Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008091.1 Hibiscus syriacus cultivar Beakdansim tig00110602_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2471235
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1743057 original size:14 final size:14
Alignment explanation
Indices: 1743038--1743074 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1743028 CATCAATTAC
1743038 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1743052 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1743066 ACAAATCAA
1 ACAAATCAA
1743075 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1745040 original size:19 final size:19
Alignment explanation
Indices: 1744998--1745156 Score: 166
Period size: 19 Copynumber: 8.6 Consensus size: 19
1744988 TAGTTTACTT
* *
1744998 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
1745018 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
1745037 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
1745056 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
1745075 TCGCAACACGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1745094 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1745108 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1745127 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1745146 TCGCAATGCGA
1 TCGCAACGCGA
1745157 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
14 8 0.07
16 5 0.04
17 5 0.04
19 89 0.75
20 12 0.10
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1745132 original size:52 final size:55
Alignment explanation
Indices: 1744998--1745151 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 55
1744988 TAGTTTACTT
* * *
1744998 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAATGAAAATCGCAAC-AG-AACCAAAA
* *
1745056 TCGCAACGCGAAACCAAAATCGCAACACGAAATGAAAATCGCAAC-G-A-CAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
* **
1745108 TCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAA
1745152 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 44 0.51
53 1 0.01
55 1 0.01
57 28 0.32
58 13 0.15
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.10
Consensus pattern (55 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
Found at i:1745187 original size:14 final size:14
Alignment explanation
Indices: 1745168--1745226 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1745158 TTTGGTTTCG
1745168 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
1745182 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
1745199 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
1745215 CGTTGCGATTTT
1 CGTTGCGATTTT
1745227 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1745194 original size:33 final size:33
Alignment explanation
Indices: 1745152--1745275 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
1745142 AAAATCGCAA
*
1745152 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1745185 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
1745218 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
1745251 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
1745276 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1745206 original size:19 final size:18
Alignment explanation
Indices: 1745152--1745243 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
1745142 AAAATCGCAA
1745152 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1745171 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
1745185 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1745204 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1745218 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1745237 TGCGATT
1 TGCGATT
1745244 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1745253 original size:14 final size:14
Alignment explanation
Indices: 1745201--1745257 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1745191 TTTGGTTTCG
*
1745201 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
1745215 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1745234 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1745248 CGTTGCGATT
1 CGTTGCGATT
1745258 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1745439 original size:83 final size:87
Alignment explanation
Indices: 1745323--1745595 Score: 324
Period size: 93 Copynumber: 3.1 Consensus size: 87
1745313 ATGGATTGCA
* *
1745323 TTAC-TTCAACCAATAGACAAAACAAAGACAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACATAGTTTAGCA
1745382 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
1745405 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACATAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACATAGTT
1745470 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
* * *
1745498 TTACTTTCAACCAAAAGACAAAGCAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACATAGTT
*
1745563 TAGCAGAATTGGCAGCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
1745591 TTACT
1 TTACT
1745596 AAGCAATCTA
Statistics
Matches: 173, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
82 7 0.04
83 31 0.18
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 128 0.74
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACATAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:1745531 original size:93 final size:93
Alignment explanation
Indices: 1745372--1745595 Score: 421
Period size: 93 Copynumber: 2.4 Consensus size: 93
1745362 TTCAGGGTAT
1745372 TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
1 TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
1745437 ATACTATTTCACAGTGTTAAAGAATACA
66 ATACTATTTCACAGTGTTAAAGAATACA
*
1745465 TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAGCAAAGACAA
1 TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
1745530 ATACTATTTCACAGTGTTAAAGAATACA
66 ATACTATTTCACAGTGTTAAAGAATACA
* *
1745558 CAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1745596 AAGCAATCTA
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.23
Consensus pattern (93 bp):
TAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAA
ATACTATTTCACAGTGTTAAAGAATACA
Found at i:1747307 original size:21 final size:21
Alignment explanation
Indices: 1747281--1747325 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1747271 TCTTTTGGTT
1747281 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1747302 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1747323 GAA
1 GAA
1747326 TCGCAACGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.24, T:0.09
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:1747348 original size:19 final size:19
Alignment explanation
Indices: 1747281--1747374 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
1747271 TCTTTTGGTT
*
1747281 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAAC--GC
1747302 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1747319 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1747335 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1747354 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1747373 GA
1 GA
1747375 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 1 0.02
18 1 0.02
19 33 0.52
21 16 0.25
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1747405 original size:14 final size:14
Alignment explanation
Indices: 1747386--1747442 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1747376 TTTGGTTTCG
1747386 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1747400 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1747419 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1747433 CGTTGCGATT
1 CGTTGCGATT
1747443 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1747418 original size:33 final size:33
Alignment explanation
Indices: 1747370--1747449 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1747360 AAAATCGCAA
**
1747370 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1747403 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1747436 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1747450 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1747455 original size:21 final size:21
Alignment explanation
Indices: 1747430--1747503 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
1747420 GTTGCGATTC
1747430 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
1747451 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
1747472 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
1747493 TCTCGTTGCGA
1 TCTCGTTGCGA
1747504 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:1747625 original size:33 final size:33
Alignment explanation
Indices: 1747583--1747653 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1747573 AATACTAACT
1747583 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1747616 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1747649 TGAAA
1 TGAAA
1747654 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1748058 original size:20 final size:20
Alignment explanation
