTAAA-TTAAATTTGA-TATTTATTT
100618917 TTTAAA
1 TTTAAA
100618923 AAGAGTTAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
22 15 0.31
23 3 0.06
24 3 0.06
25 3 0.06
26 7 0.15
27 17 0.35
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTAAATTAAATTTGATATTTATTT
Found at i:100620894 original size:7 final size:7
Alignment explanation
Indices: 100620882--100620908 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
100620872 GAATTTGAAG
100620882 TGAAAAC
1 TGAAAAC
100620889 TGAAAAC
1 TGAAAAC
100620896 TGAAAAC
1 TGAAAAC
100620903 TGAAAA
1 TGAAAA
100620909 TACCCTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAC
Found at i:100628591 original size:75 final size:73
Alignment explanation
Indices: 100628445--100628592 Score: 172
Period size: 75 Copynumber: 2.0 Consensus size: 73
100628435 TGAAATTAAA
* * *
100628445 TTATAATTTTTATAATAGTAAAAATATAATTTTATTTATATTTTTATAATTTTAAAAAAATTAAA
1 TTATAATTTTTAAAAGAGTAAAAATATAATTTTATTTATATTTTTAAAATTTTAAAAAAATTAAA
100628510 TTAAATTTT
66 -TAAATTTT
* * * * **
100628519 TTATTATTTTTAAAAGAGTTAAAAGTGTAATTTTATTTTTATTAATTTAAAATTTTAAAAATTTT
1 TTATAATTTTTAAAAGAG-TAAAAATATAATTTTATTTATATT--TTTAAAATTTTAAAAAAATT
100628584 AAA-AAATTT
63 AAATAAATTT
100628593 AAATGAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
74 15 0.24
75 27 0.44
77 20 0.32
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (73 bp):
TTATAATTTTTAAAAGAGTAAAAATATAATTTTATTTATATTTTTAAAATTTTAAAAAAATTAAA
TAAATTTT
Found at i:100641874 original size:25 final size:25
Alignment explanation
Indices: 100641840--100641890 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
100641830 TTCCTTATAA
**
100641840 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
100641865 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
100641890 A
1 A
100641891 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:100641889 original size:12 final size:12
Alignment explanation
Indices: 100641843--100641890 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
100641833 CTTATAAACT
100641843 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
100641855 TTCTATTAGGACT
1 TTAAATTAGGA-A
100641868 TTAAATTAGGAA
1 TTAAATTAGGAA
*
100641880 TTAGATTAGGA
1 TTAAATTAGGA
100641891 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:100644232 original size:24 final size:24
Alignment explanation
Indices: 100644200--100644247 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
100644190 TGCATCATGT
100644200 AAGATTAGTTTTTGAACTCTTGCG
1 AAGATTAGTTTTTGAACTCTTGCG
100644224 AAGATTAGTTTTTGAACTCTTGCG
1 AAGATTAGTTTTTGAACTCTTGCG
100644248 GGATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (24 bp):
AAGATTAGTTTTTGAACTCTTGCG
Found at i:100646585 original size:25 final size:25
Alignment explanation
Indices: 100646536--100646586 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
100646526 TTCCTTATAA
**
100646536 ACTTTAAATTAGGAATTCTACTAGG
1 ACTTTAAATTAGGAATTAGACTAGG
*
100646561 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGACTAGG
100646586 A
1 A
100646587 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGACTAGG
Found at i:100655693 original size:37 final size:37
Alignment explanation
Indices: 100655652--100655762 Score: 222
Period size: 37 Copynumber: 3.0 Consensus size: 37
100655642 AGTTTTTTAG
100655652 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
1 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
100655689 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
1 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
100655726 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
1 GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
100655763 AATAAGTTTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (37 bp):
GTGGGCTTGAGTTGGACATGAACAAAGCTTTTACTTA
Found at i:100657710 original size:16 final size:16
Alignment explanation
Indices: 100657686--100657722 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
100657676 AGTCTCTTTT
*
100657686 ACTACTGTTATCAACA
1 ACTATTGTTATCAACA
100657702 ACTATTGTTATCAACA
1 ACTATTGTTATCAACA
*
100657718 TCTAT
1 ACTAT
100657723 CCTTCAAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (16 bp):
ACTATTGTTATCAACA
Found at i:100660290 original size:39 final size:39
Alignment explanation
Indices: 100660226--100660496 Score: 283
Period size: 39 Copynumber: 6.6 Consensus size: 39
100660216 TAATGGAGAA
* *
100660226 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
*
100660265 TTATATCCGGGCTAAATCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
* *
100660304 TTATATCCGGGCTAAGTCCAGGGCTAAGTCCAGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGC----T--A-----AA-TCCCGAAGGCATTCGTGCTGGTG
* *
100660355 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
* *
100660394 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
* * *
100660433 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCTAAA-TCCCGAAGGCATTCGTGCTGGTG
*
100660472 TTATATTCGGGCTTAAAGTCCCGAA
1 TTATATCCGGGC-TAAA-TCCCGAA
100660497 TGCTTTGTGG
Statistics
Matches: 199, Mismatches: 19, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
39 141 0.71
40 21 0.11
43 1 0.01
45 2 0.01
47 1 0.01
50 2 0.01
51 31 0.16
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
Found at i:100660329 original size:12 final size:12
Alignment explanation
