Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008656.1 Hibiscus syriacus cultivar Beakdansim tig00111650_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2456495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 12
Found at i:1643164 original size:31 final size:31
Alignment explanation
Indices: 1643102--1643164 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
1643092 TTTATATATA
* * *
1643102 TATTTATTTATCTATATTTTCTTATTGCTTT
1 TATTTATTTATCTATATGTACATATTGCTTT
*
1643133 TATTTATTTATTTATTATGTACATATT-CTTT
1 TATTTATTTATCTA-TATGTACATATTGCTTT
1643164 T
1 T
1643165 TACTATGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (31 bp):
TATTTATTTATCTATATGTACATATTGCTTT
Found at i:1643213 original size:20 final size:19
Alignment explanation
Indices: 1643188--1643300 Score: 56
Period size: 20 Copynumber: 5.6 Consensus size: 19
1643178 TTATATTTTA
1643188 TTTATTTCATTTTTCTTGTC
1 TTTATTT-ATTTTTCTTGTC
*
1643208 TTTATTTTATATTTTCATCT-TG
1 TTTA-TTTAT-TTTTC-T-TGTC
*
1643230 TTT-TTTATTTTAT-TTGTTT
1 TTTATTTATTTT-TCTTG-TC
1643249 TTTATTTATTTGTTTTCTTGT-
1 TTTATTTA--T-TTTTCTTGTC
* *
1643270 TTT-TTTATTTTTGTTTTC
1 TTTATTTATTTTTCTTGTC
1643288 TTTATTTCATTTT
1 TTTATTT-ATTTT
1643301 GTTTATTTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 30
0.69 0.04 0.28
Matches are distributed among these distances:
17 8 0.11
18 5 0.07
19 10 0.14
20 25 0.34
21 11 0.15
22 8 0.11
23 7 0.09
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (19 bp):
TTTATTTATTTTTCTTGTC
Found at i:1643260 original size:15 final size:16
Alignment explanation
Indices: 1643212--1643264 Score: 72
Period size: 15 Copynumber: 3.2 Consensus size: 16
1643202 CTTGTCTTTA
*
1643212 TTTTATATTTTCATCTTG
1 TTTTTTATTTT-AT-TTG
1643230 TTTTTTATTTTATTTG
1 TTTTTTATTTTATTTG
1643246 TTTTTTA-TTTATTTG
1 TTTTTTATTTTATTTG
1643261 TTTT
1 TTTT
1643265 CTTGTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 12 0.35
16 10 0.29
17 2 0.06
18 10 0.29
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTATTTG
Found at i:1643271 original size:8 final size:7
Alignment explanation
Indices: 1643227--1643286 Score: 50
Period size: 8 Copynumber: 8.0 Consensus size: 7
1643217 TATTTTCATC
1643227 TTGTTTT
1 TTGTTTT
*
1643234 TTATTTTAT
1 TT-GTTT-T
1643243 TTGTTTT
1 TTGTTTT
*
1643250 TTATTTAT
1 TTGTTT-T
1643258 TTGTTTT
1 TTGTTTT
1643265 CTTGTTTT
1 -TTGTTTT
1643273 TT-TATTT
1 TTGT-TTT
1643280 TTGTTTT
1 TTGTTTT
1643287 CTTTATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
6 1 0.02
7 19 0.44
8 20 0.47
9 3 0.07
ACGTcount: A:0.08, C:0.02, G:0.08, T:0.82
Consensus pattern (7 bp):
TTGTTTT
Found at i:1643282 original size:22 final size:24
Alignment explanation
Indices: 1643246--1643289 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
1643236 ATTTTATTTG
1643246 TTTTTTATTTATTTGTTTTCTTGT
1 TTTTTTATTTATTTGTTTTCTTGT
1643270 TTTTTTA-TT-TTTGTTTTCTT
1 TTTTTTATTTATTTGTTTTCTT
1643290 TATTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.55
23 2 0.10
24 7 0.35
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTTTATTTATTTGTTTTCTTGT
Found at i:1643283 original size:14 final size:15
Alignment explanation
Indices: 1643266--1643294 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1643256 ATTTGTTTTC
1643266 TTGTTTT-TTTATTT
1 TTGTTTTCTTTATTT
1643280 TTGTTTTCTTTATTT
1 TTGTTTTCTTTATTT
1643295 CATTTTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (15 bp):
TTGTTTTCTTTATTT
Found at i:1643292 original size:39 final size:41
Alignment explanation
Indices: 1643225--1643304 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 41
1643215 TATATTTTCA
*
1643225 TCTTGTTTTTTATTTTATTTGTTTTTTATTT-A-TTTGTTT
1 TCTTGTTTTTTATTTTATTTGTTCTTTATTTCATTTTGTTT
1643264 TCTTGTTTTTTTATTTT-TGTT-TTCTTTATTTCATTTTGTTT
1 TCTTG-TTTTTTATTTTAT-TTGTTCTTTATTTCATTTTGTTT
1643305 ATTTTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
39 15 0.42
40 14 0.39
41 7 0.19
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (41 bp):
TCTTGTTTTTTATTTTATTTGTTCTTTATTTCATTTTGTTT
Found at i:1643302 original size:19 final size:18
Alignment explanation
Indices: 1643220--1643313 Score: 63
Period size: 19 Copynumber: 5.2 Consensus size: 18
1643210 TATTTTATAT
*
1643220 TTTCATCTTG-TTTTTTA
1 TTTCATTTTGTTTTTTTA
*
1643237 TTTTA-TTTG-TTTTTTA
1 TTTCATTTTGTTTTTTTA
*
1643253 TTT-A-TTTGTTTTCTTGTTT
1 TTTCATTTTG-TTT-TT-TTA
*
1643272 TTTTATTTTTGTTTTCTTTA
1 TTTCA-TTTTGTTTT-TTTA
1643292 TTTCATTTTGTTTATTTTA
1 TTTCATTTTGTTT-TTTTA
1643311 TTT
1 TTT
1643314 ACTTGTTATC
Statistics
Matches: 63, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.08
16 13 0.21
17 6 0.10
18 2 0.03
19 20 0.32
20 9 0.14
21 4 0.06
22 4 0.06
ACGTcount: A:0.11, C:0.05, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTCATTTTGTTTTTTTA
Found at i:1643329 original size:36 final size:33
Alignment explanation
Indices: 1643266--1643336 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 33
1643256 ATTTGTTTTC
* *
1643266 TTGTTTTTTTATTTTTGTTTTCTTTATTTCATT
1 TTGTTTTTTTATTTTTGTTATCCTTATTTCATT
*
1643299 TTGTTTATTTTATTTACTTGTTATCCTTATTTTATT
1 TTGTTT-TTTTATTT--TTGTTATCCTTATTTCATT
1643335 TT
1 TT
1643337 TTCCCTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 6 0.19
34 8 0.25
36 18 0.56
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.75
Consensus pattern (33 bp):
TTGTTTTTTTATTTTTGTTATCCTTATTTCATT
Found at i:1657447 original size:30 final size:28
Alignment explanation
Indices: 1657413--1657539 Score: 134
Period size: 30 Copynumber: 4.4 Consensus size: 28
1657403 CTTGAAGAAG
*
1657413 AAATGAAAAAAGGAAAAAGAGAAAAACGAA
1 AAATGAAAAAATG-AAAAGA-AAAAACGAA
1657443 AAATGAAGAAAATGAAAAATGAAAAAA--AA
1 AAATGAA-AAAATG-AAAA-GAAAAAACGAA
* * *
1657472 TAATAAAAAAATGAAAAGAAAAAATGAA
1 AAATGAAAAAATGAAAAGAAAAAACGAA
1657500 AAATGATGAAAAATGAAAAGAAAAAACGAA
1 AAATGA--AAAAATGAAAAGAAAAAACGAA
1657530 AAA-GAAAAAA
1 AAATGAAAAAA
1657540 AAAAGATGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
26 7 0.08
27 9 0.11
28 12 0.14
29 9 0.11
30 31 0.36
31 15 0.18
32 2 0.02
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.09
Consensus pattern (28 bp):
AAATGAAAAAATGAAAAGAAAAAACGAA
Found at i:1657454 original size:9 final size:8
Alignment explanation
Indices: 1657413--1657518 Score: 63
Period size: 7 Copynumber: 14.1 Consensus size: 8
1657403 CTTGAAGAAG
1657413 AAATGAAA
1 AAATGAAA
*
1657421 AAA-GGAA
1 AAATGAAA
1657428 AAA-GAGAA
1 AAATGA-AA
*
1657436 AAACG-AA
1 AAATGAAA
1657443 AAATGAAGA
1 AAATGAA-A
1657452 AAATG-AA
1 AAATGAAA
1657459 AAATG-AA
1 AAATGAAA
1657466 AAA--AAA
1 AAATGAAA
* *
1657472 TAATAAAA
1 AAATGAAA
1657480 AAATG--A
1 AAATGAAA
1657486 AAA-GAAA
1 AAATGAAA
1657493 AAATG-AA
1 AAATGAAA
1657500 AAATGATGAA
1 AAATGA--AA
1657510 AAATGAAA
1 AAATGAAA
1657518 A
1 A
1657519 GAAAAAACGA
Statistics
Matches: 79, Mismatches: 6, Indels: 26
0.71 0.05 0.23
Matches are distributed among these distances:
5 1 0.01
6 8 0.10
7 35 0.44
8 20 0.25
9 7 0.09
10 8 0.10
ACGTcount: A:0.74, C:0.01, G:0.15, T:0.10
Consensus pattern (8 bp):
AAATGAAA
Found at i:1657454 original size:16 final size:15
Alignment explanation
Indices: 1657413--1657539 Score: 99
Period size: 13 Copynumber: 8.7 Consensus size: 15
1657403 CTTGAAGAAG
*
1657413 AAATGAAAAAAGGAA
1 AAATGAAAAAACGAA
1657428 AAA-GAGAAAAACGAA
1 AAATGA-AAAAACGAA
*
1657443 AAATGAAGAAAATGAA
1 AAATGAA-AAAACGAA
1657459 AAATGAAAAAA--AA
1 AAATGAAAAAACGAA
* * *
1657472 TAATAAAAAAATG-A
1 AAATGAAAAAACGAA
*
1657486 AAA-GAAAAAATGAA
1 AAATGAAAAAACGAA
*
1657500 AAATGATGAAAAATG-A
1 AAATGA--AAAAACGAA
1657516 AAA-GAAAAAACGAA
1 AAATGAAAAAACGAA
1657530 AAA-GAAAAAA
1 AAATGAAAAAA
1657540 AAAAGATGAT
Statistics
Matches: 95, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
13 25 0.26
14 20 0.21
15 23 0.24
16 20 0.21
17 7 0.07
ACGTcount: A:0.75, C:0.02, G:0.15, T:0.09
Consensus pattern (15 bp):
AAATGAAAAAACGAA
Found at i:1657483 original size:21 final size:21
Alignment explanation
Indices: 1657457--1657538 Score: 71
Period size: 21 Copynumber: 3.8 Consensus size: 21
1657447 GAAGAAAATG
1657457 AAAAATGAAAAAAAATAAT-AA
1 AAAAATGAAAAAAAA-AATGAA
1657478 AAAAATGAAAAGAAAAAATGAA
1 AAAAATGAAAA-AAAAAATGAA
* *
1657500 AAATGATGAAAAATGAAAA-G-A
1 AAA-AATGAAAAA-AAAAATGAA
*
1657521 AAAAACGAAAAAGAAAAA
1 AAAAATGAAAAA-AAAAA
1657539 AAAAAGATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 11 0.22
21 18 0.35
22 11 0.22
23 11 0.22
ACGTcount: A:0.77, C:0.01, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAATGAAAAAAAAAATGAA
Found at i:1657531 original size:43 final size:44
Alignment explanation
Indices: 1657427--1657566 Score: 155
Period size: 44 Copynumber: 3.2 Consensus size: 44
1657417 GAAAAAAGGA
**
1657427 AAAAGAGAAAAACGAAAAATGAAGAAAATGAAAAATGAAAAAAAAT-
1 AAAAGA-AAAAACGAAAAA-GAA-AAAATGAAAAATGATGAAAAATG
* *
1657473 AATA-AAAAAATG-AAAAGAAAAAATGAAAAATGATGAAAAATG
1 AAAAGAAAAAACGAAAAAGAAAAAATGAAAAATGATGAAAAATG
*
1657515 AAAAGAAAAAACGAAAAAGAAAAAA--AAAAGATGATGAAAAAAG
1 AAAAGAAAAAACGAAAAAGAAAAAATGAAAA-ATGATGAAAAATG
1657558 AAAAAGAAA
1 -AAAAGAAA
1657567 TAAAAGGGGG
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
41 20 0.24
42 10 0.12
43 23 0.28
44 25 0.30
45 1 0.01
46 3 0.04
ACGTcount: A:0.75, C:0.01, G:0.15, T:0.09
Consensus pattern (44 bp):
AAAAGAAAAAACGAAAAAGAAAAAATGAAAAATGATGAAAAATG
Found at i:1657532 original size:8 final size:7
Alignment explanation
Indices: 1657407--1657566 Score: 59
Period size: 7 Copynumber: 21.9 Consensus size: 7
1657397 ATTTCACTTG
1657407 AAGAAGAA
1 AAGAA-AA
*
1657415 ATGAAAA
1 AAGAAAA
1657422 AAGGAAAA
1 AA-GAAAA
1657430 AGAGAAAA
1 A-AGAAAA
*
1657438 ACGAAAA
1 AAGAAAA
*
1657445 ATGAAGAA
1 AAGAA-AA
1657453 AATGAAAA
1 AA-GAAAA
*
1657461 ATGAAAA
1 AAGAAAA
1657468 AA-AATAA
1 AAGAA-AA
1657475 TAA-AAAA
1 -AAGAAAA
*
1657482 ATG--AA
1 AAGAAAA
1657487 AAGAAAA
1 AAGAAAA
1657494 AATGAAAA
1 AA-GAAAA
1657502 ATGATGAAAA
1 A--A-GAAAA
*
1657512 ATG--AA
1 AAGAAAA
1657517 AAGAAAA
1 AAGAAAA
1657524 AACG-AAA
1 AA-GAAAA
1657531 AAGAAAA
1 AAGAAAA
1657538 AA-AAAA
1 AAGAAAA
1657544 GATGATGAAAA
1 -A--A-GAAAA
1657555 AAG-AAA
1 AAGAAAA
1657561 AAGAAA
1 AAGAAA
1657567 TAAAAGGGGG
Statistics
Matches: 119, Mismatches: 11, Indels: 45
0.68 0.06 0.26
Matches are distributed among these distances:
5 8 0.07
6 14 0.12
7 45 0.38
8 34 0.29
9 5 0.04
10 9 0.08
11 4 0.03
ACGTcount: A:0.74, C:0.01, G:0.16, T:0.08
Consensus pattern (7 bp):
AAGAAAA
Found at i:1657532 original size:51 final size:47
Alignment explanation
Indices: 1657426--1657543 Score: 123
Period size: 51 Copynumber: 2.4 Consensus size: 47
1657416 TGAAAAAAGG
*
1657426 AAAAAGAGAAAAACGAAAAATGAAGAAAATGAAAAATGAAAAAAAATAATA
1 AAAAA-AGAAAAA--AAAAATGAAGAAAATGAAAAATGAAAAAAAATAA-C
1657477 AAAAAATGAAAAGAAAAAATGAA-AAATGATGAAAAATGAAAAGAAAA-AAC
1 AAAAAA-GAAAA-AAAAAATGAAGAAA--ATGAAAAATGAAAA-AAAATAAC
*
1657527 GAAAAAGAAAAAAAAAA
1 AAAAAAGAAAAAAAAAA
1657544 GATGATGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
48 6 0.10
49 8 0.13
50 15 0.25
51 26 0.43
52 5 0.08
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (47 bp):
AAAAAAGAAAAAAAAAATGAAGAAAATGAAAAATGAAAAAAAATAAC
Found at i:1657540 original size:58 final size:59
Alignment explanation
Indices: 1657418--1657540 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 59
1657408 AGAAGAAATG
* *
1657418 AAAAAAGGAAAAAGAGAAAAACGAAAAATGAAGAAAATGAAAAATGAAAAAAAATAATA
1 AAAAAAGGAAAAAGAGAAAAACGAAAAATGAAGAAAATGAAAAATGAAAAAAAAAAAGA
* * *
1657477 AAAAAATG-AAAAGA-AAAAATGAAAAATGATGAAAAATG-AAAA-GAAAAAACGAAAAAGA
1 AAAAAAGGAAAAAGAGAAAAACGAAAAATGAAG-AAAATGAAAAATGAAAAAA--AAAAAGA
1657535 AAAAAA
1 AAAAAA
1657541 AAAGATGATG
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
56 7 0.12
57 19 0.34
58 23 0.41
59 7 0.12
ACGTcount: A:0.76, C:0.02, G:0.15, T:0.08
Consensus pattern (59 bp):
AAAAAAGGAAAAAGAGAAAAACGAAAAATGAAGAAAATGAAAAATGAAAAAAAAAAAGA
Found at i:1657542 original size:30 final size:29
Alignment explanation
Indices: 1657451--1657571 Score: 95
Period size: 30 Copynumber: 4.1 Consensus size: 29
1657441 AAAAATGAAG
** *
1657451 AAAATGAAAA-ATGAAA-AAAAATAATAAA
1 AAAATGAAAAGAAAAAAGAAAAAGAA-AAA
**
1657479 AAAATGAAAAGAAAAAATGAAAAATG-ATGA
1 AAAATGAAAAGAAAAAA-GAAAAA-GAAAAA
1657509 AAAATGAAAAGAAAAAACGAAAAAGAAAAA
1 AAAATGAAAAGAAAAAA-GAAAAAGAAAAA
* * * *
1657539 AAAAAGATGATGAAAAAAGAAAAAGAAATA
1 AAAATGA-AAAGAAAAAAGAAAAAGAAAAA
1657569 AAA
1 AAA
1657572 GGGGGTTCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
28 10 0.13
29 5 0.07
30 46 0.61
31 14 0.19
ACGTcount: A:0.76, C:0.01, G:0.13, T:0.10
Consensus pattern (29 bp):
AAAATGAAAAGAAAAAAGAAAAAGAAAAA
Found at i:1658891 original size:37 final size:37
Alignment explanation
Indices: 1658834--1658911 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1658824 CATTCGAAAT
* * * * *
1658834 AAATCAAACTTAAGCCTTCACGGAAGAGTAGCGAAGC
1 AAATCAAACTGAAGCATTCACAGAAGAATAGCGAAGA
*
1658871 AAATCAAACTGAAGCATTCACAGAAGAATAGTGAAGA
