Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1775
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: 71486
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Found at i:1636 original size:13 final size:13
Alignment explanation
Indices: 1618--1643 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1608 ATAATCACCC
1618 TGTATCGATACAA
1 TGTATCGATACAA
1631 TGTATCGATACAA
1 TGTATCGATACAA
1644 AGAAAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3731 original size:15 final size:15
Alignment explanation
Indices: 3711--3741 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3701 ATTTCGTTTG
*
3711 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3726 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3741 G
1 G
3742 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:5572 original size:21 final size:21
Alignment explanation
Indices: 5543--5587 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5533 CAAGTTTTTT
*
5543 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
5563 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
5585 TTT
1 TTT
5588 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:7831 original size:13 final size:13
Alignment explanation
Indices: 7813--7838 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7803 CAATTTTTGG
7813 TGTATCGATACAT
1 TGTATCGATACAT
7826 TGTATCGATACAT
1 TGTATCGATACAT
7839 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7850 original size:32 final size:33
Alignment explanation
Indices: 7793--7856 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
7783 TACAAGCCAA
**
7793 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
7826 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
7857 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:7863 original size:19 final size:18
Alignment explanation
Indices: 7793--7863 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
7783 TACAAGCCAA
7793 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
7813 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
7826 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
7845 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
7864 CTACTGTCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:8253 original size:19 final size:19
Alignment explanation
Indices: 8220--8304 Score: 70
Period size: 19 Copynumber: 4.4 Consensus size: 19
8210 AGATCCTAAC
8220 AATA-TTATATAATTTTAAT
1 AATATTTATAT-ATTTTAAT
8239 AATATTTATATA-TTTATAT
1 AATATTTATATATTTTA-AT
*
8258 TATATTTATATTATTTTTTAAT
1 AATATTTATA-TA--TTTTAAT
8280 -ATATTT-TAATATTTTAAT
1 AATATTTAT-ATATTTTAAT
*
8298 ATTATTT
1 AATATTT
8305 TAATTATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
18 11 0.20
19 21 0.38
20 11 0.20
21 7 0.12
22 2 0.04
23 4 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATATTTATATATTTTAAT
Found at i:8261 original size:11 final size:10
Alignment explanation
Indices: 8224--8314 Score: 68
Period size: 11 Copynumber: 9.2 Consensus size: 10
8214 CCTAACAATA
*
8224 TTATATAATT
1 TTATATTATT
*
8234 TTA-ATAATAT
1 TTATATTAT-T
8244 TTATA-TA-T
1 TTATATTATT
8252 TTATATTATAT
1 TTATATTAT-T
8263 TTATATTATT
1 TTATATTATT
*
8273 TTTTAATATATT
1 TTAT-AT-TATT
8285 TTA-A-TATT
1 TTATATTATT
8293 TTAATATTATT
1 TT-ATATTATT
8304 TTA-ATTATT
1 TTATATTATT
8313 TT
1 TT
8315 TTTCTTCTAG
Statistics
Matches: 68, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
8 12 0.18
9 16 0.24
10 15 0.22
11 19 0.28
12 6 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATATTATT
Found at i:8291 original size:29 final size:28
Alignment explanation
Indices: 8231--8314 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
8221 ATATTATATA
* *
8231 ATTTTAATAATATTTATATATTTATATT-AT
1 ATTTTAATATTATTT-TA-A-TTATTTTAAT
*
8261 ATTTATATTATT-TTTTAATATATTTTAAT
1 ATTT-TAATATTATTTTAAT-TATTTTAAT
8290 ATTTTAATATTATTTTAATTATTTT
1 ATTTTAATATTATTTTAATTATTTT
8315 TTTCTTCTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
27 1 0.02
28 18 0.39
29 15 0.33
30 7 0.15
31 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTTTAATATTATTTTAATTATTTTAAT
Found at i:8292 original size:40 final size:41
Alignment explanation
Indices: 8232--8316 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
8222 TATTATATAA
8232 TTTTAATAATATTTATATA-TTT-ATATTATATTTATATTATT
1 TTTTAATAATATTTATATATTTTAATATTAT-TTTA-ATTATT
8273 TTTTAAT-ATATTT-TAATATTTTAATATTATTTTAATTATT
1 TTTTAATAATATTTAT-ATATTTTAATATTATTTTAATTATT
8313 TTTT
1 TTTT
8317 TCTTCTAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
39 1 0.02
40 19 0.46
41 14 0.34
42 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (41 bp):
TTTTAATAATATTTATATATTTTAATATTATTTTAATTATT
Found at i:8305 original size:19 final size:19
Alignment explanation
Indices: 8273--8314 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
8263 TTATATTATT
8273 TTTTAATATATTTTAA-TA
1 TTTTAATATATTTTAATTA
8291 TTTTAATATTATTTTAATTA
1 TTTTAATA-TATTTTAATTA
8311 TTTT
1 TTTT
8315 TTTCTTCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAATATATTTTAATTA
Found at i:8315 original size:29 final size:29
Alignment explanation
Indices: 8259--8314 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
8249 TATTTATATT
*
8259 ATATTTATATTATTTTTTAATATATTTTA
1 ATATTTATAATATTTTTTAATATATTTTA
8288 ATATTT-TAATATTATTTTAAT-TATTTT
1 ATATTTATAATATT-TTTTAATATATTTT
8315 TTTCTTCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
ATATTTATAATATTTTTTAATATATTTTA
Found at i:8316 original size:11 final size:10
Alignment explanation
Indices: 8269--8316 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
8259 ATATTTATAT
8269 TATTTTTTAA
1 TATTTTTTAA
*
8279 TATATTTTAA
1 TATTTTTTAA
8289 TA--TTTTAA
1 TATTTTTTAA
8297 TATTATTTTAA
1 TATT-TTTTAA
8308 TTATTTTTT
1 -TATTTTTT
8317 TCTTCTAGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
8 8 0.24
10 11 0.33
11 10 0.30
12 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:8632 original size:14 final size:15
Alignment explanation
Indices: 8613--8659 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
8603 ATAAGTAAAC
8613 ATAAATTTTAA-ATT
1 ATAAATTTTAATATT
8627 ATAAATATTTAATATT
1 ATAAAT-TTTAATATT
8643 -TAAAATTTTAGATATT
1 AT-AAATTTTA-ATATT
8659 A
1 A
8660 AACAAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.21
15 10 0.36
16 12 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAAATTTTAATATT
Found at i:8660 original size:15 final size:14
Alignment explanation
Indices: 8615--8661 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
8605 AAGTAAACAT
8615 AAATTTTAA-ATTA
1 AAATTTTAATATTA
8628 TAAATATTTAATATTTA
1 -AAAT-TTTAATA-TTA
8645 AAATTTTAGATATTA
1 AAATTTTA-ATATTA
8660 AA
1 AA
8662 CAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.14
15 14 0.48
16 8 0.28
17 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AAATTTTAATATTA
Found at i:9204 original size:2 final size:2
Alignment explanation
Indices: 9197--9229 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9187 GTATATGTTT
9197 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 T
9230 GTGATGTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11750 original size:2 final size:2
Alignment explanation
Indices: 11743--11776 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
11733 AACTTTCTTA
*
11743 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11777 TTTCATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12470 original size:2 final size:2
