Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 70 of 328
Found at i:19211175 original size:20 final size:20
Alignment explanation
Indices: 19211151--19211189 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19211141 TCTATTTTGG
19211151 TTATA-ATATGTTT-TGAAT
1 TTATATATATGTTTATGAAT
*
19211169 TTATATATATTTTTATGAAT
1 TTATATATATGTTTATGAAT
19211189 T
1 T
19211190 AAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTATATATATGTTTATGAAT
Found at i:19212256 original size:11 final size:11
Alignment explanation
Indices: 19212227--19212256 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
19212217 TAATTGTCTC
*
19212227 TCTTTTTCTTT
1 TCTTTTTTTTT
19212238 TCTTTTTTTTT
1 TCTTTTTTTTT
19212249 TCTTTTTT
1 TCTTTTTT
19212257 AAAAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:19212566 original size:19 final size:19
Alignment explanation
Indices: 19212542--19212579 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19212532 ATATTAGTAT
19212542 TAATTATACCAAATATATC
1 TAATTATACCAAATATATC
19212561 TAATTATACCAAATATATC
1 TAATTATACCAAATATATC
19212580 ATATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATTATACCAAATATATC
Found at i:19213273 original size:38 final size:39
Alignment explanation
Indices: 19213231--19213340 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 39
19213221 TTAGATAGTT
* **
19213231 CGAAGCAAAGTTGACACCCAGTGTCTCATCGGCT-TAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAATCTAGC
** ** *
19213269 CGAAGTAAAG-TGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAATCTAGC
*
19213307 CGAAGTAATAGTATGACGCCCAGTGTCTCATCGA
1 CGAAGTAA-AGT-TGACACCCAGTGTCTCATCGA
19213341 CTCGAGGTCG
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
37 17 0.31
38 20 0.36
39 2 0.04
41 16 0.29
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAATCTAGC
Found at i:19213822 original size:38 final size:38
Alignment explanation
Indices: 19213778--19213855 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
19213768 ATTTAAAATT
*
19213778 AATACTTAATAATAAATAACTTGAATTATAGTAAAACA
1 AATACTTAATAATAAATAACTTGAATTATAATAAAACA
*
19213816 AATACTTAATAATAAATAACTTGAATTATAATAATACA
1 AATACTTAATAATAAATAACTTGAATTATAATAAAACA
19213854 AA
1 AA
19213856 CCCGAATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (38 bp):
AATACTTAATAATAAATAACTTGAATTATAATAAAACA
Found at i:19213846 original size:19 final size:19
Alignment explanation
Indices: 19213786--19213849 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
19213776 TTAATACTTA
19213786 ATAATAAATAACTTGAATT
1 ATAATAAATAACTTGAATT
* ** *
19213805 ATAGTAAA-ACAAAT-ACTT
1 ATAATAAATA-ACTTGAATT
19213823 AATAATAAATAACTTGAATT
1 -ATAATAAATAACTTGAATT
19213843 ATAATAA
1 ATAATAA
19213850 TACAAACCCG
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
18 4 0.12
19 25 0.76
20 4 0.12
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (19 bp):
ATAATAAATAACTTGAATT
Found at i:19217769 original size:19 final size:18
Alignment explanation
Indices: 19217741--19217779 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
19217731 ACTATTAATT
*
19217741 TTTAAAAATTCAACAAAA
1 TTTAAAAATTCAAAAAAA
19217759 TTTATAAAATTCAAAAAAA
1 TTTA-AAAATTCAAAAAAA
19217778 TT
1 TT
19217780 GATCAAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
TTTAAAAATTCAAAAAAA
Found at i:19217787 original size:19 final size:19
Alignment explanation
Indices: 19217745--19217788 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19217735 TTAATTTTTA
* *
19217745 AAAATTCAACAAAATTTAT
1 AAAATTCAAAAAAATTGAT
19217764 AAAATTCAAAAAAATTGAT
1 AAAATTCAAAAAAATTGAT
*
19217783 CAAATT
1 AAAATT
19217789 GAAGTACACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATTCAAAAAAATTGAT
Found at i:19218397 original size:30 final size:30
Alignment explanation
Indices: 19218361--19218535 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
19218351 ACTTTTCTCA
*
19218361 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
19218391 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
19218421 ACTAACCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
19218451 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
19218481 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
19218511 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
19218536 CTTGTACCTA
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 3 0.02
30 127 0.98
ACGTcount: A:0.27, C:0.49, G:0.03, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:19218750 original size:16 final size:16
Alignment explanation
Indices: 19218713--19218743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19218703 AAGAGTTATT
19218713 GTGAAGCTAGTTTTTG
1 GTGAAGCTAGTTTTTG
*
19218729 GAGAAGCTAGTTTTT
1 GTGAAGCTAGTTTTT
19218744 TTTGAAGATT
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:0.23, C:0.06, G:0.29, T:0.42
Consensus pattern (16 bp):
GTGAAGCTAGTTTTTG
Found at i:19219147 original size:16 final size:17
Alignment explanation
Indices: 19219099--19219171 Score: 53
Period size: 17 Copynumber: 4.0 Consensus size: 17
19219089 CTATATTACG
19219099 TATATATATATATTTTA
1 TATATATATATATTTTA
19219116 TACTATTTTATGTATATATCTTTA
1 TA-TA---TA--TATATAT-TTTA
19219140 -ATAT-TATAT-TATTTA
1 TATATATATATAT-TTTA
19219155 TATATATATATATTTTA
1 TATATATATATATTTTA
19219172 CATGTTATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 20
0.68 0.02 0.30
Matches are distributed among these distances:
15 5 0.11
16 9 0.20
17 11 0.24
18 3 0.07
19 1 0.02
21 2 0.04
22 2 0.04
23 8 0.18
24 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (17 bp):
TATATATATATATTTTA
Found at i:19219151 original size:25 final size:25
Alignment explanation
Indices: 19219103--19219161 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
19219093 ATTACGTATA
* *
19219103 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
19219128 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
19219153 TATATATAT
1 TATATATAT
19219162 ATATATTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:19219189 original size:58 final size:58
Alignment explanation
Indices: 19219099--19219214 Score: 155
Period size: 58 Copynumber: 2.0 Consensus size: 58
19219089 CTATATTACG
* *
19219099 TATATATATATATTTTATACTATTTTATGTATATATCTTTA-ATATTATAT-TATTTA
1 TATATATATATATTTTATACTATCTTATGTATATATCTTAACATATTATATATATTTA
**
19219155 TATATATATATATTTTACATGTTATCTTATGTATATATCTTAACTATATTATATATATTT
1 TATATATATATATTTT--ATACTATCTTATGTATATATCTTAAC-ATATTATATATATTT
19219215 TTAACACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 16 0.31
58 21 0.41
60 9 0.18
61 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (58 bp):
TATATATATATATTTTATACTATCTTATGTATATATCTTAACATATTATATATATTTA
Found at i:19219190 original size:33 final size:33
Alignment explanation
Indices: 19219128--19219192 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
19219118 CTATTTTATG
*
19219128 TATATATCTTTAATATTATATTATTTATATATA
1 TATATATCTTTAATATTATATTATGTATATATA
* *
19219161 TATATAT-TTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
19219193 CTTAACTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (33 bp):
TATATATCTTTAATATTATATTATGTATATATA
Found at i:19219206 original size:27 final size:27
Alignment explanation
Indices: 19219114--19219206 Score: 71
Period size: 27 Copynumber: 3.3 Consensus size: 27
19219104 ATATATATTT
* *
19219114 TATACTATTTTATGTATATATCTTTAATAT
1 TATATTATTTTATGTATATATC-TT-A-AC
* * *
19219144 TATATTATTTATATATATATATATTTTAC
1 TATATTATTT-TATGTATATAT-CTTAAC
* *
19219173 -ATGTTATCTTATGTATATATCTTAAC
1 TATATTATTTTATGTATATATCTTAAC
19219199 TATATTAT
1 TATATTAT
19219207 ATATATTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
26 4 0.08
27 16 0.33
28 7 0.14
29 1 0.02
30 9 0.18
31 12 0.24
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
TATATTATTTTATGTATATATCTTAAC
Found at i:19219227 original size:23 final size:24
Alignment explanation
Indices: 19219197--19219243 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
19219187 ATATATCTTA
*
19219197 ACTATATTA-TATATATTTTTAAC
1 ACTATATTAGTACATATTTTTAAC
19219220 ACTATATTATGTACATATTTTTAA
1 ACTATATTA-GTACATATTTTTAA
19219244 TATTATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
ACTATATTAGTACATATTTTTAAC
Found at i:19219385 original size:16 final size:16
Alignment explanation
Indices: 19219366--19219446 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 16
19219356 ATTTCTATTT
19219366 TATTTT-TTATTTTCAA
1 TATTTTATTATTTT-AA
19219382 TATTAATTATTATTATTCTAA
1 TATT--TTATTA-T-TT-TAA
19219403 TATTTTGA-TATTTTAA
1 TATTTT-ATTATTTTAA
19219419 TATTTTA-TATTTTATA
1 TATTTTATTATTTTA-A
19219435 TATTTTATTATT
1 TATTTTATTATT
19219447 CACATCATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
15 8 0.14
16 21 0.38
17 6 0.11
18 3 0.05
19 7 0.12
20 2 0.04
21 8 0.14
22 1 0.02
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.65
Consensus pattern (16 bp):
TATTTTATTATTTTAA
Found at i:19219430 original size:7 final size:8
Alignment explanation
Indices: 19219395--19219446 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
19219385 TAATTATTAT
*
19219395 TATTCTAA
1 TATTTTAA
*
19219403 TATTTTGA
1 TATTTTAA
19219411 TATTTTAA
1 TATTTTAA
19219419 TATTTT-A
1 TATTTTAA
19219426 TATTTTATA
1 TATTTTA-A
*
19219435 TATTTTAT
1 TATTTTAA
19219443 TATT
1 TATT
19219447 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:19229443 original size:14 final size:14
Alignment explanation
Indices: 19229412--19229442 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
19229402 CGCAGAGGTA
19229412 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
19229426 TTTTCAATTTCT-G
1 TTTTCAATTTCTGG
19229439 TTTT
1 TTTT
19229443 TAAAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:19229544 original size:73 final size:73
Alignment explanation
Indices: 19229427--19229626 Score: 359
Period size: 73 Copynumber: 2.8 Consensus size: 73
19229417 AATTTCTGGT
* *
19229427 TTTCAATTTCTGTTT-T-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
19229490 TGAGGTAA
66 TGAGGTAA
19229498 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
19229563 TGAGGTAA
66 TGAGGTAA
*
19229571 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
19229627 GGCTCATATG
Statistics