Indices: 1748033--1748225 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
1748023 CTTTAAAGAT
1748033 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1748053 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1748073 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
1748094 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1748114 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1748134 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1748154 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1748174 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1748194 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1748214 CGCGTTGCGATT
1 CGCGTTGCGATT
1748226 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1755028 original size:5 final size:5
Alignment explanation
Indices: 1755018--1755045 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1755008 AGCTATTATG
1755018 TTTGT TTTGT TTTGT TTTGT TTTGT TTT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTT
1755046 TGTTCATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (5 bp):
TTTGT
Found at i:1758486 original size:11 final size:11
Alignment explanation
Indices: 1758470--1758496 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1758460 CAACGAATTG
1758470 TGGAAAACCTA
1 TGGAAAACCTA
1758481 TGGAAAACCTA
1 TGGAAAACCTA
1758492 TGGAA
1 TGGAA
1758497 GAAAGCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (11 bp):
TGGAAAACCTA
Found at i:1767512 original size:27 final size:27
Alignment explanation
Indices: 1767474--1767528 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1767464 AATCTCCCTA
1767474 TATATATTACATTCAAGCTTTGCAATT
1 TATATATTACATTCAAGCTTTGCAATT
1767501 TATATATTACATTCAAGCTTTGCAATT
1 TATATATTACATTCAAGCTTTGCAATT
1767528 T
1 T
1767529 TACTAAGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (27 bp):
TATATATTACATTCAAGCTTTGCAATT
Found at i:1768422 original size:18 final size:18
Alignment explanation
Indices: 1768399--1768471 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
1768389 AGGGATTGTC
*
1768399 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
* *
1768417 AGTGGTTATTCGGAACAAT
1 AGTGGTCATTCGGGAC-AT
*
1768436 CAGTGGTCATTTGGGACAT
1 -AGTGGTCATTCGGGACAT
* *
1768455 TGTGGTCCTTCGGGACA
1 AGTGGTCATTCGGGACA
1768472 AATATTCAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 27 0.61
19 4 0.09
20 13 0.30
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:1768467 original size:38 final size:38
Alignment explanation
Indices: 1768397--1768472 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
1768387 CGAGGGATTG
* *
1768397 TCAGTGGTCCTTCGGGACATAGTGGTTATTCGGAACAA
1 TCAGTGGTCATTCGGGACATAGTGGTCATTCGGAACAA
* * * *
1768435 TCAGTGGTCATTTGGGACATTGTGGTCCTTCGGGACAA
1 TCAGTGGTCATTCGGGACATAGTGGTCATTCGGAACAA
1768473 ATATTCAGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (38 bp):
TCAGTGGTCATTCGGGACATAGTGGTCATTCGGAACAA
Found at i:1778819 original size:3 final size:3
Alignment explanation
Indices: 1778811--1778884 Score: 85
Period size: 3 Copynumber: 24.3 Consensus size: 3
1778801 ATTTAATCTC
* * *
1778811 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTC CTT CTC CTT CTT CTC
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
* * *
1778859 CTT CCTC CTT CTC CTT CTT CTC CTT C
1 CTT -CTT CTT CTT CTT CTT CTT CTT C
1778885 CTCCTCCTCC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
3 56 0.97
4 2 0.03
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (3 bp):
CTT
Found at i:1778889 original size:3 final size:3
Alignment explanation
Indices: 1778841--1778925 Score: 98
Period size: 3 Copynumber: 27.7 Consensus size: 3
1778831 TCTTCTTCTT
* * * * * *
1778841 CTC CTT CTC CTT CTT CTC CTTC CTC CTT CTC CTT CTT CTC CTTC CTC
1 CTC CTC CTC CTC CTC CTC C-TC CTC CTC CTC CTC CTC CTC C-TC CTC
1778888 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1778926 TCTTTCTGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
3 66 0.92
4 6 0.08
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (3 bp):
CTC
Found at i:1783297 original size:29 final size:28
Alignment explanation
Indices: 1783257--1783317 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
1783247 ACTTATGCTC
*
1783257 TTTTTTCAGTTT-AGTGTCTAACCTTT-A
1 TTTTTTCAGTTTGA-TGTCTAACATTTCA
1783284 TTTTATTCTAGTTTGATGTCTAACATTTCA
1 TTTT-TTC-AGTTTGATGTCTAACATTTCA
1783314 TTTT
1 TTTT
1783318 GTTATTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 4 0.14
28 3 0.10
29 16 0.55
30 6 0.21
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (28 bp):
TTTTTTCAGTTTGATGTCTAACATTTCA
Found at i:1789007 original size:22 final size:22
Alignment explanation
Indices: 1788966--1789008 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1788956 ATTGTTAACG
*
1788966 AAGTCATAGAAAGGGGCTGCAT
1 AAGTCATAGAAAGAGGCTGCAT
*
1788988 AAGTCATAGAAAGAGTCTGCA
1 AAGTCATAGAAAGAGGCTGCA
1789009 CCAAAAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (22 bp):
AAGTCATAGAAAGAGGCTGCAT
Found at i:1791486 original size:34 final size:34
Alignment explanation
Indices: 1791441--1791508 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
1791431 AGCTACATGC
*
1791441 CTCAACGACTAGGGTATTAAATGAGACAAGACAA
1 CTCAACAACTAGGGTATTAAATGAGACAAGACAA
*
1791475 CTCAACAACTAGGGTATTAAATGAGACGAGACAA
1 CTCAACAACTAGGGTATTAAATGAGACAAGACAA
1791509 ATCACGAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (34 bp):
CTCAACAACTAGGGTATTAAATGAGACAAGACAA
Found at i:1796788 original size:3 final size:3
Alignment explanation
Indices: 1796782--1796835 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
1796772 ATTATTTTTT
* * *
1796782 TAA TAA TAA TAA TTA TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1796830 TAA TAA
1 TAA TAA
1796836 AATGAGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1796800 original size:15 final size:15
Alignment explanation
Indices: 1796782--1796835 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
1796772 ATTATTTTTT
1796782 TAATAATAATAATTA
1 TAATAATAATAATTA
1796797 TAATAATAATAATTA
1 TAATAATAATAATTA
* *
1796812 TTATAATAATAATAA
1 TAATAATAATAATTA
1796827 TAATAATAA
1 TAATAATAA
1796836 AATGAGTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:1797330 original size:113 final size:113
Alignment explanation
Indices: 1797188--1798054 Score: 1436
Period size: 113 Copynumber: 7.7 Consensus size: 113
1797178 ATAGGGTTAT
* ** * *
1797188 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * * * *
1797253 ATTATGAACTCTCTTCT-GAAAAGTTGATCTATCGAGTGATGAATTCGA
66 ATTATGAACT-TTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
* * * *
1797301 GCGAAAA-ATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GC-AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * *
1797365 CATTATGAATTTTTTCTGG-AGAAGCTGATCCATCAAATGATGGATTTGA
65 CATTATGAACTTTTTCTGGCA-AAGCTAATCCATCAAGTGATGGATTTGA
* *
1797414 GCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1797479 ATTATGAACTTTCTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
1797527 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1797592 ATTATGAACTTTTTCTGG-AGAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGCA-AAGCTAATCCATCAAGTGATGGATTTGA
1797640 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1797705 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
1797753 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1797818 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
1797866 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
1797931 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGTATTTGA
66 ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
*
1797979 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1798044 ATTATGAACTT
66 ATTATGAACTT
1798055 AACTGACACT
Statistics
Matches: 719, Mismatches: 28, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
112 11 0.02
113 702 0.98
114 6 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGCAAAGCTAATCCATCAAGTGATGGATTTGA
Found at i:1798033 original size:24 final size:23
Alignment explanation
Indices: 1797998--1798042 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
1797988 TGAACAAATT
*
1797998 CTTCTCATTATGAATTTCTTCTTC
1 CTTCTCATTATG-AGTTCTTCTTC
1798022 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGAGTTCTTCT
1798043 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTCATTATGAGTTCTTCTTC
Found at i:1800140 original size:9 final size:9
Alignment explanation
Indices: 1800120--1800177 Score: 77
Period size: 9 Copynumber: 6.6 Consensus size: 9
1800110 CTTGACCCCC
1800120 CTTTTTTCTT
1 CTTTTTT-TT
1800130 CTTTTTTTT
1 CTTTTTTTT
1800139 CTCTTTTTTT
1 CT-TTTTTTT
1800149 C--TTTTTT
1 CTTTTTTTT
1800156 C-TTTTTTT
1 CTTTTTTTT
1800164 CTTTTTTTT
1 CTTTTTTTT
1800173 CTTTT
1 CTTTT
1800178 CTTCTTCTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.16
8 7 0.16
9 16 0.36
10 15 0.33
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:1800145 original size:8 final size:8
Alignment explanation
Indices: 1800121--1800183 Score: 69
