Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 5 of 205
Found at i:1330209 original size:25 final size:26
Alignment explanation
Indices: 1330161--1330210 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1330151 TACAATTAAA
* *
1330161 ATTATTATATTATATTATATATATGT
1 ATTATTATATAATATTATACATATGT
*
1330187 ATTATT-TATAATATTTTACATATG
1 ATTATTATATAATATTATACATATG
1330211 GAATATAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
ATTATTATATAATATTATACATATGT
Found at i:1330492 original size:20 final size:20
Alignment explanation
Indices: 1330430--1330493 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
1330420 TATAAACGTG
*
1330430 ATAAATTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
* * **
1330450 ATAAACCTA-ATATTTTAAAT
1 ATAAACTTATA-ATCTTATTT
*
1330470 ATAAAGTTATAATCTTATTT
1 ATAAACTTATAATCTTATTT
1330490 ATAA
1 ATAA
1330494 CTATTTAAAT
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (20 bp):
ATAAACTTATAATCTTATTT
Found at i:1330578 original size:22 final size:23
Alignment explanation
Indices: 1330553--1330596 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1330543 AAATTTTATA
*
1330553 AATAATTTAA-AAGAATAAATTC
1 AATAATATAAGAAGAATAAATTC
1330575 AATAATATAATGAAGAATAAAT
1 AATAATATAA-GAAGAATAAAT
1330597 GTTATACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AATAATATAAGAAGAATAAATTC
Found at i:1331855 original size:12 final size:12
Alignment explanation
Indices: 1331838--1331870 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1331828 GTTCACAAAT
1331838 AAAAACATAAAG
1 AAAAACATAAAG
1331850 AAAAACAT-AAG
1 AAAAACATAAAG
1331861 -AAAACATAAA
1 AAAAACATAAA
1331871 AATAACTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.35
11 5 0.25
12 8 0.40
ACGTcount: A:0.76, C:0.09, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAACATAAAG
Found at i:1334030 original size:12 final size:12
Alignment explanation
Indices: 1334013--1334037 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1334003 CTAAATTGAA
1334013 TAAAAGTAAAAC
1 TAAAAGTAAAAC
1334025 TAAAAGTAAAAC
1 TAAAAGTAAAAC
1334037 T
1 T
1334038 TTAAAGACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (12 bp):
TAAAAGTAAAAC
Found at i:1334526 original size:21 final size:21
Alignment explanation
Indices: 1334497--1334555 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
1334487 GTGGATCAGT
1334497 TCTCACGAGCTTCTGTTCAAC
1 TCTCACGAGCTTCTGTTCAAC
* * *
1334518 TCTCGCGAGCTTTTGTTCAGC
1 TCTCACGAGCTTCTGTTCAAC
* * *
1334539 TCTTATGAACTTCTGTT
1 TCTCACGAGCTTCTGTT
1334556 AATGATGTAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (21 bp):
TCTCACGAGCTTCTGTTCAAC
Found at i:1338437 original size:17 final size:18
Alignment explanation
Indices: 1338404--1338439 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1338394 TGCTTCCAAG
1338404 AAGCACTTTTGGGACAAA
1 AAGCACTTTTGGGACAAA
1338422 AAGCACTTTT-GGACAAA
1 AAGCACTTTTGGGACAAA
1338439 A
1 A
1338440 TCATTTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (18 bp):
AAGCACTTTTGGGACAAA
Found at i:1358318 original size:30 final size:30
Alignment explanation
Indices: 1358282--1358343 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
1358272 CTATGAAAAG
1358282 TTACAAAATGATCATCAAACTATTACTAAA
1 TTACAAAATGATCATCAAACTATTACTAAA
1358312 TTACAAAATGATCATCAAACTATTACTAAA
1 TTACAAAATGATCATCAAACTATTACTAAA
1358342 TT
1 TT
1358344 TTATTTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (30 bp):
TTACAAAATGATCATCAAACTATTACTAAA
Found at i:1363888 original size:18 final size:18
Alignment explanation
Indices: 1363865--1363918 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
1363855 TTAAATCTTT
1363865 AAAATATTAATTATATAA
1 AAAATATTAATTATATAA
* **
1363883 AAAATATGAAAAATATAA
1 AAAATATTAATTATATAA
* *
1363901 AAATATTTTAATTTTATA
1 AAA-ATATTAATTATATA
1363919 CTGATATAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATATTAATTATATAA
Found at i:1364112 original size:3 final size:3
Alignment explanation
Indices: 1364104--1364133 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1364094 ATTTTTCAGG
1364104 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1364134 GAGTTAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1367408 original size:45 final size:44
Alignment explanation
Indices: 1367292--1367415 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 44
1367282 GCTATATGCC
* *
1367292 TAAAATGAGTAAGACCATAATTGAAAGATGTTATGGCTTCATGA
1 TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* **
1367336 TAAGGATGAGTAAGACCATAGCAGAAAGATGTTATGGCATCATGA
1 TAA-AATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
* * * *
1367381 TATAAATGAGTAGGATCATGGTTGAAAGACGTTAT
1 TA-AAATGAGTAAGACCATAGTTGAAAGATGTTAT
1367416 AACATCCTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.05
45 62 0.94
46 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGA
Found at i:1367585 original size:27 final size:27
Alignment explanation
Indices: 1367438--1367712 Score: 190
Period size: 27 Copynumber: 10.2 Consensus size: 27
1367428 CAGCCCGACA
* * * * *
1367438 GGACGTTAAACACAAGATAATCCAATG
1 GGACATTAAACACGAGATAGTTCAACG
* * * * *
1367465 AGACATTAAACATGGGATAGCTCGACG
1 GGACATTAAACACGAGATAGTTCAACG
** * *
1367492 AAACATTAAATACGAGATAGTTCGACG
1 GGACATTAAACACGAGATAGTTCAACG
* * * ** *
1367519 AGACATTAAACATGGGATAGCCCGACG
1 GGACATTAAACACGAGATAGTTCAACG
*
1367546 GGACGTTAAACACGAGATAGTTCAACG
1 GGACATTAAACACGAGATAGTTCAACG
* * ** *
1367573 GGATATTAAACACAAGATAGTTTGATG
1 GGACATTAAACACGAGATAGTTCAACG
* * * *
1367600 GGATATTAAACATGAGATATTTCAATG
1 GGACATTAAACACGAGATAGTTCAACG
** **
1367627 GGACATTAAACATAAGATAGTTCAATA
1 GGACATTAAACACGAGATAGTTCAACG
* *
1367654 GGACATTAAACACGAGATATTTCAACA
1 GGACATTAAACACGAGATAGTTCAACG
* * * *
1367681 GGACATTAAACACGGGTTAGTCCATCG
1 GGACATTAAACACGAGATAGTTCAACG
1367708 GGACA
1 GGACA
1367713 CTCAACATGG
Statistics
Matches: 195, Mismatches: 53, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (27 bp):
GGACATTAAACACGAGATAGTTCAACG
Found at i:1367592 original size:54 final size:54
Alignment explanation
Indices: 1367433--1367692 Score: 223
Period size: 54 Copynumber: 4.8 Consensus size: 54
1367423 TTTGACAGCC
* * * * * * * **
1367433 CGACAGGACGTTAAACACAAGATAATCCAATGAGACATTAAACATGGGATAGCT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
** * * * ** *
1367487 CGACGAAACATTAAATACGAGATAGTTCGACGAGACATTAAACATGGGATAGCC
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* * * *
1367541 CGACGGGACGTTAAACACGAGATAGTTCAACGGGATATTAAACACAAGATAGTT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* * * * * * *
1367595 TGATGGGATATTAAACATGAGATATTTCAATGGGACATTAAACATAAGATAGTT
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
* ** * *
1367649 CAATAGGACATTAAACACGAGATATTTCAACAGGACATTAAACA
1 CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACA
1367693 CGGGTTAGTC
Statistics
Matches: 167, Mismatches: 39, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 167 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (54 bp):
CGACGGGACATTAAACACGAGATAGTTCAACGGGACATTAAACATAAGATAGCT
Found at i:1374391 original size:30 final size:30
Alignment explanation
Indices: 1374351--1374411 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
1374341 ACACACGAAC
*
1374351 GCCCTTATCTCTG-CTCTCTGCTGCTTCTTT
1 GCCCTCATCTCTGCCT-TCTGCTGCTTCTTT
*
1374381 GCCCTCATCTCTGCCTTCTGCTGGTTCTTT
1 GCCCTCATCTCTGCCTTCTGCTGCTTCTTT
1374411 G
1 G
1374412 TTCTGCCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.03, C:0.36, G:0.16, T:0.44
Consensus pattern (30 bp):
GCCCTCATCTCTGCCTTCTGCTGCTTCTTT
Found at i:1374932 original size:26 final size:26
Alignment explanation
Indices: 1374896--1374947 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1374886 CAGGATGAAG
1374896 CTTTGGGCCATCAATGAGATTCGGGC
1 CTTTGGGCCATCAATGAGATTCGGGC
1374922 CTTTGGGCCATCAATGAGATTCGGGC
1 CTTTGGGCCATCAATGAGATTCGGGC
1374948 GAAATCCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (26 bp):
CTTTGGGCCATCAATGAGATTCGGGC
Found at i:1377581 original size:13 final size:13
Alignment explanation
Indices: 1377560--1377607 Score: 87
Period size: 13 Copynumber: 3.7 Consensus size: 13
1377550 ACACTCAAAT
1377560 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
1377573 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
1377586 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
1377599 TTCTCAAAA
1 TTCTCAAAA
1377608 ACAATGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:1387196 original size:20 final size:20
Alignment explanation
Indices: 1387171--1387224 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1387161 TGTGGTTCAA
*