Matches: 124, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
71 15 0.12
72 1 0.01
73 108 0.87
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
TGAGGTAA
Found at i:19229664 original size:14 final size:14
Alignment explanation
Indices: 19229645--19229673 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
19229635 TGCTGAGGTC
19229645 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
19229659 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
19229673 T
1 T
19229674 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:19229703 original size:167 final size:166
Alignment explanation
Indices: 19229516--19229831 Score: 499
Period size: 168 Copynumber: 1.9 Consensus size: 166
19229506 TCTGTTTGTC
*
19229516 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* * * * *
19229580 TTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCATATGCTGAGGTC
66 CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
* *
19229645 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAA
129 ATTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
* *
19229683 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* *
19229748 CTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
19229813 TTCAATTTCTGTTTGTCAA
131 TTCAATTTCTGTTTGTCAA
19229832 AAATTAACTC
Statistics
Matches: 136, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
166 29 0.21
167 53 0.39
168 54 0.40
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (166 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
Found at i:19229803 original size:241 final size:240
Alignment explanation
Indices: 19229284--19230130 Score: 1193
Period size: 226 Copynumber: 3.6 Consensus size: 240
19229274 TTTTTTTAAA
* ** * *
19229284 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-CAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
** * * * * *
19229348 TGTTCATAAAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACACGCAGAGGTAT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
* **
19229413 TTTCAATTTCTGGTTTTCAATTTCTGTT--T----TTAAAATCAACTCATATTGCGAGAGGTGAG
131 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
19229472 TTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC
196 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
* * *
19229516 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
19229581 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCATATGCTGAGGTCT
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
19229646 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAAAATCAACTCATATTGCGAGAGGTGA
131 TTTCAATTTCTGTTTTTCAATTTCTGTTCGT-AAAAAAAAAATCAACTCATATTGCGAGAGGTGA
19229711 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
195 GTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
*
19229757 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* *
19229822 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGCTGAGG---
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
*
19229884 --------TC---TTTTCAATTTTTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
131 TTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
19229938 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTA
196 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
*
19229983 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
19230048 TGTTTGTCAAAAATTAACTCATATTGCGAAAGGTGAGTTGAGTCTCGG--GACACGCTGAGGTAA
66 TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
*
19230111 TTTCAATTTCTGTTTGTCAA
131 TTTCAATTTCTGTTTTTCAA
19230131 AAATTAACTC
Statistics
Matches: 555, Mismatches: 37, Indels: 40
0.88 0.06 0.06
Matches are distributed among these distances:
224 9 0.02
226 189 0.34
227 17 0.03
230 2 0.00
232 36 0.06
233 104 0.19
235 3 0.01
238 6 0.01
240 53 0.10
241 136 0.25
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (240 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
TTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTC
Found at i:19229856 original size:73 final size:73
Alignment explanation
Indices: 19229683--19230168 Score: 677
Period size: 73 Copynumber: 6.5 Consensus size: 73
19229673 TCGTAAAAAA
* * *
19229683 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
*
19229748 CTGTTTTTC
65 CTGTTTGTC
*
19229757 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
19229822 TGTTTGTC
66 TGTTTGTC
* * **
19229830 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCG-CATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---GACACGCTGAGGTAATTTCAAT
* * *
19229894 TTTTGTTCGTAAAAA
63 TTCTGTTTGT----C
* * *
19229909 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
* *
19229974 CTGTTTTTA
65 CTGTTTGTC
*
19229983 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
19230048 TGTTTGTC
66 TGTTTGTC
* * *
19230056 AAAAATTAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
19230121 TGTTTGTC
66 TGTTTGTC
* *
19230129 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
19230169 CTCACATGCT
Statistics
Matches: 373, Mismatches: 30, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
73 179 0.48
74 105 0.28
75 25 0.07
76 2 0.01
77 10 0.03
78 14 0.04
79 38 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:19230207 original size:14 final size:15
Alignment explanation
Indices: 19230182--19230223 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
19230172 ACATGCTGAG
* *
19230182 GTCTTTTTAATTTTT
1 GTCTTTTCAATTTCT
19230197 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
19230211 GTTTTTTCAATTT
1 GTCTTTTCAATTT
19230224 ATATTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:19231017 original size:30 final size:30
Alignment explanation
Indices: 19230981--19231081 Score: 193
Period size: 30 Copynumber: 3.4 Consensus size: 30
19230971 ACTTTTCTCA
19230981 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
19231011 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
19231041 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
19231071 ACTAGCCACAC
1 ACTAGCCACAC
19231082 TTGCTCCATT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.29, C:0.49, G:0.04, T:0.19
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:19231029 original size:18 final size:18
Alignment explanation
Indices: 19230981--19231060 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 18
19230971 ACTTTTCTCA
19230981 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
*
19230999 ACCA-CCA-A-C---TCC
1 ACTAGCCACACCTTTTCC
19231011 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
*
19231029 ACCA-CCA-A-C---TCC
1 ACTAGCCACACCTTTTCC
19231041 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
19231059 AC
1 AC
19231061 CACCAAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 24
0.62 0.05 0.32
Matches are distributed among these distances:
12 12 0.26
13 6 0.13
14 2 0.04
15 4 0.09
16 2 0.04
17 6 0.13
18 14 0.30
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (18 bp):
ACTAGCCACACCTTTTCC
Found at i:19231709 original size:29 final size:27
Alignment explanation
Indices: 19231677--19231802 Score: 87
Period size: 27 Copynumber: 4.6 Consensus size: 27
19231667 ATTTTAAATT
19231677 CTATATTACGTATATATATATATTTTATA
1 CTATATTA--TATATATATATATTTTATA
* * * *
19231706 CTATTTTATGTATATATCTTTAATATTATA
1 CTATATTA--TATATATATAT-ATTTTATA
* *
19231736 TTAT-TTATATATATATATATTTTTTA
1 CTATATTATATATATATATATTTTATA
* * * *
19231762 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-ATATATATATATTTTATA
19231788 CTATATTATATATAT
1 CTATATTATATATAT
19231803 TTTTAACACT
Statistics
Matches: 75, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.03
26 16 0.21
27 27 0.36
29 20 0.27
30 10 0.13
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (27 bp):
CTATATTATATATATATATATTTTATA
Found at i:19231739 original size:25 final size:25
Alignment explanation
Indices: 19231691--19231749 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
19231681 ATTACGTATA
* *
19231691 TATATATATTTTATACTATTTTATG
1 TATATATATTTAATACTATATTATG
* * *
19231716 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATG
19231741 TATATATAT
1 TATATATAT
19231750 ATATATTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATG
Found at i:19231752 original size:60 final size:61
Alignment explanation
Indices: 19231687--19231804 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 61
19231677 CTATATTACG
* * *
19231687 TATATATATATATTTT-ATACTATTTTATGTATATATCTTTA-ATATTATAT-TATTTATA
1 TATATATATATTTTTTAATACTATCTTATGTATATATCTTAACATATTATATATATTTATA
**
19231745 TATATATATATTTTTTACATGTTATCTTATGTATATATCTTAACTATATTATATATATTT
1 TATATATATATTTTTTA-ATACTATCTTATGTATATATCTTAAC-ATATTATATATATTT
19231805 TTAACACTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
58 15 0.30
60 21 0.42
62 9 0.18
63 5 0.10
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (61 bp):
TATATATATATTTTTTAATACTATCTTATGTATATATCTTAACATATTATATATATTTATA
Found at i:19231817 original size:23 final size:24
Alignment explanation
Indices: 19231787--19231833 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
19231777 ATATATCTTA
*
19231787 ACTATATTA-TATATATTTTTAAC
1 ACTATATTAGTACATATTTTTAAC
19231810 ACTATATTATGTACATATTTTTAA
1 ACTATATTA-GTACATATTTTTAA
19231834 TATTATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
ACTATATTAGTACATATTTTTAAC
Found at i:19232009 original size:16 final size:15
Alignment explanation
Indices: 19231985--19232032 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
19231975 TAATTATTAT
*
19231985 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
19232001 TATTTTAATATTTTA
1 TATTTTAATATTTTA
19232016 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
19232032 T
1 T
19232033 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:19232020 original size:7 final size:8
Alignment explanation
Indices: 19231985--19232036 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
19231975 TAATTATTAT
*
19231985 TATTCTAA
1 TATTTTAA
*
19231993 TATTTTGA
1 TATTTTAA
19232001 TATTTTAA
1 TATTTTAA
19232009 TATTTT-A
1 TATTTTAA
19232016 TATTTTATA
1 TATTTTA-A
*
19232025 TATTTTAT
1 TATTTTAA
19232033 TATT
1 TATT
19232037 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:19232942 original size:40 final size:40
Alignment explanation