Period size: 8 Copynumber: 8.1 Consensus size: 8
1800111 TTGACCCCCC
1800121 TTTTTTC-
1 TTTTTTCT
*
1800128 TTCTTT-T
1 TTTTTTCT
*
1800135 TTTTCTCT
1 TTTTTTCT
1800143 TTTTTTC-
1 TTTTTTCT
1800150 TTTTTTCT
1 TTTTTTCT
1800158 TTTTTTCTT
1 TTTTTTC-T
1800167 TTTTTTCT
1 TTTTTTCT
*
1800175 TTTCTTCT
1 TTTTTTCT
1800183 T
1 T
1800184 CTCTTCAAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
7 16 0.34
8 23 0.49
9 8 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1800149 original size:22 final size:22
Alignment explanation
Indices: 1800121--1800188 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
1800111 TTGACCCCCC
1800121 TTTTTTCTTCTTTTTTTTCTCT
1 TTTTTTCTTCTTTTTTTTCTCT
* *
1800143 TTTTTTCTTTTTTCTTTTTTTC-
1 TTTTTTCTTCTTT-TTTTTCTCT
1800165 TTTTTT-TTCTTTTCTTCTTCTCT
1 TTTTTTCTTCTTTT-TT-TTCTCT
1800188 T
1 T
1800189 CAAGCATAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.03
21 7 0.18
22 22 0.58
23 8 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTCTTCTTTTTTTTCTCT
Found at i:1800152 original size:29 final size:28
Alignment explanation
Indices: 1800120--1800185 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 28
1800110 CTTGACCCCC
1800120 CTTTTTTCTTCTTTTTTTTCTCTTTTTTT
1 CTTTTTTCTTCTTTTTTTTCT-TTTTTTT
1800149 C--TTTT-TTC-TTTTTTTCTTTTTTTT
1 CTTTTTTCTTCTTTTTTTTCTTTTTTTT
1800173 CTTTTCTTCTTCT
1 CTTTT-TTCTTCT
1800186 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
24 8 0.25
25 9 0.28
26 5 0.16
27 6 0.19
28 3 0.09
29 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (28 bp):
CTTTTTTCTTCTTTTTTTTCTTTTTTTT
Found at i:1800155 original size:17 final size:16
Alignment explanation
Indices: 1800121--1800183 Score: 69
Period size: 15 Copynumber: 4.1 Consensus size: 16
1800111 TTGACCCCCC
*
1800121 TTTTTTC-TTCTTT-T
1 TTTTTTCTTTTTTTCT
*
1800135 TTTTCTCTTTTTTTC-
1 TTTTTTCTTTTTTTCT
1800150 TTTTTTCTTTTTTTCTT
1 TTTTTTCTTTTTTTC-T
*
1800167 TTTTTTCTTTTCTTCT
1 TTTTTTCTTTTTTTCT
1800183 T
1 T
1800184 CTCTTCAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 6 0.15
15 19 0.46
16 2 0.05
17 14 0.34
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTCTTTTTTTCT
Found at i:1807258 original size:15 final size:15
Alignment explanation
Indices: 1807235--1807266 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1807225 TGAAATGAAT
1807235 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1807250 AATGCATGTATGCAA
1 AATGAATGTATGCAA
1807265 AA
1 AA
1807267 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1812723 original size:3 final size:3
Alignment explanation
Indices: 1812715--1812759 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
1812705 AATTATTTTT
*
1812715 TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1812760 AATGAGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1816777 original size:13 final size:13
Alignment explanation
Indices: 1816728--1816782 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
1816718 TGCGTCATAA
*
1816728 ATTTATGACGAGC
1 ATTTATGACGCGC
*
1816741 ATTTATGACACGC
1 ATTTATGACGCGC
*
1816754 ATTTGTGACGCGC
1 ATTTATGACGCGC
*
1816767 ATTTATGACGCTC
1 ATTTATGACGCGC
1816780 ATT
1 ATT
1816783 GCGTGTCATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:1823890 original size:22 final size:23
Alignment explanation
Indices: 1823854--1823897 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
1823844 GTTACTAGCC
*
1823854 TAACTAACAATCTAACTAATTAA
1 TAACTAACAACCTAACTAATTAA
1823877 TAAC-AACAACCTAACTAATTA
1 TAACTAACAACCTAACTAATTA
1823898 TCAACACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.27
Consensus pattern (23 bp):
TAACTAACAACCTAACTAATTAA
Found at i:1823910 original size:19 final size:21
Alignment explanation
Indices: 1823859--1823913 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
1823849 TAGCCTAACT
*
1823859 AACAATCTAACTAATTAATAAC
1 AACAACCTAACTAATTAAT-AC
1823881 AACAACCTAACTAATT-AT-C
1 AACAACCTAACTAATTAATAC
1823900 AAC-ACCTTAACTAA
1 AACAACC-TAACTAA
1823914 CCAAATAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 11 0.35
21 2 0.06
22 15 0.48
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (21 bp):
AACAACCTAACTAATTAATAC
Found at i:1828037 original size:21 final size:21
Alignment explanation
Indices: 1827919--1828037 Score: 73
Period size: 21 Copynumber: 5.8 Consensus size: 21
1827909 AAATGACCAA
**
1827919 CAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGATTTTC
* ** *
1827939 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGATTTTC
1827959 CAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGATT-TTC
* * ** *
1827980 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGATTTTC
* **
1828001 CAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGATTTTC
*
1828022 CAGAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1828038 ACACATAAAT
Statistics
Matches: 72, Mismatches: 23, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
19 1 0.01
20 25 0.35
21 44 0.61
22 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (21 bp):
CAAAATCGCAACGCGATTTTC
Found at i:1828066 original size:20 final size:20
Alignment explanation
Indices: 1828025--1828233 Score: 217
Period size: 20 Copynumber: 10.4 Consensus size: 20
1828015 GATTTTCCAG
* *
1828025 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1828045 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1828065 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1828085 AATCGCAACACGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1828105 AATCGCAATGCATATCCGTA
1 AATCGCAACGCGTATCCGTA
1828125 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1828145 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1828165 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
* *
1828185 AATCGCAACG-ATAATCCATA
1 AATCGCAACGCGT-ATCCGTA
* * *
1828205 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1828225 AATCACAAC
1 AATCGCAAC
1828234 ACTGAAATTT
Statistics
Matches: 159, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 156 0.98
21 2 0.01
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1828968 original size:14 final size:14
Alignment explanation
Indices: 1828949--1829001 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
1828939 TTTGGTTTCG
1828949 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1828963 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1828982 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1828996 CGTTGC
1 CGTTGC
1829002 AGATAGTCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
16 3 0.09
17 3 0.09
19 10 0.31
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1828981 original size:33 final size:33
Alignment explanation
Indices: 1828933--1829026 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
1828923 AAAATCGCAA
**
1828933 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1828966 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
**
1828999 TGCAGATAGTCATTTTCGCGTTGCGATT
1 TGC-GATTTTCA-TTTCGCGTTGCGATT
1829027 TTCATTTCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 34 0.62
34 6 0.11
35 15 0.27
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1828987 original size:19 final size:19
Alignment explanation
Indices: 1828963--1829034 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
1828953 GCGATTCTCT
1828963 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1828982 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
**
1828996 CGTTGCAGATAGTCATTTTCG
1 CGTTGC-GATTTTCA-TTTCG
1829017 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1829035 TCTCGTTGCG
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
14 8 0.20
15 2 0.05
17 5 0.12
19 12 0.29
20 6 0.15
21 8 0.20
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1829041 original size:21 final size:21
Alignment explanation
Indices: 1828990--1829045 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1828980 CGCGTTGCGA
1828990 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATAGTCAT
* **
1829012 TT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATAGTCAT
1829032 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
1829046 CTCTTCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (21 bp):
TTCTCTCGTTGCGATAGTCAT
Found at i:1829167 original size:33 final size:33
Alignment explanation
Indices: 1829125--1829195 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1829115 AATACTAACT
1829125 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1829158 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1829191 TGAAA
1 TGAAA
1829196 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1829589 original size:20 final size:20
Alignment explanation
Indices: 1829564--1829737 Score: 228
Period size: 20 Copynumber: 8.7 Consensus size: 20
1829554 CTTTAAAAAT
1829564 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1829584 CGCGTTGCGATTTTAC-G-TA
1 CGCGTTGCGA-TTTACGGATA
1829603 CTGTCGTTGCGATTTACGGATA
1 C-G-CGTTGCGATTTACGGATA
*