Alignment explanation
Indices: 12463--12494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12453 TGCTACTGTA
12463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12495 CTGCGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13756 original size:24 final size:24
Alignment explanation
Indices: 13706--13756 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
13696 GTTTGAGTTA
*
13706 TATTTTAATTTTGAAAGTATGTTT
1 TATTTTAATTTTGAAAGTATGTGT
* *
13730 TATTTTTATTTTTATAAGTAT-TGT
1 TATTTTAATTTTGA-AAGTATGTGT
13754 TAT
1 TAT
13757 AATCTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (24 bp):
TATTTTAATTTTGAAAGTATGTGT
Found at i:14287 original size:5 final size:5
Alignment explanation
Indices: 14279--14473 Score: 122
Period size: 5 Copynumber: 38.2 Consensus size: 5
14269 AAAAATATTA
*
14279 ATAAT ATAAT AT-AT AATAAT AT-AT A-ATAT ATAAT AATATAT ATAGT
1 ATAAT ATAAT ATAAT -ATAAT ATAAT ATA-AT ATAAT -ATA-AT ATAAT
* *
14325 ATATAT ATAAT AATATAT ATAGT AT-AC AT-AT ATAAT ATAAT ATAAT
1 ATA-AT ATAAT -ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
14371 ATAAT ATAAT ATATT AT-AT GTTACAT ATATT ATATAT ATATAT ATTAT
1 ATAAT ATAAT ATAAT ATAAT -ATA-AT ATAAT ATA-AT ATA-AT ATAAT
*
14419 ATTAAC ATAAT A-ATAT ATAAT AT-AT ATAAT ATAAT AT-AT AATAAT
1 A-TAAT ATAAT ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT
14464 AT-AT ATAAT A
1 ATAAT ATAAT A
14474 ACAAAAAATG
Statistics
Matches: 152, Mismatches: 16, Indels: 44
0.72 0.08 0.21
Matches are distributed among these distances:
4 22 0.14
5 88 0.58
6 36 0.24
7 6 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:14294 original size:7 final size:7
Alignment explanation
Indices: 14279--14473 Score: 144
Period size: 7 Copynumber: 27.9 Consensus size: 7
14269 AAAAATATTA
14279 ATAATAT
1 ATAATAT
14286 A-ATATAT
1 ATA-ATAT
14293 AATAATAT
1 -ATAATAT
14301 ATAATAT
1 ATAATAT
14308 ATAATA-
1 ATAATAT
14314 AT-ATAT
1 ATAATAT
*
14320 ATAGTAT
1 ATAATAT
14327 AT-ATAT
1 ATAATAT
14333 AATAATAT
1 -ATAATAT
14341 AT-ATAGT
1 ATAATA-T
14348 ATACATAT
1 ATA-ATAT
14356 AT-A-AT
1 ATAATAT
14361 ATAATAT
1 ATAATAT
14368 A-ATATAAT
1 ATA-AT-AT
14376 ATAATAT
1 ATAATAT
*
14383 ATTATAT
1 ATAATAT
*
14390 GTTACATAT
1 -ATA-ATAT
*
14399 ATTATAT
1 ATAATAT
14406 AT-ATAT
1 ATAATAT
*
14412 ATATTAT
1 ATAATAT
*
14419 ATTAACAT
1 A-TAATAT
14427 AATAATAT
1 -ATAATAT
14435 ATAATAT
1 ATAATAT
14442 AT-ATAAT
1 ATAAT-AT
14449 ATAATAT
1 ATAATAT
14456 ATAATA-
1 ATAATAT
14462 AT-ATAT
1 ATAATAT
14468 ATAATA
1 ATAATA
14474 ACAAAAAATG
Statistics
Matches: 153, Mismatches: 11, Indels: 48
0.72 0.05 0.23
Matches are distributed among these distances:
5 10 0.07
6 26 0.17
7 77 0.50
8 30 0.20
9 10 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:14302 original size:2 final size:2
Alignment explanation
Indices: 14282--14470 Score: 142
Period size: 2 Copynumber: 106.5 Consensus size: 2
14272 AATATTAATA
14282 AT AT A- AT AT AT A- AT A- AT AT AT A- AT AT AT A- AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14318 AT AT AGT AT AT AT AT A- AT A- AT AT AT AT AGT AT AC AT AT AT A-
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* *
14359 AT AT A- AT AT A- AT AT A- AT AT A- AT AT AT -T AT AT GT -T AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
14395 AT AT AT -T AT AT AT AT AT AT AT -T AT AT -T A- AC AT A- AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14431 AT AT AT A- AT AT AT AT A- AT AT A- AT AT AT A- AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14468 AT A
1 AT A
14471 ATAACAAAAA
Statistics
Matches: 153, Mismatches: 6, Indels: 56
0.71 0.03 0.26
Matches are distributed among these distances:
1 26 0.17
2 123 0.80
3 4 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:23840 original size:27 final size:27
Alignment explanation
Indices: 23774--24154 Score: 435
Period size: 27 Copynumber: 13.9 Consensus size: 27
23764 TTTCTTTTCA
* * *
23774 AAGTCCATAACGCCGTGGCA-CTTTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
*
23801 GAAGTTCACAACTCCGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
23829 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
23856 AAGTCCACAACTCCGTGGCACCCTTTG
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
23883 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
23910 AAAGTCTACCACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
23938 AAGTTCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
23965 AAGTCCACAACTCCGTGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* *
23992 AAGTCCACAACTCCGTGGCATTCGTTTC
1 AAGTCCACAACTCCGTGGCA-TCCTTTT
*
24020 AAGTCCACAACTCCGTGGCATTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
24047 AAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
24075 ACGTCCATAACTTCGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* *
24102 AAGTCCACAGCTTCGTGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* * * *
24130 AAGCCCACAAGTCAGTGGCACCCTT
1 AAGTCCACAACTCCGTGGCATCCTT
24155 CCAAAGCCCA
Statistics
Matches: 306, Mismatches: 38, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
26 3 0.01
27 185 0.60
28 116 0.38
29 2 0.01
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:23924 original size:109 final size:109
Alignment explanation
Indices: 23774--24128 Score: 460
Period size: 109 Copynumber: 3.2 Consensus size: 109
23764 TTTCTTTTCA
* * ** *
23774 AAGTCCATAACGCCGTGGCACTTTTTTGAAGT-TCACAACTCCGTGGCATCCTTTTAAGTCCACA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCT-ACAACTCCGTGGCATCCTTTTAAGTCCACA
*
23838 ACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTG
65 ACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
23883 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACCACTCCGTGGCACCCTTTTAAGTTCACAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCATCCTTTTAAGTCCACAA
*
23948 CTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
66 CTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
** * * * *
23992 AAGTCCACAACTCCGTGGCATTCGTTTCAAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCACA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCATCCTTTT-AAGTCCACA
* * * * * *
24057 ACTCCGTGGCACCCTTTTACGTCCATAACTTCGTGGCACTCTTTT
65 ACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
24102 AAGTCCACAGCTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
24129 TAAGCCCACA
Statistics
Matches: 214, Mismatches: 30, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
109 144 0.67
110 70 0.33
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.31
Consensus pattern (109 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACAACTCCGTGGCATCCTTTTAAGTCCACAA
CTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:23936 original size:82 final size:81
Alignment explanation
Indices: 23774--24154 Score: 449
Period size: 82 Copynumber: 4.6 Consensus size: 81
23764 TTTCTTTTCA
* * * * *
23774 AAGTCCATAACGCCGTGGCACTTTTTTGAAGTTCACAACTCCGTGGCATCCTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCAC-CTTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
23839 CTCTGTGGCATCCTTTT
65 CTCCGTGGCACCCTTTT
* * *
23856 AAGTCCACAACTCCGTGGCACCCTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCTACCA
1 AAGTCCACAACTCCGTGGCACCTTTTGAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAA
23921 CTCCGTGGCACCCTTTT
65 CTCCGTGGCACCCTTTT
* * *
23938 AAGTTCACAACTCTGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAA
1 AAGTCCACAACTCCGTGGCA-CCTTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * *
24002 CTCCGTGGCATTCGTTTC
65 CTCCGTGGCA-CCCTTTT
* * * *
24020 AAGTCCACAACTCCGTGGCATTCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTACGTCCATAA
1 AAGTCCACAACTCCGTGGCA-CCTTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* *
24085 CTTCGTGGCACTCTTTT
65 CTCCGTGGCACCCTTTT
* * * * * *
24102 AAGTCCACAGCTTCGTGGCATCCTTTTTAAGCCCACAAGTCAGTGGCACCCTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTGAAGTCCACAACTCCGTGGCACCCTT
24155 CCAAAGCCCA
Statistics
Matches: 258, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
81 47 0.18
82 163 0.63
83 48 0.19
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (81 bp):
AAGTCCACAACTCCGTGGCACCTTTTGAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TCCGTGGCACCCTTTT
Found at i:24147 original size:28 final size:28
Alignment explanation
Indices: 23807--24577 Score: 398
Period size: 28 Copynumber: 27.0 Consensus size: 28
23797 TTTTGAAGTT
* * *
23807 CACAACTCCGTGGCATCCTTTT-AAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * *
23834 CACAACTCTGTGGCATCCTTTT-AAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * * *
23861 CACAACTCCGTGGCA-CCCTTTGAAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * *
23888 CACAACTCCGTGGCACCCTTTTAAAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * * * **
23916 TACCACTCCGTGGCACCCTTTT-AAGTT
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * *
23943 CACAACTCTGTGGCATCCTTTT-AAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * *
23970 CACAACTCCGTGGCA-CCTTTTTAAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * * * *
23997 CACAACTCCGTGGCATTCGTTTCAAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * *
24025 CACAACTCCGTGGCATTCTTTTAAAGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * * * *
24053 CACAACTCCGTGGCACCCTTTT-ACGTC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * *
24080 CATAACTTC-GTGGCA-CTCTTTT-AAGTC
1 CACAA-GTCAGTGGCATC-CTTTTAAAGCC
*
24107 CAC-AGCTTC-GTGGCATCCTTTTTAAGCC
1 CACAAG--TCAGTGGCATCCTTTTAAAGCC
* **
24135 CACAAGTCAGTGGCACCCTTCCAAAGCC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* * *
24163 CACAAGTCAGTGGTACCCCTTTTTAAGCC
1 CACAAGTCAGTGGCA-TCCTTTTAAAGCC
* ** *
24192 CACAAGTTAGTGGCATTATTTCAAAGCCC
1 CACAAGTCAGTGGCATCCTTTTAAAG-CC
* * *
24221 ACACAAGTCGGTGGCAACTCATTTGAAAGCCC
1 -CACAAGTCAGTGGC-A-TCCTTTTAAAG-CC
* * *
24253 ACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 -CACAAGTCAGTGGC-ATCC-TTTTAAAGCC
* ** *
24284 CACAAGTTAGTGGCATTATTTCAAAGCCC
1 CACAAGTCAGTGGCATCCTTTTAAAG-CC
* * *
24313 ACACAAGTCGGTGGCAACTCATTTGAAAGCGC
1 -CACAAGTCAGTGGC-A-TCCTTTTAAAGC-C
** * * *
24345 ACACAAGTTGGTGACAACCCATTTCAAAGCCC
1 -CACAAGTCAGTGGC-ATCC-TTTTAAAG-CC
* *
24377 ACACAAGTCAGTGGCAACCCATTTCAAAGCC
1 -CACAAGTCAGTGGC-ATCC-TTTTAAAGCC
*
24408 CACAAGTCAGTGGCATCCTTCTCAAAGCCC
1 CACAAGTCAGTGGCATCCTT-TTAAAG-CC
* *
24438 ACACAAATTAGTGGCAT-CTTTTCAAAGCC
1 -CACAAGTCAGTGGCATCCTTTT-AAAGCC
* * *
24467 CACAAGTCAGTGGTATCCTTTCAATGCC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
*
24495 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
* *
24523 TACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTTAAAGCC
*
24551 CACAAGTCAGTGGCATCCTTTCAAAGC
1 CACAAGTCAGTGGCATCCTTTTAAAGC
24578 TCACTCAAGT
Statistics
Matches: 634, Mismatches: 80, Indels: 59
0.82 0.10 0.08
Matches are distributed among these distances:
26 13 0.02
27 160 0.25
28 237 0.37
29 46 0.07
30 59 0.09
31 23 0.04
32 95 0.15
33 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (28 bp):
CACAAGTCAGTGGCATCCTTTTAAAGCC
Found at i:24292 original size:92 final size:89
Alignment explanation
Indices: 24135--24594 Score: 427
Period size: 92 Copynumber: 5.2 Consensus size: 89
24125 TTTTTAAGCC
* * * * * * **
24135 CACAAGTCAGTGGCACCCTTCCAAAG-CC-CACAAGTCAGTGGTACCCCTTTTTAAGCCCACAAG
1 CACAAGTCGGTGGCATCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACAAG
* *
24198 TTAGTGGCATTATTTCAAAGCCCA
66 TCAGTGGCATCATTTCAAAGCCCA
* *
24222 CACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGC-A-TCATTTCAAAGCCCACACAAGTCAGTGGC-ACCCATTTCAAAGCCCAC
* *
24287 AAGTTAGTGGCATTATTTCAAAGCCCA
63 AAGTCAGTGGCATCATTTCAAAGCCCA
* * ** *
24314 CACAAGTCGGTGGCAACTCATTTGAAAGCGCACACAAGTTGGTGACAACCCATTTCAAAGCCCAC
1 CACAAGTCGGTGGC-A-TCATTTCAAAGCCCACACAAGTCAGTGGC-ACCCATTTCAAAG-CC-C
*
24379 ACAAGTCAGTGGCAACCCATTTCAAAG-CC-
61 ACAAGTCAGTGGC-A-TCATTTCAAAGCCCA
* * * * * *
24408 CACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATTAGTGGCA-TCTTTTCAAAGCCCACAA
1 CACAAGTCGGTGGCATCATT-TCAAAGCCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACAA
* * *
24472 GTCAGTGGTATCCTTTCAATG-CC-
65 GTCAGTGGCATCATTTCAAAGCCCA
* * * *
24495 CACAAGTCAGTGGCATCCTTTCAAAG-CC-TACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAG
1 CACAAGTCGGTGGCATCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACAAG
* *
24557 TCAGTGGCATCCTTTCAAAGCTCA
66 TCAGTGGCATCATTTCAAAGCCCA
*
24581 CTCAAGTCGGTGGC
1 CACAAGTCGGTGGC
24595 TTCAAAGCCC
Statistics
Matches: 322, Mismatches: 38, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
84 46 0.14
85 4 0.01
86 18 0.06
87 43 0.13
88 2 0.01
89 20 0.06
90 4 0.01
91 21 0.07
92 104 0.32
93 22 0.07
94 26 0.08
95 3 0.01
96 9 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (89 bp):
CACAAGTCGGTGGCATCATTTCAAAGCCCACACAAGTCAGTGGCACCCATTTCAAAGCCCACAAG
TCAGTGGCATCATTTCAAAGCCCA
Found at i:24368 original size:124 final size:125
Alignment explanation
Indices: 24135--24592 Score: 431
Period size: 124 Copynumber: 3.8 Consensus size: 125
24125 TTTTTAAGCC
* * * * **
24135 CACAAGTCAGTGGC-ACCC-TTCCAAAGCCCACAAGTCAGTGGTACCCCTT-TTTAAG-CC-CAC
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCA-TCATTCTCAAAGCCCACAC
** * * * *
24195 AAGTTAGTGGC-A-TTATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCA
65 AAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACCCATTTCAAAGCCCA
* * *
24254 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTTAGTGGCATTATT-TCAAAGCCCACACA
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACACA
* * *
24318 AGTCGGTGGCAACTCATTTGAAAGCGCACACAAGTTGGTGACAACCCATTTCAAAGCCCA
66 AGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACCCATTTCAAAGCCCA
*
24378 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACACA
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACACA
* ** * * ** * *
24443 AATTAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTG-GTATCC-TTTCAATG-CC-
66 AGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACCCATTTCAAAGCCCA
* * *
24495 CACAAGTCAGTGGC-ATCC-TTTCAAAGCCTACAAGTCAGTGGCATCCTT-TCAAAG-CC-CACA
1 CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACACA
* * * *
24555 AGTCAGTGGC-A-TCCTTTCAAAGCTCACTCAAGTCGGTG
66 AGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTG
24593 GCTTCAAAGC
Statistics
Matches: 288, Mismatches: 42, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
112 23 0.08
113 3 0.01
114 16 0.06
115 29 0.10
116 3 0.01
117 14 0.05
118 2 0.01
119 20 0.07
120 13 0.05
121 34 0.12
122 13 0.05
123 10 0.03
124 87 0.30
125 21 0.07
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (125 bp):
CACAAGTCAGTGGCAACCCATTTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACACA
AGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCGGTGACAACCCATTTCAAAGCCCA
Found at i:24860 original size:48 final size:48