1 AAATCAAACTGAAGCATTCACAGAAGAATAGCGAAGA
1658908 AAAT
1 AAAT
1658912 GAAGATTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (37 bp):
AAATCAAACTGAAGCATTCACAGAAGAATAGCGAAGA
Found at i:1659002 original size:55 final size:55
Alignment explanation
Indices: 1658911--1659402 Score: 523
Period size: 55 Copynumber: 8.9 Consensus size: 55
1658901 GTGAAGAAAA
** * *
1658911 TGAAGATTGTTCGAGTATTATACTC-CTTGAACGAATA-AGGAGCAGACCCGTTT-T
1 TGAAGATTGTTCGAGTCCTATACTCTC-TGAAGGAATAGA-GAGCGGACCCGTTTGT
* *
1658965 ATGAAGATTGTTCAAGTCCCATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
1 -TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * * * *
1659021 TGAAGATTTTTTGAGTCCTATACTCTCTGATA-GAATAGGGAGGGAGCAGACTCGTTTAT
1 TGAAGATTGTTCGAGTCCTATACTCTCTGA-AGGAATA--GA--GAGCGGACCCGTTTGT
* * **
1659080 TGAAGATTGTTCGAGTTCTATACTCTCTCAAGGAATAGAGAGCGGAATCGTTTGT
1 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * *
1659135 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGGCCCATTTGT
1 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * *
1659190 TGAAAATTGTTCGAGTCCTATACTCTCT-CAGGAATAGAGAGC-GACTC-TTTGT
1 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * *
1659242 TGAAGATTGTTCAAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTAT
1 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * * * * * * *
1659297 TGAAGATTGTTCGAGTCTTATTCTCCCTGAACGAATAGGGAGCAGACACGTTTGC
1 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
* * * *
1659352 TGAAGATTGTTCGAGTCTTATACTC-CTTGAAAGAATGGGGAGCGGACCCGT
1 TGAAGATTGTTCGAGTCCTATACTCTC-TGAAGGAATAGAGAGCGGACCCGT
1659403 CATTCGAAGT
Statistics
Matches: 372, Mismatches: 52, Indels: 26
0.83 0.12 0.06
Matches are distributed among these distances:
52 30 0.08
53 16 0.04
54 18 0.05
55 255 0.69
56 4 0.01
57 4 0.01
58 1 0.00
59 44 0.12
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGT
Found at i:1659363 original size:162 final size:166
Alignment explanation
Indices: 1658911--1659376 Score: 563
Period size: 162 Copynumber: 2.8 Consensus size: 166
1658901 GTGAAGAAAA
* *
1658911 TGAAGATTGTTCGAGTAT-TATACTC-CTTGAACGAATA-AGGAGCAGACCCGTTTTATGAAGAT
1 TGAAGATTGTTCGAGT-TCTATACTCTC-TGAAGGAATAGA-GAGCGGACCCGTTTT-TGAAGAT
* ** * *
1658973 TGTTCAAGTCCCATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTTTTTGAGTC
62 TGTTCGAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTC
*
1659038 CTATACTCTCTGATAGAATAGGGAGGGAGCAGACTCGTTTAT
127 CTATACTCTCTCATAGAATA-GGA-GGAGCAGACTCGTTTAT
* **
1659080 TGAAGATTGTTCGAGTTCTATACTCTCTCAAGGAATAGAGAGCGGAATCGTTTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TTGAAGATTGT
* * *
1659145 TCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGGCCCATTTGTTGAAAATTGTTCGAGTCCT
65 TCGAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTCCT
* *
1659209 ATACTCTCTCA-GGAATA-GA-GAGC-GACTC-TTTGT
129 ATACTCTCTCATAGAATAGGAGGAGCAGACTCGTTTAT
*
1659242 TGAAGATTGTTCAAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTATTGAAGATTGT
1 TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TTGAAGATTGT
* * * * * * * *
1659307 TCGAGTCTTATTCTCCCTGAACGAATAGGGAGCAGACACGTTTGCTGAAGATTGTTCGAGTCTTA
65 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTCCTA
1659372 TACTC
130 TACTC
1659377 CTTGAAAGAA
Statistics
Matches: 259, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
162 121 0.47
163 6 0.02
164 4 0.02
166 2 0.01
168 6 0.02
169 117 0.45
170 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (166 bp):
TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTTGAAGATTGTT
CGAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTCCTAT
ACTCTCTCATAGAATAGGAGGAGCAGACTCGTTTAT
Found at i:1666972 original size:64 final size:64
Alignment explanation
Indices: 1666893--1667183 Score: 474
Period size: 64 Copynumber: 4.5 Consensus size: 64
1666883 TGCAGCTTTT
* * * *
1666893 AGAGTCAATTTCAACTTCACAGCGAATGATATTGGAATCAACAAACAACTTTCCAGCTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
1666957 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAACAACTTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* *
1667021 AGAGTCAATTTCAACTTCACAACGAATGATATTGGACTCAACAAACAACTTTCCAATTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
* * * *
1667085 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTTAACAAACAACTTTCTAGTTTTAGTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
*
1667149 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTGG
1667184 TCTCGAAGAG
Statistics
Matches: 212, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 212 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTCATTC
Found at i:1667790 original size:124 final size:124
Alignment explanation
Indices: 1667338--1667874 Score: 663
Period size: 124 Copynumber: 4.4 Consensus size: 124
1667328 AACAACCCTA
* * *
1667338 GGATTTTAACTTCACAACGAAGGATATCCAATACAAGGCTCAACTTCACAACAAAGGGGCCATCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
** * * *
1667403 ACGATTTCAACTTCACGACGTGGGATATCATGCCCACCAGCAACATTGATCTTTAGATT
66 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAACAACATTCATCTTTAGATT
*** * * * * *
1667462 GGATTTCAACTTCATTTCGAAGGATATCTAATTAAAGGCTCAAATTCACAACGAATGGGTCATCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
1667527 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAACAACATTCATCTTTAGATT
66 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAACAACATTCATCTTTAGATT
* * * *
1667586 GGATATCAACTTCACGATGAAGTATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
* * * *
1667651 ACGATTTCAACTTCATGACGAAGGATATCGTGCCCACCAATAACATCCCTCTTTAGATT
66 ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAACAACATTCATCTTTAGATT
*
1667710 GGATTTTAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
** * * *
1667775 ATAATTTCAACTTCATGAC-AATTGATATTGTG-----C--C-A-A--C-TC--TAGATT
66 ACGATTTCAACTTCACGACGAA-GGATATCGTGCCCACCAACAACATTCATCTTTAGATT
* * *
1667820 GGATTTCAACTTCACAACAAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAA
1 GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA
1667875 TGAGCTTTCC
Statistics
Matches: 367, Mismatches: 45, Indels: 16
0.86 0.11 0.04
Matches are distributed among these distances:
110 57 0.16
112 2 0.01
113 1 0.00
115 1 0.00
116 1 0.00
119 1 0.00
123 2 0.01
124 302 0.82
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (124 bp):
GGATTTCAACTTCACAACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGGCCATCC
ACGATTTCAACTTCACGACGAAGGATATCGTGCCCACCAACAACATTCATCTTTAGATT
Found at i:1669445 original size:24 final size:26
Alignment explanation
Indices: 1669407--1669454 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
1669397 CTTATAATCA
*
1669407 AAAGATGAAGAAG-TTATGAATGATT
1 AAAGATGAAGAAGTTTATAAATGATT
*
1669432 AAAG-TGAAGGAGTTTATAAATGA
1 AAAGATGAAGAAGTTTATAAATGA
1669455 ATTTATGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (26 bp):
AAAGATGAAGAAGTTTATAAATGATT
Found at i:1669814 original size:23 final size:20
Alignment explanation
Indices: 1669759--1669801 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1669749 ATTTCTATAG
*
1669759 GGGTATCGATACCTTAGGTA
1 GGGTATCGATACCTCAGGTA
* *
1669779 GGGTACCGATACCTCAGTTA
1 GGGTATCGATACCTCAGGTA
1669799 GGG
1 GGG
1669802 GTGTATCGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCTCAGGTA
Found at i:1670415 original size:22 final size:22
Alignment explanation
Indices: 1670387--1670447 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
1670377 AGGTCTACGC
*
1670387 GGTCCTTCAGGACATATACAGA
1 GGTCCTTCAGGACAAATACAGA
*
1670409 GGTCCTTCAGGACAAATACATA
1 GGTCCTTCAGGACAAATACAGA
*
1670431 GGTCCTTCGGGACAAAT
1 GGTCCTTCAGGACAAAT
1670448 TTCACATGCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (22 bp):
GGTCCTTCAGGACAAATACAGA
Found at i:1671010 original size:21 final size:21
Alignment explanation
Indices: 1670973--1671068 Score: 156
Period size: 21 Copynumber: 4.5 Consensus size: 21
1670963 TGGATCGAAA
*
1670973 ACACTGTAGCAAGGGTATCGGT
1 ACACTGTAGC-AGGGTATCGAT
1670995 ACACTGTAGCAGGGTATCGAT
1 ACACTGTAGCAGGGTATCGAT
1671016 ACACTGTAGCAGGGTATCGAT
1 ACACTGTAGCAGGGTATCGAT
1671037 ACACTGTAGCAGGGTATCGAT
1 ACACTGTAGCAGGGTATCGAT
*
1671058 ACCCTTGTAGC
1 ACAC-TGTAGC
1671069 GTTCTGGAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
21 55 0.77
22 16 0.23
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (21 bp):
ACACTGTAGCAGGGTATCGAT
Found at i:1671888 original size:26 final size:23
Alignment explanation
Indices: 1671841--1671896 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
1671831 ATATAAATAA
1671841 TTATATTTTTTTCATTTATTTATT
1 TTATATTTTTTTCATTTATTTA-T
* *
1671865 TTATATATTTTTTCTTTCTGTTTAT
1 TTATAT-TTTTTTCATT-TATTTAT
1671890 TTATATT
1 TTATATT
1671897 ATTAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.25
25 16 0.57
26 5 0.18
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATATTTTTTTCATTTATTTAT
Found at i:1671892 original size:25 final size:24
Alignment explanation
Indices: 1671841--1671928 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 24
1671831 ATATAAATAA
1671841 TTATATTTTTTTCATTTATTTATT
1 TTATATTTTTTTCATTTATTTATT
* *
1671865 TTATATATTTTTTCTTTCTGTTTATT
1 TTATAT-TTTTTTCATT-TATTTATT
*
1671891 TATATTATTAATTTTT-TTTTATTCTATT
1 T-TA-TATT--TTTTTCATTTATT-TATT
*
1671919 ATATATTTTT
1 TTATATTTTT
1671929 ATATCATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
24 9 0.17
25 9 0.17
26 12 0.23
27 8 0.15
28 10 0.19
29 5 0.09
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.73
Consensus pattern (24 bp):
TTATATTTTTTTCATTTATTTATT
Found at i:1671948 original size:2 final size:2
Alignment explanation
Indices: 1671941--1671975 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1671931 ATCATTATTT
1671941 TA TA TA TA TA 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 TA TA TA TA TA T
1671976 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1672186 original size:67 final size:67
Alignment explanation
Indices: 1672080--1672263 Score: 178
Period size: 67 Copynumber: 2.7 Consensus size: 67
1672070 TTTTACTATG
* * *
1672080 ATTTTCCTATATTTTATTTATTTCATTTT-TTCT-TGTTTTTATTTTTTATCTTTTCAT-CTTGT
1 ATTTT-CTTTATTTTATTTATTT-ATTTTCTT-TAT-TTTTTATTTTTT-TCATTT-ATGCTTCT
1672142 TTATTTT-
60 TTATTTTC
* * * *
1672149 ATTTTGTTTATTTTATTTATTTATTTTCTTTATTTTTTAGTTATTTCATTTATGTTTCTTTATTT
1 ATTTTCTTTATTTTATTTATTTATTTTCTTTATTTTTTATTTTTTTCATTTATGCTTCTTTATTT
1672214 TC
66 TC
* * *
1672216 ATTTTCTTTATTTTATTTACTTGTTATCTTTATTTTATTATATTTTTT
1 ATTTTCTTTATTTTATTTATTTATTTTCTTTATTTT-TTAT-TTTTTT
1672264 TCCTATATCT
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
65 2 0.02
66 15 0.16
67 48 0.50
68 21 0.22
69 10 0.10
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (67 bp):
ATTTTCTTTATTTTATTTATTTATTTTCTTTATTTTTTATTTTTTTCATTTATGCTTCTTTATTT
TC
Found at i:1672223 original size:15 final size:14
Alignment explanation
Indices: 1672141--1672261 Score: 79
Period size: 15 Copynumber: 8.2 Consensus size: 14
1672131 TTTCATCTTG
*
1672141 TTTATTTTATTT-T
1 TTTATTTTCTTTAT
*
1672154 GTTTATTTTATTTA-
1 -TTTATTTTCTTTAT
1672168 TTTATTTTCTTTAT
1 TTTATTTTCTTTAT
*
1672182 TTT-TTAGTTATTTCA-
1 TTTATT--TTCTTT-AT
1672197 TTTATGTTTCTTTAT
1 TTTAT-TTTCTTTAT
1672212 TTTCATTTTCTTTAT
1 TTT-ATTTTCTTTAT
*
1672227 TTTATTTACTTGTTAT
1 TTTATTTTC-T-TTAT
*
1672243 CTTTATTTTATTATAT
1 -TTTATTTTCTT-TAT
1672259 TTT
1 TTT
1672262 TTTCCTATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
13 14 0.16
14 21 0.24
15 33 0.38
16 12 0.14
17 8 0.09
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTATTTTCTTTAT
Found at i:1672228 original size:9 final size:9
Alignment explanation
Indices: 1672168--1672234 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 9
1672158 ATTTTATTTA
1672168 TTTATTTTC
1 TTTATTTTC
*
1672177 TTTATTTTT
1 TTTATTTTC
1672186 TAGTTA-TTTC
1 T--TTATTTTC
1672196 ATTTATGTTTC
1 -TTTAT-TTTC
1672207 TTTATTTTC
1 TTTATTTTC
1672216 ---ATTTTC
1 TTTATTTTC
*
1672222 TTTATTTTA
1 TTTATTTTC
1672231 TTTA
1 TTTA
1672235 CTTGTTATCT
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
6 6 0.13
9 25 0.53
10 8 0.17
11 8 0.17
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTATTTTC
Found at i:1672232 original size:5 final size:5
Alignment explanation
Indices: 1672141--1672261 Score: 62
Period size: 5 Copynumber: 24.6 Consensus size: 5
1672131 TTTCATCTTG
* *
1672141 TTTAT TTTAT TTT-G TTTAT TTTA- TTTA- TTTAT TTT-C TTTAT TTT-T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* * *
1672186 TAGTTAT TTCA- TTTAT GTTT-C TTTAT TTTCAT TTT-C TTTAT TTTA-
1 T--TTAT TTTAT TTTAT -TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT
*
1672231 TTTACT TGTTAT CTTTAT TTTAT TATAT TTT
1 TTTA-T T-TTAT -TTTAT TTTAT TTTAT TTT
1672262 TTTCCTATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
4 29 0.33
5 38 0.43
6 16 0.18
7 6 0.07
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:1673489 original size:73 final size:73