1387171 CTCATTCAAGCTCAAGTTAG
1 CTCATTCAAGCTCAAGTCAG
*
1387191 CTCATTCATGCTCAAGTCAG
1 CTCATTCAAGCTCAAGTCAG
*
1387211 CTCATTTAAGCTCA
1 CTCATTCAAGCTCA
1387225 GTTTAACTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (20 bp):
CTCATTCAAGCTCAAGTCAG
Found at i:1387543 original size:45 final size:45
Alignment explanation
Indices: 1387452--1387546 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
1387442 TCTTATTGCT
* * *
1387452 AAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTAAGG
1 AAGCATTTGACCAACATCATGCATAATTCAAGGAACAAATTAAGG
* * *
1387497 AAGCATTTGGCCAACATCATGCATAATTTAAGGAACAAATTGAGG
1 AAGCATTTGACCAACATCATGCATAATTCAAGGAACAAATTAAGG
1387542 AAGCA
1 AAGCA
1387547 CCATGGCCGA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (45 bp):
AAGCATTTGACCAACATCATGCATAATTCAAGGAACAAATTAAGG
Found at i:1388987 original size:31 final size:31
Alignment explanation
Indices: 1388949--1389010 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1388939 TGTAAAAAGT
1388949 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1388980 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1 TCGTGCATGGTGAGTACTAGAGGTGTTCATA
1389011 GGCTGGGCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.32, T:0.32
Consensus pattern (31 bp):
TCGTGCATGGTGAGTACTAGAGGTGTTCATA
Found at i:1389256 original size:30 final size:30
Alignment explanation
Indices: 1389215--1389272 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
1389205 TTAACAAGCC
*
1389215 AATGCCTCTAAAATAGTAACAAAATTAACA
1 AATGCCTCTAAAATAATAACAAAATTAACA
*
1389245 AATGTCTCTAAAATAATAACAAAATTAA
1 AATGCCTCTAAAATAATAACAAAATTAA
1389273 TAATAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAACAAAATTAACA
Found at i:1392672 original size:30 final size:29
Alignment explanation
Indices: 1392604--1392674 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
1392594 ATATGAGCAA
* * *
1392604 TGATGCAATGTTATATATGAATTTTAATT
1 TGATGTAATTTTATACATGAATTTTAATT
* *
1392633 TTATGTAATTTTATACATGAGATTTTGATT
1 TGATGTAATTTTATACATGA-ATTTTAATT
*
1392663 TGATTTAATTTT
1 TGATGTAATTTT
1392675 TGTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (29 bp):
TGATGTAATTTTATACATGAATTTTAATT
Found at i:1392823 original size:31 final size:31
Alignment explanation
Indices: 1392783--1392841 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
1392773 AAGACATTTT
1392783 TTTATATGTGTAG-AATTGAATCAAAATCACGG
1 TTTATATGTGT-GTAATTGAAT-AAAATCACGG
*
1392815 TTTA-ATGTGTGTAATTGCATAAAATCA
1 TTTATATGTGTGTAATTGAATAAAATCA
1392842 AAATTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 8 0.32
31 13 0.52
32 4 0.16
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (31 bp):
TTTATATGTGTGTAATTGAATAAAATCACGG
Found at i:1395058 original size:56 final size:50
Alignment explanation
Indices: 1394968--1395128 Score: 164
Period size: 50 Copynumber: 3.1 Consensus size: 50
1394958 ACATTTGGGT
* * *
1394968 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCA---A
* *
1395019 GATTATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
** * *
1395072 GATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
*
1395122 TATGAGA
1 GATGAGA
1395129 ACTCTCATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
50 49 0.52
51 1 0.01
53 2 0.02
54 6 0.06
56 36 0.38
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCATTGGCACCAA
Found at i:1395077 original size:50 final size:50
Alignment explanation
Indices: 1394968--1395154 Score: 162
Period size: 50 Copynumber: 3.7 Consensus size: 50
1394958 ACATTTGGGT
* * * *
1394968 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCA---A
1395019 GATTATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
1 G---ATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
*** * * *
1395072 GATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
* ** * * *
1395122 TATGAGAACTCTCATATAAAACCATATCTGGGA
1 GATGAGAGGTCCCATATAAGACCATGTCTGGGA
1395155 TATGAAATTG
Statistics
Matches: 111, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
50 66 0.59
51 1 0.01
53 2 0.02
54 6 0.05
56 36 0.32
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCAA
Found at i:1397284 original size:40 final size:39
Alignment explanation
Indices: 1397240--1397325 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 39
1397230 ACATGTGTCA
* * *
1397240 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTACCCCAAGAATCCACAACAA-GGCTAGACCTCAT
*
1397280 TATATTA-CCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
1397318 TATATTAC
1 TATATTAC
1397326 TCGAGAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
38 18 0.44
39 16 0.39
40 7 0.17
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (39 bp):
TATATTACCCCAAGAATCCACAACAAGGCTAGACCTCAT
Found at i:1397333 original size:38 final size:38
Alignment explanation
Indices: 1397240--1397366 Score: 128
Period size: 39 Copynumber: 3.3 Consensus size: 38
1397230 ACATGTGTCA
* * * *
1397240 TATATTACCCCAAGGATCCACGACAAGGGCTGGACCTCAT
1 TATATTA-CCCAAGAATCCACAACAA-GGCTAGATCTCAT
1397280 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
1 TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
* * *** * *
1397318 TATATTACTCGAGAATCTGTAACAAATGCTAGATCTCGT
1 TATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCAT
1397357 TATATTACCC
1 TATATTACCC
1397367 GATAATTTGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
38 29 0.39
39 38 0.51
40 7 0.09
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (38 bp):
TATATTACCCAAGAATCCACAACAAGGCTAGATCTCAT
Found at i:1397378 original size:39 final size:39
Alignment explanation
Indices: 1397279--1397399 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 39
1397269 CTGGACCTCA
* *** * *
1397279 TTATATTACCCAAGAATCCACAAC-AAGGCTAGATCTCA
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
*
1397317 TTATATTACTCGAGAATCTGTAACAAATGCTAGATCTCG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
* * *
1397356 TTATATTACCCGATAATTTGTAACAAATGCTAGATCTTG
1 TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
1397395 TTATA
1 TTATA
1397400 ACCTGTGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 19 0.27
39 52 0.73
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (39 bp):
TTATATTACCCGAGAATCTGTAACAAATGCTAGATCTCG
Found at i:1412707 original size:454 final size:454
Alignment explanation
Indices: 1412052--1413401 Score: 2673
Period size: 454 Copynumber: 3.0 Consensus size: 454
1412042 ATCAAGCCTA
*
1412052 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCAAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1412117 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
1412182 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
1412247 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
1412312 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
1412377 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
1412442 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
1412506 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1412571 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
1412636 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
1412701 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
1412766 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
1412831 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
1412896 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
1412960 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1 CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
1413025 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
66 AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
1413090 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
131 ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
1413155 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
196 TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
1413220 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
261 ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
* *
1413285 ACGATAGAAGCAAATTAATAGTACCAAACACGTTTGGTCATTGTTAAATGATTCAGTATTCTAAT
326 ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
1413350 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAA
391 TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAA
1413402 GAAATAAAAT
Statistics
Matches: 893, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
454 893 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (454 bp):
CAGTGATGCTCACTTATTCTACAACATAATGGAATAACTTCCATGCTTCCAAATGATATCTTACT
AGTTGAATTATTTTTAGTTTTCTCAAACTCAATGATTAAAAATGATGCATATAAAAGGTCCAGTG
ACCACAGCTCAAAATAAGAGAGCTGCAAGATTGCTACAATCAACTATTAACCATTAAAGAAAATG