Indices: 100660312--100660336 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100660302 TGTTATATCC
100660312 GGGCTAAGTCCA
1 GGGCTAAGTCCA
100660324 GGGCTAAGTCCA
1 GGGCTAAGTCCA
100660336 G
1 G
100660337 AAGGCATTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.16
Consensus pattern (12 bp):
GGGCTAAGTCCA
Found at i:100660349 original size:51 final size:51
Alignment explanation
Indices: 100660273--100660373 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
100660263 TGTTATATCC
*
100660273 GGGCTAAATCCCAAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCA
1 GGGCTAAATCCCAAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCA
* *
100660324 GGGCTAAGT-CCAGAAGGCATTCGTGCTGGTATTATATCTGGGCTAAGTCC
1 GGGCTAAATCCCA-AAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCC
100660374 CGAAGGCATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 3 0.07
51 43 0.93
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (51 bp):
GGGCTAAATCCCAAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCA
Found at i:100660387 original size:90 final size:90
Alignment explanation
Indices: 100660234--100660412 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 90
100660224 AATTATATCC
* *
100660234 GGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAATCCCAAAGGCATTCGTGC
1 GGGCTAAGTCCAGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAATCCCAAAGGCATTCGTGC
100660299 TGGTGTTATATCCGGGCTAAGTCCA
66 TGGTGTTATATCCGGGCTAAGTCCA
* * *
100660324 GGGCTAAGTCCAGAAGGCATTCGTGCTGGTATTATATCTGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGCTAAGTCCAGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAATCCCAAAGGCATTCGTGC
100660389 TGGTGTTATATCCGGGCTAAGTCC
66 TGGTGTTATATCCGGGCTAAGTCC
100660413 CGAAGGCATT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (90 bp):
GGGCTAAGTCCAGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAATCCCAAAGGCATTCGTGC
TGGTGTTATATCCGGGCTAAGTCCA
Found at i:100670051 original size:30 final size:32
Alignment explanation
Indices: 100670015--100670075 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
100670005 GGATGAAAAT
*
100670015 TTTAACG-AAAAGGACTAGTTTGCTC-TTTTA
1 TTTAACGTAAAAGGACTAATTTGCTCATTTTA
* *
100670045 TTTAACGTACAGGGACTAATTTGCTCATTTT
1 TTTAACGTAAAAGGACTAATTTGCTCATTTT
100670076 TGGAGTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTAACGTAAAAGGACTAATTTGCTCATTTTA
Found at i:100679079 original size:16 final size:16
Alignment explanation
Indices: 100679058--100679105 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
100679048 CTTTCTCATT
100679058 AATAAAAACAAAGAAA
1 AATAAAAACAAAGAAA
* *
100679074 AATAAAAACAGATAAA
1 AATAAAAACAAAGAAA
* *
100679090 AATGACAA-AAAGAAA
1 AATAAAAACAAAGAAA
100679105 A
1 A
100679106 GAAAAAAACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 6 0.23
16 20 0.77
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.08
Consensus pattern (16 bp):
AATAAAAACAAAGAAA
Found at i:100685372 original size:27 final size:27
Alignment explanation
Indices: 100685335--100685388 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
100685325 ATTTGGCAGA
*
100685335 GTTGGTTGTTTA-CTCGAACCATATGTT
1 GTTGGTCGTTTACCT-GAACCATATGTT
*
100685362 GTTGGTCGTTTACCTGAACCATTTGTT
1 GTTGGTCGTTTACCTGAACCATATGTT
100685389 AAACATCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (27 bp):
GTTGGTCGTTTACCTGAACCATATGTT
Found at i:100699641 original size:69 final size:68
Alignment explanation
Indices: 100699568--100700010 Score: 284
Period size: 69 Copynumber: 6.4 Consensus size: 68
100699558 ACAGTTAACA
* **
100699568 AGAGCAAAGCAT-CCAGCTGTCACACTAAGGCTTGAAAGTGAAGAGCCACAACCTTCAACATAAT
1 AGAGCAAAGC-TCCCAGCTGTCACATTAAGG-TTGAAAGTGAAGAGCTGCAACCTTCAACATAAT
100699632 TAGTG
64 TAGTG
** * * * * * * *
100699637 AGAGCAAAGCTCCCAATTGTTACATTAAGAGTCGAATGTGATGAGTTGCAACTTTTAACATAATT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAG-GTTGAAAGTGAAGAGCTGCAACCTTCAACATAATT
*
100699702 AGCG
65 AGTG
* * * *
100699706 AGAGCAAAGCTCCCAGCTGTCACATTAAGGGTCAAAATGAAGAGCTGCAACCTTCAACATATTTA
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGAAAGTGAAGAGCTGCAACCTTCAACATAATTA
100699771 GTG
66 GTG
* * * * ** * * * * *
100699774 AAAGTAAAACTCCTAATTGTCACATTAAGGTTCATAGGTGAAGAGCCGCAGCC-TCTAACATAGT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGA-AAGTGAAGAGCTGCAACCTTC-AACATAAT
**
100699838 TAGCA
64 TAGTG
* * * * * * * * *
100699843 AAAGCTAAGCTCCCAACTATCATATTAAGGATCGAAGGTGAAGAGCCGCAACCTTCAACACAATT
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGG-TTGAAAGTGAAGAGCTGCAACCTTCAACATAATT
*
100699908 AACT-
65 -AGTG
* * * * * * * * * *
100699912 AGAGTAAAGCTCTCAACTATCACATTGAGGTTCATATGTGAAGAGCCGCAGCC-TCTA-ATACAG
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGA-AAGTGAAGAGCTGCAACCTTCAACATA-A-
*
100699975 TTAGCG
63 TTAGTG
* *
100699981 AAAGCAAAGCTCCCAGTTGTCACATTAAGG
1 AGAGCAAAGCTCCCAGCTGTCACATTAAGG
100700011 CCCCGTTCAA
Statistics
Matches: 287, Mismatches: 76, Indels: 22
0.75 0.20 0.06
Matches are distributed among these distances:
67 2 0.01
68 65 0.23
69 214 0.75
70 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (68 bp):
AGAGCAAAGCTCCCAGCTGTCACATTAAGGTTGAAAGTGAAGAGCTGCAACCTTCAACATAATTA
GTG
Found at i:100699943 original size:138 final size:137
Alignment explanation
Indices: 100699692--100700010 Score: 372
Period size: 138 Copynumber: 2.3 Consensus size: 137
100699682 TTGCAACTTT
* * * * * *