1829625 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1829645 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1829665 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1829685 CACGTTACGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1829705 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
1829725 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1829738 TTATATTCGC
Statistics
Matches: 136, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.02
20 115 0.85
21 15 0.11
22 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1829746 original size:20 final size:20
Alignment explanation
Indices: 1829705--1829756 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1829695 TTTACGGATA
* *
1829705 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
*
1829725 CGCGTTGCGATTTTTATATT
1 CGCGTTGCGATTTATATATT
1829745 CGCGTTGCGATT
1 CGCGTTGCGATT
1829757 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:1829817 original size:42 final size:42
Alignment explanation
Indices: 1829724--1829822 Score: 96
Period size: 42 Copynumber: 2.4 Consensus size: 42
1829714 ATTTATGTGT
* * *
1829724 TCGCGTTGCG-ATTTTTATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
** *
1829765 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTA-TATTCGCATTGCGATTCTGCAA-AA
*
1829807 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1829823 GAAACTGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 11 0.24
42 33 0.72
43 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
Found at i:1837056 original size:2 final size:2
Alignment explanation
Indices: 1836989--1837043 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1836979 GGCATATTAA
1836989 AT AT AT AT AT 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 AT AT AT AT AT
1837031 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1837044 CATAACTTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1846791 original size:19 final size:20
Alignment explanation
Indices: 1846748--1846791 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
1846738 GCTATCAATA
1846748 AACTCA-GAAATTGTCGTAG
1 AACTCATGAAATTGTCGTAG
1846767 AA-TCATGAAA-TG-CGTAG
1 AACTCATGAAATTGTCGTAG
1846784 AGACTCAT
1 A-ACTCAT
1846792 CTTGAGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.27
18 6 0.27
19 10 0.45
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (20 bp):
AACTCATGAAATTGTCGTAG
Found at i:1854924 original size:25 final size:24
Alignment explanation
Indices: 1854892--1854986 Score: 154
Period size: 24 Copynumber: 3.9 Consensus size: 24
1854882 ATATAATTAT
*
1854892 ATTGTAAAAATAAGCTCTTTTTGC
1 ATTGTAAAAATAAGCTATTTTTGC
1854916 ATTGTTAAAAATAAGCTATTTTTGC
1 ATTG-TAAAAATAAGCTATTTTTGC
1854941 ATTGTAAAAATAAGCTATTTTTGC
1 ATTGTAAAAATAAGCTATTTTTGC
* *
1854965 AGTGTAAAAATAAGTTATTTTT
1 ATTGTAAAAATAAGCTATTTTT
1854987 ATATTAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
24 44 0.66
25 23 0.34
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (24 bp):
ATTGTAAAAATAAGCTATTTTTGC
Found at i:1854947 original size:49 final size:48
Alignment explanation
Indices: 1854892--1854986 Score: 154
Period size: 49 Copynumber: 2.0 Consensus size: 48
1854882 ATATAATTAT
* *
1854892 ATTGTAAAAATAAGCTCTTTTTGCATTGTTAAAAATAAGCTATTTTTGC
1 ATTGTAAAAATAAGCTATTTTTGCAGTG-TAAAAATAAGCTATTTTTGC
*
1854941 ATTGTAAAAATAAGCTATTTTTGCAGTGTAAAAATAAGTTATTTTT
1 ATTGTAAAAATAAGCTATTTTTGCAGTGTAAAAATAAGCTATTTTT
1854987 ATATTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
48 17 0.40
49 26 0.60
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (48 bp):
ATTGTAAAAATAAGCTATTTTTGCAGTGTAAAAATAAGCTATTTTTGC
Found at i:1855802 original size:40 final size:41
Alignment explanation
Indices: 1855758--1855843 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 41
1855748 TTTGAGTTGC
*
1855758 TTTAATTAAATATACGATGGATT-AGAAAATTATGATATGT
1 TTTAATTAAATATACGATGGATTAAAAAAATTATGATATGT
1855798 TTTAATTAAATATACGATGGATTAAAAAAATTATGATATGT
1 TTTAATTAAATATACGATGGATTAAAAAAATTATGATATGT
1855839 TTTAA
1 TTTAA
1855844 CAAATTCCAC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 23 0.52
41 21 0.48
ACGTcount: A:0.44, C:0.02, G:0.13, T:0.41
Consensus pattern (41 bp):
TTTAATTAAATATACGATGGATTAAAAAAATTATGATATGT
Found at i:1855843 original size:21 final size:21
Alignment explanation
Indices: 1855783--1855843 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 21
1855773 GATGGATTAG
*
1855783 AAAATTATGATATGTTTTAAT
1 AAAATTATGATATGTTTTAAA
* * **
1855804 TAAA-TAT-ACGATGGATTAAA
1 AAAATTATGA-TATGTTTTAAA
1855824 AAAATTATGATATGTTTTAA
1 AAAATTATGATATGTTTTAA
1855844 CAAATTCCAC
Statistics
Matches: 28, Mismatches: 9, Indels: 6
0.65 0.21 0.14
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
21 13 0.46
22 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (21 bp):
AAAATTATGATATGTTTTAAA
Found at i:1867304 original size:60 final size:60
Alignment explanation
Indices: 1867211--1867336 Score: 198
Period size: 60 Copynumber: 2.1 Consensus size: 60
1867201 GTGAGATTAG
* * * *
1867211 AGGAACGGAGACTTAAGCGGAGAGACATTGAGGAGTGGATGAGCCATCGCTAAGTACCCA
1 AGGAATGGAGACTTAAGCGGAGAGACATTGAGGACTGGATGAGCCATCACTAACTACCCA
*
1867271 AGGAATGGAGACTTAAGCGGAGAGACATTGAGGACTGGGTGAGCCATCACTAACTACCCA
1 AGGAATGGAGACTTAAGCGGAGAGACATTGAGGACTGGATGAGCCATCACTAACTACCCA
*
1867331 AAGAAT
1 AGGAAT
1867337 TAAAAAATCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (60 bp):
AGGAATGGAGACTTAAGCGGAGAGACATTGAGGACTGGATGAGCCATCACTAACTACCCA
Found at i:1867628 original size:43 final size:42
Alignment explanation
Indices: 1867553--1867901 Score: 272
Period size: 43 Copynumber: 8.2 Consensus size: 42
1867543 GAAAATGATT
* * ** *
1867553 AAATTAG-GAGCTTAAATTATAAAAATTCAAAGTTAGATTGAAA
1 AAATTAGAG-GCTTCAATTATAAAAGTAAAAAGTGAGATT-AAA
* *
1867596 AAATTAGAGGCGTCAATTATAAAAGTAAAAAGTGAGAATAAA
1 AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAGATTAAA
* * * * *
1867638 AAAATAGGGGTTTCAATCAT-AAAGATAGAAAGTGAGATTAAAA
1 AAATTAGAGGCTTCAATTATAAAAG-TAAAAAGTGAGATT-AAA
* * * *
1867681 AAATTAG-GGGTCTCAATTATAAAGGTAAAAAGTGATATTGAA
1 AAATTAGAGGCT-TCAATTATAAAAGTAAAAAGTGAGATTAAA
* * * * **
1867723 AAATCAGGGGCCTCAATTATAAATGTGTAAAGTGAGATTAAA
1 AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAGATTAAA
* * * * * *
1867765 AAATTAGAAGCTTCAAATATGAAGGTGAAAAGTGGGATTAAAA
1 AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAGATT-AAA
* * *
1867808 AAATTAGAGACCTCAAATATAAAAGTAAAAAGTGAGAATTAAA
1 AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAG-ATTAAA
* * * * * *
1867851 GAATTAAAGACTTCAATTATAAAGGTAGAAAGTCAGATTGAAA
1 AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAGATT-AAA
1867894 AAATTAGA
1 AAATTAGA
1867902 CGTCCTTAGC
Statistics
Matches: 243, Mismatches: 54, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.02
42 99 0.41
43 133 0.55
44 7 0.03
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (42 bp):
AAATTAGAGGCTTCAATTATAAAAGTAAAAAGTGAGATTAAA
Found at i:1867654 original size:42 final size:42
Alignment explanation
Indices: 1867593--1867846 Score: 188
Period size: 42 Copynumber: 6.0 Consensus size: 42
1867583 AGTTAGATTG
* * *
1867593 AAAAAATTAGAGGCGTCAATTATAAAAGTAAAAAGTGAGAAT
1 AAAAAAATAGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
** * * *
1867635 AAAAAAATAGGGGTTTCAATCAT-AAAGATAGAAAGTGAGATT
1 AAAAAAATAGGGGCCTCAATTATAAAAG-TAAAAAGTGAGAAT
* * *
1867677 AAAAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGA-TAT
1 AAAAAAA-TAGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
** * ** *
1867719 TGAAAAATCAGGGGCCTCAATTATAAATGTGTAAAGTGAGATT
1 AAAAAAAT-AGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
* ** * * * * * * *
1867762 AAAAAATTAGAAGCTTCAAATATGAAGGTGAAAAGTGGGATT
1 AAAAAAATAGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
* * *
1867804 AAAAAAATTAGAGACCTCAAATATAAAAGTAAAAAGTGAGAAT
1 AAAAAAA-TAGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
1867847 TAAAGAATTA
Statistics
Matches: 165, Mismatches: 41, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
41 5 0.03
42 101 0.61
43 56 0.34
44 3 0.02
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (42 bp):
AAAAAAATAGGGGCCTCAATTATAAAAGTAAAAAGTGAGAAT
Found at i:1867780 original size:127 final size:128
Alignment explanation
Indices: 1867589--1867842 Score: 298
Period size: 127 Copynumber: 2.0 Consensus size: 128
1867579 TCAAAGTTAG
* * ** *
1867589 ATTGAAAAAATTAGAGGCGTCAATTATAAAAGTAAAAAGTGAGAATAAAAAAATAGGGGTTTC-A
1 ATTGAAAAAATCAGAGGCCTCAATTATAAAAGTAAAAAGTGAGAATAAAAAAATAGAAGCTTCAA
* ** * *
1867653 ATCATAAAGAT-AGAAAGTGAGATTAAAAAAATTAGGGGTCTCAATTATAAAGGTAAAAAGTGAT
66 AT-ATAAAGATGA-AAAGTGAGATTAAAAAAATTAGAGACCTCAAATATAAAAGTAAAAAGTGAT
* * ** * *
1867717 ATTG-AAAAATCAGGGGCCTCAATTATAAATGTGTAAAGTGAGATTAAAAAATTAGAAGCTTCAA
1 ATTGAAAAAATCAGAGGCCTCAATTATAAAAGTAAAAAGTGAGAATAAAAAAATAGAAGCTTCAA
* * *
1867781 ATATGAAGGTGAAAAGTGGGATTAAAAAAATTAGAGACCTCAAATATAAAAGTAAAAAGTGA
66 ATATAAAGATGAAAAGTGAGATTAAAAAAATTAGAGACCTCAAATATAAAAGTAAAAAGTGA
1867843 GAATTAAAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
127 97 0.92