Alignment explanation
Indices: 1673362--1673499 Score: 233
Period size: 73 Copynumber: 1.9 Consensus size: 73
1673352 CCTGGAAGGG
*
1673362 GGAGTTAGCGTTCCCCTTAAACTAAGAAATATAAACATAGAGTTTTATTTATTTTTTTTGGGGGG
1 GGAGTTAGCGTTCCCCTTAAACTAAGAAATATAAACATAGAGTTTTATTAATTTTTTTTGGGGGG
1673427 GGGGGGGT
66 GGGGGGGT
* *
1673435 GGAGTTAGCGTTCCCCTTAAACTAAGAAATATAAACATAGGGATTTT-TTAATTTTTTTTTGGGG
1 GGAGTTAGCGTTCCCCTTAAACTAAGAAATATAAACATAGAG-TTTTATTAATTTTTTTTGGGGG
1673499 G
65 G
1673500 ACGCATTCAC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
73 57 0.93
74 4 0.07
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (73 bp):
GGAGTTAGCGTTCCCCTTAAACTAAGAAATATAAACATAGAGTTTTATTAATTTTTTTTGGGGGG
GGGGGGGT
Found at i:1674342 original size:16 final size:16
Alignment explanation
Indices: 1674321--1674351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1674311 ATTATTAGAT
*
1674321 TTTAACTCGAATTAAA
1 TTTAACTCAAATTAAA
1674337 TTTAACTCAAATTAA
1 TTTAACTCAAATTAA
1674352 TGAATGATAA
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:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTAACTCAAATTAAA
Found at i:1675119 original size:27 final size:26
Alignment explanation
Indices: 1675087--1675183 Score: 87
Period size: 27 Copynumber: 3.7 Consensus size: 26
1675077 TAACTAAATT
1675087 AAAAAA-ATAATAAAAAAGGAAAGAAA
1 AAAAAAGATAATAAAAAA-GAAAGAAA
*
1675113 AATAAAAGA-AATAAAAAA-ACAGAAA
1 AA-AAAAGATAATAAAAAAGAAAGAAA
*
1675138 CAAAAAA-AGTAATAAAACAG-AAGCAAAA
1 -AAAAAAGA-TAATAAAAAAGAAAG--AAA
1675166 AAAAAAGATAATAAAAAA
1 AAAAAAGATAATAAAAAA
1675184 TAAAAAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
24 1 0.02
25 10 0.17
26 14 0.24
27 28 0.48
28 5 0.09
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.08
Consensus pattern (26 bp):
AAAAAAGATAATAAAAAAGAAAGAAA
Found at i:1675128 original size:26 final size:25
Alignment explanation
Indices: 1675099--1675182 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 25
1675089 AAAAATAATA
*
1675099 AAAAAGGAAAGAAAAATAAAAGAAAT
1 AAAAA-GAAAGAAAAAAAAAAGAAAT
*
1675125 AAAAA-AACAGAAACAAAAAAAGTAAT
1 AAAAAGAA-AGAAA-AAAAAAAGAAAT
1675151 AAAACAG-AAGCAAAAAAAAAAGATAAT
1 AAAA-AGAAAG-AAAAAAAAAAGA-AAT
1675178 AAAAA
1 AAAAA
1675183 ATAAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
24 2 0.04
25 5 0.10
26 30 0.61
27 12 0.24
ACGTcount: A:0.77, C:0.05, G:0.11, T:0.07
Consensus pattern (25 bp):
AAAAAGAAAGAAAAAAAAAAGAAAT
Found at i:1675136 original size:14 final size:13
Alignment explanation
Indices: 1675087--1675183 Score: 65
Period size: 13 Copynumber: 7.2 Consensus size: 13
1675077 TAACTAAATT
1675087 AAAA-AAATAATAA
1 AAAAGAAATAA-AA
*
1675100 AAAAGGAAAGAAAAA
1 AAAA-GAAA-TAAAA
1675115 TAAAAGAAATAAAA
1 -AAAAGAAATAAAA
*
1675129 AAACAGAAA-CAAA
1 AAA-AGAAATAAAA
*
1675142 AAAAGTAATAAAA
1 AAAAGAAATAAAA
* *
1675155 CAGAAGCAA-AAAA
1 -AAAAGAAATAAAA
1675168 AAAAGATAATAAAA
1 AAAAGA-AATAAAA
1675182 AA
1 AA
1675184 TAAAAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.12
13 22 0.33
14 21 0.32
15 9 0.14
16 6 0.09
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.08
Consensus pattern (13 bp):
AAAAGAAATAAAA
Found at i:1675137 original size:29 final size:29
Alignment explanation
Indices: 1675086--1675143 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1675076 TTAACTAAAT
*
1675086 TAAAAAAATAATAAAAAAGGAAAGAAAAA
1 TAAAAAAATAATAAAAAAGGAAACAAAAA
1675115 TAAAAGAAATAA-AAAAACA-GAAACAAAAA
1 TAAAA-AAATAATAAAAA-AGGAAACAAAAA
1675144 AAGTAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (29 bp):
TAAAAAAATAATAAAAAAGGAAACAAAAA
Found at i:1675144 original size:30 final size:29
Alignment explanation
Indices: 1675086--1675154 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
1675076 TTAACTAAAT
*
1675086 TAAAAAAATAATAAAAAAGGAAAGAAAAA
1 TAAAAAAATAATAAAAAAGGAAAAAAAAA
*
1675115 TAAAAGAAATAA-AAAAACAGAAACAAAAAAA
1 TAAAA-AAATAATAAAAA-AGGAA-AAAAAAA
*
1675146 GTAATAAAA
1 -TAAAAAAA
1675155 CAGAAGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 10 0.30
30 10 0.30
31 9 0.27
32 4 0.12
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (29 bp):
TAAAAAAATAATAAAAAAGGAAAAAAAAA
Found at i:1675176 original size:24 final size:23
Alignment explanation
Indices: 1675128--1675176 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1675118 AAGAAATAAA
**
1675128 AAAACAGAAACAAAAAAAGTAAT
1 AAAACAGAAACAAAAAAAAAAAT
*
1675151 AAAACAGAAGCAAAAAAAAAAGAT
1 AAAACAGAAACAAAAAAAAAA-AT
1675175 AA
1 AA
1675177 TAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.76, C:0.08, G:0.10, T:0.06
Consensus pattern (23 bp):
AAAACAGAAACAAAAAAAAAAAT
Found at i:1676605 original size:18 final size:18
Alignment explanation
Indices: 1676565--1676611 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
1676555 ATTTTTATTC
1676565 TATATA-AGTATAGTATA
1 TATATATAGTATAGTATA
1676582 TA-ATATAGTAT-GTATA
1 TATATATAGTATAGTATA
*
1676598 TATTATATAATATA
1 TA-TATATAGTATA
1676612 ATACATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 10 0.40
17 7 0.28
18 8 0.32
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (18 bp):
TATATATAGTATAGTATA
Found at i:1676620 original size:23 final size:23
Alignment explanation
Indices: 1676573--1676620 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1676563 TCTATATAAG
* **
1676573 TATAGTATATAATATAGTATGTA
1 TATAGTATATAATATAATACATA
*
1676596 TATATTATATAATATAATACATA
1 TATAGTATATAATATAATACATA
1676619 TA
1 TA
1676621 CACTATACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (23 bp):
TATAGTATATAATATAATACATA
Found at i:1676627 original size:23 final size:23
Alignment explanation
Indices: 1676578--1676627 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1676568 ATAAGTATAG
* ** * *
1676578 TATATAATATAGTATGTATATAT
1 TATATAATATAATACATATACAC
1676601 TATATAATATAATACATATACAC
1 TATATAATATAATACATATACAC
1676624 TATA
1 TATA
1676628 CACTATAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (23 bp):
TATATAATATAATACATATACAC
Found at i:1678361 original size:14 final size:15
Alignment explanation
Indices: 1678342--1678373 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1678332 TTTTCTTTTC
1678342 TTTTTCT-TTTTCAA
1 TTTTTCTCTTTTCAA
1678356 TTTTTCTCTTTTCAA
1 TTTTTCTCTTTTCAA
1678371 TTT
1 TTT
1678374 AGGGAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTCTCTTTTCAA
Found at i:1686261 original size:21 final size:21
Alignment explanation
Indices: 1686237--1686297 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
1686227 ATTCGAGGGT
*
1686237 TATATGAGGTCTTTCGGGACA
1 TATATGAGGTCCTTCGGGACA
1686258 TATATGAGGTCCTTCGGGACA
1 TATATGAGGTCCTTCGGGACA
*
1686279 TACATGAGGTCCTTCGGGA
1 TATATGAGGTCCTTCGGGA
1686298 TAAATTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (21 bp):
TATATGAGGTCCTTCGGGACA
Found at i:1687770 original size:20 final size:19
Alignment explanation
Indices: 1687745--1687783 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1687735 GTGAATGTAA
1687745 AAACATGGAAAATAGAAAAT
1 AAACATGGAAAATA-AAAAT
1687765 AAACATGGAAAATAAAAAT
1 AAACATGGAAAATAAAAAT
1687784 GCAAAGTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.67, C:0.05, G:0.13, T:0.15
Consensus pattern (19 bp):
AAACATGGAAAATAAAAAT
Found at i:1691376 original size:19 final size:19
Alignment explanation
Indices: 1691352--1691416 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 19
1691342 TAACTAAATT
1691352 AAAAAAACAAAAAAAAAAA
1 AAAAAAACAAAAAAAAAAA
*
1691371 AAAAAATAGAATAAAAAATAAA
1 AAAAAA-ACAA-AAAAAA-AAA
*
1691393 AAATAGAAGCAAAAAAAGAAAA
1 AAA-A-AAACAAAAAAA-AAAA
1691415 AA
1 AA
1691417 GATAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.16
20 3 0.08
21 6 0.16
22 16 0.43
23 4 0.11
24 2 0.05
ACGTcount: A:0.85, C:0.03, G:0.06, T:0.06
Consensus pattern (19 bp):
AAAAAAACAAAAAAAAAAA
Found at i:1691406 original size:18 final size:19
Alignment explanation
Indices: 1691364--1691416 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1691354 AAAAACAAAA
1691364 AAAAAAAAAAAAATAGAAT
1 AAAAAAAAAAAAATAGAAT
* *
1691383 AAAAAATAAAAAATAGAAGC
1 AAAAAAAAAAAAATAGAA-T
1691403 AAAAAAAGAAAAAA
1 AAAAAAA-AAAAAA
1691417 GATAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.59
20 6 0.21
21 6 0.21
ACGTcount: A:0.83, C:0.02, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAAAAAAAAAAATAGAAT
Found at i:1691552 original size:23 final size:23
Alignment explanation
Indices: 1691526--1691577 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
1691516 TAAATAAATA
1691526 AAATAAATAAAGAAG-AAAAAAAG
1 AAATAAATAAA-AAGTAAAAAAAG
* *
1691549 AAATTAATTAAAACGTAAAAAAAG
1 AAA-TAAATAAAAAGTAAAAAAAG
1691573 AAATA
1 AAATA
1691578 TATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (23 bp):
AAATAAATAAAAAGTAAAAAAAG
Found at i:1692750 original size:13 final size:13
Alignment explanation
Indices: 1692732--1692813 Score: 60
Period size: 13 Copynumber: 6.0 Consensus size: 13
1692722 AAATAATATG
1692732 TATATAATATAAT
1 TATATAATATAAT
*
1692745 TATATAATATATT
1 TATATAATATAAT
*
1692758 TTTATGATATATAAT
1 TATAT-A-ATATAAT
1692773 TATAGT-ATATAA-
1 TATA-TAATATAAT
* *
1692785 CATAGTATGTATATAT
1 TATA-TA-ATATA-AT
1692801 TATATAATATAAT
1 TATATAATATAAT
1692814 ACATATACAC
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 5 0.09
13 24 0.44
14 9 0.17
15 12 0.22
16 4 0.07
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (13 bp):
TATATAATATAAT
Found at i:1694202 original size:14 final size:14
Alignment explanation
Indices: 1694156--1694194 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
1694146 TAAAAGCTAG
*
1694156 AATTTAAAGGACTGA
1 AATTTAAATG-CTGA
*
1694171 AATATAAATGCTGA
1 AATTTAAATGCTGA
1694185 AATTTAAATG
1 AATTTAAATG
1694195 TTGCAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (14 bp):
AATTTAAATGCTGA
Found at i:1696640 original size:26 final size:26
Alignment explanation
Indices: 1696603--1696664 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
1696593 CATAAGCCAG
*
1696603 TTTTTTCCTCTACTCTTTTACCCCAA
1 TTTTTTCATCTACTCTTTTACCCCAA
1696629 TTTTTTCATCTACTCTTTTACCCCAA
1 TTTTTTCATCTACTCTTTTACCCCAA
1696655 TTTTTTCATC
1 TTTTTTCATC
1696665 AGCTTACTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.16, C:0.31, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTTTCATCTACTCTTTTACCCCAA
Found at i:1697611 original size:16 final size:16
Alignment explanation
Indices: 1697590--1697623 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1697580 ACTCGGGAGC
1697590 AAACTTTCTATGTAAG
1 AAACTTTCTATGTAAG
*
1697606 AAACTTTTTATGTAAG
1 AAACTTTCTATGTAAG
1697622 AA
1 AA
1697624 CAAATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (16 bp):
AAACTTTCTATGTAAG
Found at i:1697953 original size:68 final size:67
Alignment explanation
Indices: 1697870--1697995 Score: 225
Period size: 67 Copynumber: 1.9 Consensus size: 67
1697860 CGTAACTTGA
*
1697870 TATGTGATAACTTTTTTGTTAAAACTACTTATTTATGTGGATTGCAGTTAATGTTATGTTTTAAT
1 TATGTGATAAATTTTTTGTTAAAA-TACTTATTTATGTGGATTGCAGTTAATGTTATGTTTTAAT
1697935 GTT
65 GTT
*
1697938 TATGTGATAAATTTTTTGTTAAAATACTTATTTATGTGGATTGTAGTTAATGTTATGT
1 TATGTGATAAATTTTTTGTTAAAATACTTATTTATGTGGATTGCAGTTAATGTTATGT
1697996 GTTTTAATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
67 33 0.59
68 23 0.41
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.52
Consensus pattern (67 bp):
TATGTGATAAATTTTTTGTTAAAATACTTATTTATGTGGATTGCAGTTAATGTTATGTTTTAATG
TT
Found at i:1705167 original size:59 final size:59
Alignment explanation
Indices: 1704759--1705159 Score: 626
Period size: 59 Copynumber: 6.8 Consensus size: 59
1704749 TATATTTCCC
* * *
1704759 ATACTGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
1704818 ATAC-GAAATTCACACACTTAGTATGAATTT-TTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * * * *
1704875 ACACGAAAATTCATACACTTAGTATAAATTTCTTATCATTTTAGTAAACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
**
1704934 ATATAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * *
1704993 ACACGGAAATTCATACACTTAGTATGCATTTCTTATCATTTTAGCACACCAAGTGCCGT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
1705052 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACTAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * *
1705111 ATACGGAAATTCATGCACTTTGTATGAATTTCTTAACATTTTAGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
1705160 TTAGTGCCAT
Statistics
Matches: 312, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
57 28 0.09
58 48 0.15
59 236 0.76
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
Found at i:1705731 original size:59 final size:59
Alignment explanation
Indices: 1705657--1706059 Score: 662
Period size: 59 Copynumber: 6.8 Consensus size: 59
1705647 TATATTTCCC
* * * *
1705657 ATACCGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCACT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
1705716 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
*
1705775 ATACGGAAATTCATACAATTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
**
1705834 ATACAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* *
1705893 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTAAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* *
1705952 ATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAGCACACCAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
* * * *
1706011 ATATGGAAATTTATACACTTACTATGAATTTCTTAACATTTTAGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
1706060 TTAGTTCCAT
Statistics
Matches: 322, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 322 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
Found at i:1706318 original size:898 final size:900
Alignment explanation
Indices: 1704578--1707262 Score: 4564
Period size: 898 Copynumber: 3.0 Consensus size: 900
1704568 TATTACTTAC
* * *
1704578 TGAGACATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTTTAATTTGCATCTCTAGTG
1 TGAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTATAATTTGCATCGCTAGTG
* * *
1704643 CTAATATCATCATTTATCAATCATCACTAAAATCTTTGTGATTTGTATACCCATTACCAATATAA
66 CTAATATCATCATTTATCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATAA
* * *
1704708 AAATCCACTTATTTATTAAGAATTTCTTAAGTTTATGCACATATATTTCCCATACTGAAATTCAT
131 AAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATATTTCCCATACTGAAATTCAT
*
1704773 ACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC-GAAATTCACACACTT
196 ACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACGGAAATTCATACACTT
* * *
1704837 AGTATGAATTT-TTATCATTTTAGCACACCAAGTGCCCTACACGAAAATTCATACACTTAGTATA
261 AGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATG
* * * *
1704901 AATTTCTTATCATTTTAGTAAACCAAGTGCCCTATATAGAAATTCATACACTTAGTATGAATTTC
326 AATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAAAAATTCATACACTTAGTATGAATTTC
* * *
1704966 TTATCATTTTAGCACACCAAGTGCCCTACACGGAAATTCATACACTTAGTATGCATTTCTTATCA
391 TTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATGAATTTCTTATCA
* * *
1705031 TTTTAGCACACCAAGTGCCGTATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAG
456 TTTTAGCACACCAAGTGCCCTATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAG
* * * **
1705096 CACACTAAGTGCCCTATACGGAAATTCATGCACTTTGTATGAATTTCTTAACATTTTAGCACACT
521 CACACCAAGTGCCCTATATGGAAATTCATACACTTACTATGAATTTCTTAACATTTTAGCACACT
*
1705161 TAGTGCCATTTGGTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAGCATA
586 TAGTGCCATTT-GTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAACATA
* * *
1705226 TACGTACATAATTAAATGCACTCACCTAGCTCTCATTGCTTAGATATCCAAAATGGGAAGATGGT
650 TACATACATAATTAAATGCACTCACCTAGCTCGCATTGCTTAGATATCCAAAATGGGAAGATGAT
* *
1705291 TACTACGGAACTTTGCCCTTGCCTTTTGTCTTACTCGACTCAGGAGCTTGATTTCGATCTATCCC
715 TACTACAGAACTTTGCCCTTGCCTTTTGTCTTACTCGACTCGGGAGCTTGATTTCGATCTATCCC
*
1705356 AAATTCATTAAATACATATATAATATCAATTGTTAGCCTATTTCCTAACAA-TATAACTTAAACA
780 AAATTCATTAAATACATATATAATATCAATTGTTAGTCTATTTCCTAACAATTATAACTTAAACA
1705420 TTAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
845 TTAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
1705476 TGAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTATAATTTGCATCGCTAGTG
1 TGAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTATAATTTGCATCGCTAGTG
1705541 CTAATATCATCATTTATCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATAA
66 CTAATATCATCATTTATCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATAA
*
1705606 AAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATATTTCCCATACCGAAATTCAT
131 AAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATATTTCCCATACTGAAATTCAT
*
1705671 ACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCACTATACGGAAATTCATACACTT
196 ACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACGGAAATTCATACACTT
* *
1705736 AGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGGAAATTCATACAATTAGTATG
261 AGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATG
1705801 AATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAAAAATTCATACACTTAGTATGAATTTC
326 AATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAAAAATTCATACACTTAGTATGAATTTC
1705866 TTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATGAATTTCTTATCA
391 TTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATGAATTTCTTATCA
*
1705931 TTTAAGCACACCAAGTGCCCTATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAG
456 TTTTAGCACACCAAGTGCCCTATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAG
*
1705996 CACACCAAGTGCCCTATATGGAAATTTATACACTTACTATGAATTTCTTAACATTTTAGCACACT
521 CACACCAAGTGCCCTATATGGAAATTCATACACTTACTATGAATTTCTTAACATTTTAGCACACT
*
1706061 TAGTTCCATTTGTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAACATAT
586 TAGTGCCATTTGTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAACATAT
*
1706126 ACATATATAATTAAATGCACTCACCTAGCTCGCATTGCTTAGATATCCAAAATGGGAAGATGATT
651 ACATACATAATTAAATGCACTCACCTAGCTCGCATTGCTTAGATATCCAAAATGGGAAGATGATT
* *
1706191 ACTAC-GAACTTTGCCCTTGCCTTTTGTCATACTCGACTCGGGAGCTTGATTT-GATCTAGCCCA
716 ACTACAGAACTTTGCCCTTGCCTTTTGTCTTACTCGACTCGGGAGCTTGATTTCGATCTATCCCA
1706254 AATTCATTAAATACATATATAATATCAATTGTTAGTCTATTTCCTAACAATTATAACTTAAACAT
781 AATTCATTAAATACATATATAATATCAATTGTTAGTCTATTTCCTAACAATTATAACTTAAACAT
1706319 TAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
846 TAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
*
1706374 TTAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTTATAATTTGCATCGCTAGT
1 TGAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTA-TTTTATAATTTGCATCGCTAGT
* * *
1706439 TCTAATATCATCGTTTACCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATA
65 GCTAATATCATCATTTATCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATA
1706504 AAAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATA-TTCCCATACTGAAATTCA
130 AAAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATATTTCCCATACTGAAATTCA
* *
1706568 TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGAAAATTCATACACT
195 TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACGGAAATTCATACACT
1706633 TAGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTAT
260 TAGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTAT
* *
1706698 GAATTTCTTATCA-TTTATCACACCAAGTGCCCTATACATAAATT-ATTACACTTAGTATGAATT
325 GAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAAAAATTCA-TACACTTAGTATGAATT
* * * *
1706761 TGTTATCCTTTTAGCACA-CAAGTTCCTTATAC-AGAAATTCATACACTTAGTATGAATTTCTTA
389 TCTTATCATTTTAGCACACCAAGTGCCCTATACGA-AAATTCATACACTTAGTATGAATTTCTTA
*
1706824 TCATTTTAGCACACCAAGTGCCCTATATGGAAATTCATACACTTTGTATGAATTTCTTTTCATTT
453 TCATTTTAGCACACCAAGTGCCCTATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTT
*
1706889 TAGCACACCAAGT-CCC----T----ATTCATACACTTACTATGAATTTCTTAACAGTTTAGCAC
518 TAGCACACCAAGTGCCCTATATGGAAATTCATACACTTACTATGAATTTCTTAACATTTTAGCAC
* *
1706945 ACTTAGTGCCATTTGTAATCACCATACGTACATCAATATTTCATAACACTATTACTATTATAACA
583 ACTTAGTGCCATTTGTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAACA
* * *
1707010 TATACATACATAATTAAATGCACTCACCTTGCTCGCCTTGCTTAGATATCCAAAATGGGAAGCTG
648 TATACATACATAATTAAATGCACTCACCTAGCTCGCATTGCTTAGATATCCAAAATGGGAAGATG
* * * *
1707075 ATTACTCCAGAACTTTGCCCTTGCCTTTTGCCTTACTCGACTCGGGAGCTTGATTTCAATATATC
713 ATTACTACAGAACTTTGCCCTTGCCTTTTGTCTTACTCGACTCGGGAGCTTGATTTCGATCTATC
*
1707140 CCAAATTCATTAAATACATATATAATATCAATTGTTAGTGTATTTCCTAACAATTATAACTTAAA
778 CCAAATTCATTAAATACATATATAATATCAATTGTTAGTCTATTTCCTAACAATTATAACTTAAA
*
1707205 TATT-ATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
843 CATTAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
1707262 T
1 T
1707263 TTTTGGTTCC
Statistics
Matches: 1700, Mismatches: 79, Indels: 26
0.94 0.04 0.01
Matches are distributed among these distances:
887 167 0.10
888 99 0.06
889 72 0.04
891 1 0.00
895 4 0.00
896 118 0.07
897 121 0.07
898 543 0.32
899 274 0.16
900 301 0.18
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (900 bp):
TGAGGCATAATTAATCACAAGTAAAGTTCTAAACACAAGTTATTTTATAATTTGCATCGCTAGTG
CTAATATCATCATTTATCAATTATCACTAAAATCTGTGTGATTTGCATACCCATTACCAATATAA
AAATCCACTTCTTTATTAAGAATTTCTTAAGTTTATACGCATATATTTCCCATACTGAAATTCAT
ACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATACGGAAATTCATACACTT
AGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATG
AATTTCTTATCATTTTAGCACACCAAGTGCCCTATACAAAAATTCATACACTTAGTATGAATTTC
TTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTATGAATTTCTTATCA
TTTTAGCACACCAAGTGCCCTATACGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAG
CACACCAAGTGCCCTATATGGAAATTCATACACTTACTATGAATTTCTTAACATTTTAGCACACT
TAGTGCCATTTGTAATCACCATACATACATCAATATTTCATAACACTATGACTATTATAACATAT
ACATACATAATTAAATGCACTCACCTAGCTCGCATTGCTTAGATATCCAAAATGGGAAGATGATT
ACTACAGAACTTTGCCCTTGCCTTTTGTCTTACTCGACTCGGGAGCTTGATTTCGATCTATCCCA
AATTCATTAAATACATATATAATATCAATTGTTAGTCTATTTCCTAACAATTATAACTTAAACAT
TAATCAAAAGTACTTATTAGTAATCTTTCTACAACAATATAAACATAACTTAAAA
Found at i:1706630 original size:59 final size:59
Alignment explanation
Indices: 1706561--1706907 Score: 499
Period size: 59 Copynumber: 5.9 Consensus size: 59
1706551 TCCCATACTG
* *
1706561 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGA
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
* *
1706620 AAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGA
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
* *
1706679 AAATTCATACACTTAGTATGAATTTCTTATCA-TTTATCACACCAAGTGCCCTATA-CA
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
* * * * *
1706736 TAAATT-ATTACACTTAGTATGAATTTGTTATCCTTTTAGCACA-CAAGTTCCTTATA-CA
1 -AAATTCA-TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
*
1706794 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGG
1 -AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
* *
1706854 AAATTCATACACTTTGTATGAATTTCTTTTCATTTTAGCACACCAAGT-CCCTAT
1 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTAT
1706908 TCATACACTT
Statistics
Matches: 261, Mismatches: 21, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
57 2 0.01
58 107 0.41
59 152 0.58
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGA
Found at i:1706768 original size:117 final size:116
Alignment explanation
Indices: 1706551--1706907 Score: 508
Period size: 117 Copynumber: 3.1 Consensus size: 116
1706541 ACGCATATAT
* * *
1706551 TCCC-ATACTGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTA
1 TCCCTATACAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTA
*
1706615 TATGAAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAG
66 TA-CAAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAG
*
1706667 TGCCCTATAC-GAAAATTCATACACTTAGTATGAATTTCTTATCA-TTTATCACACCAAGTGCCC
1 T-CCCTATACAG-AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCC
*
1706730 TATACATAAATT-ATTACACTTAGTATGAATTTGTTATCCTTTTAGCACA-CAAG
64 TATACA-AAATTCA-TACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAG
*
1706783 TTCCTTATACAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
1 -TCCCTATACAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCT
** * * *
1706848 ATATGGAAATTCATACACTTTGTATGAATTTCTTTTCATTTTAGCACACCAAG
65 ATA-CAAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAG
1706901 TCCCTAT
1 TCCCTAT
1706908 TCATACACTT
Statistics
Matches: 216, Mismatches: 14, Indels: 21
0.86 0.06 0.08
Matches are distributed among these distances:
116 46 0.21
117 130 0.60
118 40 0.19
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (116 bp):
TCCCTATACAGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTA
TACAAAATTCATACACTTAGTATGAATTTCTTATCCTTTTAGCACACCAAG
Found at i:1706823 original size:175 final size:176
Alignment explanation
Indices: 1706568--1706912 Score: 534
Period size: 175 Copynumber: 2.0 Consensus size: 176
1706558 CTGAAATTCA
*
1706568 TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATATGAAAATTCATACACT
1 TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAAGAAAATTCATACACT
*
1706633 TAGTATGAATTTCTTATCCTTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTAT
66 TAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTAT
*
1706698 GAATTTCTTATCA-TTTATCACACCAAGTGCCCTATACATAAATTAT
131 GAATTTCTTATCATTTTAGCACACCAAGT-CCCTATACATAAATTAT
* * * * *
1706744 TACACTTAGTATGAATTTGTTATCCTTTTAGCACAC-AAGTTCCTTATACAG-AAATTCATACAC
1 TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATA-AGAAAATTCATACAC
* * *
1706807 TTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATATGGAAATTCATACACTTTGTA
65 TTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTA
* *
1706872 TGAATTTCTTTTCATTTTAGCACACCAAGTCCCTATTCATA
130 TGAATTTCTTATCATTTTAGCACACCAAGTCCCTATACATA
1706913 CACTTACTAT
Statistics
Matches: 154, Mismatches: 13, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
175 106 0.69
176 48 0.31
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (176 bp):
TACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAAGAAAATTCATACACT
TAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACTTAGTAT
GAATTTCTTATCATTTTAGCACACCAAGTCCCTATACATAAATTAT
Found at i:1707445 original size:20 final size:19
Alignment explanation
Indices: 1707415--1707452 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1707405 AGGTTCAATG
1707415 TTACCTGGTATCGATACTC
1 TTACCTGGTATCGATACTC
1707434 TTACCATGGTATCGATACT
1 TTACC-TGGTATCGATACT
1707453 ACCTCGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (19 bp):
TTACCTGGTATCGATACTC
Found at i:1712960 original size:59 final size:59
Alignment explanation
Indices: 1712866--1713201 Score: 516
Period size: 59 Copynumber: 5.7 Consensus size: 59
1712856 TTCCCATTTT
* * * ** *
1712866 GAAATTCATAAACTTAG--TGAATCTCTTAACATTTTAGCACATGAAGTGCCATATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
1712923 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
* * * * *
1712982 AAAATTCATACACTTAGTAT-ACTTTCTTTTTACTTTAGCACACCAAGTGCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
*
1713040 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
* *
1713099 GAAATTCATACACTTAGTGTGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
*
1713158 GAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
1713202 TTTGTGCCAT
Statistics
Matches: 256, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
57 16 0.06
58 53 0.21
59 187 0.73
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACG
Found at i:1713038 original size:117 final size:118
Alignment explanation
Indices: 1712867--1713201 Score: 505
Period size: 117 Copynumber: 2.9 Consensus size: 118
1712857 TCCCATTTTG
* * * * ** *
1712867 AAATTCATAAACTTAG--TGAATCTCTTAACATTTTAGCACATGAAGTGCCATATACGGAAATTC
1 AAATTCATACACTTAGTATGAATTTCTTATCACTTTAGCACACCAAGTGCCCTATACGGAAATTC
1712930 ATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGA
66 ATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGA
* * *
1712983 AAATTCATACACTTAGTAT-ACTTTCTTTTTACTTTAGCACACCAAGTGCCCTATACGGAAATTC
1 AAATTCATACACTTAGTATGAATTTCTTATCACTTTAGCACACCAAGTGCCCTATACGGAAATTC
* *
1713047 ATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACGG
66 ATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGA
* * *
1713100 AAATTCATACACTTAGTGTGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACGGAAATTC
1 AAATTCATACACTTAGTATGAATTTCTTATCACTTTAGCACACCAAGTGCCCTATACGGAAATTC
*
1713165 ATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
66 ATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
1713202 TTTGTGCCAT
Statistics
Matches: 197, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
116 15 0.08
117 105 0.53
118 77 0.39
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (118 bp):
AAATTCATACACTTAGTATGAATTTCTTATCACTTTAGCACACCAAGTGCCCTATACGGAAATTC
ATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGA
Found at i:1713165 original size:176 final size:175
Alignment explanation
Indices: 1712866--1713186 Score: 518
Period size: 176 Copynumber: 1.8 Consensus size: 175
1712856 TTCCCATTTT
**
1712866 GAAATTCATAAACTTAGTGAATCTCTTAACATTTTAGCACATGAAGTGCCATATACGGAAATTCA
1 GAAATTCATAAACTTAGTGAATCTCTTAACATTTTAGCACACCAAGTGCCATATACGGAAATTCA
1712931 TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACT
66 TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACT
*
1712996 TAGTAT-ACTTTCTTTTTACTTTAGCACACCAAGTGCCCTATACG
131 TAGTATGAATTTCTTTTTACTTTAGCACACCAAGTGCCCTATACG
* * * * *
1713040 GAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACGGAAATT
1 GAAATTCATAAACTTAG--TGAATCTCTTAACATTTTAGCACACCAAGTGCCATATACGGAAATT
* * *
1713105 CATACACTTAGTGTGAATTTCTTATCATTTTAGCACACCAAGTTCCCTATACGGAAATTCATACA
64 CATACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACA
1713170 CTTAGTATGAATTTCTT
129 CTTAGTATGAATTTCTT
1713187 AACATTTTAG
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
174 16 0.12
176 110 0.83
177 7 0.05
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (175 bp):
GAAATTCATAAACTTAGTGAATCTCTTAACATTTTAGCACACCAAGTGCCATATACGGAAATTCA
TACACTTAGTATGAATTTCTTATCATTTTAGCACACCAAGTGCCCTATACGAAAATTCATACACT
TAGTATGAATTTCTTTTTACTTTAGCACACCAAGTGCCCTATACG
Found at i:1713648 original size:34 final size:34
Alignment explanation
Indices: 1713571--1713648 Score: 140
Period size: 33 Copynumber: 2.3 Consensus size: 34
1713561 CCCCCTTCCG
*
1713571 GTATCGATACCAAAATTAGATTCGATGTGGCTCA
1 GTATCGATACCAAAATTAGATTCGATGTGGCCCA
1713605 -TATCGATACCAAAATTAGATTCGATGTGGCCCA
1 GTATCGATACCAAAATTAGATTCGATGTGGCCCA
1713638 GTATCGATACC
1 GTATCGATACC
1713649 TTTACCATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (34 bp):
GTATCGATACCAAAATTAGATTCGATGTGGCCCA
Found at i:1713689 original size:22 final size:20
Alignment explanation
Indices: 1713638--1713690 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
1713628 ATGTGGCCCA
*
1713638 GTATCGATACCTTTACCATG
1 GTATCGATACCTATACCATG
* * *
1713658 GTAGCAATACTACTATACTATG
1 GTATCGATAC--CTATACCATG
1713680 GTATCGATACC
1 GTATCGATACC
1713691 AAAATTAGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
20 9 0.36
22 16 0.64
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCTATACCATG
Found at i:1713697 original size:76 final size:76
Alignment explanation
Indices: 1713605--1713746 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
1713595 ATGTGGCTCA
* * *
1713605 TATCGATACCAAAATTAGATTCGATGTGGCCCAGTATCGATACCTTTACCATGGTAGCAATACTA
1 TATCGATACCAAAATTAGATTCAATGTGACCCAGTATCGATACCCTTACCATGGTAGCAATACTA
1713670 CTATACTATGG
66 CTATACTATGG
* * ** * *
1713681 TATCGATACCAAAATTAGGTTCAATGTTACCTGGTATCGATACCCTTACCATGGTATCGATACTA
1 TATCGATACCAAAATTAGATTCAATGTGACCCAGTATCGATACCCTTACCATGGTAGCAATACTA
1713746 C
66 C
1713747 CTCGTTGGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 57 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (76 bp):
TATCGATACCAAAATTAGATTCAATGTGACCCAGTATCGATACCCTTACCATGGTAGCAATACTA
CTATACTATGG
Found at i:1718811 original size:9 final size:10
Alignment explanation
Indices: 1718792--1718841 Score: 63
Period size: 9 Copynumber: 5.4 Consensus size: 10
1718782 AATTGAGCTT
*
1718792 ATAAGAAATA
1 ATAATAAATA
1718802 A-AATAAATA
1 ATAATAAATA
1718811 ATAAT-AATA
1 ATAATAAATA
1718820 ATAAT-AATA
1 ATAATAAATA
1718829 ATAAT-AATA
1 ATAATAAATA
1718838 ATAA
1 ATAA
1718842 ACAAGTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
9 34 0.89
10 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (10 bp):
ATAATAAATA
Found at i:1718815 original size:3 final size:3
Alignment explanation
Indices: 1718798--1718841 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
1718788 GCTTATAAGA
1718798 AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1718842 ACAAGTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1719410 original size:133 final size:134
Alignment explanation
Indices: 1719031--1719635 Score: 722
Period size: 133 Copynumber: 4.5 Consensus size: 134
1719021 GATTAATTTT
* * * * * * * *
1719031 ACTGTTCTTCAGGGAAAATTGAAT-TGAACTTGATTTACTTAATTGCTCTTCAGGAAGGCCAAAT
1 ACTGCTCTTCAGGGAAGATTGAATCAGAA-TTGATTTGCTTCACTGCTCTTCAAGAAGACCAAAT
* * *
1719095 CTTG-AAGAAAAAAGAATCTGA-TCCATTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTTGA
65 C-TGAAAG-AAGAAGAATCT-ACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTTGA
1719158 TCCACTTC
127 TCCACTTC
* * * * * *
1719166 ACTGCTTTTCAGAGAATATTGAATCAGAACTGATTTGCTTCACTACTCTTCAGGAAGACCAAATC
1 ACTGCTCTTCAGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATC
* * * *
1719231 TGAAAGAAGAAGAATCTACTCCACTATTCTTTAGGGGAGATCAGACTCAAGGAAATTTTAATCCA
66 TGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTTGATCCA
1719296 CTTC
131 CTTC
* * *
1719300 ACTGCTCTTAAGGGAAGATTGAATC-GAATGTGATTTGCTTCACT-CTCTTCATGTAGACCAAAT
1 ACTGCTCTTCAGGGAAGATTGAATCAGAAT-TGATTTGCTTCACTGCTCTTCAAGAAGACCAAAT
* * * * *
1719363 CTGAAAGAAGAAGAATATGCTCCACTACTCTTTAAGGGAGATTAGACTCTAGAAAACTTTGATCC
65 CTGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTTGATCC
1719428 ACTTC
130 ACTTC
* * **
1719433 ACTGCT-TTCAAGGAAGATTGAATCAGAATCGATTTTATTCACTGCTCTTCAAGAAGACCAAATC
1 ACTGCTCTTCAGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATC
* * *
1719497 TAAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGATATCAGACTCGAA-TAAACTTTGATCC
66 TGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTC-AAGAAAACTTTGATCC
1719561 ACTTC
130 ACTTC
* * * * *
1719566 ACTACTCTTCAGGGAAGATTGAATCTGAATCGATTTGCTTCTCTTG-TCTTCAAGAATACCAAAT
1 ACTGCTCTTCAGGGAAGATTGAATCAGAATTGATTTGCTTCAC-TGCTCTTCAAGAAGACCAAAT
1719630 CTGAAA
65 CTGAAA
1719636 ATCAAACATT
Statistics
Matches: 404, Mismatches: 57, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
132 27 0.07
133 174 0.43
134 145 0.36
135 55 0.14
136 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (134 bp):
ACTGCTCTTCAGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAAGAAGACCAAATC
TGAAAGAAGAAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTTGATCCA
CTTC
Found at i:1720364 original size:87 final size:86
Alignment explanation
Indices: 1720200--1720650 Score: 266
Period size: 89 Copynumber: 5.1 Consensus size: 86
1720190 ACTCATCTCG
* * * *
1720200 CGAGAAAGTCAAGTTG-AGACAACACTAAAAGATTGA-TTATTCTTCTCGAGAAAGTCAAGGAAG
1 CGAGAAAGTCAAG--GAAGACAACATTAAAAGATTGACTCA-TCTTC-AGAGAAAGTCAAGGAAA
*
1720263 GCAACACTGAAAGATTGACTCCTCTTTA
62 ACAA-ACTGAAAGATTGACT-CT-TTTA
* * *
1720291 CGAGAAAGTCAA-GAAGGATAACATTAAAATATTGACTCCTCTT-A-AGAAAGTCAAGGAAAACA
1 CGAGAAAGTCAAGGAA-GACAACATTAAAAGATTGACTCATCTTCAGAGAAAGTCAAGGAAAACA
* *
1720353 ATA-TCGAAAGATTGACT-ATTCA
65 A-ACT-GAAAGATTGACTCTTTTA
*
1720375 CGAGAAAGTCAAGGAAGACAACATTAAAAGATTGACTCATCTTCATGAGAAAGTCAA-GAATTAC
1 CGAGAAAGTCAAGGAAGACAACATTAAAAGATTGACTCATCTTCA-GAGAAAGTCAAGGAA-AAC
*
1720439 AAAACTAAAAGATTGACTTCTTTTCA
64 -AAACTGAAAGATTGAC-TCTTTT-A
* * * * * *
1720465 CGAGAAAGTC-A-GAATAACAATACTGAAAGAATGACTTC-TCTTCATGAGAAAGTC-AGGAACG
1 CGAGAAAGTCAAGGAA-GACAACATTAAAAGATTGAC-TCATCTTCA-GAGAAAGTCAAGGAA-A
* * * *
1720526 ACATCACTAAAAGATTGATTCCTCTTCA
62 ACA-AACTGAAAGATTGACT-CT-TTTA
* * * * * * * *
1720554 TGAGAAAGTCAAGGAAGACAA-ACTGAAATAATAACTCCTC-TCATGAGAAAGTCAA-GAATGAC
1 CGAGAAAGTCAAGGAAGACAACATTAAAAGATTGACTCATCTTCA-GAGAAAGTCAAGGAA-AAC
* *
1720616 AATACTGAGAGATTGACTTCTCTTCA
64 AA-ACTGAAAGATTGAC-TCT-TTTA
1720642 CGAGAAAGT
1 CGAGAAAGT
1720651 TAAGAATAAC
Statistics
Matches: 296, Mismatches: 38, Indels: 55
0.76 0.10 0.14
Matches are distributed among these distances:
84 39 0.13
85 4 0.01
86 4 0.01
87 53 0.18
88 59 0.20
89 81 0.27
90 40 0.14
91 16 0.05
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (86 bp):
CGAGAAAGTCAAGGAAGACAACATTAAAAGATTGACTCATCTTCAGAGAAAGTCAAGGAAAACAA
ACTGAAAGATTGACTCTTTTA
Found at i:1720514 original size:89 final size:88
Alignment explanation
Indices: 1720401--1720663 Score: 300
Period size: 89 Copynumber: 3.0 Consensus size: 88
1720391 GACAACATTA
* * *
1720401 AAAGATTGAC-TCATCTTCATGAGAAAGTCAAGAATTACAAAACTAAAAGATTGACTTCTTTTCA
1 AAAGAATGACTTC-TCTTCATGAGAAAGTCAAGAATGACAAAACTAAAAGATTGACTTCTCTTCA
1720465 CGAGAAAGTCAGAATAACAATACTG
65 CGAGAAAGTCAGAATAACAA-ACTG
* * **
1720490 AAAGAATGACTTCTCTTCATGAGAAAGTCAGGAACGACATCACTAAAAGATTGA-TTCCTCTTCA
1 AAAGAATGACTTCTCTTCATGAGAAAGTCAAGAATGACAAAACTAAAAGATTGACTT-CTCTTCA
* *
1720554 TGAGAAAGTCAAGGAA-GACAAACTG
65 CGAGAAAGTC-A-GAATAACAAACTG
* * * * * *
1720579 AAATAATAACTCCTC-TCATGAGAAAGTCAAGAATGACAATACTGAGAGATTGACTTCTCTTCAC
1 AAAGAATGACTTCTCTTCATGAGAAAGTCAAGAATGACAAAACTAAAAGATTGACTTCTCTTCAC
*
1720643 GAGAAAGTTAAGAATAACAAA
66 GAGAAAG-TCAGAATAACAAA
1720664 GATTGACTCC
Statistics
Matches: 146, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
87 3 0.02
88 54 0.37
89 79 0.54
90 7 0.05
91 3 0.02
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (88 bp):
AAAGAATGACTTCTCTTCATGAGAAAGTCAAGAATGACAAAACTAAAAGATTGACTTCTCTTCAC
GAGAAAGTCAGAATAACAAACTG
Found at i:1720656 original size:45 final size:45
Alignment explanation
Indices: 1720217--1720700 Score: 327
Period size: 45 Copynumber: 11.1 Consensus size: 45
1720207 GTCAAGTTGA
* *
1720217 GACAACACTAAAAGATTGA-TTATTCTTC-TCGAGAAAGTCAAGGAA-
1 GACAATACTAAAAGATTGACTT-CTCTTCAT-GAGAAAGTCAA-GAAT
* * * * * * *
1720262 GGCAACACTGAAAGATTGACTCCTCTTTACGAGAAAGTCAAGAAG
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
* * * * *
1720307 GATAACATTAAAATATTGACTCCTCTT-A--AGAAAGTCAAGGAA-
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAA-GAAT
* * * *
1720349 AACAATA-TCGAAAGATTGA---CTATTCACGAGAAAGTCAAGGAA-
1 GACAATACT-AAAAGATTGACTTCTCTTCATGAGAAAGTCAA-GAAT
* *
1720391 GACAACATTAAAAGATTGAC-TCATCTTCATGAGAAAGTCAAGAAT
1 GACAATACTAAAAGATTGACTTC-TCTTCATGAGAAAGTCAAGAAT
* * * *
1720436 TACAAAACTAAAAGATTGACTTCTTTTCACGAGAAAGTC-AGAAT
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
* * * * *
1720480 AACAATACTGAAAGAATGACTTCTCTTCATGAGAAAGTCAGGAAC
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
1720525 GAC-ATCACTAAAAGATTGA-TTCCTCTTCATGAGAAAGTCAAGGAA-
1 GACAAT-ACTAAAAGATTGACTT-CTCTTCATGAGAAAGTCAA-GAAT