100699692 TAACATAATTAGCGAGAGCAAAGCTCCCAGCTGTCACATTAAGGGTCAAAATGAAGAGCTGCAAC
1 TAACATAGTTAGCGAAAGCAAAGCTCCCAACTATCACATTAAGGATCAAAATGAAGAGCCGCAAC
* * * * *
100699757 CTTCAACATATTTAGTGAAAGTAAAACTCCTAATTGTCACATTAAGGTTCATAGGTGAAGAGCCG
66 CTTCAACAAATTAACTGAAAGTAAAACTCCTAACTATCACATTAAGGTTCATAGGTGAAGAGCCG
100699822 CAGCCTC
131 CAGCCTC
* * * **
100699829 TAACATAGTTAGCAAAAGCTAAGCTCCCAACTATCATATTAAGGATCGAAGGTGAAGAGCCGCAA
1 TAACATAGTTAGCGAAAGCAAAGCTCCCAACTATCACATTAAGGATC-AAAATGAAGAGCCGCAA
* * * *
100699894 CCTTCAACACAATTAACT-AGAGTAAAGCT-CTCAACTATCACATTGAGGTTCATATGTGAAGAG
65 CCTTCAACA-AATTAACTGAAAGTAAAACTCCT-AACTATCACATTAAGGTTCATAGGTGAAGAG
100699957 CCGCAGCCTC
128 CCGCAGCCTC
* * ** *
100699967 TAATACAGTTAGCGAAAGCAAAGCTCCCAGTTGTCACATTAAGG
1 TAACATAGTTAGCGAAAGCAAAGCTCCCAACTATCACATTAAGG
100700011 CCCCGTTCAA
Statistics
Matches: 151, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
137 41 0.27
138 105 0.70
139 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (137 bp):
TAACATAGTTAGCGAAAGCAAAGCTCCCAACTATCACATTAAGGATCAAAATGAAGAGCCGCAAC
CTTCAACAAATTAACTGAAAGTAAAACTCCTAACTATCACATTAAGGTTCATAGGTGAAGAGCCG
CAGCCTC
Found at i:100700457 original size:35 final size:35
Alignment explanation
Indices: 100700387--100700457 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
100700377 AGTTGTTTTC
* *
100700387 TGATTGTTTGATTTTTACATAAAATTTATAGAAAT
1 TGATTGTTTGATTTTTACATAAAATTTAAAAAAAT
*
100700422 TGATTGTTTGA-TTTTACA-GAAATTTCACAAAAAAT
1 TGATTGTTTGATTTTTACATAAAATTT-A-AAAAAAT
100700457 T
1 T
100700458 TAATACAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 6 0.19
34 8 0.26
35 17 0.55
ACGTcount: A:0.38, C:0.06, G:0.11, T:0.45
Consensus pattern (35 bp):
TGATTGTTTGATTTTTACATAAAATTTAAAAAAAT
Found at i:100700467 original size:14 final size:14
Alignment explanation
Indices: 100700448--100700498 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
100700438 CAGAAATTTC
100700448 ACAAAAAATTTAAT
1 ACAAAAAATTTAAT
*
100700462 ACAAAAAAATT--T
1 ACAAAAAATTTAAT
* *
100700474 ACATAAATTTTAAT
1 ACAAAAAATTTAAT
*
100700488 ACCAAAAATTT
1 ACAAAAAATTT
100700499 TACAGAAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
12 9 0.32
14 19 0.68
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAAAAATTTAAT
Found at i:100700489 original size:26 final size:26
Alignment explanation
Indices: 100700441--100700508 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
100700431 GATTTTACAG
*
100700441 AAATTTCACAAAAAATTTAATACAAAA
1 AAATTT-ACAAAAATTTTAATACAAAA
* *
100700468 AAATTTACATAAATTTTAATACCAAA
1 AAATTTACAAAAATTTTAATACAAAA
* *
100700494 AATTTTACAGAAATT
1 AAATTTACAAAAATT
100700509 GATTGTTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 30 0.83
27 6 0.17
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.32
Consensus pattern (26 bp):
AAATTTACAAAAATTTTAATACAAAA
Found at i:100700806 original size:26 final size:25
Alignment explanation
Indices: 100700764--100700817 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
100700754 TAAACATTTA
*
100700764 AATTTTAAACAAAACTTCTCAAAAGT
1 AATTTTAAACAAAACTT-TAAAAAGT
*
100700790 AATTTTAAA-AAGCACTTTAAAAAGT
1 AATTTTAAACAA-AACTTTAAAAAGT
100700815 AAT
1 AAT
100700818 ACTAAATTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (25 bp):
AATTTTAAACAAAACTTTAAAAAGT
Found at i:100700950 original size:69 final size:68
Alignment explanation
Indices: 100700839--100701033 Score: 225
Period size: 69 Copynumber: 2.8 Consensus size: 68
100700829 CCTAAGGCTC
* * *** *
100700839 GCAAGTGAAAAGCTGCAGCCTTCAACACAGTTAATAAGAGCAAAGCTCCCAGTTGTCACATTAA-
1 GCAAGTGAAGAGCTGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCACATTAAG
100700903 AGCTT
66 A-C-T
* * *
100700908 GCAAGTGAAGAG-TAGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAGCTGTCATATTAA
1 GCAAGTGAAGAGCT-GCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCACATTAA
100700972 GACT
65 GACT
* *
100700976 -CAAAGGTGAAGAGCTGCAACCTTCAACACAATTAGCGAGACCAAAGCTCCCAGCTGTC
1 GC-AA-GTGAAGAGCTGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTC
100701034 TTACTAAGGC
Statistics
Matches: 108, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
67 1 0.01
68 4 0.04
69 101 0.94
70 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (68 bp):
GCAAGTGAAGAGCTGCAACCTTCAACACAGTTAGCGAGAGCAAAGCTCCCAGCTGTCACATTAAG
ACT
Found at i:100701050 original size:30 final size:30
Alignment explanation
Indices: 100701014--100701073 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
100701004 CAATTAGCGA
100701014 GACCAAAGCTCCCAGCTGTCTTACTAAGGC
1 GACCAAAGCTCCCAGCTGTCTTACTAAGGC
100701044 GACCAAAGCTCCCAGCTGTCTTACTAAGGC
1 GACCAAAGCTCCCAGCTGTCTTACTAAGGC
100701074 TGGCAAGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (30 bp):
GACCAAAGCTCCCAGCTGTCTTACTAAGGC
Found at i:100701165 original size:69 final size:69
Alignment explanation
Indices: 100701092--100701361 Score: 285
Period size: 69 Copynumber: 3.9 Consensus size: 69
100701082 GAATAGCAAA
* * * * * * * *
100701092 AGCCTCCAACACAATTAGTGAAAGTAAAGCTCCCAGTTGTCACATCAAGACTCGCAGGTGAAAAG
1 AGCCTCCAACACAGTTAGTGAAAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGAG
100701157 TCGC
66 TCGC
** * * * *
100701161 AGCCTCCAACATGGTTAATGAGAGCAAATCTCCCAGCTATCACATTAAGGTTCGCAGGTGAAGAG
1 AGCCTCCAACACAGTTAGTGAAAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGAG
**
100701226 -CTAT
66 TC-GC
*