128 8 0.08
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (128 bp):
ATTGAAAAAATCAGAGGCCTCAATTATAAAAGTAAAAAGTGAGAATAAAAAAATAGAAGCTTCAA
ATATAAAGATGAAAAGTGAGATTAAAAAAATTAGAGACCTCAAATATAAAAGTAAAAAGTGAT
Found at i:1867883 original size:86 final size:84
Alignment explanation
Indices: 1867581--1867901 Score: 256
Period size: 85 Copynumber: 3.8 Consensus size: 84
1867571 ATAAAAATTC
* * * * * * * *
1867581 AAAGTTAGATTGAAAAAATTAGAGGCGTCAATTATAAAAGTAAAAAGTGAGAATAAAAAAATAGG
1 AAAGTGAGATT-AAAAAATTAGAAGCTTCAATTATAAAGGTAGAAAGTGAGATTAAAAAATTAGA
*** *
1867646 GGTTTC-AATCAT-AAAGATAG
65 GACCTCAAAT-ATAAAAG-TAA
* * * * * *
1867666 AAAGTGAGATTAAAAAAATTAG-GGGTCTCAATTATAAAGGTAAAAAGTGATATTGAAAAATCAG
1 AAAGTGAGATT-AAAAAATTAGAAGCT-TCAATTATAAAGGTAGAAAGTGAGATTAAAAAATTAG
* * * * **
1867730 GGGCCTCAATTATAAATGTGT
64 AGACCTCAAATATAAAAGTAA
* * *
1867751 AAAGTGAGATTAAAAAATTAGAAGCTTCAAATATGAAGGT-GAAAAGTGGGATTAAAAAAATTAG
1 AAAGTGAGATTAAAAAATTAGAAGCTTCAATTATAAAGGTAG-AAAGTGAGATT-AAAAAATTAG
1867815 AGACCTCAAATATAAAAGTAA
64 AGACCTCAAATATAAAAGTAA
* *
1867836 AAAGTGAGAATTAAAGAATTA-AAGACTTCAATTATAAAGGTAGAAAGTCAGATTGAAAAAATTA
1 AAAGTGAG-ATTAAAAAATTAGAAG-CTTCAATTATAAAGGTAGAAAGTGAGATT-AAAAAATTA
1867900 GA
63 GA
1867902 CGTCCTTAGC
Statistics
Matches: 190, Mismatches: 37, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
84 33 0.17
85 106 0.56
86 50 0.26
87 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.20, T:0.24
Consensus pattern (84 bp):
AAAGTGAGATTAAAAAATTAGAAGCTTCAATTATAAAGGTAGAAAGTGAGATTAAAAAATTAGAG
ACCTCAAATATAAAAGTAA
Found at i:1868325 original size:2 final size:2
Alignment explanation
Indices: 1868312--1868372 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
1868302 TTCAGCCATG
*
1868312 AT AT AC AT AT 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 AT AT AT AT AT
1868354 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1868373 CACCTTCGGT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1869364 original size:111 final size:111
Alignment explanation
Indices: 1869225--1869557 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
1869215 TGGAAATCAT
*
1869225 ATATCTCTACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
* *
1869290 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAATAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* *
1869336 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
1869401 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
1869447 ATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
*
1869512 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
1869558 TTTTTGTAAT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:1871073 original size:18 final size:18
Alignment explanation
Indices: 1871050--1871084 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1871040 CAGCCACCAC
1871050 AGCCATATATGATGTCGG
1 AGCCATATATGATGTCGG
1871068 AGCCATATATGATGTCG
1 AGCCATATATGATGTCG
1871085 CCATCGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (18 bp):
AGCCATATATGATGTCGG
Found at i:1871467 original size:27 final size:27
Alignment explanation
Indices: 1871424--1871475 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1871414 ACCTACTTAA
*
1871424 GACGACGACGACGACGATGAAGATGGT
1 GACGACGACGACAACGATGAAGATGGT
* *
1871451 GACGACGACGATAACGATGATGATG
1 GACGACGACGACAACGATGAAGATG
1871476 ACAGCGAGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.35, T:0.13
Consensus pattern (27 bp):
GACGACGACGACAACGATGAAGATGGT
Found at i:1871730 original size:35 final size:33
Alignment explanation
Indices: 1871691--1871775 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
1871681 ATATTTTAGT
1871691 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
1871726 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
1871761 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
1871776 TAAATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:1877492 original size:25 final size:25
Alignment explanation
Indices: 1877441--1877502 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
1877431 AAAATAAACT
* *
1877441 TAAAAATAATTAAAATAACAAATAA
1 TAAAAATAATAAAAACAACAAATAA
* *
1877466 TAAAAATAGTAAAAACAACCAAAAATA
1 TAAAAATAATAAAAACAA-CAAATA-A
1877493 TATAAAATAA
1 TA-AAAATAA
1877503 AATAAATACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 15 0.52
26 5 0.17
27 3 0.10
28 6 0.21
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.21
Consensus pattern (25 bp):
TAAAAATAATAAAAACAACAAATAA
Found at i:1881135 original size:27 final size:27
Alignment explanation
Indices: 1881057--1881140 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 27
1881047 ATTATAAAAG
1881057 TATTTTTTAAAAATTATAAATTTATAAT
1 TATTTTTTAAAAA-TATAAATTTATAAT
* * *
1881085 TAATCTTTT--AATTCATAAAATTATAAT
1 T-ATTTTTTAAAAAT-ATAAATTTATAAT
*
1881112 TATTTTTTAAAAATATGAATTTATTAAT
1 TATTTTTTAAAAATATAAATTTA-TAAT
1881140 T
1 T
1881141 CACAAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 10
0.72 0.11 0.16
Matches are distributed among these distances:
26 7 0.16
27 22 0.50
28 9 0.20
29 6 0.14
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (27 bp):
TATTTTTTAAAAATATAAATTTATAAT
Found at i:1888473 original size:334 final size:335
Alignment explanation
Indices: 1887863--1888530 Score: 1293
Period size: 334 Copynumber: 2.0 Consensus size: 335
1887853 ATACCGATAA
*
1887863 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
1 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATC
*
1887928 GATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGGTTCATGTTTTCCA
66 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGGTTCATGTTTTCCA
1887993 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
1888058 AAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
196 AAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
*
1888123 ATGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
1888188 CCACAGTGAG
326 CCACAGTGAG
1888198 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATC
1 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATC
*
1888263 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCA
66 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGGTTCATGTTTTCCA
1888327 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
1888392 AAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
196 AAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
1888457 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
261 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
1888522 CCACAGTGA
326 CCACAGTGA
1888531 AAAAAGTATG
Statistics
Matches: 329, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
334 230 0.70
335 99 0.30
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (335 bp):
CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATC
GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGGTTCATGTTTTCCA
CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
AAATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAG
ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
CCACAGTGAG
Found at i:1888598 original size:21 final size:20
Alignment explanation
Indices: 1888568--1888644 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 20
1888558 GATAGACACT
*
1888568 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
*
1888589 TTACATTATATAAACGATACCTA
1 TTACATTATA-ACAC--TACCTA
*
1888612 TTACATTATATAAGCGCTACCTA
1 TTACA-T-TATAA-CACTACCTA
1888635 TTACATTATA
1 TTACATTATA
1888645 TGTTTACCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 22 0.48
24 2 0.04
25 5 0.11
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:1888609 original size:23 final size:23
Alignment explanation
Indices: 1888583--1888645 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
1888573 ATATAACCAC
1888583 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1888606 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
1888629 TACCTATTACATTATAT
1 TACCTATTACATTATAT
1888646 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1889101 original size:39 final size:39
Alignment explanation
Indices: 1889047--1889133 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1889037 TCAAGTTGTA
*
1889047 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1889086 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1889125 GATTTTGAT
1 GATTTTGAT
1889134 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1889414 original size:18 final size:18
Alignment explanation
Indices: 1889391--1889427 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1889381 CGAAATATAT
1889391 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1889409 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1889427 A
1 A
1889428 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1889959 original size:23 final size:24
Alignment explanation
Indices: 1889923--1889974 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 24
1889913 ACACTTTACA
1889923 ATAT-AACCACTACCTATTACATT
1 ATATAAACCACTACCTATTACATT