* * * * *
1720570 GACAA-ACTGAAATAATAACTCCTC-TCATGAGAAAGTCAAGAAT
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
* * * *
1720613 GACAATACTGAGAGATTGACTTCTCTTCACGAGAAAGTTAAGAAT
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
* *
1720658 ----A-AC--AAAGATTGACTCCTCTTCATGATAAAGTCAAGAAT
1 GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
*
1720696 AACAA
1 GACAA
1720701 AGATTGATTG
Statistics
Matches: 356, Mismatches: 56, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
38 30 0.08
39 4 0.01
40 3 0.01
41 2 0.01
42 54 0.15
43 24 0.07
44 76 0.21
45 156 0.44
46 7 0.02
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (45 bp):
GACAATACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT
Found at i:1720677 original size:38 final size:38
Alignment explanation
Indices: 1720625--1720885 Score: 276
Period size: 38 Copynumber: 6.8 Consensus size: 38
1720615 CAATACTGAG
*
1720625 AGATTGACTTCTCTTCACGAGAAAGTTAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
* * *
1720663 AGATTGACTCCTCTTCATGATAAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
* * * *
1720701 AGATTGA-TTGACTCCTCTTCGCATGGGAA-TCAGGAATAACAA
1 AGATTGACTT--CTCTTC-ACG-A--GAAAGTCAAGAATAACAA
* * *
1720743 AGATTGACTTCTCTTTACGAGGAAGTCAAGAGTAACAA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
* * * *
1720781 CGATTGACTTCTCTACATGAGAAAGTCAAGAATAACAG
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
1720819 AGATTGACTTCTCTTCACGAG-AAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
* * * *
1720856 AAATTAACTTCTCTTCACGAGGAATTCAAG
1 AGATTGACTTCTCTTCACGAGAAAGTCAAG
1720886 TTGAAGCTTC
Statistics
Matches: 184, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
37 39 0.21
38 108 0.59
39 6 0.03
40 3 0.02
41 5 0.03
42 19 0.10
43 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (38 bp):
AGATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAA
Found at i:1721709 original size:45 final size:44
Alignment explanation
Indices: 1721640--1721727 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
1721630 TATTCCTAGA
*
1721640 TGATTTGGGCCTTCAAAAATGCCCCAACATTTATCATTTTCTTGT
1 TGATATGGGCCTTCAAAAATGCCCCAACATTTATCA-TTTCTTGT
* *
1721685 TGATATGGGCCTTCTAAAATGCCCCAACATTTATTATTTCTTG
1 TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCTTG
1721728 CTCCAACACT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 7 0.17
45 33 0.82
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (44 bp):
TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCTTGT
Found at i:1722835 original size:8 final size:7
Alignment explanation
Indices: 1722816--1722947 Score: 94
Period size: 7 Copynumber: 18.9 Consensus size: 7
1722806 ATATTTGACT
1722816 TTTTTTC
1 TTTTTTC
*
1722823 ATTTTTC
1 TTTTTTC
*
1722830 ATTTTTC
1 TTTTTTC
*
1722837 ATTTTT-
1 TTTTTTC
* *
1722843 TTCTATC
1 TTTTTTC
*
1722850 TTTTCTC
1 TTTTTTC
1722857 TTTTTTC
1 TTTTTTC
1722864 --TTTTC
1 TTTTTTC
1722869 TTTTTTC
1 TTTTTTC
1722876 TCTTTTTC
1 T-TTTTTC
1722884 TTTTTT-
1 TTTTTTC
*
1722890 TCTTTTC
1 TTTTTTC
**
1722897 TTTTCCC
1 TTTTTTC
1722904 TTTTCTT-
1 TTTT-TTC
*
1722911 TTTTATC
1 TTTTTTC
1722918 TTTTCTCTC
1 TTTT-T-TC
1722927 TTTTTTC
1 TTTTTTC
1722934 TTTTTCTC
1 TTTTT-TC
1722942 TTTTTT
1 TTTTTT
1722948 TCTTCTCTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.05
6 9 0.09
7 65 0.65
8 15 0.15
9 6 0.06
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:1722867 original size:14 final size:14
Alignment explanation
Indices: 1722848--1722962 Score: 96
Period size: 13 Copynumber: 8.0 Consensus size: 14
1722838 TTTTTTTCTA
1722848 TCTTTTCTCTTTTT
1 TCTTTTCTCTTTTT
1722862 TCTTTTCT-TTTTT
1 TCTTTTCTCTTTTT
1722875 CTCTTTT-TCTTTTT
1 -TCTTTTCTCTTTTT
*
1722889 T-TCTTT-TCTTTTC
1 TCT-TTTCTCTTTTT
*
1722902 CCTTTTCT-TTTTT
1 TCTTTTCTCTTTTT
1722915 ATCTTTTCTCTCTTTTT
1 -TC-TTT-TCTCTTTTT
1722932 TCTTTTTCTCTTTTTT
1 TC-TTTTCTC-TTTTT
*
1722948 TCTTCTCTCATTTTT
1 TCTTTTCTC-TTTTT
1722963 ATCTCTATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 19
0.77 0.05 0.17
Matches are distributed among these distances:
12 1 0.01
13 23 0.27
14 22 0.26
15 18 0.21
16 16 0.19
17 5 0.06
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTCTCTTTTT
Found at i:1722882 original size:54 final size:53
Alignment explanation
Indices: 1722814--1722946 Score: 137
Period size: 54 Copynumber: 2.4 Consensus size: 53
1722804 AAATATTTGA
*
1722814 CTTTTTTTCATTTTTC-ATTTTTCATTTT-TTTCTATCTTTTCTCTTTTT-TCTTTT
1 CTTTTTTTC-TTTTTCTATTTTTC-TTTTCTTT-TACCTTTTCT-TTTTTATCTTTT
* *
1722868 CTTTTTTCTCTTTTTCTTTTTTTCTTTTCTTTTCCCTTTTCTTTTTTATCTTTTCT
1 CTTTTTT-TCTTTTTCTATTTTTCTTTTCTTTTACCTTTTCTTTTTTATC-TTT-T
*
1722924 CTCTTTTTTCTTTTTCTCTTTTT
1 CT-TTTTTTCTTTTTCTATTTTT
1722947 TTCTTCTCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
53 5 0.07
54 27 0.40
55 14 0.21
56 17 0.25
57 5 0.07
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (53 bp):
CTTTTTTTCTTTTTCTATTTTTCTTTTCTTTTACCTTTTCTTTTTTATCTTTT
Found at i:1722900 original size:47 final size:48
Alignment explanation
Indices: 1722818--1722955 Score: 147
Period size: 46 Copynumber: 2.9 Consensus size: 48
1722808 ATTTGACTTT
* * *
1722818 TTTTCATTTTTC-ATTTTTCATTTTTTTC-TATCTTTTCTCTTTT-TTC
1 TTTTCTTTTTTCTCTTTTTC-TTTTTTTCTTTTCTTTTCTCTTTTCTTC
* *
1722864 TTTTCTTTTTTCTCTTTTTCTTTTTTTCTTTTCTTTTCCCTTTTCTTT
1 TTTTCTTTTTTCTCTTTTTCTTTTTTTCTTTTCTTTTCTCTTTTCTTC
* * *
1722912 TTTATCTTTTCTCTCTTTTTTCTTTTTCTCTTTTTTTCTTCTCT
1 TTT-TCTTTTTTCTC-TTTTTCTTTTTTTCTTTTCTT-TTCTCT
1722956 CATTTTTATC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
46 19 0.25
47 19 0.25
48 5 0.06
49 10 0.13
50 19 0.25
51 5 0.06
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (48 bp):
TTTTCTTTTTTCTCTTTTTCTTTTTTTCTTTTCTTTTCTCTTTTCTTC
Found at i:1722901 original size:33 final size:33
Alignment explanation
Indices: 1722841--1722961 Score: 113
Period size: 33 Copynumber: 3.6 Consensus size: 33
1722831 TTTTTCATTT
1722841 TTTTCTATCTTTTCTCTTTTTTCTTTTCTTTTTTCTC
1 TTTT-TATCTTTTCTC--TTTTCTTTTC-TTTTTCTC
* * *
1722878 TTTTTCT-TTTTTTCTTTTCTTTTCCCTTTTCT-
1 TTTTTATCTTTTCTCTTTTCTTTT-CTTTTTCTC
*
1722910 TTTTTATCTTTTCTCTCTT-TTTTCTTTTTCTC
1 TTTTTATCTTTTCTCTTTTCTTTTCTTTTTCTC
* *
1722942 TTTTTTTCTTCTCTCATTTT
1 TTTTTATCTTTTCTC-TTTT
1722962 TATCTCTATA
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 7 0.10
32 23 0.33
33 27 0.39
34 1 0.01
35 6 0.09
36 2 0.03
37 4 0.06
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (33 bp):
TTTTTATCTTTTCTCTTTTCTTTTCTTTTTCTC
Found at i:1722921 original size:9 final size:8
Alignment explanation
Indices: 1722814--1722951 Score: 85
Period size: 8 Copynumber: 17.4 Consensus size: 8
1722804 AAATATTTGA
1722814 CTTTTTTT
1 CTTTTTTT
*
1722822 C-ATTTTT
1 CTTTTTTT
*
1722829 C-ATTTTT
1 CTTTTTTT
1722836 CATTTTTTT
1 C-TTTTTTT
*
1722845 CTATCTTTT
1 CT-TTTTTT
1722854 CTCTTTTTT
1 CT-TTTTTT
1722863 C---TTTT
1 CTTTTTTT
1722868 C-TTTTTT
1 CTTTTTTT
*
1722875 CTCTTTTT
1 CTTTTTTT
1722883 CTTTTTTT
1 CTTTTTTT
1722891 CTTTTCTTT
1 CTTTT-TTT
**
1722900 -TCCCTTTT
1 CT-TTTTTT
1722908 CTTTTTTAT
1 CTTTTTT-T
*
1722917 C-TTTTCT
1 CTTTTTTT
1722924 CTCTTTTTT
1 CT-TTTTTT
*
1722933 CTTTTTCT
1 CTTTTTTT
1722941 CTTTTTTT
1 CTTTTTTT
1722949 CTT
1 CTT
1722952 CTCTCATTTT
Statistics
Matches: 103, Mismatches: 15, Indels: 24
0.73 0.11 0.17
Matches are distributed among these distances:
5 5 0.05
7 20 0.19
8 45 0.44
9 33 0.32
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (8 bp):
CTTTTTTT
Found at i:1723763 original size:33 final size:33
Alignment explanation
Indices: 1723701--1723763 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1723691 TCTACCCGAT
* * *
1723701 AAGGTAAAAGTATGAATTTGGTGTGTCAAAAAA
1 AAGGTAAAAGTATGAATTCGGAGTCTCAAAAAA
*
1723734 AAGGTAAAAGTATGACTTCGGAGTCTCAAA
1 AAGGTAAAAGTATGAATTCGGAGTCTCAAA
1723764 TAAATGTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.25
Consensus pattern (33 bp):
AAGGTAAAAGTATGAATTCGGAGTCTCAAAAAA
Found at i:1730627 original size:3 final size:3
Alignment explanation
Indices: 1730611--1730666 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
1730601 GGTCGAAAAA
*
1730611 TAT TAT TAAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1730657 TA- TAT TAT TA
1 TAT TAT TAT TA
1730667 ATTAAACATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1734165 original size:63 final size:63
Alignment explanation
Indices: 1734078--1734258 Score: 229
Period size: 63 Copynumber: 2.9 Consensus size: 63
1734068 CGTACTTTGT
* * * *
1734078 TGCATCGCATTTCAGAAG-ATCATCAATTTTGCATCTGCATTTGCATCTTTGCATTTTGCATGT
1 TGCATTGCATTTCAG-AGCATCATCAATTTTGCATATGCATTTGCATCTTCGCATTTTGCATGA
* * * * *
1734141 TGTATTGCATTTCATATCATCATCAATTTTGCATTTGTATTTGCATCTTCGCATTTTGCATGA
1 TGCATTGCATTTCAGAGCATCATCAATTTTGCATATGCATTTGCATCTTCGCATTTTGCATGA
* * * *
1734204 TGCATTGCATTTCAGAGGATCGTCACTTTTGCATATGCATTTGCATCTTCACATT
1 TGCATTGCATTTCAGAGCATCATCAATTTTGCATATGCATTTGCATCTTCGCATT
1734259 CTACATTATC
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 1 0.01
63 99 0.99
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (63 bp):
TGCATTGCATTTCAGAGCATCATCAATTTTGCATATGCATTTGCATCTTCGCATTTTGCATGA
Found at i:1736998 original size:53 final size:53
Alignment explanation
Indices: 1736935--1737041 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
1736925 ACTCTTACAA
1736935 AAGTTAGATAGATAATGATAACTACTAAGTGGTTTATTCCTAATAGAAAACTT
1 AAGTTAGATAGATAATGATAACTACTAAGTGGTTTATTCCTAATAGAAAACTT
1736988 AAGTTAGATAGATAATGATAACTACTAAGTGGTTTATTCCTAATAGAAAACTT
1 AAGTTAGATAGATAATGATAACTACTAAGTGGTTTATTCCTAATAGAAAACTT
1737041 A
1 A
1737042 CTCCTAACTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (53 bp):
AAGTTAGATAGATAATGATAACTACTAAGTGGTTTATTCCTAATAGAAAACTT
Found at i:1746677 original size:10 final size:9
Alignment explanation
Indices: 1746659--1746701 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 9
1746649 TCTCTTTAAT
1746659 AAAAAAAAG
1 AAAAAAAAG
1746668 AAAAACAAAG
1 AAAAA-AAAG
1746678 AAAAATAAAG
1 AAAAA-AAAG
1746688 AAAAGAAAAAG
1 -AAA-AAAAAG
1746699 AAA
1 AAA
1746702 TAAAGAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 5 0.17
10 16 0.53
11 7 0.23
12 2 0.07
ACGTcount: A:0.84, C:0.02, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1746691 original size:19 final size:18
Alignment explanation
Indices: 1746659--1746709 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
1746649 TCTCTTTAAT
1746659 AAAAA-AAAGAAAAACAAA
1 AAAAATAAAG-AAAACAAA
*
1746677 GAAAAATAAAGAAAAGAAA
1 -AAAAATAAAGAAAACAAA
1746696 AAGAAATAAAGAAA
1 AA-AAATAAAGAAA
1746710 GAGAGATTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 23 0.79
20 4 0.14
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (18 bp):
AAAAATAAAGAAAACAAA
Found at i:1747787 original size:12 final size:12
Alignment explanation
Indices: 1747770--1747799 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1747760 TAGGGCCATT
1747770 AGTTTTACATCA
1 AGTTTTACATCA
*
1747782 AGTTTTACATTA
1 AGTTTTACATCA
1747794 AGTTTT
1 AGTTTT
1747800 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:1753734 original size:24 final size:23
Alignment explanation
Indices: 1753679--1753736 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
1753669 AGAAATGAGT
*
1753679 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTAATTA
1753702 AATATTTTTCAAAACTCTTCTAATT-
1 AATA-TTTTCAAAA-TCTT-TAATTA
*
1753727 GATATTTTCA
1 AATATTTTCA
1753737 GAATTTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 4 0.13
24 15 0.50
25 7 0.23
26 4 0.13
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTAATTA
Found at i:1753898 original size:33 final size:32
Alignment explanation
Indices: 1753861--1753936 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
1753851 GTGCTGAAGC
*
1753861 AATCAACATCCAATATTAGAGCATCTTTGAGGT
1 AATCAACATCCAATATTAGAGCATCTTTG-GGG
* * *
1753894 AATCAACATCTAATATTGGGGCATCTTTGGGG
1 AATCAACATCCAATATTAGAGCATCTTTGGGG
*
1753926 ATTCAACATCC
1 AATCAACATCC
1753937 TGATGGGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
AATCAACATCCAATATTAGAGCATCTTTGGGG
Found at i:1754406 original size:123 final size:121
Alignment explanation
Indices: 1754172--1754544 Score: 495
Period size: 123 Copynumber: 3.1 Consensus size: 121
1754162 AACCAAAATT
1754172 CCCTGACCAAGACTCATCGCATATGAGAAGTGTCAACCCTTGATAACCAGCCGTC-C-T---GTA
1 CCCTGACCAAGACTCATCGCATATGAGAAGTGTCAACCCTTGATAA-CAGCCGTCTCATCACGTA
*
1754232 GGAACCGTGATATCACCTTTATATGGTCAAGACTCATCGCATATGAGCAGTACCATC
65 GGAACCGTGTTATCACCTTTATATGGTCAAGACTCATCGCATATGAGCAGTACCATC
* * * *
1754289 CCCTGGCCAAGACTCATCGCATATGAGCAGTGTCAACCATTGATAATCAACCGTCATCATCACGT
1 CCCTGACCAAGACTCATCGCATATGAGAAGTGTCAACCCTTGATAA-CAGCCGTC-TCATCACGT
* * *
1754354 AGGAATCATGTTATCACCTTTATATGGTCAAGACTCATCGCATATAAGCAGTACCATC
64 AGGAACCGTGTTATCACCTTTATATGGTCAAGACTCATCGCATATGAGCAGTACCATC
* * * *
1754412 CCCTGGCCAAGACTCATCGCATATGAGTAGTGTCAACCCTTGATAACTAGTCGTCCTCATCACGA