100701230 AGCCTCCAACACAGTTAG-CAAGAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGA
1 AGCCTCCAACACAGTTAGTGAA-AGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGA
100701294 GTCGC
65 GTCGC
* * * * * * *
100701299 AGCCTCCAACACAGTTAGCGAGAGCAAAGCTTCTAGCTATCATATTAAGGCTCACAGGT-AAGA
1 AGCCTCCAACACAGTTAGTGAAAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGA
100701362 ATAGTAACCT
Statistics
Matches: 166, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
68 6 0.04
69 158 0.95
70 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (69 bp):
AGCCTCCAACACAGTTAGTGAAAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGAG
TCGC
Found at i:100701265 original size:237 final size:237
Alignment explanation
Indices: 100700830--100701267 Score: 529
Period size: 237 Copynumber: 1.8 Consensus size: 237
100700820 TAAATTAGTC
*** * *
100700830 CTAAGGCTCGCAAGTGAAAAGCTGCAGCCTTCAACACAGTTAATAAGAGCAAAGCTCCCAGTTGT
1 CTAAGGCTCGCAAGTGAAAAGCAAAAGCCTCCAACACAATTAATAAGAGCAAAGCTCCCAGTTGT
* * * * *
100700895 CACATTAAAGCTTGCAAGTGAAGAGTAGCAACCTCCAACACAGTTAGCGAGAGCAAAGCTCCTAG
66 CACATCAAAGCTCGCAAGTGAAAAGTAGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCCAG
* * * * * *
100700960 CTGTCATATTAAGACTCAAAGGTGAAGAGCTGCAACCTTCAACACAATTAGCGAGACCAAAGCTC
131 CTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTCCAACACAATTAGCAAGACCAAAACTC
100701025 CCAGCTGTCTTACTAAGGCGACCAAAGCTCCCAGCTGTCTTA
196 CCAGCTGTCTTACTAAGGCGACCAAAGCTCCCAGCTGTCTTA
* * * *
100701067 CTAAGGCTGGCAAGTGAATAGCAAAAGCCTCCAACACAATTAGTGAA-AGTAAAGCTCCCAGTTG
1 CTAAGGCTCGCAAGTGAAAAGCAAAAGCCTCCAACACAATTAAT-AAGAGCAAAGCTCCCAGTTG
* * * ** * *
100701131 TCACATC-AAGACTCGCAGGTGAAAAGTCGCAGCCTCCAACATGGTTAATGAGAGCAAATCTCCC
65 TCACATCAAAG-CTCGCAAGTGAAAAGTAGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCC
** ** * * * *
100701195 AGCTATCACATTAAGGTTCGCAGGTGAAGAGCTATAGCCTCCAACACAGTTAGCAAGAGCAAAAC
129 AGCTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTCCAACACAATTAGCAAGACCAAAAC
100701260 TCCCAGCT
194 TCCCAGCT
100701268 ATCACATTAA
Statistics
Matches: 164, Mismatches: 35, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
236 3 0.02
237 159 0.97
238 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (237 bp):
CTAAGGCTCGCAAGTGAAAAGCAAAAGCCTCCAACACAATTAATAAGAGCAAAGCTCCCAGTTGT
CACATCAAAGCTCGCAAGTGAAAAGTAGCAACCTCCAACACAGTTAACGAGAGCAAAGCTCCCAG
CTATCACATTAAGACTCAAAGGTGAAGAGCTACAACCTCCAACACAATTAGCAAGACCAAAACTC
CCAGCTGTCTTACTAAGGCGACCAAAGCTCCCAGCTGTCTTA
Found at i:100701300 original size:138 final size:137
Alignment explanation
Indices: 100701092--100701361 Score: 344
Period size: 138 Copynumber: 2.0 Consensus size: 137
100701082 GAATAGCAAA
* * * * *
100701092 AGCCTCCAACACAATTAGTGAAAGTAAAGCTCCCAGTTGTCACATCAAGACTCGCAGGTGAAAAG
1 AGCCTCCAACACAATTAGTCAAAGCAAAACTCCCAGCTATCACATCAAGACTCGCAGGTGAAAAG
** * * * *
100701157 TCGCAGCCTCCAACATGGTTAATGAGAGCAAATCTCCCAGCTATCACATTAAGGTTCGCAGGTGA
66 TCGCAGCCTCCAACACAGTTAACGAGAGCAAAGCTCCCAGCTATCACATTAAGGCTCACAGGT-A
100701222 AGAGCTAT
130 AGAGCTAT
* * * *
100701230 AGCCTCCAACACAGTTAG-CAAGAGCAAAACTCCCAGCTATCACATTAAGGCTCGCAGGTGAAGA
1 AGCCTCCAACACAATTAGTCAA-AGCAAAACTCCCAGCTATCACATCAAGACTCGCAGGTGAAAA
* * * *
100701294 GTCGCAGCCTCCAACACAGTTAGCGAGAGCAAAGCTTCTAGCTATCATATTAAGGCTCACAGGTA
65 GTCGCAGCCTCCAACACAGTTAACGAGAGCAAAGCTCCCAGCTATCACATTAAGGCTCACAGGTA
100701359 AGA
130 AGA
100701362 ATAGTAACCT
Statistics
Matches: 112, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 6 0.05
138 106 0.95
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.20
Consensus pattern (137 bp):
AGCCTCCAACACAATTAGTCAAAGCAAAACTCCCAGCTATCACATCAAGACTCGCAGGTGAAAAG
TCGCAGCCTCCAACACAGTTAACGAGAGCAAAGCTCCCAGCTATCACATTAAGGCTCACAGGTAA
GAGCTAT
Found at i:100701455 original size:69 final size:69
Alignment explanation
Indices: 100701379--100701536 Score: 210
Period size: 69 Copynumber: 2.3 Consensus size: 69
100701369 CCTCTAATAC
* * * * *
100701379 AGTTAGCGCGAGTTCAAGCTCTCAGTTGTAATCTCAGGCTCGTAGGTTCAACAATGA-AGCCTCC
1 AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAAGCTCGTAGGTTCAACAA-CACAGCCTCC
100701443 AAAAT
65 AAAAT
* * *
100701448 AGTTAGCGCTAGCTCAAGCTCCCAGATGTAATCTCAAGCTCGTTGGTTTAACAACACAGCCTCCA
1 AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAAGCTCGTAGGTTCAACAACACAGCCTCCA
100701513 AAAT
66 AAAT
**
100701517 AGTTAGCGTTAGCTCAAGCT
1 AGTTAGCGCGAGCTCAAGCT
100701537 TCTAACTATA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
68 1 0.01
69 78 0.99
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (69 bp):
AGTTAGCGCGAGCTCAAGCTCCCAGATGTAATCTCAAGCTCGTAGGTTCAACAACACAGCCTCCA
AAAT
Found at i:100717644 original size:17 final size:18
Alignment explanation
Indices: 100717622--100717659 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
100717612 CGAAAGCTTT
*
100717622 TTTTTTTTAT-AATTAAC
1 TTTTTTTTATGAAATAAC
100717639 TTTTTTTTATGAAATAAC
1 TTTTTTTTATGAAATAAC
100717657 TTT
1 TTT
100717660 GAATATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTTTATGAAATAAC
Found at i:100728794 original size:20 final size:20
Alignment explanation
Indices: 100728769--100728818 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
100728759 ATAATTTGAA
100728769 TAAATAATTAAATGGTTTTT
1 TAAATAATTAAATGGTTTTT
* * * *
100728789 TAAATATTTTTATTTGTTTTT
1 TAAATA-ATTAAATGGTTTTT
100728810 TAAATAATT
1 TAAATAATT
100728819 TTTGTGAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