Alignment explanation
Indices: 24729--24860 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
24719 GGCACCTTTA
* * *
24729 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTATCCATTTTTCCC
1 TTAGCTCAATGTCGATGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
24777 TTAGCTCAATGTTGATGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGATGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * **
24825 TTAGCTCGATGTCGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGATGGCCTTGAATCAGCACATTG
24861 GCACTTCTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.36
Consensus pattern (48 bp):
TTAGCTCAATGTCGATGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:26336 original size:2 final size:2
Alignment explanation
Indices: 26329--26357 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26319 TATCTATAGG
26329 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 T
26358 TGAAAATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29515 original size:71 final size:72
Alignment explanation
Indices: 29392--29524 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 72
29382 TAACTAGATG
* * * *
29392 TATCAATACATCTAGGTAAAAAGATAGAATGTATCGATATATTCATACATGTATCGATACATTAA
1 TATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCAAAAATGTATCGATACATTAA
29457 AAAAATA
66 AAAAATA
* * *
29464 TATCGATACATCTGGGT-AAAAGACAGAATGTATCGATACATTGAAAAATGTATCGATACAT
1 TATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCAAAAATGTATCGATACAT
29525 CTGGGGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
71 39 0.72
72 15 0.28
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.29
Consensus pattern (72 bp):
TATCAATACATCTAGGTAAAAAGACAGAATGTATCGATACATTCAAAAATGTATCGATACATTAA
AAAAATA
Found at i:30691 original size:31 final size:32
Alignment explanation
Indices: 30642--30731 Score: 92
Period size: 32 Copynumber: 2.8 Consensus size: 32
30632 TGAAAAGGTT
* **
30642 TGCCACCGACTTACGTGGGCTTT-AAAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAAGG
* * *
30673 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAAGG
* * *
30705 TGCTACCGACTTGTATGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
30732 GGGTATGCCA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 19 0.40
32 29 0.60
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAAAGG
Found at i:30786 original size:28 final size:28
Alignment explanation
Indices: 30767--31153 Score: 513
Period size: 28 Copynumber: 13.8 Consensus size: 28
30757 TGAAATAGTA
* *
30767 CCACTCACTTGTTGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
30795 CGACTAACTTGTTGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
30823 CCACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
30851 CCACTGACTTGTGGGCTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
30879 CCACTGACTTGTGGGCTTTAAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
30907 CCACTGACTTATGGGCTTTGAAAGGATA
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
30935 CCATTAACTTGTGGGCTTTGGAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
30963 CCATTAACTTGTGGGCTTTAAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
30991 CCACTGACTTGTGGGCTTCGAAATGTTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
31019 CCACTGACTTGTGGGCTTCGAAATGTTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
31047 CCACTAACTTGCGGGCTTTGAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
31075 CCACTGACCTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
31103 CCACTGTCTTGTGGGCTTTAAAATGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
31131 CTACTGACTTGTGGGCTTTGAAA
1 CCACTGACTTGTGGGCTTTGAAA
31154 AGGGTTGTAT
Statistics
Matches: 320, Mismatches: 39, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 320 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:30816 original size:56 final size:56
Alignment explanation
Indices: 30668--31153 Score: 535
Period size: 56 Copynumber: 8.6 Consensus size: 56
30658 GGGCTTTAAA
* * * *
30668 AAAGG-TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTATGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGACTTG--TGGGCTTTG
* ** * * * *
30729 AAAGGGTATGCCATTGACTTGTGGATTTTGAAA-TAGTACCACTCACTTGTTGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * *
30787 AAAGGATGCGACTAACTTGTTGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
30843 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
30899 AAAGGATGCCACTGACTTATGGGCTTTGAAAGGATACCATTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * *
30955 GAAGGATGCCATTAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * * * * *
31011 AAATGTTGCCACTGACTTGTGGGCTTCGAAATGTTGCCACTAACTTGCGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * * *
31067 AAATGATGCCACTGACCTGTGGGCTTTGAAAGGATGCCACTGTCTTGTGGGCTTTA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
31123 AAATGATGCTACTGACTTGTGGGCTTTGAAA
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAA
31154 AGGGTTGTAT
Statistics
Matches: 356, Mismatches: 64, Indels: 15
0.82 0.15 0.03
Matches are distributed among these distances:
56 307 0.86
57 3 0.01
58 11 0.03
60 9 0.03
61 6 0.02
62 11 0.03
63 1 0.00
64 8 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (56 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:30843 original size:84 final size:84
Alignment explanation
Indices: 30720--31153 Score: 546
Period size: 84 Copynumber: 5.1 Consensus size: 84
30710 CCGACTTGTA
* ** * * * *
30720 TGGGCTTTGAAAGGGTATGCCATTGACTTGTGGATTTTGAAA-TAGTACCACTCACTTGTTGGCT
1 TGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCT
* *
30784 TTGAAAGGATGCGACTAACTTG
63 TTGAAATGATGCCACTAACTTG
*
30806 TTGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
*
30871 AAATGATGCCACTGACTTG
66 AAATGATGCCACTAACTTG
* * * * *
30890 TGGGCTTTAAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATACCATTAACTTGTGGGCTTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* * *
30955 GAAGGATGCCATTAACTTG
66 AAATGATGCCACTAACTTG
* * * * *
30974 TGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTCGAAATGTTGCCACTGACTTGTGGGCTTCG
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
*
31039 AAATGTTGCCACTAACTTG
66 AAATGATGCCACTAACTTG
* * * * *
31058 CGGGCTTTGAAATGATGCCACTGACCTGTGGGCTTTGAAAGGATGCCACTGTCTTGTGGGCTTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
* *
31123 AAATGATGCTACTGACTTG
66 AAATGATGCCACTAACTTG
31142 TGGGCTTTGAAA
1 TGGGCTTTGAAA
31154 AGGGTTGTAT
Statistics
Matches: 300, Mismatches: 47, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
84 286 0.95
85 3 0.01
86 11 0.04
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (84 bp):
TGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG
AAATGATGCCACTAACTTG
Found at i:31207 original size:13 final size:12
Alignment explanation
Indices: 31163--31236 Score: 67
Period size: 13 Copynumber: 5.7 Consensus size: 12
31153 AAGGGTTGTA
31163 TTGACGAAAATTTC
1 TTGAC-AAAA-TTC
* *
31177 TTGACAAAGTTT
1 TTGACAAAATTC
31189 TTGACAAACATTC
1 TTGACAAA-ATTC
31202 TTGACAAAAGTTC
1 TTGACAAAA-TTC
*
31215 TTGACGATAATTTC
1 TTGAC-A-AAATTC
31229 TTGACAAA
1 TTGACAAA
31237 TGGTAAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.25
13 22 0.43
14 14 0.27
15 2 0.04
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (12 bp):
TTGACAAAATTC
Found at i:31211 original size:26 final size:27
Alignment explanation
Indices: 31163--31236 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