Indices: 19232845--19232951 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
19232835 TTTTTTGCAG
* * *
19232845 CGTTTTTCAACAAGCGCCGCTAATGCTCAATCTATAGCTA
1 CGTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGA
* **
19232885 CGGTTTTTCAAAAAGCACCACTAATGCTTGATCTATAGCGA
1 C-GTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGA
19232926 CGTTTTTCAAAAAGCACCGCTAATGC
1 CGTTTTTCAAAAAGCACCGCTAATGC
19232952 CACTAAAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 25 0.42
41 34 0.58
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (40 bp):
CGTTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGCGA
Found at i:19233064 original size:40 final size:40
Alignment explanation
Indices: 19232996--19233094 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
19232986 TAATTTTTTT
* ** * *
19232996 GCGACGTTTTTCAAAAAGAGCCGTTAATGCTCGGTCTGTA
1 GCGACGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
*
19233036 GCGGCGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
1 GCGACGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
* *
19233076 GTGACGTTTTTAAAAAAGC
1 GCGACGTTTTTCAAAAAGC
19233095 ACTGCTAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (40 bp):
GCGACGTTTTTCAAAAAGCGCCACTAATGCTCGATCTATA
Found at i:19233105 original size:154 final size:156
Alignment explanation
Indices: 19232820--19233150 Score: 490
Period size: 154 Copynumber: 2.1 Consensus size: 156
19232810 GAGCAAATTG
* * *
19232820 CGGC-TTGTGCTTAATTTTTTTGCAGCGTTTTTCAACAAGCGCCGCTAATGCTCAATCTATAGCT
1 CGGCGTTGTGCTTAATTTTTTTGCAGCGTTTTTCAAAAAGAGCCGCTAATGCTCAATCTATAGCG
* *
19232884 ACGGTTTTTCAAAAAGCACCACTAATGCTTGATCTATAGCGACGTTTTTCAAAAAGCACCGCTAA
66 ACGGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAGCGACGTTTTTAAAAAAGCACCGCTAA
19232949 TGCCACTAAAGCTCAACATAAAACGA
131 TGCCACTAAAGCTCAACATAAAACGA
* * ** *
19232975 C-GTGTTGTGCTTAATTTTTTTGC-GACGTTTTTCAAAAAGAGCCGTTAATGCTCGGTCTGTAGC
1 CGGCGTTGTGCTTAATTTTTTTGCAG-CGTTTTTCAAAAAGAGCCGCTAATGCTCAATCTATAGC
* * * *
19233038 GGC-GTTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGTGACGTTTTTAAAAAAGCACTGCTA
65 GACGGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAGCGACGTTTTTAAAAAAGCACCGCTA
*
19233102 ATGCCACTAAAGTTCAACATAAAACGA
130 ATGCCACTAAAGCTCAACATAAAACGA
19233129 CGGCGTTGTGCTTAATTTTTTT
1 CGGCGTTGTGCTTAATTTTTTT
19233151 TGCAAAAAAT
Statistics
Matches: 157, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
154 85 0.54
155 72 0.46
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (156 bp):
CGGCGTTGTGCTTAATTTTTTTGCAGCGTTTTTCAAAAAGAGCCGCTAATGCTCAATCTATAGCG
ACGGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAGCGACGTTTTTAAAAAAGCACCGCTAA
TGCCACTAAAGCTCAACATAAAACGA
Found at i:19234856 original size:22 final size:21
Alignment explanation
Indices: 19234831--19234873 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19234821 TAAAGTATAT
19234831 ACATAATATATATGAAA-ACATA
1 ACATAATAT-TA-GAAATACATA
*
19234853 ACATAGTATTAGAAATACATA
1 ACATAATATTAGAAATACATA
19234874 TTAGAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (21 bp):
ACATAATATTAGAAATACATA
Found at i:19235126 original size:12 final size:12
Alignment explanation
Indices: 19235109--19235357 Score: 89
Period size: 12 Copynumber: 20.6 Consensus size: 12
19235099 TGTCTATACG
19235109 TATATAATAAAA
1 TATATAATAAAA
19235121 TATATAATAATAA
1 TATATAATAA-AA
19235134 TA-ATAATAATAA
1 TATATAATAA-AA
19235146 TA-ATAATAATAA
1 TATATAATAA-AA
19235158 TA-ATAATAATAA
1 TATATAATAA-AA
*
19235170 TA-ATAATAAGGA
1 TATATAATAA-AA
*
19235182 TA-AT-ATAAGTA
1 TATATAATAA-AA
**
19235193 TATATACACGAAA
1 TATATA-ATAAAA
19235206 TAGTAT-A-AAAA
1 TA-TATAATAAAA
19235217 TATATAACT--AA
1 TATATAA-TAAAA
*
19235228 TA-ATATTAAAA
1 TATATAATAAAA
*
19235239 TATATACATGATAA
1 TATATA-AT-AAAA
*
19235253 TATATAAAAAAA
1 TATATAATAAAA
* *
19235265 TAATATTAGAAAA
1 T-ATATAATAAAA
*
19235278 TATAT-GTACATAA
1 TATATAATA-A-AA
19235291 TATAT-ATATAAA
1 TATATAATA-AAA
*
19235303 TATATACATAATA
1 TATATA-ATAAAA
*
19235316 TAGTATTA-AAAA
1 TA-TATAATAAAA
*
19235328 TATAATATTAAAA
1 TAT-ATAATAAAA
* *
19235341 -ATA-CATATAA
1 TATATAATAAAA
19235351 TATATAA
1 TATATAA
19235358 AATATATACA
Statistics
Matches: 187, Mismatches: 27, Indels: 46
0.72 0.10 0.18
Matches are distributed among these distances:
9 1 0.01
10 10 0.05
11 28 0.15
12 90 0.48
13 38 0.20
14 20 0.11
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.34
Consensus pattern (12 bp):
TATATAATAAAA
Found at i:19235130 original size:3 final size:3
Alignment explanation
Indices: 19235112--19235178 Score: 118
Period size: 3 Copynumber: 22.3 Consensus size: 3
19235102 CTATACGTAT
19235112 ATA ATA A-A ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19235157 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
19235179 GGATAATATA
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 57 0.92
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19235142 original size:24 final size:24
Alignment explanation
Indices: 19235112--19235266 Score: 117
Period size: 24 Copynumber: 6.5 Consensus size: 24
19235102 CTATACGTAT
19235112 ATAATAAAATATATAATAATAATA
1 ATAATAAAATATATAATAATAATA
19235136 ATAATAATAATA-ATAATAATAATA
1 ATAATAA-AATATATAATAATAATA
**
19235160 ATAATAATAATA-ATAATAAGGATA
1 ATAATAA-AATATATAATAATAATA
* **
19235184 AT-ATAAGTATATATACACGA-AATA
1 ATAATAA-AATATATA-ATAATAATA
*
19235208 GT-ATAAAA-ATAT-ATAACTAATA
1 ATAATAAAATATATAATAA-TAATA
* *
19235230 ATATTAAAATATATACATGATAATA
1 ATAATAAAATATATA-ATAATAATA
*
19235255 TATAAAAAAATA
1 -ATAATAAAATA
19235267 ATATTAGAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
20 2 0.02
22 9 0.09
23 13 0.12
24 58 0.55
25 11 0.10
26 12 0.11
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAATAAAATATATAATAATAATA
Found at i:19235252 original size:22 final size:23
Alignment explanation
Indices: 19235109--19235261 Score: 91
Period size: 21 Copynumber: 7.0 Consensus size: 23
19235099 TGTCTATACG
19235109 TATATAA-TAA-AATATATAATAA
1 TATATAACTAATAATATATAA-AA
19235131 TA-ATAA-TAATAATA-ATAATAA
1 TATATAACTAATAATATATAA-AA
19235152 TA-ATAA-TAATAATA-ATAATAA
1 TATATAACTAATAATATATAA-AA
** **
19235173 TA-ATAA-GGATAATATA-AGTA
1 TATATAACTAATAATATATAAAA
* *
19235193 TATATACACGAAATAGTATA-AAAA
1 TATATA-AC-TAATAATATATAAAA
19235217 TATATAACTAATAATAT-TAAAA
1 TATATAACTAATAATATATAAAA
*
19235239 TATAT-ACATGATAATATATAAAA
1 TATATAAC-TAATAATATATAAAA
19235262 AAATAATATT
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
20 3 0.03
21 53 0.48
22 32 0.29
23 7 0.06
24 15 0.14
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.33
Consensus pattern (23 bp):
TATATAACTAATAATATATAAAA
Found at i:19235325 original size:23 final size:23
Alignment explanation
Indices: 19235192--19235331 Score: 88
Period size: 23 Copynumber: 6.3 Consensus size: 23
19235182 TAATATAAGT
* *
19235192 ATATATACACGAA-ATAGTATAAAA
1 ATATATACA-TAATATA-TATATAA
19235216 ATATATA-ACTAATA-ATAT-TAAA
1 ATATATACA-TAATATATATAT-AA
*
19235238 ATATATACATGATA-ATATATAA
1 ATATATACATAATATATATATAA
*
19235260 A-A-A-A-ATAATAT-TAGA-AA
1 ATATATACATAATATATATATAA
19235277 ATATATGTACATAATATATATATAA
1 ATATA--TACATAATATATATATAA
19235302 ATATATACATAATATAGTAT-TAA
1 ATATATACATAATATA-TATATAA
*
19235325 AAATATA
1 ATATATA
19235332 ATATTAAAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
17 3 0.03
18 9 0.09
19 2 0.02
20 1 0.01
21 1 0.01
22 24 0.25
23 34 0.36
24 14 0.15
25 7 0.07
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATATACATAATATATATATAA
Found at i:19235348 original size:13 final size:14
Alignment explanation
Indices: 19235312--19235343 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
19235302 ATATATACAT
*
19235312 AATATAGTATTAAA
1 AATATAATATTAAA
19235326 AATATAATATTAAA
1 AATATAATATTAAA
19235340 AATA
1 AATA
19235344 CATATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AATATAATATTAAA
Found at i:19235551 original size:19 final size:19
Alignment explanation
Indices: 19235527--19235563 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19235517 ATAATATTTG
*
19235527 AAATATATGCATAATATAA
1 AAATATATACATAATATAA
*
19235546 AAATATATATATAATATA
1 AAATATATACATAATATA
19235564 GTATTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
AAATATATACATAATATAA
Found at i:19235797 original size:3 final size:3
Alignment explanation
Indices: 19235777--19235850 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
19235767 GATCATACAC
* *
19235777 TAA TACA TAA TGA TAA TAA TAA TAA TAA TAT TAA -AA T-A TAA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
19235820 AAA T-A TAA TAGA -AA TAT TAA -AA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
19235851 AGTAATACCA
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
2 11 0.20
3 41 0.73
4 4 0.07
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:19236645 original size:19 final size:21
Alignment explanation
Indices: 19236621--19236659 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
19236611 AATCACCTTC
19236621 GTTTTTAATT-T-TGATTTTT
1 GTTTTTAATTCTCTGATTTTT
*
19236640 GTTTTTGATTCTCTGATTTT
1 GTTTTTAATTCTCTGATTTT
19236660 GGCGGTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.69
Consensus pattern (21 bp):
GTTTTTAATTCTCTGATTTTT
Found at i:19237342 original size:15 final size:15
Alignment explanation
Indices: 19237322--19237355 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
19237312 TTCGGATACC
19237322 ATTTCATGAACCTTA
1 ATTTCATGAACCTTA
19237337 ATTTCATGAACCTTA
1 ATTTCATGAACCTTA
19237352 ATTT
1 ATTT
19237356 GAAAGAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (15 bp):
ATTTCATGAACCTTA
Found at i:19239346 original size:2 final size:2
Alignment explanation
Indices: 19239339--19239363 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19239329 TACTGTATTG
19239339 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
19239364 CCATAGTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19242320 original size:17 final size:17
Alignment explanation
Indices: 19242298--19242339 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
19242288 TTTCATCTTT
19242298 ATTTTTTTATCCATT-CA
1 ATTTTTTTAT-CATTCCA
*
19242315 A-TTTTTTATCTTTCCA
1 ATTTTTTTATCATTCCA
19242331 ATTTTTTTA
1 ATTTTTTTA
19242340 CACTGTACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.50