TAAATAATTAAATGGTTTTT
Found at i:100729765 original size:71 final size:71
Alignment explanation
Indices: 100729684--100729821 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
100729674 TAACTTAAAA
*
100729684 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATGTGTTATTTATCAA
1 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
100729749 ATCATT
66 ATCATT
100729755 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
1 AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
100729820 AT
66 AT
100729822 TACTCCAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.55
Consensus pattern (71 bp):
AAAATTATTTTAATTTTTTATTTGATCTTTTGCCTATTTTATCCTTAAAATATGTTATTTATCAA
ATCATT
Found at i:100731668 original size:18 final size:17
Alignment explanation
Indices: 100731616--100731668 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
100731606 AAGTTACAAA
*
100731616 AAAATTCAAAAAAAT-T
1 AAAATTCAAAAATATAT
*
100731632 AAAATTCAAAATATTTAT
1 AAAATTCAAAA-ATATAT
100731650 AAAATTCCAAAAATATAT
1 AAAATT-CAAAAATATAT
100731668 A
1 A
100731669 TTTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
18 13 0.42
19 5 0.16
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTCAAAAATATAT
Found at i:100734083 original size:40 final size:40
Alignment explanation
Indices: 100734023--100734112 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
100734013 AGATCAACTG
* * *
100734023 AACACACCAGACAGATGCTCATAAGAGCTTATCCAACCGA
1 AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
* * * *
100734063 AACACACTAGACAGAAGCTCATTAGAGCTGGGCCAACTGA
1 AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
100734103 AACACACCAG
1 AACACACCAG
100734113 GCATAGAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (40 bp):
AACACACCAGACAGAAGCTCATAAGAGCTGAGCCAACCGA
Found at i:100737392 original size:25 final size:25
Alignment explanation
Indices: 100737364--100737471 Score: 94
Period size: 25 Copynumber: 4.3 Consensus size: 25
100737354 ATATTCATAC
* *
100737364 GAGCACATAAACGGGAAGCTCAT-GT
1 GAGC-CATTAACGGGAAGCTCATGGA
100737389 GAGCCATGTAACGGGAAGCTC-TGGA
1 GAGCCAT-TAACGGGAAGCTCATGGA
***
100737414 GAGCCATTAACGGGAAGCTCACAAA
1 GAGCCATTAACGGGAAGCTCATGGA
* * * *
100737439 GAGCCTTTAATCGGGAAGTTTATGAA
1 GAGCCATTAA-CGGGAAGCTCATGGA
100737465 GAGCCAT
1 GAGCCAT
100737472 ATGTCGAGAC
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
24 17 0.25
25 34 0.50
26 17 0.25
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (25 bp):
GAGCCATTAACGGGAAGCTCATGGA
Found at i:100738273 original size:23 final size:23
Alignment explanation
Indices: 100738246--100738292 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
100738236 ATTTTCTACC
*
100738246 ATAAAACTTCATAATTCATGCAT
1 ATAAAACTTCACAATTCATGCAT
100738269 ATAAAACTTCACAATTCATGCAT
1 ATAAAACTTCACAATTCATGCAT
100738292 A
1 A
100738293 CTAATCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAAAACTTCACAATTCATGCAT
Found at i:100740079 original size:15 final size:17
Alignment explanation
Indices: 100740056--100740093 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
100740046 CTGTGAGTTC
100740056 TTTTGTTTGTTTGTT-T
1 TTTTGTTTGTTTGTTGT
100740072 TTTT-TTTGTTT-TTGT
1 TTTTGTTTGTTTGTTGT
100740087 TTTTGTT
1 TTTTGTT
100740094 GGTACATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (17 bp):
TTTTGTTTGTTTGTTGT
Found at i:100740081 original size:11 final size:12
Alignment explanation
Indices: 100740065--100740093 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
100740055 CTTTTGTTTG
100740065 TTTGTTTTT-TT
1 TTTGTTTTTGTT
100740076 TTTGTTTTTGTT
1 TTTGTTTTTGTT
100740088 TTTGTT
1 TTTGTT
100740094 GGTACATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTGTTTTTGTT
Found at i:100740083 original size:6 final size:6
Alignment explanation
Indices: 100740065--100740093 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
100740055 CTTTTGTTTG
100740065 TTTGTT TTT-TT TTTGTT TTTGTT TTTGTT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT
100740094 GGTACATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTGTT
Found at i:100746586 original size:31 final size:33
Alignment explanation
Indices: 100746551--100746612 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
100746541 TAAATATTAT
100746551 TTAATA-TTATTAT-TTTATTTTTATAATTCAA
1 TTAATATTTATTATATTTATTTTTATAATTCAA
* *
100746582 TTAATATTTTTTATAATTTTTTTTTATAATT
1 TTAATATTTATTAT-ATTTATTTTTATAATT
100746613 GTCGGTAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 6 0.23
32 6 0.23
34 14 0.54
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (33 bp):
TTAATATTTATTATATTTATTTTTATAATTCAA
Found at i:100746606 original size:13 final size:13
Alignment explanation
Indices: 100746588--100746612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100746578 TCAATTAATA
100746588 TTTTTTATAATTT
1 TTTTTTATAATTT
100746601 TTTTTTATAATT
1 TTTTTTATAATT
100746613 GTCGGTAGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTATAATTT
Found at i:100749044 original size:21 final size:22
Alignment explanation
Indices: 100749008--100749053 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
100748998 ATTAATTAAA
*
100749008 ATATTTTTTTAAAAATATTTATT
1 ATATTTTTTT-AAAATATTAATT
*
100749031 ATATTTTTTT-AAATCTTAATT
1 ATATTTTTTTAAAATATTAATT
100749052 AT
1 AT
100749054 GTATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
23 10 0.48