31153 AAGGGTTGTA
*
31163 TTGACGA-AAATTTCTTGAC-AAAGTTT
1 TTGACGATAAA-TTCTTGACAAAAGTTC
31189 TTGAC-A-AACATTCTTGACAAAAGTTC
1 TTGACGATAA-ATTCTTGACAAAAGTTC
*
31215 TTGACGATAATTTCTTGACAAA
1 TTGACGATAAATTCTTGACAAA
31237 TGGTAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.26
26 17 0.40
27 12 0.29
28 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (27 bp):
TTGACGATAAATTCTTGACAAAAGTTC
Found at i:33492 original size:79 final size:79
Alignment explanation
Indices: 33397--33623 Score: 271
Period size: 79 Copynumber: 2.9 Consensus size: 79
33387 ACGCGATCAA
* * * * *
33397 AGTACCCCCTCAGAAATAACAGGGTTGGGGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAAT
1 AGTATCCCTTCAGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTAGAAAT
*
33462 AAAACTAGGGTTAG
66 AAAACCAGGGTTAG
* ** * * *
33476 AGTATCCCTTCGGAAATAAC-GACATTAGAGTATCCTCGATTGTGAAAAATC-AGTGTTTTAGAA
1 AGTATCCCTTCAGAAATAACAG-GGTTGGAGTATCCCCAATTGTGAAAAATCGA-TGTTTTAGAA
*
33539 ATAAAACCAGGGTTGG
64 ATAAAACCAGGGTTAG
* * *
33555 AGTATCCCTTCAAAAATAACAGGGTTGAAGTATCCCCAATTGTG-AAAATCGGTGTTTTAGAAAT
1 AGTATCCCTTCAGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTAGAAAT
33619 AAAAC
66 AAAAC
33624 AGAGGCTGTT
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 25 0.20
79 96 0.79
80 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (79 bp):
AGTATCCCTTCAGAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTAGAAAT
AAAACCAGGGTTAG
Found at i:34612 original size:63 final size:63
Alignment explanation
Indices: 34516--34645 Score: 199
Period size: 63 Copynumber: 2.1 Consensus size: 63
34506 AAAATGCCTG
* * *
34516 AATGTATCGATACATCGAAAAATGTATCGATACATCTAGGTAAAACCCAAAATGTATCGATAT
1 AATGTATCAATACATCGAAAAATATATCAATACATCTAGGTAAAACCCAAAATGTATCGATAT
* *
34579 AATGTATCAATACAAT-GAATAATATATCAATACATCTAGGTAAAACCCAGAATGTATCGATAT
1 AATGTATCAATAC-ATCGAAAAATATATCAATACATCTAGGTAAAACCCAAAATGTATCGATAT
34642 AATG
1 AATG
34646 AACAATGTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 59 0.97
64 2 0.03
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (63 bp):
AATGTATCAATACATCGAAAAATATATCAATACATCTAGGTAAAACCCAAAATGTATCGATAT
Found at i:35374 original size:41 final size:42
Alignment explanation
Indices: 35279--35596 Score: 279
Period size: 41 Copynumber: 7.6 Consensus size: 42
35269 AAAGGGAGTA
* * * * *
35279 TGTCCTACTCCTTGGGGATAAAGGAAAAGAAGGAAATTAAGTG
1 TGTCCTACTCTTTGAGGACAAAGGGAAAG-AGGAAATAAAGTG
*
35322 TGTCCTGCTCTTTGAGGACAAAGGGAAAGA-GAAATAAAGTG
1 TGTCCTACTCTTTGAGGACAAAGGGAAAGAGGAAATAAAGTG
* * *
35363 TGTCTTACTCTTTGAGGACAAAGGGAAA-CGGAAATAGAGTG
1 TGTCCTACTCTTTGAGGACAAAGGGAAAGAGGAAATAAAGTG
* * * * * *
35404 TGTTCTGCTTTTTGAAGACAAAGAGAGA-AGGAAATAAAGTG
1 TGTCCTACTCTTTGAGGACAAAGGGAAAGAGGAAATAAAGTG
* * * *
35445 CGTCTTGCTCTTTGAGGACAAAAAGGAAA-AGGAAATAAAGT-
1 TGTCCTACTCTTTGAGGAC-AAAGGGAAAGAGGAAATAAAGTG
* * * * * * *
35486 TCATGCTGCTCTTTGAGGAAAAAAGGGAAAATAAGGAAAAAAAATG
1 T-GTCCTACTCTTTGAGG-ACAAAGGG-AAA-GAGGAAATAAAGTG
** *
35532 CATCCTACTTTTTGAGGACAAAGGGAAA-AGGAAATAAAGTG
1 TGTCCTACTCTTTGAGGACAAAGGGAAAGAGGAAATAAAGTG
35573 TGTCCTACTCTTTGAGGACAAAGG
1 TGTCCTACTCTTTGAGGACAAAGG
35597 ATAAAAGGCA
Statistics
Matches: 222, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
41 124 0.56
42 37 0.17
43 31 0.14
44 7 0.03
45 23 0.10
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (42 bp):
TGTCCTACTCTTTGAGGACAAAGGGAAAGAGGAAATAAAGTG
Found at i:35412 original size:82 final size:82
Alignment explanation
Indices: 35308--35596 Score: 321
Period size: 82 Copynumber: 3.5 Consensus size: 82
35298 AAAGGAAAAG
* *
35308 AAGGAAATTAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAGAGAAATAAAGTGTGTCTTACTC
1 AAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAGAGAAATAAAGTGCGTCTTACTC
35373 TTTGAGGACAAAGGGAA
66 TTTGAGGACAAAGGGAA
* * * * * * *
35390 ACGGAAATAGAGTGTGTTCTGCTTTTTGAAGACAAAGAGAGAAG-GAAATAAAGTGCGTCTTGCT
1 AAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGA-AAGAGAAATAAAGTGCGTCTTACT
*
35454 CTTTGAGGACAAAAAGGAA
65 CTTTGAGGAC-AAAGGGAA
* * * * * * * *
35473 AAGGAAATAAAGT-TCATGCTGCTCTTTGAGGAAAAAAGGGAAAATAAGGAAAAAAAATGCATCC
1 AAGGAAATAAAGTGT-GTCCTGCTCTTTGAGG-ACAAAGGG-AAA-GA-GAAATAAAGTGCGTCT
*
35537 TACTTTTTGAGGACAAAGGGAA
61 TACTCTTTGAGGACAAAGGGAA
*
35559 AAGGAAATAAAGTGTGTCCTACTCTTTGAGGACAAAGG
1 AAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGG
35597 ATAAAAGGCA
Statistics
Matches: 168, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
82 62 0.37
83 33 0.20
84 8 0.05
85 7 0.04
86 33 0.20
87 25 0.15
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.23
Consensus pattern (82 bp):
AAGGAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGGGAAAGAGAAATAAAGTGCGTCTTACTC
TTTGAGGACAAAGGGAA
Found at i:36741 original size:62 final size:61
Alignment explanation
Indices: 35606--36743 Score: 1266
Period size: 62 Copynumber: 18.5 Consensus size: 61
35596 GATAAAAGGC
* * * *
35606 AAAAGCATCCTGCTCTTTGAGGACTAAAAGGT-ACACCAAATCGTGTAGGCTTTGAAAAGA
1 AAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * *
35666 AAAAGGCTTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTATGGGCTTTGAAAAGA
1 AAAA-GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* *
35728 AAAAGACGTCCTGCTTTTTGAGGA-TAAAAGGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAA
1 AAAAG-CGTCCTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAG-A
* * *
35791 AAAAACGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGAGCTTTGAAAAGA
1 AAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
*
35852 AAAAGACGTCTTGCTCTTTGAGGGA-TAAACA-GTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAAG-CGTCCTGCTCTTTGA-GGACTAAA-AGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * * * *
35914 AAAAGATGTCTTGCTCTTTGAGGATTAAAGGGTGCCACCAATTCGTGTGGGCTTTGAAAAAA
1 AAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * *
35976 AAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGGGCTTTAAAAAGA
1 AAAA-GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * * *
36038 AAAAGACGTCTTGTTCTTTGAGGACTAAAGGGTGCCACTAACTCGTGTAGGCTTTGAAAAGA
1 AAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
*
36100 AAAAGGCATCCTGCTCTTTGAGGA-TAAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAA-GCGTCCTGCTCTTTGAGGACTAAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * *
36162 AAAAGGCATCCTGCTCTTTGAGGACTGAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGA
1 AAAA-GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * *
36224 AAAAGACATCCTACTTTTTGAGGACTAAAAGGTGTCACCAACTCGTGTGGGCTTTGAAAAGA
1 AAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * *
36286 AAAAGACGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGCGGCCTTTGAAAAGGA
1 AAAAG-CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GA
* * *
36349 AAAGGCGTCCTGCTCTTTGAGGAC-AGAAAGGTGCCACCAACTTGTGTGCGCTTTG-AAAG-
1 AAAAGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * * ** * *
36408 GAAAGTGTCTTGCTCTTTGAGGACTGGAAA-GTGTTACCAACTTGTGTAGGCTTT-AAAAGGA
1 AAAAGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GA
* * * * *
36469 AAAAACATCCTGTTCTTGGAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTT-AAAAGGA
1 AAAAGCGTCCTGCTCTTTGAGGACT--AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GA
* * * * *
36530 AAAGGCATCTTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAGGA
1 AAAAGCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
* * * * *