TAAGCAATTGAAGCCGTCAATCAAAACAATCGAAACTAAGAACATTATTCAATGGACTATCCTCG
ATTCCAAACATATTGGATGAAGGCATTTTTCAATTGTTTCTTCATAATCATATATCAATTATGCA
ACAATAGAAGCAAATTAATAGTACCAAACACGTTCGGTCATTGTTAAATGATTCAGTATTCTAAT
TTCAAGAAACAGATAATTGCAAGAGCTGAAAAGCTTTAAACAAGCAAAATAATGGAATAACTTC
Found at i:1416198 original size:13 final size:13
Alignment explanation
Indices: 1416161--1416211 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
1416151 TTCTTCATTA
1416161 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
1416174 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
* *
1416187 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
1416200 CTTTTGAAAAGT
1 CTTTTGAAAAGT
1416212 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:1416710 original size:13 final size:13
Alignment explanation
Indices: 1416700--1416724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1416690 TTTCAAAAGT
1416700 ACTTTTGAAAAAC
1 ACTTTTGAAAAAC
1416713 ACTTTTGAAAAA
1 ACTTTTGAAAAA
1416725 TTAAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTGAAAAAC
Found at i:1417867 original size:16 final size:16
Alignment explanation
Indices: 1417846--1417897 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
1417836 TTTGGTTCGC
1417846 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1417862 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
1417878 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
1417894 TGTA
1 TGTA
1417898 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:1417944 original size:45 final size:44
Alignment explanation
Indices: 1417878--1417972 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
1417868 GGATTAGAGG
* *
1417878 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
1417923 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
1417967 TGTAAT
1 TGTAAT
1417973 AAAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:1418142 original size:25 final size:25
Alignment explanation
Indices: 1418110--1418164 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
1418100 TAATTTAATC
*
1418110 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
1418134 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
1418159 ATATAT
1 ATATAT
1418165 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:1418346 original size:47 final size:46
Alignment explanation
Indices: 1418295--1418455 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
1418285 GATTTAATAA
1418295 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
1418342 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
1418383 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
1418430 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
1418456 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:1422263 original size:13 final size:13
Alignment explanation
Indices: 1422247--1422276 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1422237 AATCCTTTCA
1422247 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
1422260 AAAAAAAAAGAAG
1 AAAAAAAAAAAAG
1422273 AAAA
1 AAAA
1422277 TAAAGAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:1422281 original size:12 final size:10
Alignment explanation
Indices: 1422246--1422283 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
1422236 AAATCCTTTC
1422246 AAAA-AAAAA
1 AAAAGAAAAA
1422255 AAAAGAAAAA
1 AAAAGAAAAA
1422265 AAAAGAAGAAA
1 AAAAGAA-AAA
1422276 ATAAAGAA
1 A-AAAGAA
1422284 CCAACCCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 4 0.15
10 12 0.46
11 4 0.15
12 6 0.23
ACGTcount: A:0.87, C:0.00, G:0.11, T:0.03
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:1430433 original size:16 final size:16
Alignment explanation
Indices: 1430414--1430455 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1430404 TAAAATTATT
1430414 AAATATTAAAATAAAA
1 AAATATTAAAATAAAA
*
1430430 AAATA-TAAATATTAAA
1 AAATATTAAA-ATAAAA
1430446 AAA-ATTAAAA
1 AAATATTAAAA
1430456 ATAATATGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATTAAAATAAAA
Found at i:1430457 original size:18 final size:17
Alignment explanation
Indices: 1430425--1430458 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1430415 AATATTAAAA
*
1430425 TAAAAAAATATAAATAT
1 TAAAAAAATAAAAATAT
1430442 TAAAAAAATTAAAAATA
1 TAAAAAAA-TAAAAATA
1430459 ATATGGACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAAATAAAAATAT
Found at i:1432841 original size:25 final size:24
Alignment explanation
Indices: 1432786--1432842 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1432776 AACTTTAGTT
*
1432786 TAAA-AAAAATAAAAAAACATAAT
1 TAAATAAAAATAAAAAAACATAAA
*
1432809 TAATTAAAAATAAAAAAA-ATCAAA
1 TAAATAAAAATAAAAAAACAT-AAA
1432833 TAACATAAAA
1 TAA-ATAAAA
1432843 CTTTAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 5 0.18
24 18 0.64
25 5 0.18
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.19
Consensus pattern (24 bp):
TAAATAAAAATAAAAAAACATAAA
Found at i:1435521 original size:23 final size:22
Alignment explanation
Indices: 1435495--1435541 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1435485 TTATTTTACC
*
1435495 AAAATAAATCTAAAAAAATAAAA
1 AAAATAAA-ATAAAAAAATAAAA
*
1435518 AAAATAAAATAAAAAAATCAAA
1 AAAATAAAATAAAAAAATAAAA
1435540 AA
1 AA
1435542 TCAAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (22 bp):
AAAATAAAATAAAAAAATAAAA
Found at i:1442169 original size:21 final size:24
Alignment explanation
Indices: 1442140--1442196 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 24
1442130 TTCTTTTATT
*
1442140 AAATGTATACATACATAA-AA-A-
1 AAATATATACATACATAATAATAG
* *
1442161 AAATATATAAATATATAATAATTAG
1 AAATATATACATACATAATAA-TAG
1442186 AAATATATACA
1 AAATATATACA
1442197 ATCTAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 15 0.54
22 2 0.07
24 1 0.04
25 10 0.36
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATATATACATACATAATAATAG
Found at i:1442283 original size:18 final size:18
Alignment explanation
Indices: 1442252--1442298 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1442242 TTTAAAAATA
*
1442252 TAAAAATATTTAATAGTTTT
1 TAAAAAT-TATAAT-GTTTT
*
1442272 T-AAAATTATAATTTTTT
1 TAAAAATTATAATGTTTT
1442289 TAAAAATTAT
1 TAAAAATTAT
1442299 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 5 0.21
20 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAAAATTATAATGTTTT
Found at i:1442341 original size:11 final size:11
Alignment explanation
Indices: 1442325--1442349 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1442315 AAAATTTATA
1442325 ATATTATTTTT
1 ATATTATTTTT
1442336 ATATTATTTTT
1 ATATTATTTTT
1442347 ATA
1 ATA
1442350 ATTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:1442462 original size:11 final size:12
Alignment explanation
Indices: 1442430--1442470 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
1442420 CAATTATCGT
*
1442430 ATTTTTTTTGTAA
1 ATTTTTTTTAT-A
1442443 ATTTTTTTTATA
1 ATTTTTTTTATA
1442455 ATTTTTTTTATA
1 ATTTTTTTTATA
1442467 ATTT
1 ATTT
1442471 ATATGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
ATTTTTTTTATA
Found at i:1449609 original size:22 final size:22
Alignment explanation
Indices: 1449566--1449609 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1449556 TTTATGTGAT
*
1449566 ATAAATTACAAAATATATAAAA
1 ATAAATTACAAAATATACAAAA
1449588 ATAAATTA-AAAATATTACAAAA
1 ATAAATTACAAAATA-TACAAAA
1449610 GTATAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
ATAAATTACAAAATATACAAAA
Found at i:1454744 original size:18 final size:18
Alignment explanation
Indices: 1454719--1454768 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
1454709 TCACCTAAAT
* *
1454719 CCAACCCAATCCAAGTAT
1 CCAACCCAATCCAACTAC
* *
1454737 CTAACCCAACCCAACTAC
1 CCAACCCAATCCAACTAC
1454755 CCAACCCAATCCAA
1 CCAACCCAATCCAA
1454769 TCATAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.46, G:0.02, T:0.12
Consensus pattern (18 bp):
CCAACCCAATCCAACTAC
Found at i:1454923 original size:9 final size:9
Alignment explanation
Indices: 1454909--1454984 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
1454899 GTAGTGATTC
1454909 AATTCGGTT
1 AATTCGGTT
*
1454918 AATTCGGAT
1 AATTCGGTT
* *
1454927 AATTTGATT
1 AATTCGGTT
* *
1454936 AATTTGGGT
1 AATTCGGTT
*
1454945 AATTCAGTT
1 AATTCGGTT
1454954 AATTCGAG-T
1 AATTCG-GTT
**
1454963 AATTTAGTT
1 AATTCGGTT
1454972 AATTCGGTT
1 AATTCGGTT
1454981 AATT
1 AATT
1454985 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
8 1 0.02
9 49 0.96
10 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:1454937 original size:18 final size:18
Alignment explanation
Indices: 1454915--1454985 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