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATTTTTTTAAAATATTAATT
Found at i:100751885 original size:60 final size:60
Alignment explanation
Indices: 100751792--100751970 Score: 322
Period size: 60 Copynumber: 3.0 Consensus size: 60
100751782 TATTGATTTA
100751792 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
* *
100751852 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGCTTCATTTAATAGAATAGAAGTTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
* *
100751912 TTTTTGAATATTTTTGTATAAATTATTTTTATATTGTTTCATTTAATAAATTAGAAGTT
1 TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTT
100751971 ATCGAAACCC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 113 1.00
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (60 bp):
TTTTTGAATATTTTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTT
Found at i:100757422 original size:13 final size:13
Alignment explanation
Indices: 100757404--100757429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
100757394 CTTCTGTATC
100757404 TTGATCCTAAACA
1 TTGATCCTAAACA
100757417 TTGATCCTAAACA
1 TTGATCCTAAACA
100757430 ATTCATTGCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
TTGATCCTAAACA
Found at i:100768214 original size:16 final size:16
Alignment explanation
Indices: 100768193--100768229 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
100768183 CAACCTGCAC
100768193 ATATCATTCAAAGGAT
1 ATATCATTCAAAGGAT
100768209 ATATCATTCAAAGGAT
1 ATATCATTCAAAGGAT
100768225 -TATCA
1 ATATCA
100768230 GAATTACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (16 bp):
ATATCATTCAAAGGAT
Found at i:100770131 original size:53 final size:54
Alignment explanation
Indices: 100770046--100770154 Score: 141
Period size: 53 Copynumber: 2.0 Consensus size: 54
100770036 ATAAATCACT
* *
100770046 AATTATTGCTATTTTTTTGTCACTCAACTATTAATTCTTTTAATTTGGTTATTC
1 AATTATTGCTATTTTTTTGTCACTCAACTATTAATTCTTTTAATTTGATCATTC
* * * *
100770100 AATTATTG-TCTTTTTTTGTCAC-CTAATTATTATTTTTTTTAATTTGATCATTC
1 AATTATTGCTATTTTTTTGTCACTC-AACTATTAATTCTTTTAATTTGATCATTC
100770153 AA
1 AA
100770155 CTAATTCCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 1 0.02
53 39 0.81
54 8 0.17
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.57
Consensus pattern (54 bp):
AATTATTGCTATTTTTTTGTCACTCAACTATTAATTCTTTTAATTTGATCATTC
Found at i:100771866 original size:23 final size:21
Alignment explanation
Indices: 100771840--100771882 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
100771830 AGGATCCAAC
100771840 AATTCAGACAGTAATTCTGAATG
1 AATTCAGACAG-AATT-TGAATG
*
100771863 AATTCATACAGAATTTGAAT
1 AATTCAGACAGAATTTGAAT
100771883 ATCTGGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 10 0.53
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
AATTCAGACAGAATTTGAATG
Found at i:100772373 original size:18 final size:18
Alignment explanation
Indices: 100772350--100772391 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
100772340 GCCAGATGCA
*
100772350 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
*
100772368 TATCCTAACTCTTATATG
1 TATCCTAACCCTTATATG
*
100772386 TTTCCT
1 TATCCT
100772392 TTTCTCAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:100772853 original size:59 final size:60
Alignment explanation
Indices: 100772746--100772929 Score: 241
Period size: 62 Copynumber: 3.0 Consensus size: 60
100772736 ATTTTTTTAG
*
100772746 TATATTTGTACAAATTATTTTTATATTGTT-T-C-ATTTAATAAAATATAAGTTGTTTTGAA
1 TATATTTGTACAAATTATTTTTATATT-TTGTCCTATTTAATAAAATA-AAGTTATTTTGAA
100772805 TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAAGAGTTATTTTGAA
1 TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAA-AGTTATTTTGAA
* * * *
100772866 TAT-TTTAATAGTAAATTATTTTTATATTTTGTCCTATTTAACAAAATAGAAGTTCTTTTGAA
1 TATATTT-GTA-CAAATTATTTTTATATTTTGTCCTATTTAATAAAATA-AAGTTATTTTGAA
100772928 TA
1 TA
100772930 AGGCAATAGA
Statistics
Matches: 113, Mismatches: 5, Indels: 11
0.88 0.04 0.09
Matches are distributed among these distances:
58 2 0.02
59 28 0.25
60 5 0.04
61 29 0.26
62 48 0.42
63 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (60 bp):
TATATTTGTACAAATTATTTTTATATTTTGTCCTATTTAATAAAATAAAGTTATTTTGAA
Found at i:100772938 original size:62 final size:61
Alignment explanation
Indices: 100772816--100772942 Score: 175
Period size: 62 Copynumber: 2.1 Consensus size: 61
100772806 ATATTTGTAC
* ****
100772816 AAATTATTTTTATATTTTGTCCTATTTAATAAAATAAGAGTTATTTTGAATATTTTAATAG
1 AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAGAGTTATTTTGAATAAGGCAATAG
*
100772877 TAAATTATTTTTATATTTTGTCCTATTTAACAAAAT-AGAAGTTCTTTTGAATAAGGCAATAG
1 -AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAG-AGTTATTTTGAATAAGGCAATAG
100772939 AAAT
1 AAAT
100772943 AATGCAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 6 0.10
62 52 0.90
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (61 bp):
AAATTATTTTTATATTTTGTCCTATTTAACAAAATAAGAGTTATTTTGAATAAGGCAATAG
Found at i:100775982 original size:25 final size:25
Alignment explanation
Indices: 100775939--100776001 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
100775929 CAACTTATAC
* * *
100775939 CTTCTTAACTTGTTTAATTGATATT
1 CTTCTGAACTTCTTCAATTGATATT
**
100775964 CTTCTGAACTTCTTCAATTTCTATT
1 CTTCTGAACTTCTTCAATTGATATT
*
100775989 TTTCTGAACTTCT
1 CTTCTGAACTTCT
100776002 CTAATTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (25 bp):