36590 AAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTG-GAGGCTTT-AAAAGGA
1 AAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTG-GGCTTTGAAAA-GA
* * * *
36651 AAATGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGAGTTTTGAAAAGGA
1 AAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GA
* *
36713 AAAAGTGTCCTGCTCTTTGAAGACTAAAAGG
1 AAAAGCGTCCTGCTCTTTGAGGACTAAAAGG
36744 ACTAAAAGAG
Statistics
Matches: 941, Mismatches: 106, Indels: 60
0.85 0.10 0.05
Matches are distributed among these distances:
59 47 0.05
60 66 0.07
61 189 0.20
62 615 0.65
63 24 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
AAAAGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
Found at i:42959 original size:79 final size:78
Alignment explanation
Indices: 42863--43353 Score: 478
Period size: 79 Copynumber: 6.2 Consensus size: 78
42853 ACGGGGTCAA
* * *
42863 AGTACCCCCTC-AGAAATAACGGGGTTGGGGTATCTCCAATGGTGAAAAATCGATGTTTTGAAAA
1 AGTATCCCCTCGA-AAATAACGGGGTTGGAGTATC-CCAATTGTGAAAAATCGATGTTTTGAAAA
*
42927 TAAAACTAGGGTTAG
64 TAAAACTAGGGTTGG
* * *
42942 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCATCGATCGTGAAAAATCG-TGTTTT-AGAAA
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATC-CCAATTGTGAAAAATCGATGTTTTGA-AAA
*
43005 TAAAA-TCGAGGTTGG
64 TAAAACTAG-GGTTGG
* ** * * * *
43020 AGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCAATTCTGATAAATTGATGTTTTGCAAAT
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CAATTGTGAAAAATCGATGTTTTGAAAAT
*
43085 AAAACCAGGGTTGG
65 AAAACTAGGGTTGG
* * *
43099 AGTATCCCTTCGAAAATAATGGGGTTGGAGTATCCTCAATTGTGAAAAATCGATGTTTTGGAAAT
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CAATTGTGAAAAATCGATGTTTTGAAAAT
*
43164 AAAACT-GGGGTGG
65 AAAACTAGGGTTGG
* * * * * *
43177 AGTATCCCCTCTG-AAGTAACGGGGTTGAAGTATCCCCAATTATGGAAAAT-TAGTGTTTTGGAA
1 AGTATCCCCTC-GAAAATAACGGGGTTGGAGTAT-CCCAATTGTGAAAAATCGA-TGTTTTGAAA
*
43240 ATAAAA-TCGGGGTTGG
63 ATAAAACT-AGGGTTGG
* * * * * *
43256 AGTATCCCATC-AGACAGAATGGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTTTGAAAA
1 AGTATCCCCTCGA-AAATAACGGGGTTGGAGTAT-CCCAATTGTGAAAAATCGATGTTTTGAAAA
**
43320 TAAAACCGGGGTTGG
64 TAAAACTAGGGTTGG
*
43335 AGTATCCCCTCGGAAATAA
1 AGTATCCCCTCGAAAATAA
43354 AAATATGAAT
Statistics
Matches: 344, Mismatches: 51, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
77 5 0.01
78 122 0.35
79 215 0.62
80 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCAATTGTGAAAAATCGATGTTTTGAAAATA
AAACTAGGGTTGG
Found at i:43077 original size:157 final size:153
Alignment explanation
Indices: 42863--43353 Score: 504
Period size: 157 Copynumber: 3.1 Consensus size: 153
42853 ACGGGGTCAA
* * ** * ** * *
42863 AGTACCCCCTCAGAAATAACGGGGTTGGGGTATCTCCAATGGTGAAAAATCGATGTTTTGAAAAT
1 AGTATCCCCTC-GAAATAACAGGGTTGAAGTATCCCCAATTATGGAAAATTGATGTTTTGAAAAT
* * * * * *
42928 AAAACTAGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCATCGATCGTGAAAAATC
65 AAAACTAGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCTCAATTGTGAAAAATC
42993 GTGTTTTAGAAATAAAATCGAGGTTGG
130 GTGTTTT-GAAATAAAA-CG-GGTTGG
* * * * * *
43020 AGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTCAATTCT-GATAAATTGATGTTTTGCAAA
1 AGTATCCCCTCG-AAATAACAGGGTTGAAGTATCCCCAATTATGGA-AAATTGATGTTTTGAAAA
* *
43084 TAAAACCAGGGTTGGAGTATCCCTTCGAAAATAATGGGGTTGGAGTATCCTCAATTGTGAAAAAT
64 TAAAACTAGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCTCAATTGTGAAAAAT
*
43149 CGATGTTTTGGAAATAAAACTGGGGTGG
129 CG-TGTTTT-GAAATAAAAC-GGGTTGG
* * *
43177 AGTATCCCCTCTGAAGTAACGGGGTTGAAGTATCCCCAATTATGGAAAATT-AGTGTTTTGGAAA
1 AGTATCCCCTC-GAAATAACAGGGTTGAAGTATCCCCAATTATGGAAAATTGA-TGTTTTGAAAA
* * * *
43241 TAAAA-TCGGGGTTGGAGTATCCCATC-AGACAGAATGGGGTTGGAGTATCCCCAATTGTGAAAA
64 TAAAACT-AGGGTTGGAGTATCCCATCGA-AAATAATGGGGTTGGAGTATCCTCAATTGTGAAAA
*
43304 ATTGGTGTTTTGAAAATAAAACCGGGGTTGG
127 A-TCGTGTTTTG-AAATAAAA-C-GGGTTGG
43335 AGTATCCCCTCGGAAATAA
1 AGTATCCCCTC-GAAATAA
43354 AAATATGAAT
Statistics
Matches: 282, Mismatches: 40, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
156 5 0.02
157 232 0.82
158 45 0.16
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (153 bp):
AGTATCCCCTCGAAATAACAGGGTTGAAGTATCCCCAATTATGGAAAATTGATGTTTTGAAAATA
AAACTAGGGTTGGAGTATCCCATCGAAAATAATGGGGTTGGAGTATCCTCAATTGTGAAAAATCG
TGTTTTGAAATAAAACGGGTTGG
Found at i:43315 original size:236 final size:236
Alignment explanation
Indices: 42863--43353 Score: 632
Period size: 236 Copynumber: 2.1 Consensus size: 236
42853 ACGGGGTCAA
* *
42863 AGTACCCCCTC-AGAAATAACGGGGTTGGGGTATCTCCAATGGTGAAAAATCGATGTTTTGAAAA
1 AGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATCGATGTTTTGAAAA
* * * * *
42927 TAAAACTAGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCATCGATCGTGAAAAAT
65 TAAAACTAGGGGTAGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCACCAATCATGAAAAAT
* * * *
42992 CGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAATAGGGTTGGAGTATCCTC
130 AGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCATCGAAAAGAATAGGGTTGGAGTATCCCC
* *
43057 AATTCTGATAAATTGATGTTTTGCAAATAAAACCAGGGTTGG
195 AATTCTGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGG
* * * *
43099 AGTATCCCTTCGAAAATAATGGGGTTGGAGTATC-CTCAATTGTGAAAAATCGATGTTTTGGAAA
1 AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCTC-CAATGGTGAAAAATCGATGTTTTGAAAA
* * * *
43163 TAAAACT-GGGGTGGAGTATCCCCTCTG-AAGTAACGGGGTTGAAGTATCCCCAATTATGGAAAA
65 TAAAACTAGGGGTAGAGTATCCCCTC-GAAAATAACGGGGTTGAAGTATCACCAATCAT-GAAAA
* * * * *
43226 TTAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCATC-AGACAGAATGGGGTTGGAGTATC
128 ATAGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCATCGA-AAAGAATAGGGTTGGAGTATC
* * *
43290 CCCAATTGTGAAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGG
192 CCCAATTCTGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGG
*
43335 AGTATCCCCTCGGAAATAA
1 AGTATCCCCTCGAAAATAA
43354 AAATATGAAT
Statistics
Matches: 219, Mismatches: 31, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
235 41 0.19
236 177 0.81
237 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (236 bp):
AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCTCCAATGGTGAAAAATCGATGTTTTGAAAAT
AAAACTAGGGGTAGAGTATCCCCTCGAAAATAACGGGGTTGAAGTATCACCAATCATGAAAAATA
GTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCATCGAAAAGAATAGGGTTGGAGTATCCCCA
ATTCTGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGG
Found at i:45752 original size:63 final size:63
Alignment explanation
Indices: 45652--45781 Score: 215
Period size: 63 Copynumber: 2.1 Consensus size: 63
45642 AAAATGCCTG
* *
45652 AATGTATCGATACATTGAAAAATGTATCGATATATCTGGGTAAAACCCAGAATGTATTGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCAGAATGTATTGATAC
* * *
45715 AATGTGTCGATACAATGAACAATGTATCGATACATCTGGGTAAAACTCAGAATGTATTGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCAGAATGTATTGATAC
45778 AATG
1 AATG
45782 AACAATGTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (63 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCTGGGTAAAACCCAGAATGTATTGATAC
Found at i:45777 original size:30 final size:30
Alignment explanation
Indices: 45672--45778 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 30
45662 TACATTGAAA
* *
45672 AATGTATCGATATATCTGGGTAAAACCCAG
1 AATGTATCGATACATCTGGGTAAAACTCAG
* * * * * *
45702 AATGTATTGATACAATGTGTCGATACAA-TGAAC
1 AATGTATCGATAC-ATCTG--GGTAAAACT-CAG
45735 AATGTATCGATACATCTGGGTAAAACTCAG
1 AATGTATCGATACATCTGGGTAAAACTCAG
*
45765 AATGTATTGATACA