17 8 0.36
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTTTATCATTCCA
Found at i:19242964 original size:35 final size:34
Alignment explanation
Indices: 19242897--19242964 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
19242887 CTATTGAATT
*
19242897 AAATTTTAAATTATATTCTAATTTATTACATATG
1 AAATTTTAAATTATATTCTAATTTAATACATATG
* *
19242931 AAATATTTAAATTTTATTTTCAATTTAAT-CATAT
1 AAAT-TTTAAATTATATTCT-AATTTAATACATAT
19242965 ATTATTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 4 0.14
35 18 0.62
36 7 0.24
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (34 bp):
AAATTTTAAATTATATTCTAATTTAATACATATG
Found at i:19246114 original size:22 final size:24
Alignment explanation
Indices: 19246086--19246129 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
19246076 TATTATTTTT
19246086 AAAAAAA-TCAAAAGTT-TGTTAA
1 AAAAAAAGTCAAAAGTTGTGTTAA
19246108 AAAAAAAGTCAAAAGTTGTGTT
1 AAAAAAAGTCAAAAGTTGTGTT
19246130 TTGAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 9 0.45
24 4 0.20
ACGTcount: A:0.55, C:0.05, G:0.14, T:0.27
Consensus pattern (24 bp):
AAAAAAAGTCAAAAGTTGTGTTAA
Found at i:19249532 original size:2 final size:2
Alignment explanation
Indices: 19249525--19249552 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19249515 TACATCCTCC
19249525 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19249553 TAACACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19252135 original size:22 final size:23
Alignment explanation
Indices: 19252107--19252155 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
19252097 AAAAAACTTA
19252107 TTTTTAAT-TAAATTAATGTTAT
1 TTTTTAATATAAATTAATGTTAT
19252129 TTTTTAATAAAATAAATTAATGTTAT
1 TTTTTAAT---ATAAATTAATGTTAT
19252155 T
1 T
19252156 AAAAAAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
26 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
TTTTTAATATAAATTAATGTTAT
Found at i:19257600 original size:26 final size:26
Alignment explanation
Indices: 19257571--19257620 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
19257561 TACATGATCG
19257571 TGCACAGCCCTGACTGATCCCTTTCA
1 TGCACAGCCCTGACTGATCCCTTTCA
19257597 TGCACAGCCCTGACTGATCCCTTT
1 TGCACAGCCCTGACTGATCCCTTT
19257621 TCTTCTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.38, G:0.16, T:0.28
Consensus pattern (26 bp):
TGCACAGCCCTGACTGATCCCTTTCA
Found at i:19258378 original size:39 final size:39
Alignment explanation
Indices: 19258335--19258415 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
19258325 GTGAATTAAA
19258335 TTCGGAAATATATGAAAGATTGACAGATCCAAACTTTTG
1 TTCGGAAATATATGAAAGATTGACAGATCCAAACTTTTG
19258374 TTCGGAAATATATGAAAGATTGACAGATCCAAACTTTTG
1 TTCGGAAATATATGAAAGATTGACAGATCCAAACTTTTG
19258413 TTC
1 TTC
19258416 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (39 bp):
TTCGGAAATATATGAAAGATTGACAGATCCAAACTTTTG
Found at i:19261962 original size:43 final size:43
Alignment explanation
Indices: 19261915--19262019 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
19261905 AGTATGATTA
* * *
19261915 CTTTGATTTATCTAATGATGCAATAT-GTGTGCCACTATAATTG
1 CTTTGATTCATCCAATGATGCAAT-TCGTGTGCCAATATAATTG
* * *
19261958 CTTTGGTTCATCCAATGATGCACTTCTTGTGCCAATATAATTG
1 CTTTGATTCATCCAATGATGCAATTCGTGTGCCAATATAATTG
* *
19262001 CTTTGGTTCATCCGATGAT
1 CTTTGATTCATCCAATGAT
19262020 ACTCCTCGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 53 0.98
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (43 bp):
CTTTGATTCATCCAATGATGCAATTCGTGTGCCAATATAATTG
Found at i:19262037 original size:43 final size:43
Alignment explanation
Indices: 19261941--19262045 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
19261931 GATGCAATAT
* * *
19261941 GTGTGCCACTATAATTGCTTTGGTTCATCCAATGATGCACTTC
1 GTGTGCCAATATAATTGCTTTGGTTCATCCAATGATACACCTC
* * *
19261984 TTGTGCCAATATAATTGCTTTGGTTCATCCGATGATACTCCTC
1 GTGTGCCAATATAATTGCTTTGGTTCATCCAATGATACACCTC
* *
19262027 GTGTGTCAATACAATTGCT
1 GTGTGCCAATATAATTGCT
19262046 CCGACTTGCT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (43 bp):
GTGTGCCAATATAATTGCTTTGGTTCATCCAATGATACACCTC
Found at i:19264031 original size:27 final size:27
Alignment explanation
Indices: 19263993--19264056 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
19263983 GAGGGCATGC
*
19263993 CAGAGGCGGCACTAGTGAAGCCTGTGG
1 CAGAGGCGGCACCAGTGAAGCCTGTGG
19264020 CAGAGGCGGCACCAGTGAAGCCTGTGG
1 CAGAGGCGGCACCAGTGAAGCCTGTGG
19264047 CAGAGGCGGC
1 CAGAGGCGGC
19264057 GCCCACTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.42, T:0.11
Consensus pattern (27 bp):
CAGAGGCGGCACCAGTGAAGCCTGTGG
Found at i:19264634 original size:17 final size:17
Alignment explanation
Indices: 19264612--19264647 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19264602 TAATTTTTAA
19264612 TTGCTAAAATATAATAT
1 TTGCTAAAATATAATAT
*
19264629 TTGCTAGAATATAATAT
1 TTGCTAAAATATAATAT
19264646 TT
1 TT
19264648 AGAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (17 bp):
TTGCTAAAATATAATAT
Found at i:19264826 original size:27 final size:27
Alignment explanation
Indices: 19264795--19264865 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
19264785 GGATGCCCCT
19264795 TATGGCATAGGCTTCACTGGTGCCGCC
1 TATGGCATAGGCTTCACTGGTGCCGCC
*
19264822 TATGGCATAGGCTTTACTGGTGCCGCC
1 TATGGCATAGGCTTCACTGGTGCCGCC
* * *
19264849 TCTGCCACAGGCTTCAC
1 TATGGCATAGGCTTCAC
19264866 CAGTGTCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (27 bp):
TATGGCATAGGCTTCACTGGTGCCGCC
Found at i:19264925 original size:27 final size:27
Alignment explanation
Indices: 19264895--19264948 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19264885 CCCTCCATCC
*
19264895 CTGTCACATCGGTTTTTTTAACAGTTT
1 CTGTCACATCAGTTTTTTTAACAGTTT
19264922 CTGTCACATCAGTTTTTTTAACAGTTT
1 CTGTCACATCAGTTTTTTTAACAGTTT
19264949 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (27 bp):
CTGTCACATCAGTTTTTTTAACAGTTT
Found at i:19266633 original size:93 final size:92
Alignment explanation
Indices: 19266474--19266690 Score: 287
Period size: 93 Copynumber: 2.3 Consensus size: 92
19266464 TGATGCCATA
** *
19266474 GTATCTTTC-AACTATGGTCTTACTCATTTTC-TGTCATTTTGCCGTGGTATCTTTCAACCATGG
1 GTATCTTTCAAAC-ATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGG
* *
19266537 TCTTATTCATA-TCCCCGTCATGTTGTCATG
64 TCTTA--CATATTCCACATCATGTTGTCATG
*
19266567 GTATCTTTCAAACATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
1 GTATCTTTCAAACATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
* *
19266632 TTACATATTTCATATCATGTTGTCATG
66 TTACATATTCCACATCATGTTGTCATG
* *
19266659 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAAACATGGTCTTACTCATTTCAT
19266691 TTCAGAAAGC
Statistics
Matches: 110, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
91 4 0.04
92 48 0.44
93 55 0.50
94 3 0.03
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.43
Consensus pattern (92 bp):
GTATCTTTCAAACATGGTCTTACTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTC
TTACATATTCCACATCATGTTGTCATG
Found at i:19266688 original size:46 final size:46
Alignment explanation
Indices: 19266462--19266690 Score: 273
Period size: 46 Copynumber: 5.0 Consensus size: 46
19266452 TTATCTTCGA
* * *
19266462 CATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * * * **
19266508 CATTTTGCCGTGGTATCTTTCAACCATGGTCTTATTCATATCCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCAT-TTCATGT
* * *
19266555 CATGTTGTCATGGTATCTTTCAAACATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
19266601 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGT
* *
19266647 CATGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
19266691 TTCAGAAAGC
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 117 0.75
47 38 0.24
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:19275551 original size:26 final size:26
Alignment explanation
Indices: 19275515--19275650 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
19275505 ACATGAATTC
19275515 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19275541 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19275567 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19275593 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19275619 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19275645 TTATCA
1 TTATCA
19275651 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19279010 original size:32 final size:31
Alignment explanation
Indices: 19278952--19279012 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
19278942 AACATCTAAT
*
19278952 AAATATCTTTTACTAATTAATGATAAATATA
1 AAATATCTTTTACTAATTAATCATAAATATA
19278983 AAATATCTTTTCACTAATT-ATACATAAATA
1 AAATATCTTTT-ACTAATTAAT-CATAAATA
19279013 ATACAAACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (31 bp):
AAATATCTTTTACTAATTAATCATAAATATA
Found at i:19279130 original size:3 final size:3
Alignment explanation
Indices: 19279122--19279153 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
19279112 ATTTATAGCT
19279122 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
19279154 TCTTTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19280509 original size:32 final size:33
Alignment explanation
Indices: 19280468--19280548 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 33
19280458 GGGAGTGGAG
**
19280468 TACTGCGGTGGATACGGGCCGGG-GGTGTGCTA
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
* * *
19280500 TACTGCGGTGGATATGGGCTGGGAGAAGTGCTG
1 TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
*
19280533 TACTACGGTGGATACG
1 TACTGCGGTGGATACG
19280549 ACCCAAAGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.17, C:0.16, G:0.43, T:0.23
Consensus pattern (33 bp):
TACTGCGGTGGATACGGGCCGGGAGAAGTGCTA
Found at i:19282719 original size:9 final size:9
Alignment explanation
Indices: 19282707--19282739 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
19282697 AAATTTTCAT
19282707 ATTTTTAAA
1 ATTTTTAAA
19282716 ATTTTTAAA
1 ATTTTTAAA
19282725 ATTTTTAAA
1 ATTTTTAAA
19282734 ATTTTT
1 ATTTTT
19282740 GGATCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:19282775 original size:13 final size:12
Alignment explanation
Indices: 19282757--19282800 Score: 61
Period size: 13 Copynumber: 3.5 Consensus size: 12
19282747 ATTTTTTAAA