1889946 ATATAAACCA-TACCTATTACATT
1 ATATAAACCACTACCTATTACATT
1889969 ATATAA
1 ATATAA
1889975 GCGCTACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATAAACCACTACCTATTACATT
Found at i:1889986 original size:23 final size:22
Alignment explanation
Indices: 1889923--1889995 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
1889913 ACACTTTACA
*
1889923 ATATAACCACTACCTATTACATT
1 ATATAAAC-CTACCTATTACATT
1889946 ATATAAACCATACCTATTACATT
1 ATATAAACC-TACCTATTACATT
* * *
1889969 ATATAAGCGCTACATATTACATC
1 ATATAAAC-CTACCTATTACATT
1889992 ATAT
1 ATAT
1889996 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 42 0.95
24 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (22 bp):
ATATAAACCTACCTATTACATT
Found at i:1890449 original size:23 final size:23
Alignment explanation
Indices: 1890423--1890485 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1890413 ATATAACCAC
1890423 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1890446 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1890469 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1890486 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1890677 original size:490 final size:490
Alignment explanation
Indices: 1889757--1891322 Score: 2979
Period size: 490 Copynumber: 3.2 Consensus size: 490
1889747 ATATTTAGAA
* *
1889757 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACACCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
1889822 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAGTGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
1889887 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
* *
1889952 ACCATACCTATTACATTATATAAGCGCTACATATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
1890017 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
1890082 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
*
1890147 TTATTTGATTGTTCTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTATGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
1890212 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
1890247 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1890312 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
1890377 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
1890442 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
1890507 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
1890572 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
1890637 TTATTTGATTGTTATGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTATGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
*
1890702 AGATAACAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
1890737 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
1890802 AAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
1890867 TATGGACACTTTTATGAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
*
1890932 ACGATACATATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
*
1890997 TGTTCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
* * *
1891062 TTTTTAACAGTATTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAGAAAAAA
326 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
*
1891127 TTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
391 TTATTTGATTGTTATGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
1891192 AGATAATAATAAATATGTAATATATATGTTTATTG
456 AGATAATAATAAATATGTAATATATATGTTTATTG
* *
1891227 TTTTTAATTTAATAATAATATATACTGTAACGTAAAAAATAAATCATTAGCCGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1891292 AAATTAATATCTTAAAACTCACTCAAAAGAT
66 AAATTAATATCTTAAAACTCACTCAAAAGAT
1891323 GTATATACCT
Statistics
Matches: 1058, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
490 1058 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (490 bp):
TTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
TTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAATTACACAAAAAA
TTATTTGATTGTTATGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTG
Found at i:1890943 original size:23 final size:23
Alignment explanation
Indices: 1890917--1890975 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
1890907 AACCACTACC
1890917 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
1890940 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
1890963 TATTACATCATAT
1 TATTACATTATAT
1890976 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:1891378 original size:25 final size:25
Alignment explanation
Indices: 1891321--1891386 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
1891311 CACTCAAAAG
*
1891321 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1891346 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1891371 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
1891387 TGAAACATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1894198 original size:183 final size:183
Alignment explanation
Indices: 1893857--1894199 Score: 564
Period size: 183 Copynumber: 1.9 Consensus size: 183
1893847 TTAAAATTAC
* *
1893857 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTAAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAG
*
1893922 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGAT
* *
1893987 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
1894040 CGACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTAA-AATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAA
1894104 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACC-GA
65 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGA
* * **
1894168 TAGCATTGCAAATTTACCTATTTTATTATAAT
130 TA-CATTACAAAATTACCTATTACATTATAAT
1894200 ATGTTGAAAG
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
182 3 0.02
183 142 0.96
184 3 0.02
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTAAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAG
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGAT
ACATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:1895499 original size:3 final size:3
Alignment explanation
Indices: 1895491--1895571 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
1895481 ACTTGTTTGG
* * * **
1895491 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
1895539 AGC TTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1895572 GTCAGCTTCA
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1895508 original size:12 final size:12
Alignment explanation
Indices: 1895495--1895583 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
1895485 GTTTGGATCA
* *
1895495 TCATCTTCATCA
1 TCATCATCATCT
*
1895507 TCATCATCATCA
1 TCATCATCATCT
*
1895519 TCGTCATCATCT
1 TCATCATCATCT
** *
1895531 TCATCGCCAGCT
1 TCATCATCATCT
*
1895543 TCATCATCATCA
1 TCATCATCATCT
*
1895555 TCATCGTCATCT
1 TCATCATCATCT
* *
1895567 TCATCGTCAGCT
1 TCATCATCATCT
1895579 TCATC
1 TCATC
1895584 TTCTGCGACC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.22, C:0.35, G:0.07, T:0.36
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:1895547 original size:36 final size:36
Alignment explanation
Indices: 1895507--1895583 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
1895497 ATCTTCATCA
*
1895507 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* *
1895543 TCATCATCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
1895579 TCATC
1 TCATC
1895584 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:1895584 original size:18 final size:18
Alignment explanation
Indices: 1895525--1895586 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
1895515 ATCATCGTCA
*
1895525 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
1895543 TCATCATCATCATCATCG
1 TCATCTTCATCGTCAGCT
1895561 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
1895579 TCATCTTC
1 TCATCTTC
1895587 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:1897405 original size:198 final size:199
Alignment explanation
Indices: 1897048--1898018 Score: 1797
Period size: 198 Copynumber: 4.9 Consensus size: 199
1897038 TTTAAATTAG
1897048 TATCGACACAAACTATA--ACGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
*
1897111 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
1897176 TCGACACCTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
1897240 AAAAA
195 AAAAA
1897245 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1897310 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1897375 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1897439 AAAA
196 AAAA
*
1897443 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1897508 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1897573 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1897638 AAAA
196 AAAA
1897642 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1897707 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1897772 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1897837 AAAA
196 AAAA
* *
1897841 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
* * *
1897906 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