1454905 ATTCAATTCG
1454915 GTTAATTCGGATAATTT-
1 GTTAATTCGGATAATTTA
* * *
1454932 GATTAATTTGGGTAATTCA
1 G-TTAATTCGGATAATTTA
1454951 GTTAATTC-GAGTAATTTA
1 GTTAATTCGGA-TAATTTA
*
1454969 GTTAATTCGGTTAATTT
1 GTTAATTCGGATAATTT
1454986 TTAACCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
17 2 0.05
18 39 0.91
19 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (18 bp):
GTTAATTCGGATAATTTA
Found at i:1454947 original size:27 final size:27
Alignment explanation
Indices: 1454903--1454985 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
1454893 AATTATGTAG
* *
1454903 TGATTCAATTCGGTTAATTCGGATAATT
1 TGATT-AATTTGGTTAATTCGGTTAATT
* *
1454931 TGATTAATTTGGGTAATTCAGTTAATT
1 TGATTAATTTGGTTAATTCGGTTAATT
* * *
1454958 CGAGTAATTTAGTTAATTCGGTTAATT
1 TGATTAATTTGGTTAATTCGGTTAATT
1454985 T
1 T
1454986 TTAACCAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 40 0.89
28 5 0.11
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (27 bp):
TGATTAATTTGGTTAATTCGGTTAATT
Found at i:1457080 original size:5 final size:5
Alignment explanation
Indices: 1457070--1457140 Score: 63
Period size: 5 Copynumber: 13.4 Consensus size: 5
1457060 AGCTACCCCA
* *
1457070 TTTAT TTTAT TTTAT TTTAT TATTATT TGTTAT ATTAT TTAAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT T-TTA-T T-TTAT TTTAT TTTAT TTTAT
*
1457118 TTTCT TAATT-T TTTAT TTTAT TT
1 TTTAT T--TTAT TTTAT TTTAT TT
1457141 ATTCATTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
4 2 0.04
5 40 0.73
6 6 0.11
7 7 0.13
ACGTcount: A:0.23, C:0.01, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:1457290 original size:12 final size:11
Alignment explanation
Indices: 1457266--1457333 Score: 55
Period size: 12 Copynumber: 5.8 Consensus size: 11
1457256 TTAAGTTTAC
*
1457266 TTTTTTTTGTT
1 TTTTTTTTATT
1457277 TTTGTTTTTATT
1 TTT-TTTTTATT
1457289 TTTTATTTTATT
1 TTTT-TTTTATT
*
1457301 TTCTTATTTATCT
1 TT-TTTTTTAT-T
* *
1457314 TTCTTTTTAAT
1 TTTTTTTTATT
*
1457325 TTTGTTTTA
1 TTTTTTTTA
1457334 GTTGCTTAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
11 12 0.26
12 29 0.63
13 5 0.11
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTTATT
Found at i:1462026 original size:10 final size:10
Alignment explanation
Indices: 1461971--1462051 Score: 64
Period size: 10 Copynumber: 8.4 Consensus size: 10
1461961 GTTTTATAAT
1461971 TAAAATCATT-
1 TAAAAT-ATTA
1461981 TAAAAT-TTA
1 TAAAATATTA
*
1461990 TTAAA-ATTA
1 TAAAATATTA
* *
1461999 TAGAAGACTTA
1 TAAAATA-TTA
*
1462010 TAGAATATTA
1 TAAAATATTA
1462020 TAAAATATTA
1 TAAAATATTA
1462030 TAAAA-A-TA
1 TAAAATATTA
*
1462038 AAAAATATTA
1 TAAAATATTA
1462048 TAAA
1 TAAA
1462052 TTATAAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 8 0.14
9 12 0.21
10 29 0.50
11 9 0.16
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (10 bp):
TAAAATATTA
Found at i:1462063 original size:18 final size:17
Alignment explanation
Indices: 1462016--1462068 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
1462006 CTTATAGAAT
1462016 ATTATAAAATATTATAAA
1 ATTATAAAATATTAT-AA
* *
1462034 AATAAAAAATATTATAA
1 ATTATAAAATATTATAA
1462051 ATTAT-AAATATATATAA
1 ATTATAAAATAT-TATAA
1462068 A
1 A
1462069 AGTGCAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 6 0.20
17 11 0.37
18 13 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTATAAAATATTATAA
Found at i:1462068 original size:10 final size:9
Alignment explanation
Indices: 1462007--1462068 Score: 56
Period size: 10 Copynumber: 6.8 Consensus size: 9
1461997 TATAGAAGAC
1462007 TTATAGAATA
1 TTATA-AATA
1462017 TTATAAAATA
1 TTAT-AAATA
*
1462027 TTATAAAAA
1 TTATAAATA
* *
1462036 TAAAAAATA
1 TTATAAATA
1462045 TTAT-AA-A
1 TTATAAATA
1462052 TTATAAATA
1 TTATAAATA
1462061 TATATAAA
1 T-TATAAA
1462069 AGTGCAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.12
8 4 0.10
9 14 0.33
10 18 0.43
11 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (9 bp):
TTATAAATA
Found at i:1462209 original size:9 final size:9
Alignment explanation
Indices: 1462152--1462212 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
1462142 AAAGTTATGA
*
1462152 AAAAAATAT
1 AAAAATTAT
*
1462161 TAAAATTAAT
1 AAAAATT-AT
* *
1462171 AAAATTTAC
1 AAAAATTAT
1462180 AAAATATTAT
1 AAAA-ATTAT
**
1462190 AAAAACCAT
1 AAAAATTAT
1462199 AAAAATTAT
1 AAAAATTAT
1462208 AAAAA
1 AAAAA
1462213 AAACTAAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
9 25 0.64
10 14 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:1462220 original size:19 final size:18
Alignment explanation
Indices: 1462131--1462223 Score: 53
Period size: 19 Copynumber: 4.9 Consensus size: 18
1462121 ATGAATTGCG
*
1462131 TAAAAAAAAGT-AAAGTTA
1 TAAAAAAAA-TAAAAATTA
*
1462149 TGAAAAAAATATTAAAATTAA
1 T-AAAAAAA-ATAAAAATT-A
*** *
1462170 TAAAATTTACAAAATATTA
1 TAAAAAAAATAAAA-ATTA
**
1462189 TAAAAACCATAAAAATTA
1 TAAAAAAAATAAAAATTA
1462207 TAAAAAAAACTAAAAAT
1 TAAAAAAAA-TAAAAAT
1462224 ACATGAAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
18 12 0.21
19 30 0.53
20 13 0.23
21 2 0.04
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAAAAAATAAAAATTA
Found at i:1462617 original size:20 final size:20
Alignment explanation
Indices: 1462574--1462632 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
1462564 TACAATATTT
*
1462574 TAATTCATATAACTTTTTTAA
1 TAATTTATATAA-TTTTTTAA
1462595 TAATTTATATAATTTTTGT-A
1 TAATTTATATAATTTTT-TAA
1462615 TAATTTATAATAATTTTT
1 TAATTTAT-ATAATTTTT
1462633 ATAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATTTATATAATTTTTTAA
Found at i:1462618 original size:11 final size:10
Alignment explanation
Indices: 1462581--1462671 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 10
1462571 TTTTAATTCA
1462581 TATAACTTTTT
1 TATAA-TTTTT
*
1462592 TAATAA-TTTA
1 T-ATAATTTTT
1462602 TATAATTTTT
1 TATAATTTTT
*
1462612 GTATAATTTAT
1 -TATAATTTTT
*
1462623 AATAA-TTTT
1 TATAATTTTT
*
1462632 TATAAATTTT
1 TATAATTTTT
*
1462642 TAGTCA---TT
1 TA-TAATTTTT
1462650 TATAATATTTT
1 TATAAT-TTTT
1462661 TATAATTTTT
1 TATAATTTTT
1462671 T
1 T
1462672 GCACTTTTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
7 2 0.03
8 4 0.06
9 11 0.17
10 22 0.35
11 20 0.32
12 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TATAATTTTT
Found at i:1462626 original size:30 final size:30
Alignment explanation
Indices: 1462592--1462671 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
1462582 ATAACTTTTT
*
1462592 TAATAATTTATATAATTTTTGTA-TAATTTA
1 TAATAATTTTTATAATTTTT-TAGTAATTTA
* *
1462622 TAATAATTTTTATAAATTTTTAGTCATTTA
1 TAATAATTTTTATAATTTTTTAGTAATTTA
1462652 TAAT-ATTTTTATAATTTTTT
1 TAATAATTTTTATAATTTTTT
1462672 GCACTTTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 17 0.38
30 28 0.62
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (30 bp):
TAATAATTTTTATAATTTTTTAGTAATTTA
Found at i:1462639 original size:20 final size:20
Alignment explanation
Indices: 1462574--1462670 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
1462564 TACAATATTT
*
1462574 TAATTCATATAACTTTTT-TAA
1 TAATTTATATAA-TTTTTAT-A
*
1462595 TAATTTATATAATTTTTGTA
1 TAATTTATATAATTTTTATA
1462615 TAATTTATAATAATTTTTATA
1 TAATTTAT-ATAATTTTTATA
* * *
1462636 -AATTTTTAGTCATTTATA-A
1 TAATTTATA-TAATTTTTATA
*
1462655 T-ATTTTTATAATTTTT
1 TAATTTATATAATTTTT
1462671 TGCACTTTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
18 6 0.09
19 9 0.14
20 27 0.42
21 23 0.35
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTATATAATTTTTATA
Found at i:1462704 original size:30 final size:29
Alignment explanation
Indices: 1462648--1462718 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
1462638 TTTTTAGTCA
*
1462648 TTTATAATATTTTTATAATTTTTTGC-ACT
1 TTTAT-ATATTTTTACAATTTTTTGCAACT
1462677 TTTATATATTTTTACATATTCTTTTGCAACT
1 TTTATATATTTTTACA-ATT-TTTTGCAACT
1462708 TTTA-ATATTTT
1 TTTATATATTTT
1462719 AATTATTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 10 0.26
29 8 0.21
30 13 0.34
31 7 0.18
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTATATATTTTTACAATTTTTTGCAACT
Found at i:1477025 original size:14 final size:14
Alignment explanation
Indices: 1477006--1477052 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1476996 TTAGCTTACC
1477006 ATTTTAGTTTATAT
1 ATTTTAGTTTATAT
*
1477020 ATTTTAATTTGATAT
1 ATTTTAGTTT-ATAT
* *
1477035 -TTTTTGTTTTTAT
1 ATTTTAGTTTATAT
1477048 ATTTT
1 ATTTT
1477053 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 20 0.74
15 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (14 bp):
ATTTTAGTTTATAT
Found at i:1477512 original size:19 final size:19
Alignment explanation
Indices: 1477488--1477775 Score: 115
Period size: 19 Copynumber: 13.7 Consensus size: 19