19282757 ATATATTATTTT
1 ATATATTATTTT
19282769 CATATATTATTTT
1 -ATATATTATTTT
*
19282782 TTATATTATTTT
1 ATATATTATTTT
19282794 AGTATAT
1 A-TATAT
19282801 AATGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (12 bp):
ATATATTATTTT
Found at i:19283692 original size:149 final size:151
Alignment explanation
Indices: 19282876--19284131 Score: 1848
Period size: 150 Copynumber: 8.3 Consensus size: 151
19282866 CTTTTGTTTG
*
19282876 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* * *
19282941 ATGTATTATTTTAGTGTTTTTTTATATTAATCTAGTAAATAATCCTGATTTTGGCCATTTGTTTG
66 ATGTATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTG
*
19283006 TATTGTTAAAATTTTCGGATTT
130 TATTTTTAAAATTTTCGGATTT
** * *
19283028 TATTTTTAAAAATATACTATTTTTTTATTTTATTTTTTACATTATTTTAGTACATAATGTTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* * **
19283093 ATATATTATTTTAGTGTTTTTTTATATTAATTTAGTAAATAACCCTAAATTTT-TCTTTTTGTTT
66 ATGTATTATTTTAGTG-TTTTTTATATTAATTTAGTAAATAACCCT-AATTTTGGCCATTTGTTT
** **
19283157 GTATTTTTAAAATTCCCAAATTT
129 GTATTTTTAAAATTTTCGGATTT
* *
19283180 TATTTTTAAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTTA
1 TATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCA
* * * *
19283245 AATGTATTATTTTAGTGTTTTTTTTATATTAATTTAGTAAATAACCTTAAATTTGTCCTTTTGTT
65 AATGTATTATTTTAGTG--TTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTT
*****
19283310 TGTATTTTTAAAATTCAAAAATTT
128 TGTATTTTTAAAATTTTCGGATTT
*
19283334 TATTTTTAAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCA
1 TATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCA
* * * *
19283399 AATGTATTTTTTTAGTG-TTTTTATATTAATTTAGAAAATAACCCTGATTTTGGCCCTTTGTTTG
65 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTG
19283463 TATTTTTAAAATTTTCGGATTT
130 TATTTTTAAAATTTTCGGATTT
*
19283485 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTCAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
*
19283550 ATGTATTATTTTAGTG-TTTTTATATTAATTTAGTAAATACCCCTAATTTTGGCCATTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGT
*
19283614 A-TTTTAAAATTTTTGGATTT
131 ATTTTTAAAATTTTCGGATTT
* *
19283634 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATATTTTAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* *
19283699 AT-TATTATTTTAGTG-TTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGTTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGT
* *
19283762 ATTTTTAATATTTTCAGATTT
131 ATTTTTAAAATTTTCGGATTT
* * *
19283783 TATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATATT-TTTTCGTACATAATGTTTCAA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
* * *
19283847 ATGTATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCCATTTATTTGT
66 ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGT
*
19283912 ATTTTTAATATTTTCGGA-TT
131 ATTTTTAAAATTTTCGGATTT
*
19283932 TATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCA
1 TATTTTTAAAAATATACTATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCA
* *
19283997 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAA-TTTGTCCCTTTGTTTG
65 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTG
*
19284061 TATTATTT-AAATTTTTGGATTT
130 TATT-TTTAAAATTTTCGGATTT
* * **
19284083 TATTTTTTAAAATAAACTATTTTTATATTTTATTTTTTATATTATTTTA
1 TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTA
19284132 AAAAAACCCA
Statistics
Matches: 1019, Mismatches: 74, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
148 79 0.08
149 187 0.18
150 208 0.20
151 188 0.18
152 160 0.16
153 57 0.06
154 140 0.14
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.57
Consensus pattern (151 bp):
TATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAA
ATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTAATTTTGGCCATTTGTTTGT
ATTTTTAAAATTTTCGGATTT
Found at i:19284198 original size:17 final size:16
Alignment explanation
Indices: 19284166--19284239 Score: 69
Period size: 17 Copynumber: 4.5 Consensus size: 16
19284156 CCCAAAAAAA
19284166 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
*
19284182 TTATTTCTTTTCGTATT
1 TTATTT-TTTTCATATT
**
19284199 TTATTTTTTT-ATTAAG
1 TTATTTTTTTCA-TATT
* *
19284215 ATATATTTTTTAATATT
1 TTAT-TTTTTTCATATT
19284232 TTATTTTT
1 TTATTTTT
19284240 ATACTATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
16 19 0.41
17 26 0.57
18 1 0.02
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:19284685 original size:3 final size:3
Alignment explanation
Indices: 19284671--19284722 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
19284661 ATGCCGCTTG
* *
19284671 CTT CTC CTT CTT CTT CTT C-T CTT CTTT CTT -TT CTT CTT CTC CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT
19284715 CTTT CTT C
1 C-TT CTT C
19284723 CCAAAATGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:19284704 original size:20 final size:21
Alignment explanation
Indices: 19284681--19284721 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
19284671 CTTCTCCTTC
19284681 TTCTTCTTCT-CTTCTTTCTT
1 TTCTTCTTCTCCTTCTTTCTT
19284701 TTCTTCTTCTCCTTCTTTCTT
1 TTCTTCTTCTCCTTCTTTCTT
19284722 CCCAAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCTTCTTCTCCTTCTTTCTT
Found at i:19284918 original size:15 final size:15
Alignment explanation
Indices: 19284898--19284940 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
19284888 CCACTCAGCT
19284898 TTTTTTTTTGCTTT-A
1 TTTTTTTTT-CTTTAA
19284913 TTTTTTTGTT-TTTAA
1 TTTTTTT-TTCTTTAA
19284928 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
19284941 TTAACAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.20
15 18 0.72
16 2 0.08
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTCTTTAA
Found at i:19285607 original size:13 final size:12
Alignment explanation
Indices: 19285590--19285623 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
19285580 TTAATTAATA
19285590 TAATTAAAAAAT
1 TAATTAAAAAAT
19285602 TAAATTTAAAAAAT
1 T-AA-TTAAAAAAT
19285616 TAATTAAA
1 TAATTAAA
19285624 TATTAAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.30
13 4 0.20
14 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAATTAAAAAAT
Found at i:19290777 original size:16 final size:15
Alignment explanation
Indices: 19290756--19290794 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
19290746 TTAAAACATC
19290756 ATATATTTACTTATTA
1 ATATATTTACTTA-TA
*
19290772 ATATA-TAACTTATA
1 ATATATTTACTTATA
19290786 ATATATTTA
1 ATATATTTA
19290795 TTGTGAGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 7 0.35
15 8 0.40
16 5 0.25
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATATTTACTTATA
Found at i:19299260 original size:15 final size:15
Alignment explanation
Indices: 19299240--19299269 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19299230 GAGCCCTAAG
*
19299240 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
19299255 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
19299270 TTTTTAGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:19300046 original size:18 final size:18
Alignment explanation
Indices: 19300023--19300075 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
19300013 GATAAATCCT
19300023 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
19300041 AATCAAGGATTGACTCCC
1 AATCAAGGATTTACTCCC
*
19300059 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
19300076 TATATTAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:19303549 original size:18 final size:18
Alignment explanation
Indices: 19303502--19303554 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
19303492 TGTTAATATA
**
19303502 GGAGTAAATCCCGGATTG
1 GGAGTAAATCCTTGATTG
*
19303520 GGAGTCAATCCTTGATTG
1 GGAGTAAATCCTTGATTG
19303538 GGAGTAAATCCTTGATT
1 GGAGTAAATCCTTGATT
19303555 AGGATTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (18 bp):
GGAGTAAATCCTTGATTG
Found at i:19306892 original size:11 final size:12
Alignment explanation
Indices: 19306870--19306895 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19306860 TAAATTTATA
19306870 TTTTCTATTTTT
1 TTTTCTATTTTT
19306882 TTTTCTATTTTT
1 TTTTCTATTTTT
19306894 TT
1 TT
19306896 ATGTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTATTTTT
Found at i:19308197 original size:12 final size:12
Alignment explanation
Indices: 19308170--19308204 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
19308160 GATTGATTGG
19308170 GATTTTTTTAAT
1 GATTTTTTTAAT
19308182 -ATTTTTTTAAT
1 GATTTTTTTAAT
*
19308193 GATTTATTTAAT
1 GATTTTTTTAAT
19308205 TAAACCGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (12 bp):
GATTTTTTTAAT
Found at i:19318733 original size:16 final size:16
Alignment explanation
Indices: 19318714--19318745 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
19318704 GGGATCCTTT
19318714 TATTGGATTTGTGGAA
1 TATTGGATTTGTGGAA
19318730 TATTGGATTTGTGGAA
1 TATTGGATTTGTGGAA
19318746 AATGTGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (16 bp):
TATTGGATTTGTGGAA
Found at i:19325058 original size:131 final size:131
Alignment explanation
Indices: 19324923--19325188 Score: 392
Period size: 131 Copynumber: 2.0 Consensus size: 131
19324913 TTTAAATAAT
* *
19324923 TTTTAGAAGATATGAATG-AAATCTTAAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGC
1 TTTTAAAAGACATGAATGAAAAT-TTAAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGC
* * * *
19324987 AACCCAACGCGTTAGGGCACGATTCCGTGAATTACTC-AATATCGAATCTCGTCTTCGTTTTGAA
65 AACCCAACACGTTAGGGCACCATTCCGCGAATTAC-CAAAAATCGAATCTCGTCTTCGTTTTGAA
19325051 GAA
129 GAA
* * * *
19325054 TTTTAAAAGACATGAATGAAAATTTCAAGTGATATTCGATTATTTTGAGCAAGCGCGAAATTGCA
1 TTTTAAAAGACATGAATGAAAATTTAAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGCA
* *
19325119 ACCCAACACGTTAGGGCACCATTTCGCGAATTGCCAAAAATCGAATCTCGTCTTCGTTTTGAAGA
66 ACCCAACACGTTAGGGCACCATTCCGCGAATTACCAAAAATCGAATCTCGTCTTCGTTTTGAAGA
19325184 A
131 A
19325185 TTTT
1 TTTT
19325189 TGAATGAATG
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
130 1 0.01
131 116 0.96
132 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (131 bp):
TTTTAAAAGACATGAATGAAAATTTAAAGGGATACTCGATTATTTTGAGCAAACGCGAAATTGCA
ACCCAACACGTTAGGGCACCATTCCGCGAATTACCAAAAATCGAATCTCGTCTTCGTTTTGAAGA
A
Found at i:19331542 original size:21 final size:21
Alignment explanation