CTTCTGAACTTCTTCAATTGATATT
Found at i:100776007 original size:25 final size:25
Alignment explanation
Indices: 100775960--100776010 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
100775950 GTTTAATTGA
100775960 TATTCTTCTGAACTTCTTCAATTTC
1 TATTCTTCTGAACTTCTTCAATTTC
*
100775985 TATTTTTCTGAACTTC-TCTAATTTC
1 TATTCTTCTGAACTTCTTC-AATTTC
100776010 T
1 T
100776011 CTTATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTCTTCTGAACTTCTTCAATTTC
Found at i:100776301 original size:126 final size:126
Alignment explanation
Indices: 100776108--100776747 Score: 806
Period size: 126 Copynumber: 5.1 Consensus size: 126
100776098 CAGGTGGTTT
** * * * * * * *
100776108 AGTACTTTTATTGATAGTACATCTTGCTTGAAGCATTTTTTTACCCTATATTTTAATAATCATCT
1 AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGC-GTTTTTTACCCTATTTTTTCAGAACCATCT
** *
100776173 TCTCAAAATTATTTTTTCAGAAACTACCATAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTC
65 TCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
** * * * *
100776235 AGTGTTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTTTAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* *
100776300 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTTCATCTGGGAGCTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* * * * * *
100776361 AGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAATCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * *
100776426 CTTAAAATTA-TTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTTTA
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* *
100776486 AGTACTTTTGCTGAAAGTGCATCTTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * *
100776551 CTTAAAATTA----TTCAGAAACTACTGTAGAAACATAGCATCCAGCTGGGAGCTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* * * * * *
100776608 AATAGTTTTGTTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * * * *
100776673 TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
100776733 AGTACTTTTGCTGAC
1 AGTACTTTTGCTGAC
100776748 TGGACAAAAA
Statistics
Matches: 450, Mismatches: 59, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
122 107 0.24
125 144 0.32
126 173 0.38
127 26 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (126 bp):
AGTACTTTTGCTGACAGTGCATCTTGCTTGAAGCGTTTTTTACCCTATTTTTTCAGAACCATCTT
CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
Found at i:100776868 original size:28 final size:28
Alignment explanation
Indices: 100776835--100776962 Score: 132
Period size: 28 Copynumber: 4.4 Consensus size: 28
100776825 CCTAAACACA
*
100776835 AATTTATTTTTAAAAATCCCTAAACCTT
1 AATTTATTTTTAAAAATCCATAAACCTT
* * *
100776863 AGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTA-TTTTTAAAAATCCATAAACC-----TT
*
100776897 AATTTATTTTTTAAAAA-CCATAAACCCT
1 AATTTA-TTTTTAAAAATCCATAAACCTT
*
100776925 AATTTATTTTTTAAAATCCATAAACCTT
1 AATTTATTTTTAAAAATCCATAAACCTT
100776953 AATTTATTTT
1 AATTTATTTT
100776963 AATAAAAACC
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.11
28 32 0.38
29 17 0.20
33 8 0.10
34 18 0.21
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (28 bp):
AATTTATTTTTAAAAATCCATAAACCTT
Found at i:100776903 original size:34 final size:33
Alignment explanation
Indices: 100776865--100776930 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
100776855 TAAACCTTAG
*
100776865 TTTATTTTTTAAAAAACAATAAACCTTAATTTAA
1 TTTATTTTTT-AAAAACAATAAACCCTAATTTAA
*
100776899 TTTATTTTTTAAAAACCATAAACCCTAATTTA
1 TTTATTTTTTAAAAACAATAAACCCTAATTTA
100776931 TTTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (33 bp):
TTTATTTTTTAAAAACAATAAACCCTAATTTAA
Found at i:100776922 original size:62 final size:61
Alignment explanation
Indices: 100776835--100776963 Score: 179
Period size: 62 Copynumber: 2.1 Consensus size: 61
100776825 CCTAAACACA
* * *
100776835 AATTTATTTTTAAAAATCCCTAAACCTTAGTTTATTTTTTAAAAAACAATAAACCTTAATTT
1 AATTTATTTTTAAAAATCCATAAACCCTAATTTATTTTTT-AAAAACAATAAACCTTAATTT
* *
100776897 AATTTATTTTTTAAAAA-CCATAAACCCTAATTTATTTTTTAAAATCCATAAACCTTAATTT
1 AATTTA-TTTTTAAAAATCCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
*
100776958 ATTTTA
1 AATTTA
100776964 ATAAAAACCG
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 24 0.40
62 26 0.43
63 10 0.17
ACGTcount: A:0.41, C:0.13, G:0.01, T:0.45
Consensus pattern (61 bp):
AATTTATTTTTAAAAATCCATAAACCCTAATTTATTTTTTAAAAACAATAAACCTTAATTT
Found at i:100776978 original size:28 final size:28
Alignment explanation
Indices: 100776895--100776972 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
100776885 AAACCTTAAT
100776895 TTAATTTATTTTTTAAAAACCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
* *
100776923 CTAATTTATTTTTTAAAATCCATAAACC
1 TTAATTTATTTTTTAAAAACCATAAACC
*
100776951 TTAATTTATTTTAATAAAAACC
1 TTAATTTATTTT-TTAAAAACC
100776973 GTAACCCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 37 0.84
29 7 0.16
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (28 bp):
TTAATTTATTTTTTAAAAACCATAAACC
Found at i:100777767 original size:20 final size:20
Alignment explanation
Indices: 100777742--100777781 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
100777732 GAGTTAATAT
100777742 TTTAAAATTATAACTAAATC
1 TTTAAAATTATAACTAAATC
*
100777762 TTTAAAATTATAATTAAATC
1 TTTAAAATTATAACTAAATC
100777782 GATATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAATTATAACTAAATC
Found at i:100779299 original size:16 final size:16