1477478 AGAGGCGCCA
1477488 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
1477507 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
1477527 AT-AATTAAATT-TATATTTATAGTT
1 ATGAA-T--ATTGTA-ATTT-T-G-T
* * *
1477551 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
1477568 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
1477587 ATGAATATTGTAATTTTGTAATTTTGT
1 ATG-A-A---T-A--TTGTAATTTTGT
* *
1477614 ATGAATATTGTAATGTCGGGATAT
1 ATGAATATTGTAAT-T----TTGT
1477638 ATTGTAATATTGTAATTTTTTGT
1 A-TG-AATATTGTAA--TTTTGT
*
1477661 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
1477681 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
1477705 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
1477722 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
1477743 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
1477762 ATGAATATTGTAAT
1 ATGAATATTGTAAT
1477776 ATTATAATAT
Statistics
Matches: 207, Mismatches: 20, Indels: 84
0.67 0.06 0.27
Matches are distributed among these distances:
17 10 0.05
18 8 0.04
19 61 0.29
20 25 0.12
21 36 0.17
22 16 0.08
23 7 0.03
24 10 0.05
25 6 0.03
26 11 0.05
27 16 0.08
28 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:1477606 original size:27 final size:27
Alignment explanation
Indices: 1477575--1477627 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
1477565 TGTATGAATA
1477575 TTGTAATTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
1477602 TTGTAATTTTGTATGAATATTGTAAT
1 TTGTAATTTTGTATGAATATTGTAAT
1477628 GTCGGGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (27 bp):
TTGTAATTTTGTATGAATATTGTAATT
Found at i:1477777 original size:27 final size:26
Alignment explanation
Indices: 1477723--1477797 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
1477713 GTATTTTGTA
1477723 TGAATATTGTAATTTT-T-TG--TA-
1 TGAATATTGTAATTTTGTATGAATAT
1477744 TGAATATTGTAATTTTGTATGAATAT
1 TGAATATTGTAATTTTGTATGAATAT
* *
1477770 TGTAATATTATAATATTGTATGAATAT
1 TG-AATATTGTAATTTTGTATGAATAT
1477797 T
1 T
1477798 AAAAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 16 0.35
22 1 0.02
23 2 0.04
25 2 0.04
26 2 0.04
27 23 0.50
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (26 bp):
TGAATATTGTAATTTTGTATGAATAT
Found at i:1477944 original size:15 final size:15
Alignment explanation
Indices: 1477903--1477944 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
1477893 GTTAACTAAT
*
1477903 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
1477918 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
1477934 TTAAATTTTAT
1 TTAAATTTTAT
1477945 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:1478106 original size:21 final size:21
Alignment explanation
Indices: 1478075--1478240 Score: 95
Period size: 27 Copynumber: 7.2 Consensus size: 21
1478065 AATTAATTAT
1478075 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
1478097 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
1478123 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
1478144 ---AAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
1478166 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
1478193 AAACAAAATTACAATATTCATAC
1 -AA-AAAATTACAATATTCATAC
*
1478216 AAAAAATTATAATATTCATAC
1 AAAAAATTACAATATTCATAC
1478237 AAAA
1 AAAA
1478241 TACTAATACA
Statistics
Matches: 121, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.10
19 1 0.01
20 3 0.02
21 35 0.29
22 11 0.09
23 1 0.01
25 7 0.06
26 14 0.12
27 36 0.30
28 1 0.01
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:1478115 original size:8 final size:8
Alignment explanation
Indices: 1478102--1478210 Score: 58
Period size: 8 Copynumber: 12.4 Consensus size: 8
1478092 CATACAAAAA
1478102 ATTACAAT
1 ATTACAAT
1478110 ATTACAAT
1 ATTACAAT
* * *
1478118 ATATCCCGAC
1 AT-T-ACAAT
1478128 ATTACAAT
1 ATTACAAT
1478136 ATTCATACAA-
1 A-T--TACAAT
1478146 ATTACAAT
1 ATTACAAT
1478154 ATTACAAT
1 ATTACAAT
*
1478162 ATTCATACAAA
1 A-T--TACAAT
*
1478173 ATTATAAT
1 ATTACAAT
1478181 ATTACAAT
1 ATTACAAT
*
1478189 ATTCAAACAAA
1 ATT---ACAAT
1478200 ATTACAAT
1 ATTACAAT
1478208 ATT
1 ATT
1478211 CATACAAAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
7 5 0.06
8 43 0.56
9 5 0.06
10 6 0.08
11 18 0.23
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:1478176 original size:19 final size:19
Alignment explanation
Indices: 1478128--1478241 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
1478118 ATATCCCGAC
1478128 ATTACAATATTCATAC-AA
1 ATTACAATATTCATACAAA
1478146 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
1478163 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
*
1478181 ATTACAATATTCAAACAAA
1 ATTACAATATTCATACAAA
1478200 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
1478221 ATTATAATATTCATACAAA
1 ATTACAATATTCATACAAA
1478240 AT
1 AT
1478242 ACTAATACAA
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
15 3 0.04
16 9 0.12
17 4 0.05
18 10 0.13
19 30 0.39
20 1 0.01
21 19 0.25
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:1478182 original size:27 final size:27
Alignment explanation
Indices: 1478128--1478210 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
1478118 ATATCCCGAC
1478128 ATTACAATATTCATAC-AAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
1478154 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
1478181 ATTACAATATTCAAACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
1478208 ATT
1 ATT
1478211 CATACAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 16 0.30
27 37 0.70
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:1478247 original size:19 final size:20
Alignment explanation
Indices: 1478181--1478248 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
1478171 AAATTATAAT
*
1478181 ATTAC-AATATTCAAACAAA
1 ATTACTAATATTCATACAAA
1478200 ATTAC-AATATTCATACAAAAA
1 ATTACTAATATTCATAC--AAA
1478221 ATTA-TAATATTCATACAAA
1 ATTACTAATATTCATACAAA
1478240 A-TACTAATA
1 ATTACTAATA
1478249 CAAAACTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 24 0.55
21 18 0.41
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTACTAATATTCATACAAA
Found at i:1478266 original size:67 final size:71
Alignment explanation
Indices: 1478128--1478266 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 71
1478118 ATATCCCGAC
* * *
1478128 ATTACAATATTCATACAAATTACAATATTACAATATTCATACAAAATTATAATATTACAATATTC
1 ATTACAATATTCATACAAA-TACAATATTACAATATTCATACAAAATTATAATATCAAAATATTA
1478193 AAACAAA
65 AAACAAA
*
1478200 ATTACAATATTCATAC-AA-A-AA-ATTATAATATTCATACAAAA-TACTAATA-CAAAACTA-T
1 ATTACAATATTCATACAAATACAATATTACAATATTCATACAAAATTA-TAATATCAAAA-TATT
1478258 AAATACAAA
64 AAA-ACAAA
1478267 TTTAATTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
66 8 0.13
67 31 0.52
68 2 0.03
69 1 0.02
71 2 0.03
72 16 0.27
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (71 bp):
ATTACAATATTCATACAAATACAATATTACAATATTCATACAAAATTATAATATCAAAATATTAA
AACAAA
Found at i:1479326 original size:25 final size:27
Alignment explanation
Indices: 1479262--1479331 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
1479252 CATATATATT
1479262 TATATATATT--ATAAAAACATGCAAG
1 TATATATATTAAATAAAAACATGCAAG
* *
1479287 TATACTAGATATAAAAAAAAACATGC-A-
1 TATA-TATAT-TAAATAAAAACATGCAAG
1479314 TATATATATTAAATAAAA
1 TATATATATTAAATAAAA
1479332 GAACGACGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 12 0.32
26 8 0.22
27 5 0.14
28 1 0.03
29 11 0.30
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.30
Consensus pattern (27 bp):
TATATATATTAAATAAAAACATGCAAG
Found at i:1479329 original size:29 final size:29
Alignment explanation
Indices: 1479244--1479331 Score: 74
Period size: 29 Copynumber: 3.0 Consensus size: 29
1479234 CGTGCAACGT
* *
1479244 AAAACATGCATATATAT-TTATATATATTATA
1 AAAACATGCATATATATATTA-A-ATA-AAAA
* *
1479275 AAAACATGCA-AGTATACTA-GATATAAAAA
1 AAAACATGCATA-TATA-TATTAAATAAAAA
1479304 AAAACATGCATATATATATTAAATAAAA
1 AAAACATGCATATATATATTAAATAAAA
1479332 GAACGACGCA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
28 2 0.04
29 23 0.50
30 5 0.11
31 14 0.30
32 2 0.04
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAACATGCATATATATATTAAATAAAAA
Found at i:1480604 original size:17 final size:17
Alignment explanation
Indices: 1480582--1480614 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1480572 AAAAATATAT
1480582 AAAAAAATATT-TTATTC
1 AAAAAAA-ATTATTATTC
1480599 AAAAAAAATTATTATT
1 AAAAAAAATTATTATT
1480615 TTTTATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAAAAATTATTATTC
Found at i:1483052 original size:23 final size:23
Alignment explanation
Indices: 1483003--1483113 Score: 129