Indices: 19331517--19331560 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19331507 ATTAGTGTAG
*
19331517 TTTACCCTTATAA-TTATTATA
1 TTTACCCTAATAATTTATT-TA
*
19331538 TTTACTCTAATAATTTATTTA
1 TTTACCCTAATAATTTATTTA
19331559 TT
1 TT
19331561 AGTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTACCCTAATAATTTATTTA
Found at i:19332417 original size:23 final size:23
Alignment explanation
Indices: 19332391--19332439 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
19332381 AACAAATCTA
*
19332391 TATAA-TGATTTTTACAATTTTTT
1 TATAATTGATATTTA-AATTTTTT
19332414 TATAATTTGATATTTAAATTTTTT
1 TATAA-TTGATATTTAAATTTTTT
19332438 TA
1 TA
19332440 GTCTAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 10 0.43
25 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TATAATTGATATTTAAATTTTTT
Found at i:19343671 original size:19 final size:19
Alignment explanation
Indices: 19343644--19343683 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19343634 GACTAGCATT
* *
19343644 TAATGTATAAATGATATAA
1 TAATATATAAAAGATATAA
*
19343663 TAATATATAAAAGATTTAA
1 TAATATATAAAAGATATAA
19343682 TA
1 TA
19343684 CAATAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TAATATATAAAAGATATAA
Found at i:19343745 original size:20 final size:20
Alignment explanation
Indices: 19343722--19343825 Score: 59
Period size: 20 Copynumber: 5.0 Consensus size: 20
19343712 AGATGTAAAA
19343722 AAATAATATATAATATATAT
1 AAATAATATATAATATATAT
* * ** *
19343742 AAATAATA-ACAATTTGCGAA
1 AAATAATATATAATAT-ATAT
* *
19343762 AAATAATATATACTAAATA-
1 AAATAATATATAATATATAT
19343781 ATAATAATATAAATAATATATAAT
1 A-AATAATAT--ATAATATAT-AT
*
19343805 AAAATACTTATATAATATATA
1 -AAATA-ATATATAATATATA
19343826 ATATGAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
19 6 0.10
20 26 0.43
21 3 0.05
22 8 0.13
23 10 0.16
24 4 0.07
25 4 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATAATATATAATATATAT
Found at i:19343795 original size:9 final size:10
Alignment explanation
Indices: 19343763--19343828 Score: 64
Period size: 10 Copynumber: 6.4 Consensus size: 10
19343753 ATTTGCGAAA
19343763 AATAATATAT
1 AATAATATAT
*
19343773 ACTAA-ATAAT
1 AATAATAT-AT
19343783 AATAATATA-
1 AATAATATAT
19343792 AATAATATAT
1 AATAATATAT
*
19343802 AATAAAATACTT
1 AATAATATA--T
19343814 ATATAATATAT
1 A-ATAATATAT
19343825 AATA
1 AATA
19343829 TGAAAATAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 11 0.24
10 22 0.48
11 4 0.09
12 2 0.04
13 7 0.15
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:19343805 original size:7 final size:7
Alignment explanation
Indices: 19343764--19343829 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
19343754 TTTGCGAAAA
19343764 ATAATAT
1 ATAATAT
* *
19343771 ATACTAA
1 ATAATAT
19343778 ATAATA-
1 ATAATAT
19343784 ATAATAT
1 ATAATAT
19343791 AAATAATAT
1 --ATAATAT
*
19343800 ATAATAAA
1 ATAAT-AT
*
19343808 ATACTTAT
1 ATA-ATAT
19343816 ATAATAT
1 ATAATAT
19343823 ATAATAT
1 ATAATAT
19343830 GAAAATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
6 6 0.13
7 25 0.53
8 8 0.17
9 8 0.17
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:19343805 original size:25 final size:25
Alignment explanation
Indices: 19343777--19343906 Score: 72
Period size: 28 Copynumber: 5.0 Consensus size: 25
19343767 ATATATACTA
19343777 AATAATAATAATATAAATAATATAT
1 AATAATAATAATATAAATAATATAT
* *
19343802 AATAA-AATACT-TATATAATATAT
1 AATAATAATAATATAAATAATATAT
* *
19343825 AATATGAAAATAAGGT-TAAA-AA-ATAA
1 AATA--ATAATAA--TATAAATAATATAT
* * *
19343851 AACAAATAACAATATAAAAAACATATAT
1 AA-TAATAATAATAT-AAATA-ATATAT
*
19343879 ATATAATAATAATAAAAATAAATATAT
1 A-ATAATAATAATATAAAT-AATATAT
19343906 A
1 A
19343907 GGGTTAGATT
Statistics
Matches: 79, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
23 16 0.20
24 6 0.08
25 14 0.18
26 10 0.13
27 14 0.18
28 18 0.23
29 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
AATAATAATAATATAAATAATATAT
Found at i:19343816 original size:16 final size:16
Alignment explanation
Indices: 19343762--19343828 Score: 70
Period size: 16 Copynumber: 4.3 Consensus size: 16
19343752 AATTTGCGAA
*
19343762 AAATAATATAT-A-CT
1 AAATAATATATAATAT
19343776 AAATAATA-ATAATAT
1 AAATAATATATAATAT
19343791 AAATAATATATAATA-
1 AAATAATATATAATAT
*
19343806 AAATACTTATATAATAT
1 AAATA-ATATATAATAT
19343823 ATAATA
1 A-AATA
19343829 TGAAAATAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
13 2 0.04
14 9 0.20
15 14 0.31
16 15 0.33
17 1 0.02
18 4 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATATATAATAT
Found at i:19345660 original size:206 final size:206
Alignment explanation
Indices: 19345284--19345838 Score: 839
Period size: 206 Copynumber: 2.7 Consensus size: 206
19345274 AAATCTGCTT
* * *
19345284 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGC-TAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAC
* * * * *
19345348 GCGAAAACCAAATCAGCTAT-ACCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGA-TTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
* * * ** *
19345412 TGGATTTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
130 TGGATCTGCTTCAGTATAAACATCTGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
19345477 GGAGACGCCAAA
195 GGAGACGACAAA
*
19345489 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAC
* * *
19345554 GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTATAAACACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
19345619 GGATCTGCTTCAGTATAAACA-CATGAAGGCCAGACCTGCTATGTGTCTGCTCTCCGTCTAATAT
131 GGATCTGCTTCAGTATAAACATC-TGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
19345683 GGAGATGACAAA
195 GGAGACGACAAA
19345695 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTT-TCTTCATCGTAAGCA
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGT-TTCATCGTAAGCA
*
19345759 CGTGAAAGCCAAATCAGCTATGTTTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
19345824 TGGATCTTGCTTCAG
130 TGGATC-TGCTTCAG
19345839 CAAGATCTGC
Statistics
Matches: 318, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
205 55 0.17
206 254 0.80
207 9 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGATTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGCCAGACCTGCTATGTGTCTGCCCTCCGTCGAATATG
GAGACGACAAA
Found at i:19357662 original size:19 final size:19
Alignment explanation
Indices: 19357635--19357674 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
19357625 GACTAGCATT
* *
19357635 TAATGTATAAATGATATAA
1 TAATATATAAAAGATATAA
*
19357654 TAATATATAAAAGATTTAA
1 TAATATATAAAAGATATAA
19357673 TA
1 TA
19357675 CAATAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (19 bp):
TAATATATAAAAGATATAA
Found at i:19357730 original size:40 final size:39
Alignment explanation
Indices: 19357677--19357821 Score: 99
Period size: 40 Copynumber: 3.6 Consensus size: 39
19357667 ATTTAATACA
*
19357677 ATAATTATAATATATAATATAAAAGTATATGTAAAAATATAT
1 ATAA-TAT-ATATATAATATAAAA-TATATGAAAAAATATAT
*
19357719 ATAATATATATA-AATAATAACAAT-T-TGCGAAAAATAATAT
1 ATAATATATATATAAT-ATAA-AATATATG-AAAAAAT-ATAT
*
19357759 ATAATAAATA-ATAATATAAATAATATAT-AATAAAATACT-T
1 ATAATATATATATAATAT-AA-AATATATGAA-AAAATA-TAT
19357799 AT-ATA-ATATATAATATGAAAATA
1 ATAATATATATATAATAT-AAAATA
19357822 AGGTTAAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 26
0.74 0.04 0.22
Matches are distributed among these distances:
38 9 0.10
39 25 0.29
40 36 0.41
41 12 0.14
42 5 0.06
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (39 bp):
ATAATATATATATAATATAAAATATATGAAAAAATATAT
Found at i:19357737 original size:42 final size:41
Alignment explanation
Indices: 19357640--19357810 Score: 97
Period size: 45 Copynumber: 4.0 Consensus size: 41
19357630 GCATTTAATG
* * * *
19357640 TATAAATGATATAATAATATAT-AAAAGATTTAATACAATAATTA
1 TATAAATAATATAA-AATATATGAAAAAATAT-ATATAAT-A-TA
* *
19357684 TAATATATAATATAAAAGTATATGTAAAAATATATATAATATA
1 T-ATAAATAATATAAAA-TATATGAAAAAATATATATAATATA
* *
19357727 TATAAATAATA-ACAAT-T-TGCGAAAAATAATATATAATA-A
1 TATAAATAATATAAAATATATG-AAAAAAT-ATATATAATATA
19357766 -AT-AATAATATAAATAATATAT-AATAAAATACTTATATAATATA
1 TATAAATAATAT-AA-AATATATGAA-AAAATA--TATATAATATA
19357809 TA
1 TA
19357811 ATATGAAAAT
Statistics
Matches: 101, Mismatches: 11, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
37 7 0.07
38 4 0.04
39 9 0.09
40 16 0.16
41 9 0.09
42 19 0.19
43 4 0.04
44 5 0.05
45 22 0.22
46 6 0.06
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (41 bp):
TATAAATAATATAAAATATATGAAAAAATATATATAATATA
Found at i:19357764 original size:7 final size:7
Alignment explanation
Indices: 19357752--19357814 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
19357742 TTTGCGAAAA
19357752 ATAATAT
1 ATAATAT
*
19357759 ATAATAA
1 ATAATAT
19357766 ATAATA-
1 ATAATAT
*
19357772 AT-ATAA
1 ATAATAT
19357778 ATAATAT
1 ATAATAT
*
19357785 ATAATAAA
1 ATAAT-AT
*
19357793 ATACTTAT
1 ATA-ATAT
19357801 ATAATAT
1 ATAATAT
19357808 ATAATAT
1 ATAATAT
19357815 GAAAATAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 3 0.07
6 4 0.09
7 30 0.65
8 8 0.17
9 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:19357782 original size:26 final size:24
Alignment explanation
Indices: 19357750--19357822 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 24
19357740 AATTTGCGAA
19357750 AAATAATATATAATAAATAATAATAT
1 AAATAATATATAATAAA-AATAAT-T
*
19357776 AAATAATATATAAT-AAAATACTT
1 AAATAATATATAATAAAAATAATT
*
19357799 ATATAATATATAATATGAAAATAA
1 AAATAATATATAATA--AAAATAA
19357823 GGTTAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 14 0.34
24 5 0.12
25 2 0.05
26 20 0.49
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (24 bp):
AAATAATATATAATAAAAATAATT
Found at i:19357801 original size:16 final size:16
Alignment explanation
Indices: 19357752--19357813 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
19357742 TTTGCGAAAA
19357752 ATAATATATAATAA-AT
1 ATAATATA-AATAATAT
19357768 AATAATATAAATAATAT
1 -ATAATATAAATAATAT
*
19357785 ATAATA-AAATACTTAT
1 ATAATATAAATA-ATAT
19357801 ATAATATATAATA
1 ATAATATA-AATA
19357814 TGAAAATAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 5 0.12
16 20 0.50
17 11 0.28
18 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:19359253 original size:16 final size:18
Alignment explanation
Indices: 19359227--19359259 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19359217 CGATATCAAG