1897971 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1898019 GGCCATATTG
Statistics
Matches: 757, Mismatches: 12, Indels: 6
0.98 0.02 0.01
Matches are distributed among these distances:
197 17 0.02
198 366 0.48
199 314 0.41
200 21 0.03
201 39 0.05
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:1897803 original size:397 final size:397
Alignment explanation
Indices: 1897048--1898018 Score: 1804
Period size: 397 Copynumber: 2.4 Consensus size: 397
1897038 TTTAAATTAG
1897048 TATCGACACAAACTATA--ACGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
1 TATCGACACAAACTATATTA-GTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
1897111 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
*
1897176 TCGACACCTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
1897241 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
1897306 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
1897371 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGG
1897436 -AAAAAAA
390 AAAAAAAA
*
1897443 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
1897508 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1897573 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
1897638 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGG
1897703 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
1897768 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGG
1897833 AAAAAAAA
390 AAAAAAAA
* *
1897841 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAGA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
* *
1897906 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
1897971 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1898019 GGCCATATTG
Statistics
Matches: 559, Mismatches: 11, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
395 17 0.03
396 168 0.30
397 198 0.35
398 115 0.21
399 21 0.04
400 40 0.07
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACACTGTTTTCCATTCATTCTGGA
AAAAAAA
Found at i:1898183 original size:19 final size:19
Alignment explanation
Indices: 1898137--1898185 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1898127 TTATATTCAC
*
1898137 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1898156 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1898175 ATACAAAATTA
1 ATACAAAATTA
1898186 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1900012 original size:33 final size:33
Alignment explanation
Indices: 1899975--1900040 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1899965 CATCTTAATA
*
1899975 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1900008 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1900041 CTATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1900099 original size:21 final size:21
Alignment explanation
Indices: 1900074--1900138 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
1900064 CCCCTTATGC
* *
1900074 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
* *
1900095 CTCTCGAGTTTCTCTACGACT
1 CTCTCAAGTTTCTCTTCGACT
**
1900116 CGATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1900137 CT
1 CT
1900139 TGATTGTCTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.14, T:0.38
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1902381 original size:17 final size:18
Alignment explanation
Indices: 1902359--1902401 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1902349 ATATATCCGG
1902359 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1902376 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1902396 TATCAT
1 TATCAT
1902402 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1902419 original size:20 final size:19
Alignment explanation
Indices: 1902364--1902410 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1902354 TCCGGTATCA
1902364 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1902383 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1902404 TTTTACC
1 TTTTACC
1902411 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1902558 original size:20 final size:20
Alignment explanation
Indices: 1902532--1902577 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1902522 CACTTTTAAA
1902532 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1902551 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1902572 TTTACC
1 TTTACC
1902578 TGGGATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1913361 original size:37 final size:37
Alignment explanation
Indices: 1913310--1913422 Score: 163
Period size: 37 Copynumber: 3.1 Consensus size: 37
1913300 CGAACCAAAA
* * *
1913310 CAAAAGGGTGATGCAGAAGGCTCTCATCATATACCGT
1 CAAAAAGGTGATGCAGAAGGCTCTCGTTATATACCGT
* *
1913347 CAAAAAGGTAATGCAGAAGGCTTTCGTTATATACCGT
1 CAAAAAGGTGATGCAGAAGGCTCTCGTTATATACCGT
* *
1913384 CAAAAAGGCGATGCAGAAGGCTCTCGTTATATACTGT
1 CAAAAAGGTGATGCAGAAGGCTCTCGTTATATACCGT
1913421 CA
1 CA
1913423 CGCACGGGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (37 bp):
CAAAAAGGTGATGCAGAAGGCTCTCGTTATATACCGT
Found at i:1916178 original size:20 final size:20
Alignment explanation
Indices: 1916084--1916452 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
1916074 GATTTTCCAT
* ** *
1916084 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1916104 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1916124 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1916144 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
1916164 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
1916184 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1916204 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1916224 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1916244 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1916264 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1916284 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1916304 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1916324 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
1916344 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1916364 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1916384 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1916404 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1916424 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1916444 AATCACAAC
1 AATCGCAAC
1916453 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1917165 original size:24 final size:24
Alignment explanation
Indices: 1917126--1917172 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1917116 AAATTTGGTC
1917126 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1917150 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1917173 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1918055 original size:14 final size:14
Alignment explanation
Indices: 1918036--1918125 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
1918026 TTGAAATGAA
1918036 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1918050 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
1918067 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
1918083 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1918102 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1918116 AATCGCAACG
1 AATCGCAACG
1918126 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1918073 original size:33 final size:33
Alignment explanation
Indices: 1918028--1918142 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1918018 TCTTTTGGTT
1918028 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
1918061 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1918094 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1918127 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1918143 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1918074 original size:19 final size:18
Alignment explanation
Indices: 1918035--1918147 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
1918025 GTTGAAATGA
1918035 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
1918050 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
1918067 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
1918083 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
1918100 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
1918116 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
1918133 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
1918148 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:1918178 original size:14 final size:14
Alignment explanation
Indices: 1918159--1918213 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
1918149 TTTGGTTTCG
1918159 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1918173 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
1918192 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1918206 CGTTGCGA
1 CGTTGCGA
1918214 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1918376 original size:33 final size:33
Alignment explanation