1 AATGTATCGATACA
45779 ATGAACAATG
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
30 30 0.53
31 5 0.09
32 4 0.07
33 18 0.32
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (30 bp):
AATGTATCGATACATCTGGGTAAAACTCAG
Found at i:49521 original size:20 final size:20
Alignment explanation
Indices: 49496--49572 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
49486 GTAAAAAGAT
*
49496 AGAATGTATCGGTACATTGA
1 AGAATGTATCGATACATTGA
*
49516 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* * **
49536 TA-CATGTGTCGATACATAAA
1 -AGAATGTATCGATACATTGA
*
49556 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
49573 CTAAGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:50784 original size:31 final size:31
Alignment explanation
Indices: 50747--50834 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
50737 TTTGAAAAGG
*
50747 GTTGCCATCGACTTGCGTAGGCTTTAAAAAAA
1 GTTGCCA-CGACTTGCGTGGGCTTTAAAAAAA
* * *
50779 G-TGCCACTAACTTGCGTGGGCTTTGAAAAGA
1 GTTGCCAC-GACTTGCGTGGGCTTTAAAAAAA
*
50810 GTTGCCACCGACTTGTGTGGGCTTT
1 GTTGCCA-CGACTTGCGTGGGCTTT
50835 GAAAGGGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 25 0.53
32 20 0.43
33 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (31 bp):
GTTGCCACGACTTGCGTGGGCTTTAAAAAAA
Found at i:50884 original size:28 final size:29
Alignment explanation
Indices: 50780--51317 Score: 576
Period size: 28 Copynumber: 18.9 Consensus size: 29
50770 TTAAAAAAAG
*
50780 TGCCACTAACTTGCGTGGGCTTTGAAA-AGA
1 TGCCACTGACTT--GTGGGCTTTGAAATAGA
* **
50810 GTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTA
1 --TGCCACTGAC-T-TGTGGGCTTTGAAATAG-A
* *
50844 TGCCATTGACTTGTGGGTTTTGAAATAG-
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* * *
50872 TGCCAGTGACTTGTTGGCTTTGAAA-GGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
50900 TGCCACTGACTTGTGGGTTTTGAAAT-GA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* *
50928 TGCCACTAACTTGTGGGCTTTGAAAT-GT
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
50956 TGCCACTAACTTGTGGGCTTTGAAAT-GA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* *
50984 TGCCACTAACTTGTGGGCTTTAAAAT-GA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
51012 TGCCACTGACTTGT-GGCTTT-AAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* *
51039 TGCCACTAACTTGTGGGCTTTGAAA-GGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
51067 TGCCATTGACTTGTGGGCTTT-AAA-AGGA
1 TGCCACTGACTTGTGGGCTTTGAAATA-GA
*
51095 TGCCACTGACTTGTGGGCTTTGAAAT-GG
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* *
51123 TGCCACTAACTTGTGGTCTTTGAAAT-GA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
* * *
51151 TGCCACTAACTTGTGGACTTTGAAA-GGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
51179 TGCCACTGTCTTGTGGGCTTT-AAA-AGGA
1 TGCCACTGACTTGTGGGCTTTGAAATA-GA
*
51207 TGCTACTGACTTGTGGGCTTTGAAA-AGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGA
*
51235 TGCCACTGACTTGTGGGCTTTGAGA-AGTA
1 TGCCACTGACTTGTGGGCTTTGAAATAG-A
*
51264 TGCCACTGACTTGTGGGCTTTGAGA-AGTA
1 TGCCACTGACTTGTGGGCTTTGAAATAG-A
51293 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAA
51318 AGGGCCGTAT
Statistics
Matches: 448, Mismatches: 42, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.01
27 28 0.06
28 305 0.68
29 64 0.14
30 14 0.03
31 1 0.00
32 29 0.06
33 2 0.00
34 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAATAGA
Found at i:50911 original size:56 final size:57
Alignment explanation
Indices: 50780--51317 Score: 634
Period size: 56 Copynumber: 9.4 Consensus size: 57
50770 TTAAAAAAAG
* *
50780 TGCCACTAACTTGCGTGGGCTTTGAAA-AGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTA
1 TGCCACTGACTT--GTGGGCTTTGAAATAGA--TGCCACTGAC-T-TGTGGGCTTTGAAA-GG-A
* * * *
50844 TGCCATTGACTTGTGGGTTTTGAAATAG-TGCCAGTGACTTGTTGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
50900 TGCCACTGACTTGTGGGTTTTGAAAT-GATGCCACTAACTTGTGGGCTTTGAAATGT
1 TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
50956 TGCCACTAACTTGTGGGCTTTGAAAT-GATGCCACTAACTTGTGGGCTTTAAAATGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
* *
51012 TGCCACTGACTTGT-GGCTTT-AAAAAGATGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
*
51067 TGCCATTGACTTGTGGGCTTT-AAA-AGGATGCCACTGACTTGTGGGCTTTGAAATGG-
1 TGCCACTGACTTGTGGGCTTTGAAATA-GATGCCACTGACTTGTGGGCTTTGAAA-GGA
* * * *
51123 TGCCACTAACTTGTGGTCTTTGAAAT-GATGCCACTAACTTGTGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
51179 TGCCACTGTCTTGTGGGCTTT-AAA-AGGATGCTACTGACTTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAATA-GATGCCACTGACTTGTGGGCTTTGAAAGGA
* *
51235 TGCCACTGACTTGTGGGCTTTGAGA-AGTATGCCACTGACTTGTGGGCTTTGAGAAGTA
1 TGCCACTGACTTGTGGGCTTTGAAATAG-ATGCCACTGACTTGTGGGCTTTGA-AAGGA
51293 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTGACTTGTGGGCTTTGAAA
51318 AGGGCCGTAT
Statistics
Matches: 420, Mismatches: 40, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
54 3 0.01
55 54 0.13
56 257 0.61
57 33 0.08
58 40 0.10
59 1 0.00
60 8 0.02
62 12 0.03
63 2 0.00
64 10 0.02
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (57 bp):
TGCCACTGACTTGTGGGCTTTGAAATAGATGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:50944 original size:84 final size:85
Alignment explanation
Indices: 50780--51317 Score: 651
Period size: 84 Copynumber: 6.3 Consensus size: 85
50770 TTAAAAAAAG
* *
50780 TGCCACTAACTTGCGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTGAAAGGGTAT
1 TGCCACTAACTT--GTGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAA-GG-AT
* *
50845 GCCATTGACTTGTGGGTTTTGAAATAG-
58 GCCACTGACTTGTGGGCTTTGAAATAGA
* * * * * *
50872 TGCCAGTGACTTGTTGGCTTTGAAAGGATGCCACTGACTTGTGGGTTTTGAAATGATGCCACTAA
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
*
50937 CTTGTGGGCTTTGAAAT-GT
66 CTTGTGGGCTTTGAAATAGA
* * * *
50956 TGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTAAAATGATGCCACTGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
*
51021 CTTGT-GGCTTT-AAAAAGA
66 CTTGTGGGCTTTGAAATAGA
* *
51039 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTAAAAGGATGCCACTGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
*
51104 CTTGTGGGCTTTGAAAT-GG
66 CTTGTGGGCTTTGAAATAGA
* * * * *
51123 TGCCACTAACTTGTGGTCTTTGAAATGATGCCACTAACTTGTGGACTTTGAAAGGATGCCACTGT
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
51188 CTTGTGGGCTTT-AAA-AGGA
66 CTTGTGGGCTTTGAAATA-GA
* * * *
51207 TGCTACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAAGTATGCCACTG
1 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTG
*
51272 ACTTGTGGGCTTTGAGA-AGTA
65 ACTTGTGGGCTTTGAAATAG-A
*
51293 TGCCACTGACTTGTGGGCTTTGAAA
1 TGCCACTAACTTGTGGGCTTTGAAA
51318 AGGGCCGTAT
Statistics
Matches: 393, Mismatches: 44, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
82 3 0.01
83 77 0.20
84 209 0.53
85 29 0.07
86 41 0.10
87 1 0.00
88 10 0.03
89 4 0.01
90 9 0.02
92 10 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (85 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA
CTTGTGGGCTTTGAAATAGA
Found at i:51346 original size:14 final size:14
Alignment explanation
Indices: 51327--51399 Score: 64
Period size: 13 Copynumber: 5.5 Consensus size: 14
51317 AAGGGCCGTA
51327 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
51341 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
*
51354 -TGACAAACA-TTC
1 TTGACAAAAATTTC
* *
51366 TCGAC-AAAAGTTC
1 TTGACAAAAATTTC
* *
51379 TTGACGATAATTTC
1 TTGACAAAAATTTC