19359227 TTATATATATA-TAAAAT
1 TTATATATATAGTAAAAT
19359244 TTATAT-TATAGTAAAA
1 TTATATATATAGTAAAA
19359260 ATATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATATATATAGTAAAAT
Found at i:19359324 original size:17 final size:18
Alignment explanation
Indices: 19359293--19359326 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19359283 ATTCATCGTA
*
19359293 AATATGAAATGTATAAAT
1 AATATGAAATATATAAAT
19359311 AATAT-AAATATATAAA
1 AATATGAAATATATAAA
19359327 ACAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATATGAAATATATAAAT
Found at i:19361538 original size:70 final size:69
Alignment explanation
Indices: 19361408--19361538 Score: 156
Period size: 70 Copynumber: 1.9 Consensus size: 69
19361398 TTTATTATGT
* ** *
19361408 TTTTTTTACAATTTAGACCCTAAATTCCATTTAAATTTCAATTTTGTCCTTTTTATATTTATTCA
1 TTTTGTTACAATTTAGACCCTAAATTCCATTTAAATTTCAATTTAATCCTTTTTACATTTATTCA
19361473 TTTA
66 TTTA
* * * * *
19361477 TTTTGTTATAATTTAGGCTCTAAATTTCATTTTAAATTTCGATTTAATCCTTTATT-CATTTA
1 TTTTGTTACAATTTAGACCCTAAATTCCA-TTTAAATTTCAATTTAATCCTTT-TTACATTTA
19361539 ATTTCAACCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
69 24 0.47
70 25 0.49
71 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.05, T:0.55
Consensus pattern (69 bp):
TTTTGTTACAATTTAGACCCTAAATTCCATTTAAATTTCAATTTAATCCTTTTTACATTTATTCA
TTTA
Found at i:19361596 original size:8 final size:7
Alignment explanation
Indices: 19361572--19361630 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
19361562 ATAGGTTCTG
19361572 TTTTGTTA
1 TTTT-TTA
*
19361580 TGTTTTA
1 TTTTTTA
19361587 TTTATTTA
1 TTT-TTTA
19361595 TTTTTATA
1 TTTTT-TA
*
19361603 TTTGTTCA
1 TTT-TTTA
*
19361611 TTTATTA
1 TTTTTTA
19361618 TTTTTTA
1 TTTTTTA
19361625 TTTTTT
1 TTTTTT
19361631 CGTGTATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 21 0.50
8 19 0.45
9 2 0.05
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (7 bp):
TTTTTTA
Found at i:19361638 original size:22 final size:23
Alignment explanation
Indices: 19361592--19361638 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19361582 TTTTATTTAT
*
19361592 TTATTTTTATATTTGTTCATTTA
1 TTATTTTTATATTTGTTCATGTA
* *
19361615 TTATTTTT-TATTTTTTCGTGTA
1 TTATTTTTATATTTGTTCATGTA
19361637 TT
1 TT
19361639 TAAAATTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.72
Consensus pattern (23 bp):
TTATTTTTATATTTGTTCATGTA
Found at i:19374810 original size:19 final size:19
Alignment explanation
Indices: 19374786--19374832 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
19374776 AATGCCTCTT
*
19374786 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
19374805 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
19374824 TATGCATTA
1 TTTGCATTA
19374833 AATTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:19383021 original size:44 final size:43
Alignment explanation
Indices: 19382940--19383618 Score: 315
Period size: 44 Copynumber: 14.9 Consensus size: 43
19382930 TATTATCGCG
* *
19382940 AATCTTATCTCCTTGAAGTTGCAGTAGAGTAGATTGAAGCCAC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * * * **
19382983 TAATCTTATCTCCCTGAAGATGTAGTGGAGCAGGTTGAAGTTAC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * **
19383027 AAGTCTTATCTCCTTGAAGTTGCAGTGGAACAAATTGAAGATAGC
1 AA-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C
* * * * * * *
19383072 AAATCTTATCTCTTTGAAATTGCAGTAGAGCATATTAAAGCTATA
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C
* * **
19383117 AACCTTATCT-CTCTAAAGTTGCAGTGGAGCA-AGTTGAAGTTAC
1 AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGA-TTGAAGCCAC
* ** * * **
19383160 AAGTCTTATCTCCCTGAAG-AACAGTGGAACAAATTGAAGATAGC
1 AA-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C
* ** * * *
19383204 AAATCTTATCT-CTCTGAAGTTACAGCAGAGCAGATTAAAGTCATTGTGGTG
1 -AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAGCCA-------C
*
19383255 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAC
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * * * * **
19383298 AAATCTTATCTTCTTGAAGTTGTAGTGTAGCAAATCGAAGATAAC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-CCAC
* * **
19383343 GAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTAC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
* * * ***
19383387 AAATCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAAAATAGC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C
* * *
19383432 GAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTAC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC--C-----AC
* * * **
19383483 AAATCTCATCT-CTGTGAAGTTGCAGTAGAGCATATTGAAGATAAC
1 -AATCTTATCTCCT-TGAAGTTGCAGTGGAGCAGATTGAAG-CCAC
* * * * *
19383528 GAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATCGC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGC--C--A---C
* *
19383579 AAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
19383619 AATAGCAAAT
Statistics
Matches: 484, Mismatches: 112, Indels: 71
0.73 0.17 0.11
Matches are distributed among these distances:
43 24 0.05
44 198 0.41
45 152 0.31
46 3 0.01
48 1 0.00
50 37 0.08
51 68 0.14
52 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAC
Found at i:19383369 original size:89 final size:89
Alignment explanation
Indices: 19382940--19383886 Score: 532
Period size: 89 Copynumber: 10.3 Consensus size: 89
19382930 TATTATCGCG
* * * ** * *
19382940 AATCTTATCTC-CTTGAAGTTGCAGTAGAGTAGATTGAAG-CCACTAATCTTATCTCCCTGAAGA
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGT
* * * *
19383003 TGTAGTGGAGCAGGTTGAAGTTACA
65 TGCAGTGGAGCAGATTAAAGCTACA
* * * * ** *
19383028 AGTCTTATCTC-CTTGAAGTTGCAGTGGAACAAATTGAAGATAGCAAATCTTATCTCTTTGAAAT
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGT
* * *
19383092 TGCAGTAGAGCATATTAAAGCTATA
65 TGCAGTGGAGCAGATTAAAGCTACA
* * * *
19383117 AACCTTATCTCTCTAAAGTTGCAGTGGAGCAAGTTGAAG-TTAC-AAGTCTTATCTCCCTGAAG-
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGATAACGAA-TCTTATCTCCCTGAAGT
** * * * *
19383179 AACAGTGGAACAAATTGAAGATAGCA
65 TGCAGTGGAGCAGATTAAAGCTA-CA
* ** * * *** *
19383205 AATCTTATCTCTCTGAAGTTACAGCAGAGCAGATTAAAGTCATTGTGGTGAATCTTATCTCCTTG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAG--A---TAACGAATCTTATCTCCCTG
*
19383270 AAGTTGCAGTGGAGCAGATTAAAGCCACA
61 AAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
19383299 AATCTTATCT-TCTTGAAGTTGTAGTGTAGCAAATCGAAGATAACGAATCTTATCTCCCTGAAGT
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGT
* * *
19383363 TACAGTGGAGCAGATTGAAGTTACA
65 TGCAGTGGAGCAGATTAAAGCTACA
* * * * * * * *
19383388 AATCTTATTTCCCTGAAGTTGCAATGGAGCAGATTGAAAATAGCGAATCTTATTTCCTTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
*
19383453 GCAGTGGAACAGATTAAAGCTACAAGTTACA
66 GCAGTGGAGCAGATTAAAG---C----TACA
* * * * *
19383484 AATCTCATCTCTGTGAAGTTGCAGTAGAGCATATTGAAGATAACGAATCTTATTTCCCTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
* *
19383549 GTAGTGGAACAGATTAAAGCTACAAATCGCA
66 GCAGTGGAGCAGATTAAAGCT----A---CA
* * * * * * * *
19383580 AATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAATAGCAAATCTCATTTCCCTAAAGT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAG-ATAACGAATCTTATCTCCCTGAAGT
* * *
19383645 TG-TGATAGAACAGATTAAAGCTACAAGTTACA
65 TGCAG-TGGAGCAGATTAAAG---C----TACA
* * * ** * * * * * * *
19383677 AATTTTATCTCCCTGAAGTTACAGTAAAGCAATTTAAAGCT-ACAAATATTATCTCCCTAAATTT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
* *
19383741 GCAGTGGGGCAGATTTAAGCTACA
66 GCAGTGGAGCAGATTAAAGCTACA
* * * * * * * *
19383765 AATCTTATTTCCCTGAAGTTACAGTGGAACAGA-TGAAAACTACAAGTTACGAATCTTATTTCAC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGA-T---A---ACGAATCTTATCTCCC
* * * *
19383829 TGAAGTAGTAGTGGAGCAGATTGAAGCGACA
59 TGAAGTTGCAGTGGAGCAGATTAAAGCTACA
19383860 AA-CTCTATAC-CTCTGAAGTTGCAGTGG
1 AATCT-TAT-CTCTCTGAAGTTGCAGTGG
19383887 GTCAGAATGA
Statistics
Matches: 657, Mismatches: 154, Indels: 89
0.73 0.17 0.10
Matches are distributed among these distances:
87 21 0.03
88 112 0.17
89 176 0.27
90 2 0.00
92 2 0.00
93 4 0.01
94 48 0.07
95 104 0.16
96 115 0.18
97 70 0.11
100 2 0.00
104 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAAATTGAAGATAACGAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCTACA
Found at i:19383606 original size:51 final size:51
Alignment explanation
Indices: 19383386--19383723 Score: 194
Period size: 51 Copynumber: 7.0 Consensus size: 51
19383376 ATTGAAGTTA
* * * *
19383386 CAAATCTTATTTCCCTGAAGTTGCAATGGAGCAGATT---G--A-AAATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
* * * * **
19383431 CGAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
* ** * * * * *
19383482 CAAATCTCATCTCTGTGAAGTTGCAGTAGAGCATATTGAAG--A-TAA-CG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
* *
19383529 --AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATCG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
* * * *
19383578 CAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAG-----AATAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
* * * * * * **
19383624 CAAATCTCATTTCCCTAAAGTTG-TGATAGAACAGATTAAAGCTACAAGTTA
1 CAAATCTTATCTCCCTGAAGTTGCAG-TGGAACAGATTAAAGCTACAAATCG
* * *
19383675 CAAATTTTATCTCCCTGAAGTTACAGT-AAAGCA-ATTTAAAGCTACAAAT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGA-TTAAAGCTACAAAT
19383724 ATTATCTCCC
Statistics
Matches: 217, Mismatches: 55, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
45 64 0.29
46 35 0.16
47 1 0.00
48 4 0.02
49 3 0.01
50 4 0.02
51 105 0.48
52 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (51 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCG
Found at i:19383790 original size:44 final size:44
Alignment explanation
Indices: 19383673--19383792 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
19383663 AGCTACAAGT
* **
19383673 TACAAATTTTATCTCCCTGAAGTTACAGTAAAGCAATTTAAAGC
1 TACAAATATTATCTCCCTGAAGTTACAGTGGAGCAATTTAAAGC
* * * *
19383717 TACAAATATTATCTCCCTAAATTTGCAGTGGGGCAGATTT-AAGC
1 TACAAATATTATCTCCCTGAAGTTACAGTGGAGCA-ATTTAAAGC
* *
19383761 TACAAATCTTATTTCCCTGAAGTTACAGTGGA
1 TACAAATATTATCTCCCTGAAGTTACAGTGGA
19383793 ACAGATGAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
44 58 0.94
45 4 0.06