1 CCCTGACCAAGACTCATCGCATATGAGAAGTGTCAACCCTTGATAAC-AGCCGT-CTCATCACGT
* * * ** *
1754477 ATGAACCGTGTTATTACCTTTATATGGTCAAAACTCATAACATATGAGCAGTACTATC
64 AGGAACCGTGTTATCACCTTTATATGGTCAAGACTCATCGCATATGAGCAGTACCATC
*
1754535 CACTGACCAA
1 CCCTGACCAA
1754545 TCGTCCTCAT
Statistics
Matches: 223, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
117 50 0.22
119 1 0.00
120 1 0.00
122 1 0.00
123 169 0.76
124 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (121 bp):
CCCTGACCAAGACTCATCGCATATGAGAAGTGTCAACCCTTGATAACAGCCGTCTCATCACGTAG
GAACCGTGTTATCACCTTTATATGGTCAAGACTCATCGCATATGAGCAGTACCATC
Found at i:1754978 original size:3 final size:3
Alignment explanation
Indices: 1754970--1754994 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1754960 GGTTGAAAAA
1754970 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
1754995 ATTACACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1756527 original size:31 final size:29
Alignment explanation
Indices: 1756481--1756568 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 29
1756471 TGTTAATACC
*
1756481 ATTTTAGCCCATTAACTTTCCATTTTTACT
1 ATTTTAGCCCTTTAACTTT-CATTTTTACT
* *
1756511 TTTTTAAGTCCTTTAACTTT-ATGTTATTACT
1 ATTTT-AGCCCTTTAACTTTCAT-TT-TTACT
*
1756542 ATTTTGGCCCTTTAACTTTCTATTTTT
1 ATTTTAGCCCTTTAACTTTC-ATTTTT
1756569 TATTTAGTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
29 2 0.04
30 20 0.43
31 23 0.49
32 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.56
Consensus pattern (29 bp):
ATTTTAGCCCTTTAACTTTCATTTTTACT
Found at i:1770292 original size:36 final size:36
Alignment explanation
Indices: 1770128--1770576 Score: 469
Period size: 36 Copynumber: 12.4 Consensus size: 36
1770118 ATTATAACAT
* *
1770128 TATATAG-TTTGAAAACATTTT--TAATATATATAA
1 TATATAGTTTTTAAAACATTTTGAAAATATATATAA
* * * * *
1770161 -ATATAGTTTTGACAAGCATGTTTAAAAACATTTTATAA
1 TATATAGTTTTTA-AAACAT-TTTGAAAATA-TATATAA
*
1770199 TATATAGTTTTT-AAACATTTTGAAACTA-ATATAA
1 TATATAGTTTTTAAAACATTTTGAAAATATATATAA
*
1770233 TATAT-GTTTTTAAAACATTTTTTGAAAATATATATAT
1 TATATAGTTTTTAAAACA--TTTTGAAAATATATATAA
1770270 TATATAGTTTTTAAAACATTTTGAAAACTA-ATATAA
1 TATATAGTTTTTAAAACATTTTGAAAA-TATATATAA
* *
1770306 TATATAGCTTTTAAAACATTTTTTGAAAATATATATAT
1 TATATAGTTTTTAAAACA--TTTTGAAAATATATATAA
*
1770344 TATATAGTTTTTAAAACATCTTGAAAACTA-ATATAA
1 TATATAGTTTTTAAAACATTTTGAAAA-TATATATAA
** *
1770380 TATATAGTTTTTAAAATTTTTTGAAAATATATATAT
1 TATATAGTTTTTAAAACATTTTGAAAATATATATAA
*
1770416 TATATA-ATTTTAAAACATTTTGAAAATA-ATATAA
1 TATATAGTTTTTAAAACATTTTGAAAATATATATAA
1770450 TATATAG-TTTTAAAACATTTTTGAAAATATATAT--
1 TATATAGTTTTTAAAACA-TTTTGAAAATATATATAA
*
1770484 TATATAGTTTTTAAAACATTTTG-GAATATATATAAA
1 TATATAGTTTTTAAAACATTTTGAAAATATATAT-AA
* **
1770520 TTATATAGTTTTTGAAAAATCTTTTTGGAAAATGCATATAA
1 -TATATAGTTTTT--AAAA-CATTTT-GAAAATATATATAA
1770561 TATATAGTTTTTAAAA
1 TATATAGTTTTTAAAA
1770577 TAATATTTTA
Statistics
Matches: 354, Mismatches: 31, Indels: 57
0.80 0.07 0.13
Matches are distributed among these distances:
32 6 0.02
33 20 0.06
34 53 0.15
35 45 0.13
36 100 0.28
37 36 0.10
38 53 0.15
39 14 0.04
40 17 0.05
41 3 0.01
42 7 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TATATAGTTTTTAAAACATTTTGAAAATATATATAA
Found at i:1770340 original size:74 final size:73
Alignment explanation
Indices: 1770126--1770576 Score: 531
Period size: 74 Copynumber: 6.2 Consensus size: 73
1770116 ATATTATAAC
* * * * * *
1770126 ATTATATAG-TTTGAAAACATTTTTAATA-T-ATATAA-ATATAGTTTTGACAAGCA-TGTTTAA
1 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAGTTTT-A-AAACATTTTTTGA
* *
1770186 AAACATTTTAT
64 AAATA-TATAT
*
1770197 AATATATAGTTTTT-AAACATTTTG-AAACTAATATAATATAT-GTTTTTAAAACATTTTTTGAA
1 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAG-TTTTAAAACATTTTTTGAA
1770259 AATATATAT
65 AATATATAT
1770268 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAGCTTTTAAAACATTTTTTGAA
1 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAG-TTTTAAAACATTTTTTGAA
1770333 AATATATAT
65 AATATATAT
* *
1770342 ATTATATAGTTTTTAAAACATCTTGAAAACTAATATAATATATAGTTTTTAAA-ATTTTTTGAAA
1 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAGTTTTAAAACATTTTTTGAAA
1770406 ATATATAT
66 ATATATAT
*
1770414 ATTATATA-ATTTTAAAACATTTTGAAAA-TAATATAATATATAGTTTTAAAACA-TTTTTG-AA
1 ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAGTTTTAAAACATTTTTTGAAA
1770475 A-ATATAT
66 ATATATAT
*
1770482 ATTATATAGTTTTTAAAACATTTTG-GAA-TATATATAAATTATATAGTTTTTGAAAA-ATCTTT
1 ATTATATAGTTTTTAAAACATTTTGAAAACTA-ATAT-AA-TATATAG-TTTT-AAAACAT-TTT
**
1770544 TTGGAAAATGCATAT
60 TT-GAAAATATATAT
*
1770559 AATATATAGTTTTTAAAA
1 ATTATATAGTTTTTAAAA
1770577 TAATATTTTA
Statistics
Matches: 338, Mismatches: 21, Indels: 36
0.86 0.05 0.09
Matches are distributed among these distances:
68 18 0.05
69 22 0.07
70 32 0.09
71 65 0.19
72 62 0.18
73 36 0.11
74 78 0.23
75 1 0.00
76 3 0.01
77 21 0.06
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (73 bp):
ATTATATAGTTTTTAAAACATTTTGAAAACTAATATAATATATAGTTTTAAAACATTTTTTGAAA
ATATATAT
Found at i:1770635 original size:4 final size:4
Alignment explanation
Indices: 1770626--1770654 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1770616 TGTTTTTATT
1770626 TTTA TTTA TTTA TTTA TTTA -TTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1770655 ATTATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1772042 original size:23 final size:21
Alignment explanation
Indices: 1772016--1772082 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 21
1772006 TTATTATTCT
1772016 TTTTTATTTATTATTTTATCATA
1 TTTTTATTTATTATTTTAT--TA
** **
1772039 TTTTTAAGTATTGGTTTATTA
1 TTTTTATTTATTATTTTATTA
1772060 TTTTTATTT-TTA--TTATTA
1 TTTTTATTTATTATTTTATTA
1772078 TTTTT
1 TTTTT
1772083 GCCTAACATC
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 11 0.30
20 2 0.05
21 9 0.24
23 15 0.41
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTTTATTTATTATTTTATTA
Found at i:1772072 original size:12 final size:12
Alignment explanation
Indices: 1771996--1772082 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 12
1771986 CTTTACCTTT
1771996 TTATTATTCTTTA
1 TTATTATT-TTTA
*
1772009 TTATTCTTTTTTA
1 TTATT-ATTTTTA
1772022 TTTATTA-TTTTA
1 -TTATTATTTTTA
*
1772034 TCA-TATTTTTAA
1 TTATTATTTTT-A
* *
1772046 GTATTGGTTTATTA
1 TTATT-ATTT-TTA
*
1772060 TTTTTATTTTTA
1 TTATTATTTTTA
1772072 TTATTATTTTT
1 TTATTATTTTT
1772083 GCCTAACATC
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 20 0.35
13 13 0.23
14 14 0.25
15 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:1782926 original size:3 final size:3
Alignment explanation
Indices: 1782920--1782955 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
1782910 TTTTTTTCAA
* *
1782920 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1782956 AATAATTACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:1784904 original size:2 final size:2
Alignment explanation
Indices: 1784897--1784936 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1784887 AAACCTTAGG
1784897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1784937 CTTTAGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1788613 original size:316 final size:316
Alignment explanation
Indices: 1788040--1788676 Score: 1206
Period size: 316 Copynumber: 2.0 Consensus size: 316
1788030 ATAAAAGATA
*
1788040 AAATATACCTTGTAACTGTAGTATCCAGCAGCATATCCTCCAAATATTCACAAAAAGTCGAATAA
1 AAATATACCTTGTAACTGTAGTATCCAGCAGCATATCCACCAAATATTCACAAAAAGTCGAATAA
1788105 AAAAATGCCCAAGGTCAAGTTTGCACCAAATTGCAAAAACATTACATAAGAAAAGGGGAGAGAGA
66 AAAAATGCCCAAGGTCAAGTTTGCACCAAATTGCAAAAACATTACATAAGAAAAGGGGAGAGAGA
*
1788170 GGCTGGAAGAAGAAGGACAAACCTGCAAATATATGGTTGAAACCACACAGAAACCTATCTTCTGA
131 GGCTGGAAGAAGAAGGACAAACCTGAAAATATATGGTTGAAACCACACAGAAACCTATCTTCTGA
1788235 CAATGGAGGGATCACTTGTGTTTTCCTGGAAACTCTCTGATCAACATCAAAGACAGATTCTGACC
196 CAATGGAGGGATCACTTGTGTTTTCCTGGAAACTCTCTGATCAACATCAAAGACAGATTCTGACC
1788300 CATCTGGGGTGTATTTTGTATGTAGTTCCAAATCCACACAAGCAAATCGAAGCTAG
261 CATCTGGGGTGTATTTTGTATGTAGTTCCAAATCCACACAAGCAAATCGAAGCTAG
*
1788356 AAATATACCTTGTAACTGTAGTATCCAGCAGCATATCCACCTAATATTCACAAAAAGTCGAATAA
1 AAATATACCTTGTAACTGTAGTATCCAGCAGCATATCCACCAAATATTCACAAAAAGTCGAATAA
1788421 AAAAATGCCCAAGGTCAAGTTTGCACCAAATTGCAAAAACATTACATAAGAAAAGGGGAGAGAGA
66 AAAAATGCCCAAGGTCAAGTTTGCACCAAATTGCAAAAACATTACATAAGAAAAGGGGAGAGAGA
1788486 GGCTGGAAGAAGAAGGACAAACCT-AAAAGTATATGGTTGAAACCACACAGAAACCTATCTTCTG
131 GGCTGGAAGAAGAAGGACAAACCTGAAAA-TATATGGTTGAAACCACACAGAAACCTATCTTCT-
1788550 GA-AATGGAGGGATCACTTGTGTTTTCCTGGAAACTCTCTGATCAACATCAAAGACAGATTCTGA
194 GACAATGGAGGGATCACTTGTGTTTTCCTGGAAACTCTCTGATCAACATCAAAGACAGATTCTGA
*
1788614 CCCATCTGGGGTGTATTTTGTATGTAGTTCCAAATCCACACAAGCAAATCGAAGCTGG
259 CCCATCTGGGGTGTATTTTGTATGTAGTTCCAAATCCACACAAGCAAATCGAAGCTAG
1788672 AAATA
1 AAATA
1788677 AAAAATGGTT
Statistics
Matches: 315, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
315 3 0.01
316 310 0.98
317 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (316 bp):
AAATATACCTTGTAACTGTAGTATCCAGCAGCATATCCACCAAATATTCACAAAAAGTCGAATAA
AAAAATGCCCAAGGTCAAGTTTGCACCAAATTGCAAAAACATTACATAAGAAAAGGGGAGAGAGA
GGCTGGAAGAAGAAGGACAAACCTGAAAATATATGGTTGAAACCACACAGAAACCTATCTTCTGA
CAATGGAGGGATCACTTGTGTTTTCCTGGAAACTCTCTGATCAACATCAAAGACAGATTCTGACC
CATCTGGGGTGTATTTTGTATGTAGTTCCAAATCCACACAAGCAAATCGAAGCTAG
Found at i:1791214 original size:91 final size:91
Alignment explanation
Indices: 1791059--1791243 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
1791049 GAGTACTTAG
1791059 AGAGCCAACAAATTGAGGATAACCCAAAATATTTTTCATTGATCAAGCAGCTGGTCATGAATACT
1 AGAGCCAACAAATTGAGGATAACCCAAAATATTTTTCATTGATCAAGCAGCTGGTCATGAATACT
*
1791124 ACCTGGTTTCAAGAGGGGAAAAATGA
66 ACCTGGTTTCAAGAGGGAAAAAATGA
*
1791150 AGAGCCAACAAATTGAGGATAACCCAAAATATTTTTCATTGATCAAGTAGCTGGTCATGAATACT
1 AGAGCCAACAAATTGAGGATAACCCAAAATATTTTTCATTGATCAAGCAGCTGGTCATGAATACT
*
1791215 ATCTGGTTTCAAGAGGGAAAAAATGA
66 ACCTGGTTTCAAGAGGGAAAAAATGA
1791241 AGA
1 AGA
1791244 TTATGTCCAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (91 bp):
AGAGCCAACAAATTGAGGATAACCCAAAATATTTTTCATTGATCAAGCAGCTGGTCATGAATACT
ACCTGGTTTCAAGAGGGAAAAAATGA
Found at i:1793193 original size:17 final size:17
Alignment explanation
Indices: 1793171--1793205 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1793161 AAATCCCCGT
1793171 AATCTTGCAAATGAGGA
1 AATCTTGCAAATGAGGA
1793188 AATCTTGCAAATGAGGA
1 AATCTTGCAAATGAGGA
1793205 A
1 A
1793206 TACAATCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
AATCTTGCAAATGAGGA
Found at i:1794063 original size:16 final size:17
Alignment explanation
Indices: 1794042--1794074 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1794032 GCTCCATTAC
1794042 ATTTATGTA-TATTTTT
1 ATTTATGTAGTATTTTT
*
1794058 ATTTATTTAGTATTTTT
1 ATTTATGTAGTATTTTT
1794075 GTTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
ATTTATGTAGTATTTTT
Found at i:1794079 original size:20 final size:20
Alignment explanation
Indices: 1794042--1794081 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1794032 GCTCCATTAC
1794042 ATTTATGTATATTTTTATTT
1 ATTTATGTATATTTTTATTT
*
1794062 ATTTA-GTATTTTTGTTATTT
1 ATTTATGTATATTT-TTATTT
1794082 TATGTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
ATTTATGTATATTTTTATTT
Found at i:1796811 original size:41 final size:41
Alignment explanation
Indices: 1796744--1797165 Score: 358
Period size: 41 Copynumber: 10.3 Consensus size: 41
1796734 ACATGTGCTA
** * *
1796744 TAGTGGCGTTTTT-TTTAAACGCCGCTAAATACTCATATTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
* * * * *
1796784 TAGTGGTGTTTTTATATAAACGCCGCTAAAGA-TTGTAATA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
* * *
1796824 TAGTGGGGGTTTTATACAAACGCCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
* * *
1796865 TAGTGGCATTTTTTGTACAAACGCCGCTAAA-AAT-G-AGTTCAT
1 TAGTGGC-GTTTTTATACAAACGCCGCTAAAGACTCGTA-TT--T
* * *
1796907 TAGTGGCATTTTTGA-ACAAACGCTGCTAAA-ATCTAGT-TATT
1 TAGTGGCGTTTTT-ATACAAACGCCGCTAAAGA-CTCGTAT-TT
*
1796948 TAGTGGCGTTTTTATACAAACGCCGCTAATGACTCGTATTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
* * * *
1796989 TAGTGGCGTTTTTGTTTACAAACGCTGCTAAGGACTCGTAATT
1 TAGTGGCG-TTTT-TATACAAACGCCGCTAAAGACTCGTATTT
* * * * * * *
1797032 CAATGGCGTTTTTATATAAATGCCGCTATAA-AGTCATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTA-AAGACTCGTATTT
* * *
1797073 CAGTGGCGTTTTTATACAAACGTCGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
* * * *
1797114 CAGTGGCGTTTTTATACAAACGCCACTAAAGACTTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
1797155 TAGTGGCGTTT
1 TAGTGGCGTTT
1797166 GTAAACACAA
Statistics
Matches: 313, Mismatches: 51, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.00
40 50 0.16
41 188 0.60
42 41 0.13
43 33 0.11
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTATTT
Found at i:1800314 original size:43 final size:43
Alignment explanation
Indices: 1800187--1800444 Score: 317