Period size: 23 Copynumber: 5.0 Consensus size: 23
1482993 CTTGATCAGT
* *
1483003 ATACGACACATAA-GTGTCTG--
1 ATACGACACACAAGGTGCCTGAA
*
1483023 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
*
1483046 ATACGACACACTAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
1483069 ATACGACACATAAAGTGCCTGAA
1 ATACGACACACAAGGTGCCTGAA
* *
1483092 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
1483114 TCGGCATAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
20 11 0.14
21 6 0.07
23 64 0.79
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAGGTGCCTGAA
Found at i:1483078 original size:46 final size:43
Alignment explanation
Indices: 1483003--1483114 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 43
1482993 CTTGATCAGT
* * *
1483003 ATACGACACATAAGTGTCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAGTGCCTGATACGACACACAAAGTGCCTGAA
* *
1483046 ATACGACACACTAGGTGCCTGAAATACGACACATAAAGTGCCTGAA
1 ATACGACACA-TAAGTGCCTG--ATACGACACACAAAGTGCCTGAA
1483092 ATACGACACATAAAGTGCCTGAT
1 ATACGACACAT-AAGTGCCTGAT
1483115 CGGCATAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
43 10 0.17
44 10 0.17
45 1 0.02
46 38 0.64
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGATACGACACACAAAGTGCCTGAA
Found at i:1487199 original size:47 final size:46
Alignment explanation
Indices: 1487061--1487200 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 46
1487051 CAAAAATCAA
*
1487061 GCAAGCTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAA-ATT
1 GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAATATT
** * * * *
1487106 GCAAACTAAAAAAATCTACAATTTTATATAAATCTTAAAACAATATT
1 GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAA-AATATT
1487153 GCAAACTAAAAAAAATCCCCAATTTCATATGAA-CCTAAAATAATATT
1 GCAAACT-AAAAAAATCCCCAATTTCATATGAACCCTAAAA-AATATT
1487200 G
1 G
1487201 TTAAATATAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 33 0.42
46 2 0.03
47 23 0.29
48 21 0.27
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (46 bp):
GCAAACTAAAAAAATCCCCAATTTCATATGAACCCTAAAAAATATT
Found at i:1488645 original size:40 final size:40
Alignment explanation
Indices: 1488590--1488713 Score: 130
Period size: 37 Copynumber: 3.1 Consensus size: 40
1488580 ACTAGTTTGG
*
1488590 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCGAAGTAGTAAATTGA
* * *
1488630 CACCCAGTGTCTCATCGG-TTATACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGGATAAT-CCGAAGTAGTAAATTGA
* * * *
1488667 CATCCAGTGCCTCATCGAATAAATCCAAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGAT-AATCCGAAGTAGTAAATTGA
1488708 CACCCA
1 CACCCA
1488714 ATGTCTCTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
37 24 0.36
38 3 0.05
39 7 0.11
40 19 0.29
41 13 0.20
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATCCGAAGTAGTAAATTGA
Found at i:1489899 original size:24 final size:24
Alignment explanation
Indices: 1489872--1489920 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
1489862 GACGACGCTA
1489872 CCCTAATCGATCCCCTCTGTTTCT
1 CCCTAATCGATCCCCTCTGTTTCT
1489896 CCCTAATCGATCCCCTCTGTTTCT
1 CCCTAATCGATCCCCTCTGTTTCT
1489920 C
1 C
1489921 TTCCGTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.43, G:0.08, T:0.37
Consensus pattern (24 bp):
CCCTAATCGATCCCCTCTGTTTCT
Found at i:1495364 original size:50 final size:51
Alignment explanation
Indices: 1495308--1495521 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
1495298 AATAATTATG
1495308 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
1495358 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
1495412 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATAGAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
1495462 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
1495514 TTTAAATA
1 TTTAAATA
1495522 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:1495440 original size:156 final size:156
Alignment explanation
Indices: 1495253--1495561 Score: 564
Period size: 156 Copynumber: 2.0 Consensus size: 156
1495243 TATTTAATAT
*
1495253 TAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATG
1 TAAGAATTTTATTAAATCATATATTTTAATTAAAATAGATTTAATAATAATTATGTTTAAATATG
*
1495318 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAATCAT
66 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
* *
1495383 TTACCAAAATAATTTTCTGCTAATTA
131 TTACCAAAACAATTTTATGCTAATTA
* *
1495409 TAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATTATAATTATGTTTAAATATG
1 TAAGAATTTTATTAAATCATATATTTTAATTAAAATAGATTTAATAATAATTATGTTTAAATATG
1495474 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
66 ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
1495539 TTACCAAAACAATTTTATGCTAA
131 TTACCAAAACAATTTTATGCTAA
1495562 GGGTATTCTA
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 147 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (156 bp):
TAAGAATTTTATTAAATCATATATTTTAATTAAAATAGATTTAATAATAATTATGTTTAAATATG
ATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATAATCAT
TTACCAAAACAATTTTATGCTAATTA
Found at i:1495442 original size:18 final size:18
Alignment explanation
Indices: 1495404--1495462 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
1495394 ATTTTCTGCT
1495404 AATTATAAGAATTTT-ATTA
1 AATTAT-AG-ATTTTAATTA
*
1495423 AATTATATATTTTAATTA
1 AATTATAGATTTTAATTA
1495441 AA--ATAGA-TTTAATTA
1 AATTATAGATTTTAATTA
1495456 TAATTAT
1 -AATTAT
1495463 GTTTAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 8 0.24
16 6 0.18
17 5 0.15
18 9 0.26
19 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTATAGATTTTAATTA
Found at i:1495664 original size:44 final size:45
Alignment explanation
Indices: 1495614--1495704 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
1495604 ACCTCTATTC
* * *
1495614 CATTCAACCAAACAAAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
***
1495658 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
1495703 CA
1 CA
1495705 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.38, C:0.27, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACAAAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:1495706 original size:16 final size:16
Alignment explanation
Indices: 1495685--1495721 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1495675 GATTAGCTAT
1495685 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1495701 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1495717 TACAC
1 TACAC
1495722 AGAACCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1499019 original size:18 final size:19
Alignment explanation
Indices: 1498996--1499040 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
1498986 AAATTCATAT
1498996 CTAAATTATACTTTATT-C
1 CTAAATTATACTTTATTAC
*
1499014 CTAAATTATATTTTATTAC
1 CTAAATTATACTTTATTAC
1499033 CTAAATTA
1 CTAAATTA
1499041 CCTAACTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (19 bp):
CTAAATTATACTTTATTAC
Found at i:1504671 original size:19 final size:19
Alignment explanation
Indices: 1504649--1504726 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 19
1504639 AAAAAATCAA
*
1504649 TAAAAGTTATAAAAATTAT
1 TAAAATTTATAAAAATTAT
*
1504668 TAAATTTTAATAAAAAAAATTATT
1 TAAAATTT-AT---AAAAATTA-T
* *
1504692 TAAAAATTATAAAAATCA-
1 TAAAATTTATAAAAATTAT
1504710 TAAAATTTTATAAAAAT
1 TAAAA-TTTATAAAAAT
1504727 CGTAAAAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
18 5 0.11
19 16 0.34
20 9 0.19
23 10 0.21
24 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (19 bp):
TAAAATTTATAAAAATTAT
Found at i:1504703 original size:23 final size:23
Alignment explanation
Indices: 1504659--1504706 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1504649 TAAAAGTTAT
**
1504659 AAAAATTATTAAATTTTAATAAA
1 AAAAATTATTAAAAATTAATAAA
1504682 AAAAATTATTTAAAAATT-ATAAA
1 AAAAATTA-TTAAAAATTAATAAA
1504705 AA
1 AA
1504707 TCATAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAAATTATTAAAAATTAATAAA
Found at i:1504740 original size:19 final size:19
Alignment explanation
Indices: 1504699--1504743 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1504689 ATTTAAAAAT
***
1504699 TATAAAAATCATAAAATTT
1 TATAAAAATCATAAAAGAA
*
1504718 TATAAAAATCGTAAAAGAA
1 TATAAAAATCATAAAAGAA
1504737 TATAAAA
1 TATAAAA
1504744 TATATAGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
TATAAAAATCATAAAAGAA
Found at i:1505316 original size:24 final size:23
Alignment explanation
Indices: 1505288--1505339 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
1505278 CTAGATTATG
1505288 TATATATATATTTCTGAATTT-TTT
1 TATATATATATTTC--AATTTATTT
*
1505312 TATATATTTATTTCAATTTATTT
1 TATATATATATTTCAATTTATTT
1505335 TATAT
1 TATAT