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (44 bp):
TACAAATATTATCTCCCTGAAGTTACAGTGGAGCAATTTAAAGC
Found at i:19383808 original size:44 final size:44
Alignment explanation
Indices: 19383673--19383809 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 44
19383663 AGCTACAAGT
* *
19383673 TACAAATTTTATCTCCCTGAAGTTACAGT-AAAGCA-ATTTAAAGC
1 TACAAATATTATCTCCCTGAAGTTACAGTGGAA-CAGA-TTAAAGC
* * * ** *
19383717 TACAAATATTATCTCCCTAAATTTGCAGTGGGGCAGATTTAAGC
1 TACAAATATTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGC
* * * *
19383761 TACAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATGAAAAC
1 TACAAATATTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGC
19383805 TACAA
1 TACAA
19383810 GTTACGAATC
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
44 72 0.99
45 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (44 bp):
TACAAATATTATCTCCCTGAAGTTACAGTGGAACAGATTAAAGC
Found at i:19383832 original size:139 final size:141
Alignment explanation
Indices: 19383578--19383834 Score: 322
Period size: 139 Copynumber: 1.8 Consensus size: 141
19383568 CTACAAATCG
* *
19383578 CAAATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTGAAGAATAGCAAATCTCATTTCCCTAAA
1 CAAATATTATCCCCCTAAAGTTGCAGTGGAGCAGATTGAAGAATAGCAAATCTCATTTCCCTAAA
** * * * *
19383643 GTTGTGATAGAACAGATTAAAGCTACAAGTTACAAATTTTATCTCCCTGAAGTTACAGTAAAGCA
66 GTTCAGATAGAACAGATGAAAACTACAAGTTACAAATCTTATCTCACTGAAGTTACAGTAAAGCA
19383708 ATTTAAAGCTA
131 ATTTAAAGCTA
* * * * * * *
19383719 CAAATATTATCTCCCTAAATTTGCAGTGGGGCAGATTTAAG-CTA-CAAATCTTATTTCCCTGAA
1 CAAATATTATCCCCCTAAAGTTGCAGTGGAGCAGATTGAAGAATAGCAAATCTCATTTCCCTAAA
* * *
19383782 GTTACAG-TGGAACAGATGAAAACTACAAGTTACGAATCTTATTTCACTGAAGT
66 GTT-CAGATAGAACAGATGAAAACTACAAGTTACAAATCTTATCTCACTGAAGT
19383835 AGTAGTGGAG
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
139 59 0.61
140 3 0.03
141 35 0.36
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (141 bp):
CAAATATTATCCCCCTAAAGTTGCAGTGGAGCAGATTGAAGAATAGCAAATCTCATTTCCCTAAA
GTTCAGATAGAACAGATGAAAACTACAAGTTACAAATCTTATCTCACTGAAGTTACAGTAAAGCA
ATTTAAAGCTA
Found at i:19390547 original size:38 final size:37
Alignment explanation
Indices: 19390499--19390586 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 37
19390489 ACAATTAATT
*
19390499 ATTTTTTAAAATTTAAAAATTCAAAATATATGTTATA
1 ATTTTTTAAAATTTAAAAATTAAAAATATATGTTATA
* * ** *
19390536 ATTTTTTTAAAAATTATATTTTAAAAATATATGTTTTA
1 A-TTTTTTAAAATTTAAAAATTAAAAATATATGTTATA
19390574 ATTTTTTAAAATT
1 ATTTTTTAAAATT
19390587 ATTAGATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 12 0.28
38 31 0.72
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (37 bp):
ATTTTTTAAAATTTAAAAATTAAAAATATATGTTATA
Found at i:19390559 original size:14 final size:15
Alignment explanation
Indices: 19390540--19390574 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
19390530 GTTATAATTT
19390540 TTTTAAAAAT-TATA
1 TTTTAAAAATATATA
*
19390554 TTTTAAAAATATATG
1 TTTTAAAAATATATA
19390569 TTTTAA
1 TTTTAA
19390575 TTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTTAAAAATATATA
Found at i:19390597 original size:38 final size:37
Alignment explanation
Indices: 19390499--19390607 Score: 105
Period size: 38 Copynumber: 2.9 Consensus size: 37
19390489 ACAATTAATT
* * *
19390499 ATTTTTTAAAATT-TAAAAATTCAAAATATATGTTATA
1 ATTTTTTAAAATTAT-TAATTTAAAAATATATGTTATA
* *
19390536 ATTTTTTTAAAAATTA-TATTTTAAAAATATATGTTTTA
1 A-TTTTTT-AAAATTATTAATTTAAAAATATATGTTATA
* *
19390574 ATTTTTTAAAATTATTAGATTTAATAATCTATGT
1 ATTTTTTAAAATTATTA-ATTTAAAAATATATGT
19390608 GGCATTCCAC
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
36 7 0.12
37 9 0.15
38 37 0.63
39 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (37 bp):
ATTTTTTAAAATTATTAATTTAAAAATATATGTTATA
Found at i:19393088 original size:23 final size:24
Alignment explanation
Indices: 19393034--19393087 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19393024 AAATAAATTG
*
19393034 TTAAAAATATTAATTTTTGGTTGA
1 TTAAAAATATTAATTTTCGGTTGA
*
19393058 TTAAAAATATTAATTTTCGGTTGG
1 TTAAAAATATTAATTTTCGGTTGA
19393082 TTAAAA
1 TTAAAA
19393088 TTTTTTAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (24 bp):
TTAAAAATATTAATTTTCGGTTGA
Found at i:19395043 original size:4 final size:4
Alignment explanation
Indices: 19395036--19395093 Score: 55
Period size: 4 Copynumber: 13.2 Consensus size: 4
19395026 AACTAAATAA
19395036 AAAT AAAT AAAT AAAT AAA- ATAAT AGAACCT AATAGT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT A-AAT A-AA--T AA-A-T AAAT AAAT AAAT
19395085 AAAT AAAT A
1 AAAT AAAT A
19395094 CTATGTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
3 1 0.02
4 35 0.74
5 4 0.09
6 4 0.09
7 3 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:19396887 original size:44 final size:44
Alignment explanation
Indices: 19396821--19397319 Score: 222
Period size: 44 Copynumber: 11.0 Consensus size: 44
19396811 AACTTGTCGC
*
19396821 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTGCTATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATA
* * *
19396865 TTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGGTTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTGCTATA
* ** * * **
19396910 TTCAATCTGCTCCACTACAACTTCATAGAGATAAGGTTTG-TAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTGCTATA
* * * * *
19396954 TTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTCGCTATAATAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATT-GC--T-AT-A
* ** *
19397003 CTTCAATCCG-TCCCACTGCAACTTCAGGGGTATGAGATTTG-TA-A
1 -TTCAATCTGCT-CCACTGCAACTTCAGGGAAATAAGA-TTGCTATA
* * * * * * * *
19397047 CTTCAATCTACTCTACTGTAATTTCAAGGAGATAAGATTTGTTATT
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTATA
* * * *
19397093 TTTAACCTGCTCCACTGCGACTTCAGGGAAATAAGGTTTG-TAATTTGTA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAA-GATTGCT-A----TA
* * * ** *
19397142 GCTTTAATCTGATCCACTACAACTTCAGGGAAATAAGATTTTTATC
1 --TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATA
* ** * * * * * * *
19397188 TTTAATCTATTCTACTACAACTTTAGAGAGATAAGATTTTCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTATA
* * * * *
19397233 TTCGATCTACTCTAATGCGAA-TTCAGGGAGATAAGA-T-CTATAA
1 TTCAATCTGCTCCACTGC-AACTTCAGGGAAATAAGATTGCTAT-A
* *
19397276 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTA
1 -TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTGCTA
19397320 CACTAACTTT
Statistics
Matches: 353, Mismatches: 72, Indels: 57
0.73 0.15 0.12
Matches are distributed among these distances:
42 4 0.01
43 6 0.02
44 157 0.44
45 108 0.31
46 6 0.02
47 5 0.01
48 1 0.00
49 2 0.01
50 31 0.09
51 33 0.09
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTGCTATA
Found at i:19397367 original size:323 final size:323
Alignment explanation
Indices: 19396769--19397367 Score: 713
Period size: 323 Copynumber: 1.9 Consensus size: 323
19396759 GGATTCATCA
* * *
19396769 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGCAACTTGTCGCTTCAATCTGTTCC
1 TTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTTGCAACTTGTAGCTTCAATCTGATCC
* * ** *
19396834 ACTGCAACTTCAGGGAAATAAGATTGCTATATTCAATCTGCTCCACTGTAACTTCAGGGAAATAA
66 ACTACAACTTCAGGGAAATAAGATTGCTATATTCAATCTACTCCACTACAACTTCAGAGAAATAA
* * * * * * * * * *
19396899 GGTTTGCTATCTTCAATCTGCTCCACTACAACTTCATAGAGATAAGGTTTGTAGCTTTAATCTGC
131 GATTTGCTATCTTCAATCTACTCCAATACAACTTCAGAGAGATAAGATCTATAACTTCAATCTAC
* * *
19396964 TCTACTGCAACTTTAGAGAGATAAGATTCGCTATAATAACTTCAATCCGTCCCACTGCAACTTCA
196 TCCACTGCAACTTCAGAGAGATAAGATTCGCTACAATAACTTCAATCCGTCCCACTGCAACTTCA
* *
19397029 GGGGTATGAGATTTGTAACTTCAATCTACTCTACTGTAATTTCAAGGAGATAAGATTTGTTAT
261 GAGGTAAGAGATTTGTAACTTCAATCTACTCTACTGTAATTTCAAGGAGATAAGATTTGTTAT
* * * *
19397092 TTTTAA-CCTGCTCCACTGCGACTTCAGGGAAATAAGG-TTTGTAATTTGTAGCTTTAATCTGAT
1 TTTTAATCC-GCTCCACTGCAACTTCAGGGAAAT-AGGATTTGCAACTTGTAGCTTCAATCTGAT
** * * * * * *
19397155 CCACTACAACTTCAGGGAAATAAGATTTTTATCTTTAATCTATTCTACTACAACTTTAGAGAGAT
64 CCACTACAACTTCAGGGAAATAAGATTGCTATATTCAATCTACTCCACTACAACTTCAGAGAAAT
* * * * *
19397220 AAGATTTTCTATCTTCGATCTACTCTAATGCGAA-TTCAGGGAGATAAGATCTATAACTTCAATC
129 AAGATTTGCTATCTTCAATCTACTCCAATAC-AACTTCAGAGAGATAAGATCTATAACTTCAATC
* * * * *
19397284 TACTCCACTGCAACTTCAGGGAGATAAGACTT-GCTACACTAACTTTAATCCGTCTCACTGTAAC
193 TACTCCACTGCAACTTCAGAGAGATAAGA-TTCGCTACAATAACTTCAATCCGTCCCACTGCAAC
19397348 TTCAGAGGTACAG-GATTTGT
257 TTCAGAGGTA-AGAGATTTGT
19397368 GGATTCACCG
Statistics
Matches: 226, Mismatches: 45, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
322 2 0.01
323 216 0.96
324 8 0.04
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (323 bp):
TTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTTGCAACTTGTAGCTTCAATCTGATCC
ACTACAACTTCAGGGAAATAAGATTGCTATATTCAATCTACTCCACTACAACTTCAGAGAAATAA
GATTTGCTATCTTCAATCTACTCCAATACAACTTCAGAGAGATAAGATCTATAACTTCAATCTAC
TCCACTGCAACTTCAGAGAGATAAGATTCGCTACAATAACTTCAATCCGTCCCACTGCAACTTCA
GAGGTAAGAGATTTGTAACTTCAATCTACTCTACTGTAATTTCAAGGAGATAAGATTTGTTAT
Found at i:19397996 original size:14 final size:14
Alignment explanation
Indices: 19397977--19398009 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
19397967 ACAGCATGAG
*
19397977 CTTCTCTGCACAAA
1 CTTCTCTACACAAA
19397991 CTTCTCTACACAAA
1 CTTCTCTACACAAA
19398005 CTTCT
1 CTTCT
19398010 TGATGACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.36, G:0.03, T:0.33
Consensus pattern (14 bp):
CTTCTCTACACAAA
Found at i:19408949 original size:3 final size:3
Alignment explanation
Indices: 19408941--19408968 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19408931 AGATTGCTTA
19408941 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19408969 TAAATTTATG
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19409172 original size:23 final size:22
Alignment explanation
Indices: 19409146--19409202 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
19409136 TATAAAAAGA
*
19409146 AAAATAATAGGTAAAAACCAAAT
1 AAAATAATAGATAAAAA-CAAAT
*
19409169 AAAATAAAATA-ATAAAAATAAAT
1 AAAAT--AATAGATAAAAACAAAT
19409192 AAAATAATAGA
1 AAAATAATAGA
19409203 ACGTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 4 0.14
22 1 0.03
23 14 0.48
24 6 0.21
25 4 0.14
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAATAATAGATAAAAACAAAT
Done.