Alignment explanation
Indices: 100779278--100779320 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
100779268 CCACCTCGAG
100779278 ATGTGGACATTCCAGA
1 ATGTGGACATTCCAGA
100779294 ATGTGGACATTCCAGA
1 ATGTGGACATTCCAGA
100779310 ATGTGGACATT
1 ATGTGGACATT
100779321 GTCGAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (16 bp):
ATGTGGACATTCCAGA
Found at i:100784942 original size:23 final size:23
Alignment explanation
Indices: 100784924--100785019 Score: 96
Period size: 21 Copynumber: 4.4 Consensus size: 23
100784914 AGGCACTTTA
100784924 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* *
100784947 TGTGTC--ATATCAAGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
100784968 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* * **
100784989 TGTGTC--ATTTTAGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
100785010 TGTGTCGTAT
1 TGTGTCGTAT
100785020 ACTGATCAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.02
21 50 0.83
23 9 0.15
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:100785003 original size:21 final size:21
Alignment explanation
Indices: 100784935--100785005 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
100784925 GTGTCGTATT
100784935 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCGTGTGTCATA
* *
100784956 TCAAGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCATA
*
100784977 TCAGGCACCTCGTGTGTCATT
1 TCAGGCACCTCGTGTGTCATA
*
100784998 TTAGGCAC
1 TCAGGCAC
100785006 TTTATGTGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.30
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCATA
Found at i:100785014 original size:42 final size:42
Alignment explanation
Indices: 100784911--100785019 Score: 146
Period size: 42 Copynumber: 2.5 Consensus size: 42
100784901 GGCTTTACTG
100784911 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTA--TCAGGCACCTCGTGTGTCAT
* * **
100784955 ATCAAGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCAT
1 ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
* *
100784997 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
100785020 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 37 0.67
44 18 0.33
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (42 bp):
ATCAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCAT
Found at i:100787717 original size:25 final size:25
Alignment explanation
Indices: 100787674--100787736 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
100787664 CAACTTATAC
* * *
100787674 CTTCTTAACTTGTTTAATTGATATT
1 CTTCTGAACTTCTTCAATTGATATT
**
100787699 CTTCTGAACTTCTTCAATTTCTATT
1 CTTCTGAACTTCTTCAATTGATATT
*
100787724 TTTCTGAACTTCT
1 CTTCTGAACTTCT
100787737 CTAATTTCTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (25 bp):
CTTCTGAACTTCTTCAATTGATATT
Found at i:100787742 original size:25 final size:25
Alignment explanation
Indices: 100787695--100787745 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
100787685 GTTTAATTGA
100787695 TATTCTTCTGAACTTCTTCAATTTC
1 TATTCTTCTGAACTTCTTCAATTTC
*
100787720 TATTTTTCTGAACTTC-TCTAATTTC
1 TATTCTTCTGAACTTCTTC-AATTTC
100787745 T
1 T
100787746 CTTATTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.55
Consensus pattern (25 bp):
TATTCTTCTGAACTTCTTCAATTTC
Found at i:100788196 original size:126 final size:126
Alignment explanation
Indices: 100787843--100788481 Score: 790
Period size: 126 Copynumber: 5.1 Consensus size: 126
100787833 CAGGTGGTTT
* * * * * * *
100787843 AGTACTTTTGTTGACAGTACATCTTGCTTGAAGCAT-TTTTTTACCCTATATTTTAATAATCATC
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAG--TGTTTTTTACCCTATTTTTTCAGAACCATC
** *
100787907 TTCTCAAAATTATTTTTTCAGAAACTACCATAGAAAAAGAGCGTCTAGCTGGGAGCTTTTTTC
64 TTCTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
** * **
100787970 AGTGTTTTTGCTGACAGTGCATCCTGCTTAAAGCATTTTTTACCCTATTTTTT-AGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
100788034 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATG-TGGGAGCTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCA-GCTGGGAGCTTTTTTC
* * * * *
100788095 TGTACTTTTGCTGACAGTGCATCCTACTTGAAGTGTTTTTGACCTTATTTTTTCAGAATCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * *
100788160 CTTAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCATCTGGGAGCTTTTTTA
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* * *
100788221 AGTACTTTTGCTGAAAGCGCATCCTGCTTGAAGTGTTTTTTACCTTATTTTTTCAGAACCATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * *
100788286 CTCAAAATTA----TTCAGAAACTACTGTAGAAACATAGCATCTAGCTGGGAGCTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
* * * * * * * *
100788343 AGTAGTTTTACTGACAGTGCATCTTACTTGAAGCGTTTTTGACCCTATTTTTTTAGAACTATCTT
1 AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
* * * * * *
100788408 TTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAATAGCAT-CAACTGAGAACTTTTTTC
66 CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
*
100788468 AATACTTTTGCTGA
1 AGTACTTTTGCTGA
100788482 ACAAAAAAAA
Statistics
Matches: 445, Mismatches: 59, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
122 104 0.23
125 134 0.30
126 180 0.40
127 27 0.06
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.40
Consensus pattern (126 bp):
AGTACTTTTGCTGACAGTGCATCCTGCTTGAAGTGTTTTTTACCCTATTTTTTCAGAACCATCTT
CTCAAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCAGCTGGGAGCTTTTTTC
Done.