1505340 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.19
23 8 0.31
24 13 0.50
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TATATATATATTTCAATTTATTT
Found at i:1513561 original size:47 final size:47
Alignment explanation
Indices: 1513492--1513587 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
1513482 GTACCTTTCA
*
1513492 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAATTCATT
1 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
1513539 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
1 AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
1513586 AA
1 AA
1513588 GTTAAATTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (47 bp):
AAATTTAAAATTTTAGTCATCACCAAATGATAACTATTAAACTCATT
Found at i:1513566 original size:24 final size:24
Alignment explanation
Indices: 1513492--1513566 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
1513482 GTACCTTTCA
1513492 AAATTTAAAATTTTAGTCATCACC
1 AAATTTAAAATTTTAGTCATCACC
* * * * **
1513516 AAA-TGATAACTATTA--AATTCATT
1 AAATTTA-AAATTTTAGTCA-TCACC
1513539 AAATTTAAAATTTTAGTCATCACC
1 AAATTTAAAATTTTAGTCATCACC
1513563 AAAT
1 AAAT
1513567 GATAACTATT
Statistics
Matches: 34, Mismatches: 12, Indels: 10
0.61 0.21 0.18
Matches are distributed among these distances:
22 1 0.03
23 14 0.41
24 18 0.53
25 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATTTAAAATTTTAGTCATCACC
Found at i:1515850 original size:35 final size:36
Alignment explanation
Indices: 1515811--1515893 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 36
1515801 AAGGTACAAA
*
1515811 ATATATACATGTACATATATA-TA-AAAAAAATAAT
1 ATATATACATGTACATATAGATTATAAAAAAATAAT
* * *
1515845 -TATATACATATATATATAGATTATAAAAAGATAATT
1 ATATATACATGTACATATAGATTATAAAAAAATAA-T
* *
1515881 ACATATATATGTA
1 ATATATACATGTA
1515894 AAAACAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
33 17 0.45
34 2 0.05
35 9 0.24
36 1 0.03
37 9 0.24
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (36 bp):
ATATATACATGTACATATAGATTATAAAAAAATAAT
Found at i:1515861 original size:29 final size:29
Alignment explanation
Indices: 1515825--1515920 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 29
1515815 ATACATGTAC
*
1515825 ATATATATAAAAAAAATAATTATATACAT
1 ATATATATAAAAAAAATAATAATATACAT
*
1515854 ATATATATAGATTATAAAAA-GATAAT-TACAT
1 ATATATATA-A--A-AAAAATAATAATATACAT
*
1515885 ATATATGTAAAAACAAATAATAATAATTACAT
1 ATATATATAAAAA-AAATAATAAT-A-TACAT
1515917 ATAT
1 ATAT
1515921 TGAAATTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
27 2 0.04
28 4 0.07
29 14 0.26
30 2 0.04
31 13 0.24
32 14 0.26
33 5 0.09
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATATATAAAAAAAATAATAATATACAT
Found at i:1515862 original size:33 final size:35
Alignment explanation
Indices: 1515812--1515890 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
1515802 AGGTACAAAA
* *
1515812 TATATACATGTACATATATA-TA-AAAAAAATAAT
1 TATATACATATACATATAGATTATAAAAAAATAAT
* *
1515845 TATATACATATATATATAGATTATAAAAAGATAAT
1 TATATACATATACATATAGATTATAAAAAAATAAT
* *
1515880 TACATATATAT
1 TATATACATAT
1515891 GTAAAAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 17 0.45
34 2 0.05
35 19 0.50
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (35 bp):
TATATACATATACATATAGATTATAAAAAAATAAT
Found at i:1516082 original size:17 final size:17
Alignment explanation
Indices: 1516060--1516103 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
1516050 TAGGAAATAA
1516060 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
1516077 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
1516094 -ATATGTATAT
1 AAAATGTATAT
1516104 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:1518429 original size:20 final size:20
Alignment explanation
Indices: 1518358--1518429 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1518348 AAATATTTTT
*
1518358 TTTTGAAATTTTTATAAA-TA
1 TTTTGAATTTTTTA-AAATTA
*
1518378 TTTTGAA-TTTTAAAAATTA
1 TTTTGAATTTTTTAAAATTA
1518397 TTTTGAATTTTTTAAAATTA
1 TTTTGAATTTTTTAAAATTA
1518417 TTTTGAATTTTTT
1 TTTTGAATTTTTT
1518430 TGTTGAGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.06
19 14 0.29
20 31 0.65
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTGAATTTTTTAAAATTA
Found at i:1523819 original size:12 final size:12
Alignment explanation
Indices: 1523802--1523828 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1523792 AACACTTAAC
1523802 GAGCTTGTATTT
1 GAGCTTGTATTT
1523814 GAGCTTGTATTT
1 GAGCTTGTATTT
1523826 GAG
1 GAG
1523829 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.30, T:0.44
Consensus pattern (12 bp):
GAGCTTGTATTT
Found at i:1529478 original size:18 final size:18
Alignment explanation
Indices: 1529455--1529492 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1529445 CCAGCAACAG
*
1529455 CAACAGCAACTACTGCAA
1 CAACAGCAACTACAGCAA
*
1529473 CAACAGCAGCTACAGCAA
1 CAACAGCAACTACAGCAA
1529491 CA
1 CA
1529493 TGCTCAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.34, G:0.13, T:0.08
Consensus pattern (18 bp):
CAACAGCAACTACAGCAA
Found at i:1529482 original size:27 final size:27
Alignment explanation
Indices: 1529452--1529504 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
1529442 ACACCAGCAA
1529452 CAGCAACAGCAAC-TACTGCAACAACAG
1 CAGCAACAGCAACATACT-CAACAACAG
* *
1529479 CAGCTACAGCAACATGCTCAACAACA
1 CAGCAACAGCAACATACTCAACAACA
1529505 ATTACAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.43, C:0.34, G:0.13, T:0.09
Consensus pattern (27 bp):
CAGCAACAGCAACATACTCAACAACAG
Found at i:1529491 original size:15 final size:15
Alignment explanation
Indices: 1529428--1529492 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
1529418 TCCTCAAATG
*
1529428 CAGCAGCCACAGCAA
1 CAGCAGCTACAGCAA
* *
1529443 CACCAGCAACAGCAA
1 CAGCAGCTACAGCAA
* *
1529458 CAGCAACTACTGCAACAA
1 CAGCAGCTA---CAGCAA
1529476 CAGCAGCTACAGCAA
1 CAGCAGCTACAGCAA
1529491 CA
1 CA
1529493 TGCTCAACAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 26 0.67
18 13 0.33
ACGTcount: A:0.43, C:0.37, G:0.15, T:0.05
Consensus pattern (15 bp):
CAGCAGCTACAGCAA
Found at i:1533990 original size:68 final size:67
Alignment explanation
Indices: 1533877--1534014 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 67
1533867 AATGGGACTC
* *
1533877 AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTTTAAATTAATATTTTA
1 AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTAA
1533942 AA
66 AA
1533944 AAATGATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTA
1 AAAT-ATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTA
1534009 AAA
65 AAA
1534012 AAA
1 AAA
1534015 ATTACTCTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 4 0.06
68 64 0.94
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (67 bp):
AAATATATTATTTAATCATGCTTTATTCTTAACGTGAAAATATCGAATTCTAAATTAATATTTAA
AA
Found at i:1552512 original size:152 final size:153
Alignment explanation
Indices: 1552270--1552574 Score: 551
Period size: 152 Copynumber: 2.0 Consensus size: 153
1552260 AATAAAGGTG
*
1552270 TAACTCACATACAAAAAGTAGTGCAACTCCAATTTGTTTTTTTGTTTTTTTTTTTTTTGCAGATA
1 TAACTCACATACAAAAAGTAGTGCAACTCCAATTTG---TGTTGTTTTTTTTTTTTTTGCAGATA
1552335 CTTACTGGGTTGGTGAGGGAAGAGGTGTGAAGCCAAAGAAGAATCAAAGCTTGTTTTGACAGAAT
63 CTTACTGGGTTGGTGAGGGAAGAGGTGTGAAGCCAAAGAAGAATCAAAGCTTGTTTTGACAGAAT
1552400 AAAGGAGTTGAGGTGGGATAGGAGTA
128 AAAGGAGTTGAGGTGGGATAGGAGTA
1552426 TAACTCACATACAAAAAAGTAGTGCAACTCCAATTTG-GTT-TTTTTTTTTTTTTTGCAGATACT
1 TAACTCACATAC-AAAAAGTAGTGCAACTCCAATTTGTGTTGTTTTTTTTTTTTTTGCAGATACT
1552489 TACTGGGTTGGTGAGGGAAGAGGTGTGAAGCCAAAGAAGAATCAAAGCTTGTTTTGACAGAATAA
65 TACTGGGTTGGTGAGGGAAGAGGTGTGAAGCCAAAGAAGAATCAAAGCTTGTTTTGACAGAATAA
1552554 AGGAGTTGAGGTGGGATAGGA
130 AGGAGTTGAGGTGGGATAGGA
1552575 ACTCCTGAAA
Statistics
Matches: 147, Mismatches: 1, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
152 109 0.74
153 2 0.01
156 12 0.08
157 24 0.16
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.32
Consensus pattern (153 bp):
TAACTCACATACAAAAAGTAGTGCAACTCCAATTTGTGTTGTTTTTTTTTTTTTTGCAGATACTT
ACTGGGTTGGTGAGGGAAGAGGTGTGAAGCCAAAGAAGAATCAAAGCTTGTTTTGACAGAATAAA
GGAGTTGAGGTGGGATAGGAGTA
Found at i:1554387 original size:12 final size:12
Alignment explanation
Indices: 1554370--1554397 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1554360 GGCGCAACGC
1554370 CGGCACGACGGA
1 CGGCACGACGGA
1554382 CGGCACGACGGA
1 CGGCACGACGGA
1554394 CGGC
1 CGGC
1554398 GACCGAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.43, T:0.00
Consensus pattern (12 bp):
CGGCACGACGGA
Found at i:1554994 original size:3 final size:3
Alignment explanation