51393 TTGACAA
1 TTGACAA
51400 CCATTTATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
12 10 0.22
13 19 0.41
14 17 0.37
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:51360 original size:26 final size:26
Alignment explanation
Indices: 51327--51399 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
51317 AAGGGCCGTA
51327 TTGACAAAAATTTCTTGACAAAGTT-
1 TTGACAAAAATTTCTTGACAAAGTTC
* *
51352 TCTGACAAACA-TTCTCGACAAAAGTTC
1 T-TGACAAAAATTTCTTGAC-AAAGTTC
* *
51379 TTGACGATAATTTCTTGACAA
1 TTGACAAAAATTTCTTGACAA
51400 CCATTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
25 8 0.21
26 22 0.58
27 8 0.21
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (26 bp):
TTGACAAAAATTTCTTGACAAAGTTC
Found at i:51613 original size:26 final size:26
Alignment explanation
Indices: 51575--51631 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
51565 TATAAAAATA
** * *
51575 ATGATGTTTGATGGTATTATGAATGC
1 ATGATGTGGGATGCTATCATGAATGC
**
51601 ATGATGTGGGATGCTATCATGGTTGC
1 ATGATGTGGGATGCTATCATGAATGC
51627 ATGAT
1 ATGAT
51632 ACAAAGTCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.39
Consensus pattern (26 bp):
ATGATGTGGGATGCTATCATGAATGC
Found at i:52620 original size:7 final size:7
Alignment explanation
Indices: 52597--52636 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
52587 TGGACCCTTA
52597 TTTTTTG
1 TTTTTTG
*
52604 TGTTTT-
1 TTTTTTG
52610 TTTTTTG
1 TTTTTTG
52617 TTTTTTG
1 TTTTTTG
52624 TTTTTTG
1 TTTTTTG
52631 TTTTTT
1 TTTTTT
52637 TAAAGAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:52620 original size:20 final size:20
Alignment explanation
Indices: 52597--52635 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
52587 TGGACCCTTA
52597 TTTTTTGTGTTTTT-TTTTTG
1 TTTTTTGT-TTTTTGTTTTTG
52617 TTTTTTGTTTTTTGTTTTT
1 TTTTTTGTTTTTTGTTTTT
52636 TTAAAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (20 bp):
TTTTTTGTTTTTTGTTTTTG
Found at i:52627 original size:14 final size:13
Alignment explanation
Indices: 52597--52637 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
52587 TGGACCCTTA
*
52597 TTTTTTGTGTTTT
1 TTTTTTGTTTTTT
52610 TTTTTTGTTTTTT
1 TTTTTTGTTTTTT
52623 GTTTTTTGTTTTTT
1 -TTTTTTGTTTTTT
52637 T
1 T
52638 AAAGAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTT
Found at i:57249 original size:15 final size:15
Alignment explanation
Indices: 57207--57249 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
57197 GTAGTGTATC
57207 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* * **
57222 GGTAATTAGGTGGTG
1 GATGATTTTGTGGTG
57237 GATGATTTTGTGG
1 GATGATTTTGTGG
57250 CAGATTTGGC
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:59542 original size:45 final size:45
Alignment explanation
Indices: 59476--59563 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
59466 CTTTTCCTCT
*
59476 TTTAGTCGGGCAATTTTTGCAATGTATGATGCTCTTTCTTACTCC
1 TTTAGTCGGGCAATTTCTGCAATGTATGATGCTCTTTCTTACTCC
*
59521 TTTAGTCGGGCCATTTCTGCAATGTATGATGCTCTTTCTTACT
1 TTTAGTCGGGCAATTTCTGCAATGTATGATGCTCTTTCTTACT
59564 TGAATTCTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.44
Consensus pattern (45 bp):
TTTAGTCGGGCAATTTCTGCAATGTATGATGCTCTTTCTTACTCC
Found at i:64741 original size:20 final size:20
Alignment explanation
Indices: 64716--64891 Score: 84
Period size: 20 Copynumber: 7.7 Consensus size: 20
64706 TTTTAACTAG
64716 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
64736 ATGTATCGATACATCTGGGTAAAAATACAAA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
64767 ATGTATC-AGTACATTGAAGA
1 ATGTATCGA-TACATTGAAAA
* *
64787 ATGTATCGATACATTCATAA
1 ATGTATCGATACATTGAAAA
*
64807 ATGTATCGATACATTAAAAAA
1 ATGTATCGATACATT-GAAAA
*
64828 ATGTAACGATACATCTGGGTAAAAGACGAA
1 ATGTATCGATACAT-T--G----A-A--AA
64858 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
64878 ATGTATCGACACAT
1 ATGTATCGATACAT
64892 CTGGGTAAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 46
0.68 0.06 0.26
Matches are distributed among these distances:
20 60 0.49
21 18 0.15
22 3 0.02
23 3 0.02
27 2 0.02
28 3 0.02
29 2 0.02
30 18 0.15
31 13 0.11
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:64817 original size:91 final size:91
Alignment explanation
Indices: 64716--64891 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 91
64706 TTTTAACTAG
* * *
64716 ATGTATCGATACATT-GAAAAATGTATCGATACATCTGGGTAAAAATACAAAATGTATC-AGTAC
1 ATGTATCGATACATTAAAAAAATGTAACGATACATCTGGGT-AAAAGACAAAATGTATCGA-TAC
* *
64779 ATTGAAGAATGTATCGATACATTCATAA
64 ATTGAAAAATGTATCGACACATTCATAA
*
64807 ATGTATCGATACATTAAAAAAATGTAACGATACATCTGGGTAAAAGACGAAATGTATCGATACAT
1 ATGTATCGATACATTAAAAAAATGTAACGATACATCTGGGTAAAAGACAAAATGTATCGATACAT
64872 TGAAAAATGTATCGACACAT
66 TGAAAAATGTATCGACACAT
64892 CTGGGTAAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 53 0.69
92 24 0.31
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (91 bp):
ATGTATCGATACATTAAAAAAATGTAACGATACATCTGGGTAAAAGACAAAATGTATCGATACAT
TGAAAAATGTATCGACACATTCATAA
Found at i:64820 original size:40 final size:41
Alignment explanation
Indices: 64765--64841 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
64755 TAAAAATACA
* * *
64765 AAATGTATCAGTACATT-GAAGAATGTATCGATACATTCAT
1 AAATGTATCAGTACATTAAAAAAATGTAACGATACATTCAT
64805 AAATGTATC-GATACATTAAAAAAATGTAACGATACAT
1 AAATGTATCAG-TACATTAAAAAAATGTAACGATACAT
64842 CTGGGTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 1 0.03
40 15 0.47
41 16 0.50
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (41 bp):
AAATGTATCAGTACATTAAAAAAATGTAACGATACATTCAT
Found at i:64899 original size:50 final size:51
Alignment explanation
Indices: 64805--64901 Score: 160
Period size: 50 Copynumber: 1.9 Consensus size: 51
64795 ATACATTCAT
*
64805 AAATGTATCGATACATTAAAAAAATGTAACGATACATCTGGGTAAAAGACG
1 AAATGTATCGATACATTAAAAAAATGTAACGACACATCTGGGTAAAAGACG
* *
64856 AAATGTATCGATACATT-GAAAAATGTATCGACACATCTGGGTAAAA
1 AAATGTATCGATACATTAAAAAAATGTAACGACACATCTGGGTAAAA
64902 ATATGACTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
50 26 0.60
51 17 0.40
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (51 bp):
AAATGTATCGATACATTAAAAAAATGTAACGACACATCTGGGTAAAAGACG
Found at i:70982 original size:15 final size:15
Alignment explanation
Indices: 70962--71010 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
70952 TATTACAGAT
*
70962 GAAGCCAC-CTAGAAA
1 GAAGCCACTCAAG-AA
70977 GAAGCCACTCAAGAA
1 GAAGCCACTCAAGAA
*
70992 GAAGCCATTCAA-AA
1 GAAGCCACTCAAGAA
71006 GAAGC
1 GAAGC
71011 ACCAGAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 7 0.23
15 21 0.68
16 3 0.10
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.08
Consensus pattern (15 bp):
GAAGCCACTCAAGAA
Found at i:71466 original size:88 final size:88
Alignment explanation
Indices: 71317--71482 Score: 242
Period size: 88 Copynumber: 1.9 Consensus size: 88
71307 GTTCTAATAA
* * **
71317 AATAAAATTCTTGAAACTCCAAAGATGTGATAGATGTATATGGGTATCAGATTTTTTCTGACACG
1 AATAAAATTCTTGAAACTCCAAAGATGTGACAGATGCATATGGGTATCAGATTCCTTCTGACACG
71382 ATGAAAAATATTTGACTATGCCT
66 ATGAAAAATATTTGACTATGCCT
* * * * * *
71405 AATAAAGTTCTTGGAATTCGAAAGATGTGACAGATGCATGTGGGTATCAGATTCCTTCTGACATG
1 AATAAAATTCTTGAAACTCCAAAGATGTGACAGATGCATATGGGTATCAGATTCCTTCTGACACG
71470 ATGAAAAATATTT
66 ATGAAAAATATTT
71483 AACT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (88 bp):
AATAAAATTCTTGAAACTCCAAAGATGTGACAGATGCATATGGGTATCAGATTCCTTCTGACACG
ATGAAAAATATTTGACTATGCCT
Done.