Period size: 43 Copynumber: 6.0 Consensus size: 43
1800177 TTGTGGATAC
* *
1800187 AAACGCCGCTATAGATATTGACCTTTTGTGGCATTTGTTCC-A
1 AAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCCAA
* *
1800229 AAACGCCGCTATAGATATTGACTTTTTGAGGCGTTTGTTCCAA
1 AAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCCAA
* * * *
1800272 AAACGCAGCTATAGATCTT-TCCTTTCGCGGCGTTTGTATCCAA
1 AAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGT-TCCAA
* *
1800315 AAATGCCGCTATA-AGTCTT-ACCTTTTGCGGCGTTTGTTCCAA
1 AAACGCCGCTATAGA-TATTGACCTTTTGCGGCGTTTGTTCCAA
* * * *
1800357 AAACAACCGCTATAGATATTGACCTTTTGCGGCATTTGATCTAA
1 AAAC-GCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCCAA
* *
1800401 AAACGCCGCTATAGATATCGACCTTTTGCGGTGTTTGTTCCAA
1 AAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCCAA
1800444 A
1 A
1800445 CACGACGCGC
Statistics
Matches: 185, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 61 0.33
43 99 0.54
44 25 0.14
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (43 bp):
AAACGCCGCTATAGATATTGACCTTTTGCGGCGTTTGTTCCAA
Found at i:1801063 original size:13 final size:13
Alignment explanation
Indices: 1801042--1801074 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1801032 ATGTCACTTT
*
1801042 TTATCTTTTAAAA
1 TTATTTTTTAAAA
1801055 TTATTTTTTAAAA
1 TTATTTTTTAAAA
1801068 TTATTTT
1 TTATTTT
1801075 AATTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:1804400 original size:114 final size:112
Alignment explanation
Indices: 1804200--1804599 Score: 565
Period size: 114 Copynumber: 3.7 Consensus size: 112
1804190 AAATTCATAT
** * * * *
1804200 AATTTCTTAGTTTTTTTCACATAAAATGCCTATACGGAAATTCATAAACTTATTATGAATTTCTT
1 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
*
1804265 AACTTTTTGTACACAAAGTGCCCATACGGAAATTCATAAACTTATTATG
66 AAC-TTTT-TACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
1804314 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGCATTTCTT
1 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
*
1804379 AACTTTTTACACACAAAGTGCCCATACGGAAATTCATAAACCAATTATG
66 AACTTTTT--ACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* *
1804428 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACTGAAATTCATAAACTAATTATGAATTTCTT
1 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
1804493 AAC-TTTT--------TG--CATACGGAAATTCATAAACTAATTATG
66 AACTTTTTACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
1804529 AATTTCTTAAC--ATTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
1 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
1804592 AACTTTTT
66 AACTTTTT
1804600 GTACACTCAG
Statistics
Matches: 267, Mismatches: 16, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
99 52 0.19
100 4 0.01
101 37 0.14
103 2 0.01
112 1 0.00
113 8 0.03
114 163 0.61
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (112 bp):
AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTT
AACTTTTTACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
Found at i:1804502 original size:57 final size:57
Alignment explanation
Indices: 1804200--1804503 Score: 482
Period size: 57 Copynumber: 5.3 Consensus size: 57
1804190 AAATTCATAT
** * * * * *
1804200 AATTTCTTAGTTTTTTTCACATAAAATGCCTATACGGAAATTCATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* *
1804257 AATTTCTTAACTTTTTGTACACAAAGTGCCCATACGGAAATTCATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
1804314 AATTTCTTAACTTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* * *
1804371 CATTTCTTAACTTTTTACACACAAAGTGCCCATACGGAAATTCATAAACCAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
1804428 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACTGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
1804485 AATTTCTTAACTTTTTGCA
1 AATTTCTTAACTTTTTGCA
1804504 TACGGAAATT
Statistics
Matches: 230, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 230 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
Found at i:1804521 original size:44 final size:45
Alignment explanation
Indices: 1804457--1804600 Score: 173
Period size: 55 Copynumber: 3.0 Consensus size: 45
1804447 CACAAAGTGC
*
1804457 CCATACTGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTG
1 CCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTG
*
1804502 -CATACGGAAATTCATAAACTAATTATGAATTTCTTAACATTTCACACAAAGTG
1 CCATACGGAAATTCATAAACTAATTATGAATTTCTTAAC-TTT--------TTG
1804555 CCCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTG
1 -CCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTG
1804601 TACACTCAGT
Statistics
Matches: 85, Mismatches: 3, Indels: 21
0.78 0.03 0.19
Matches are distributed among these distances:
44 37 0.44
45 3 0.04
46 2 0.02
53 2 0.02
54 3 0.04
55 38 0.45
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (45 bp):
CCATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTG
Found at i:1804581 original size:99 final size:101
Alignment explanation
Indices: 1804401--1804600 Score: 359
Period size: 99 Copynumber: 2.0 Consensus size: 101
1804391 ACAAAGTGCC
* *
1804401 CATACGGAAATTCATAAACCAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACTGA
1 CATACGGAAATTCATAAACCAATTATGAATTTCTTAACTATTTGCACACAAAGTGCCCATACGGA
1804466 AATTCATAAACTAATTATGAATTTCTTAACTTTTTG
66 AATTCATAAACTAATTATGAATTTCTTAACTTTTTG
*
1804502 CATACGGAAATTCATAAACTAATTATGAATTTCTTAAC-ATTT-CACACAAAGTGCCCATACGGA
1 CATACGGAAATTCATAAACCAATTATGAATTTCTTAACTATTTGCACACAAAGTGCCCATACGGA
1804565 AATTCATAAACTAATTATGAATTTCTTAACTTTTTG
66 AATTCATAAACTAATTATGAATTTCTTAACTTTTTG
1804601 TACACTCAGT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
99 56 0.58
100 3 0.03
101 37 0.39
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (101 bp):
CATACGGAAATTCATAAACCAATTATGAATTTCTTAACTATTTGCACACAAAGTGCCCATACGGA
AATTCATAAACTAATTATGAATTTCTTAACTTTTTG
Found at i:1807816 original size:3 final size:3
Alignment explanation
Indices: 1807808--1807864 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
1807798 AGGTTAATAA
1807808 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1807856 ATAT ATT AT
1 AT-T ATT AT
1807865 ACAATAAAGC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1810564 original size:45 final size:45
Alignment explanation
Indices: 1810385--1811271 Score: 832
Period size: 45 Copynumber: 20.0 Consensus size: 45
1810375 ACTTGACGAC
* * **
1810385 CTCGTGAAGAGGAGTCAATCTTTCAATA-T-T-ATTCTTGACTCC
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * * *
1810427 CTTGTGAAGA-AGAGTCATTCTTTCA--A-TGTTATTCTTGACTCT
1 CTCGTGAAGAGA-AGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810469 CTCGTGAAGAGGAGTCAATCTTTCA--A-TGTTATTATTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810511 CTTGTGAAGATAAGTCAATCTTTCAATATTGTCATTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * * *
1810556 CTCATGAAGAGAAGTCAATCTTTCAGTATTTTCTTTCTTGAATTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* *
1810601 CTCGTGAAGAGAAGTTAATCTTTCAGTATTGTTATTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* *
1810646 CTCATGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGGCTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810691 CTCGTGAAGAGAATTCAATCTTTCAATATTGTCTTTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* **
1810736 CTCGTGAAGAGAAGTCAATCTTTCAGTGCTT-TCATTCTTGACTCC
1 CTCGTGAAGAGAAGTCAATCTTTCAGT-ATTGTCATTCTTGACTTT
** * * * * *
1810781 CTTATGAAGATG-AGTTAATATTTCA--A-TGTTATTCTTGGCTCT
1 CTCGTGAAGA-GAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* *
1810823 CTCGTGAAGAGGAGTCAATCTTTCA--A-TGTTATTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810865 CTCATGAAGAGAAGTCAATCTTTCAGTATTGGCATTCTTAACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810910 CTCTTGAAAAGAAGTCAATCTTTCAGTATTGTTATTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1810955 CTCGCGAAGAGAATTCAATC-TTCAAGTATTGTCATTCTTGATTTT
1 CTCGTGAAGAGAAGTCAATCTTTC-AGTATTGTCATTCTTGACTTT
* * *
1811000 CTCGTGAAGAAAAGTCAATCTTTCAGTATTTTCTTTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * *
1811045 TTCATGAAGAGAAGTCAATCTCTCAGTATTGTCATTCTTGACTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
* * * * * *
1811090 CTAGTGAAAAGAAGTTAATCTTTCAGTGTTATC-TTCCTTGATTTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATT-CTTGACTTT
* * * * *
1811135 CTAGTGAAGATG-AGTCAATATCTT-AGTGTTGGCCTTCTTGACTTT
1 CTCGTGAAGA-GAAGTCAATCT-TTCAGTATTGTCATTCTTGACTTT
** * * * *
1811180 CTCGCAAAGATG-AGTCAATCTTTTAGTGTTGTCCTTATTGACTTT
1 CTCGTGAAGA-GAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
** * * ** * *
1811225 CTCACGAAGA-AGAGTCAACCTTTTAGTGGTGTTATTCTTGATTTT
1 CTCGTGAAGAGA-AGTCAATCTTTCAGTATTGTCATTCTTGACTTT
1811270 CT
1 CT
1811272 TGCGGAAATG
Statistics
Matches: 709, Mismatches: 113, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
40 2 0.00
41 3 0.00
42 158 0.22
44 9 0.01
45 526 0.74
46 11 0.02
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (45 bp):
CTCGTGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGACTTT
Found at i:1811065 original size:354 final size:352
Alignment explanation
Indices: 1810385--1811121 Score: 1061
Period size: 354 Copynumber: 2.1 Consensus size: 352
1810375 ACTTGACGAC
* * * * *
1810385 CTCGTGAAGAGGAGTCAATCTTTCAAT-ATTATTCTTGACTCCCTTGTGAAGAAGAGTCATTCTT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTGATTATTCTTGACTCCCTTATGAAGAAGAGTCAATATT
*
1810449 TCAATGTTATTCTTGACTCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTATTGACTTTCTT
66 TCAATGTTATTCTTGACTCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTATTGACTTTCTC
* * * * *
1810514 GTGAAGATAAGTCAATCTTTCAATATTGTCATTCTTGACTTTCTCATGAAGAGAAGTCAATCTTT
131 ATGAAGAGAAGTCAATCTTTCAATATTGGCATTCTTAACTTTCTCATGAAAAGAAGTCAATCTTT
* * *
1810579 CAGTATTTTCTTTCTTGAATTTCTCGTGAAGAGAAGTTAATCTTTCAGTATTGTTATTCTTGACT
196 CAGTATTTTCATTCTTGAATTTCTCGCGAAGAGAAGTTAATCTTTCAGTATTGTCATTCTTGACT
* * * *
1810644 TTCTCATGAAGAGAAGTCAATCTTTCAGTATTGTCATTCTTGGCTTTCTCGTGAAGAGAATTCAA
261 TTCTCATGAAGAAAAGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCATGAAGAGAAGTCAA
* *
1810709 TCTTTCAATATTGTCTTTCTTGACTTT
326 TCTCTCAATATTGTCATTCTTGACTTT
* * *
1810736 CTCGTGAAGAGAAGTCAATCTTTCAGTGCTTTCATTCTTGACTCCCTTATGAAGATGAGTTAATA
1 CTCGTGAAGAGAAGTCAATCTTTCAGTG-ATT-ATTCTTGACTCCCTTATGAAGAAGAGTCAATA
* *
1810801 TTTCAATGTTATTCTTGGCTCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTCTTGACTTTC
64 TTTCAATGTTATTCTTGACTCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTATTGACTTTC
* *
1810866 TCATGAAGAGAAGTCAATCTTTCAGTATTGGCATTCTTAACTTTCTCTTGAAAAGAAGTCAATCT
129 TCATGAAGAGAAGTCAATCTTTCAATATTGGCATTCTTAACTTTCTCATGAAAAGAAGTCAATCT
*
1810931 TTCAGTATTGTT-ATTCTTGACTTTCTCGCGAAGAGAA-TTCAATC-TTCAAGTATTGTCATTCT
194 TTCAGTATT-TTCATTCTTGAATTTCTCGCGAAGAGAAGTT-AATCTTTC-AGTATTGTCATTCT
* * * * *
1810993 TGATTTTCTCGTGAAGAAAAGTCAATCTTTCAGTATTTTCTTTCTTGACTTTTTCATGAAGAGAA
256 TGACTTTCTCATGAAGAAAAGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCATGAAGAGAA
*
1811058 GTCAATCTCTCAGTATTGTCATTCTTGACTTT
321 GTCAATCTCTCAATATTGTCATTCTTGACTTT
* * *
1811090 CTAGTGAAAAGAAGTTAATCTTTCAGTG-TTAT
1 CTCGTGAAGAGAAGTCAATCTTTCAGTGATTAT
1811122 CTTCCTTGAT
Statistics
Matches: 343, Mismatches: 37, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
351 27 0.08
352 2 0.01
353 7 0.02
354 305 0.89
355 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (352 bp):
CTCGTGAAGAGAAGTCAATCTTTCAGTGATTATTCTTGACTCCCTTATGAAGAAGAGTCAATATT
TCAATGTTATTCTTGACTCTCTCGTGAAGAGGAGTCAATCTTTCAATGTTATTATTGACTTTCTC
ATGAAGAGAAGTCAATCTTTCAATATTGGCATTCTTAACTTTCTCATGAAAAGAAGTCAATCTTT
CAGTATTTTCATTCTTGAATTTCTCGCGAAGAGAAGTTAATCTTTCAGTATTGTCATTCTTGACT
TTCTCATGAAGAAAAGTCAATCTTTCAGTATTGTCATTCTTGACTTTCTCATGAAGAGAAGTCAA
TCTCTCAATATTGTCATTCTTGACTTT
Found at i:1812367 original size:2 final size:2
Alignment explanation
Indices: 1812360--1812385 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1812350 CATATGCGTG
1812360 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1812386 CAAAAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1815910 original size:2 final size:2
Alignment explanation
Indices: 1815905--1815929 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1815895 TAATAGGATC
1815905 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1815930 AATTCAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1817321 original size:30 final size:29
Alignment explanation
Indices: 1817273--1817368 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
1817263 TACCATACGA
*
1817273 TGATA-ATAAGACTAGTTATATCAGTACTT
1 TGATATATAAGACT-GTTATATCAGCACTT
*
1817302 TGATATATATGACTCGTTATGAT-AGCACTT
1 TGATATATAAGACT-GTTAT-ATCAGCACTT
* **
1817332 TGAACATATAAGACTGTTAGGTCAGCACTT
1 TG-ATATATAAGACTGTTATATCAGCACTT
1817362 TGATATA
1 TGATATA
1817369 AACGTTGATC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 10 0.18
30 33 0.60
31 12 0.22
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (29 bp):
TGATATATAAGACTGTTATATCAGCACTT
Done.