Indices: 1554886--1554985 Score: 139
Period size: 3 Copynumber: 33.3 Consensus size: 3
1554876 GTACTTTTGC
1554886 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
1554934 TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT CAT CT-T TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
1554979 TAG TAT T
1 TAT TAT T
1554986 GGTATTATTG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.01
3 86 0.99
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1555199 original size:36 final size:37
Alignment explanation
Indices: 1555116--1555199 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 37
1555106 AATTTGTTTA
* *
1555116 ATATATATATACGTATACTCATATTTCTTTTTTTATAT
1 ATATATATATACATATAC-AATATTTCTTTTTTTATAT
*
1555154 ATATCTATATACATATA-AATATTT-TTATTTTTATA-
1 ATATATATATACATATACAATATTTCTT-TTTTTATAT
1555189 AGTATATATAT
1 A-TATATATAT
1555200 TTATATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 3 0.08
36 22 0.55
38 15 0.38
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (37 bp):
ATATATATATACATATACAATATTTCTTTTTTTATAT
Found at i:1560278 original size:30 final size:28
Alignment explanation
Indices: 1560196--1560279 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
1560186 CAAATGAATT
*
1560196 TTAAATTTTAAAGTAAAAAATGA-AGAAA
1 TTAAATTTTAAAATAAAAAAT-ATAGAAA
* * *
1560224 TCAAATTTTAAAAAAATAAAAATATAGAGA
1 TTAAATTTT-AAAATA-AAAAATATAGAAA
1560254 TTAAATTTTAAATATAAAAGAATATA
1 TTAAATTTTAAA-ATAAAA-AATATA
1560280 ATAAATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 8 0.18
29 11 0.24
30 26 0.58
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (28 bp):
TTAAATTTTAAAATAAAAAATATAGAAA
Found at i:1565555 original size:11 final size:10
Alignment explanation
Indices: 1565535--1565613 Score: 68
Period size: 11 Copynumber: 7.3 Consensus size: 10
1565525 CTCGAATTTA
1565535 ATTTTTTATT
1 ATTTTTTATT
1565545 ATTTTTCTATT
1 ATTTTT-TATT
1565556 ATTTTTTTATT
1 A-TTTTTTATT
* *
1565567 ATTTTATTGTC
1 ATTTT-TTATT
*
1565578 ATTATATTATT
1 ATT-TTTTATT
*
1565589 ATATTATTATT
1 AT-TTTTTATT
1565600 ATTTTATTATT
1 ATTTT-TTATT
1565611 ATT
1 ATT
1565614 ATTATTTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
10 12 0.21
11 38 0.67
12 7 0.12
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:1565558 original size:3 final size:3
Alignment explanation
Indices: 1565540--1565619 Score: 75
Period size: 3 Copynumber: 28.7 Consensus size: 3
1565530 ATTTAATTTT
* * *
1565540 TTA TTA TT- TT- TCTA TTA TT- TTT TTA TTA TT- TTA TTG TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1565582 -TA TTA TTA -TA TTA TTA TTA TT- TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1565620 TAAATATTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 13 0.20
3 51 0.78
4 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1565627 original size:17 final size:17
Alignment explanation
Indices: 1565589--1565627 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1565579 TTATATTATT
*
1565589 ATATTATTATTATTTTA
1 ATATTATTATTATTTAA
*
1565606 TTATTATTATTATTTAA
1 ATATTATTATTATTTAA
1565623 ATATT
1 ATATT
1565628 GTCCTGAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATTATTATTTAA
Found at i:1569488 original size:5 final size:5
Alignment explanation
Indices: 1569478--1569510 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
1569468 TGTGAAATTG
1569478 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1569511 TGCTGGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:1590805 original size:32 final size:32
Alignment explanation
Indices: 1590764--1590827 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
1590754 GTACGTTTTC
1590764 TTTGCTATAAACAACCATTATCAGTAGAATCA
1 TTTGCTATAAACAACCATTATCAGTAGAATCA
1590796 TTTGCTATAAACAACCATTATCAGTAGAATCA
1 TTTGCTATAAACAACCATTATCAGTAGAATCA
1590828 ACAAATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (32 bp):
TTTGCTATAAACAACCATTATCAGTAGAATCA
Found at i:1606622 original size:18 final size:18
Alignment explanation
Indices: 1606599--1606634 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1606589 TACATGGATT
1606599 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
1606617 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
1606635 ATTGGTGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATCTATTTAAA
Found at i:1609474 original size:37 final size:36
Alignment explanation
Indices: 1609418--1609491 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 36
1609408 TGTTAATTTC
*
1609418 AAGACTTTGTAATGTTTTTACTTATGTAGTGATTCA
1 AAGACTTTGTAATGTTTTTAATTATGTAGTGATTCA
1609454 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTT-TGTAATGTTTTTAATTATGTAGTGATTCA
1609491 A
1 A
1609492 TTCGGGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 7 0.19
37 29 0.81
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (36 bp):
AAGACTTTGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:1609504 original size:9 final size:9
Alignment explanation
Indices: 1609490--1609520 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1609480 GTAGTGATTC
*
1609490 AATTCGGGT
1 AATTCGGTT
1609499 AATTCGGTT
1 AATTCGGTT
1609508 AATTCGGTT
1 AATTCGGTT
1609517 AATT
1 AATT
1609521 TTTAATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:1612076 original size:8 final size:8
Alignment explanation
Indices: 1612063--1612090 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1612053 TTAATTTTTA
1612063 AAAAATAT
1 AAAAATAT
1612071 AAAAATAT
1 AAAAATAT
1612079 AAAAATAT
1 AAAAATAT
1612087 AAAA
1 AAAA
1612091 TTTTGAGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:1624494 original size:19 final size:18
Alignment explanation
Indices: 1624458--1624508 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
1624448 AATTAATTTT
1624458 TAAAAATTTAAAAA-ATTA
1 TAAAAA-TTAAAAATATTA
1624476 TAAAAATTAAAAATCATTA
1 TAAAAATTAAAAAT-ATTA
*
1624495 -AAATCATTAAAAAT
1 TAAA-AATTAAAAAT
1624509 TATATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.24
18 9 0.31
19 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTAAAAATATTA
Found at i:1628819 original size:202 final size:203
Alignment explanation
Indices: 1628472--1628878 Score: 780
Period size: 202 Copynumber: 2.0 Consensus size: 203
1628462 GTTTGAGCCA
1628472 ATTTTTCCAGAGTTTCCATACCTTAATATTTTTTTTACAGCAAGGGAAAAACATGTCCATTTGTT
1 ATTTTTCCAGAGTTTCCATACCTTAATATTTTTTTTACAGCAAGGGAAAAACATGTCCATTTGTT
1628537 TGTTTTCTATAAACAAAGATTCGCCTAAGTTGTGGGCCAATATGACAACATACGACTTCTACACG
66 TGTTTTCTATAAACAAAGATTCGCCTAAGTTGTGGGCCAATATGACAACATACGACTTCTACACG
1628602 TTAAACAATAGCAAATGATGCATTTTTTTTTGGGTCTGCAAATGATGCTAATTAAGTAATTACAT
131 TTAAACAATAGCAAATGATGCATTTTTTTTTGGGTCTGCAAATGATGCTAATTAAGTAATTACAT
1628667 AATTCAAC
196 AATTCAAC
* *
1628675 ATTTTTCCAGTGTTTCCATACCTTTATA-TTTTTTTACAGCAAGGGAAAAACATGTCCATTTGTT
1 ATTTTTCCAGAGTTTCCATACCTTAATATTTTTTTTACAGCAAGGGAAAAACATGTCCATTTGTT
1628739 TGTTTTCTATAAACAAAGATTCGCCTAAGTTGTGGGCCAATATGACAACATACGACTTCTACACG
66 TGTTTTCTATAAACAAAGATTCGCCTAAGTTGTGGGCCAATATGACAACATACGACTTCTACACG
*
1628804 TTAAACAATAGCAAATGATGCTTTTTTTTTTGGGTCTGCAAATGATGCTAATTAAGTAATTACAT
131 TTAAACAATAGCAAATGATGCATTTTTTTTTGGGTCTGCAAATGATGCTAATTAAGTAATTACAT
1628869 AATTCAAC
196 AATTCAAC
1628877 AT
1 AT
1628879 GATATGAATT
Statistics
Matches: 201, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
202 175 0.87
203 26 0.13
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (203 bp):
ATTTTTCCAGAGTTTCCATACCTTAATATTTTTTTTACAGCAAGGGAAAAACATGTCCATTTGTT
TGTTTTCTATAAACAAAGATTCGCCTAAGTTGTGGGCCAATATGACAACATACGACTTCTACACG
TTAAACAATAGCAAATGATGCATTTTTTTTTGGGTCTGCAAATGATGCTAATTAAGTAATTACAT
AATTCAAC
Found at i:1629756 original size:23 final size:22
Alignment explanation
Indices: 1629709--1629765 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
1629699 AGACAAGTAC
*
1629709 AATACAATCAAAATATCTTATA
1 AATACAATCAAAATACCTTATA
*
1629731 AATACATATCCAAATAACCTTA-A
1 AATACA-ATCAAAAT-ACCTTATA
*
1629754 AATAGAATCAAA
1 AATACAATCAAA
1629766 GTAATACAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 11 0.38
23 13 0.45
24 5 0.17
ACGTcount: A:0.56, C:0.16, G:0.02, T:0.26
Consensus pattern (22 bp):
AATACAATCAAAATACCTTATA
Found at i:1631969 original size:8 final size:8
Alignment explanation
Indices: 1631956--1631995 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
1631946 ATGATGAATG
1631956 AAAATGAA
1 AAAATGAA
1631964 AAAATG--
1 AAAATGAA
1631970 AAAATG-A
1 AAAATGAA
1631977 AAAATGAA
1 AAAATGAA
1631985 AAAATGAA
1 AAAATGAA
1631993 AAA
1 AAA
1631996 TAGAGAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.20
7 6 0.20
8 18 0.60
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Done.