Indices: 1918334--1918404 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1918324 AATACTAACT
*
1918334 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1918367 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1918400 TGAAA
1 TGAAA
1918405 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1918638 original size:22 final size:22
Alignment explanation
Indices: 1918586--1918640 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1918576 TGGTTGTGAG
**
1918586 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1918608 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1918630 GGATTTCTTCG
1 GGATTTCTTCG
1918641 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1918811 original size:20 final size:20
Alignment explanation
Indices: 1918786--1918979 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
1918776 CTTTAAATAT
1918786 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1918806 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1918828 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1918847 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1918867 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1918887 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1918907 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1918927 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1918947 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1918967 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1918980 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1918973 original size:60 final size:60
Alignment explanation
Indices: 1918786--1918979 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
1918776 CTTTAAATAT
**
1918786 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
1918847 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
1918907 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
1918967 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1918980 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:1918996 original size:21 final size:20
Alignment explanation
Indices: 1918972--1919048 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
1918962 ATATTCGCGT
1918972 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
1918993 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
1919013 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
1919035 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
1919049 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:1919059 original size:20 final size:20
Alignment explanation
Indices: 1919034--1919085 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1919024 AAGAATCGCG
*
1919034 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1919054 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
1919074 TTGCGATTCTGG
1 TTGCGATTCTGG
1919086 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1920576 original size:39 final size:38
Alignment explanation
Indices: 1920532--1920649 Score: 109
Period size: 39 Copynumber: 3.1 Consensus size: 38
1920522 TTTAAAAAAT
1920532 ATTTAGAATGTTAATGTGAAATAATTTAAGTAATTA-ATA
1 ATTTAGAATGTTAATGTGAAATAATTTAAG-AATTAGA-A
* *
1920571 ATTTAGAATGTT-ATGGTGGCAA-AATTTAAGAAATGAGAA
1 ATTTAGAATGTTAAT-GT-GAAATAATTTAAG-AATTAGAA
* * *
1920610 ATTTAGAATGTTAGA-GTAAAATAATTTGAGAATTATAA
1 ATTTAGAATGTTA-ATGTGAAATAATTTAAGAATTAGAA
1920648 AT
1 AT
1920650 AAAAATTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
38 12 0.18
39 48 0.74
40 4 0.06
41 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (38 bp):
ATTTAGAATGTTAATGTGAAATAATTTAAGAATTAGAA
Found at i:1923786 original size:15 final size:15
Alignment explanation
Indices: 1923766--1923795 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1923756 TATCACAATC
1923766 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1923781 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
1923796 AGCACCGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:1930366 original size:20 final size:20
Alignment explanation
Indices: 1930343--1930400 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1930333 AAACGCGAAC
1930343 TCCAATTTCGCAACACAATT
1 TCCAATTTCGCAACACAATT
1930363 TCCAATTTCGCAACACGAATT
1 TCCAATTTCGCAACAC-AATT
**
1930384 TGTAA-TTCGCAACACAA
1 TCCAATTTCGCAACACAA
1930401 AAGTCAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.74
21 7 0.20
ACGTcount: A:0.36, C:0.28, G:0.09, T:0.28
Consensus pattern (20 bp):
TCCAATTTCGCAACACAATT
Found at i:1930605 original size:20 final size:21
Alignment explanation
Indices: 1930565--1930606 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1930555 ACTCTCTACG
1930565 GCGAAATCCGTCCCCATCTCCA
1 GCGAAATCCGT-CCCATCTCCA
*
1930587 GCGAAATCCGT-CTATCTCCA
1 GCGAAATCCGTCCCATCTCCA
1930607 TCTCTCAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.24, C:0.40, G:0.14, T:0.21
Consensus pattern (21 bp):
GCGAAATCCGTCCCATCTCCA
Found at i:1930960 original size:20 final size:20
Alignment explanation
Indices: 1930937--1930974 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1930927 TTTGAAACTT
*
1930937 AAATTCGCAACACGAAAACG
1 AAATTCACAACACGAAAACG
1930957 AAATTCACAACACGAAAA
1 AAATTCACAACACGAAAA
1930975 TCGCAACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.11
Consensus pattern (20 bp):
AAATTCACAACACGAAAACG
Found at i:1932423 original size:42 final size:43
Alignment explanation
Indices: 1932329--1932426 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
1932319 CCCCTCCTTC
* * * * * *
1932329 GAGAGTCATCACATGATCGAGTCGATTCTACAGCTCGACACCT
1 GAGAGTCATCACCTGATCGAGCCGATTATACACCTCCACACAT
1932372 -AGAGTCATCACCTGATCGAGCCGATTATACACCTCCACA-AT
1 GAGAGTCATCACCTGATCGAGCCGATTATACACCTCCACACAT
*
1932413 GAGAGCCATCACCT
1 GAGAGTCATCACCT
1932427 ATTCTATCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (43 bp):
GAGAGTCATCACCTGATCGAGCCGATTATACACCTCCACACAT
Found at i:1933031 original size:21 final size:21
Alignment explanation
Indices: 1932999--1933096 Score: 135
Period size: 21 Copynumber: 4.7 Consensus size: 21
1932989 GATTCACCTG
*
1932999 TCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
1933020 -CTATCGTTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
1933041 TCATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
1933062 CCACCGTTCAAGAGGCACCTG
1 TCATCGTTCAAGAGGCCCCTC
1933083 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
1933097 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1933051 original size:42 final size:42
Alignment explanation
Indices: 1932993--1933096 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
1932983 AAGCCCGATT
* * * *
1932993 CACCTGTCATCATTCAAGAGGCCCCTCCTATCGTTCAAGAGG
1 CACCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGG
*
1933035 CCCCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGG
1 CACCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGG
*
1933077 CACCTGTCATCGTTCAAGAG
1 CACCTCTCATCGTTCAAGAG
1933097 CCCGATTCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (42 bp):
CACCTCTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGG
Found at i:1934806 original size:18 final size:18
Alignment explanation
Indices: 1934783--1934818 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1934773 AAGCCAGTTG
*
1934783 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
1934801 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
1934819 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:1937117 original size:24 final size:24
Alignment explanation
Indices: 1937083--1937136 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1937073 CTGAAACATC
1937083 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
1937107 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
1937131 ATCAAA
1 ATCAAA
1937137 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:1939713 original size:49 final size:50
Alignment explanation
Indices: 1939633--1939731 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 50
1939623 TTCTTCTCAT
* *
1939633 TATGAACTTCTTCCGTTGAAATGTTGCTCCACCTCATTCTATGATGGATG
1 TATGAACTTCTTCCGATGAAATGTTGATCCACCTCATTCTATGATGGATG
*
1939683 TATGAACTTCTT-CGATGAAATGTTGATCCACCTCCTTCTATGATGGATG
1 TATGAACTTCTTCCGATGAAATGTTGATCCACCTCATTCTATGATGGATG
1939732 AATCAAGGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 34 0.74
50 12 0.26
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (50 bp):
TATGAACTTCTTCCGATGAAATGTTGATCCACCTCATTCTATGATGGATG
Found at i:1939809 original size:76 final size:76
Alignment explanation
Indices: 1939683--1939880 Score: 297
Period size: 76 Copynumber: 2.6 Consensus size: 76
1939673 ATGATGGATG
* * * *
1939683 TATGAACTTCTTCGATGAAATGTTGATCCACCTCCTTCTATGATGGATGAATCAAGGTCGAACAA
1 TATGAACTTCTTCGCTGAAATGTTGCTCCACCTCATTCTATGATGGATGAATCAAGATCGAACAA
1939748 GTTCTTCTCAT
66 GTTCTTCTCAT
* * * *
1939759 TATGAACTTCTTCGCTGAAATGTTGCTTCACCTCATTTTCTGATGGATGAATCAAGATTGAACAA
1 TATGAACTTCTTCGCTGAAATGTTGCTCCACCTCATTCTATGATGGATGAATCAAGATCGAACAA
1939824 GTTCTTCTCAT
66 GTTCTTCTCAT
* * *
1939835 TATGAACTTCTTCGCTGAAATGTTGCTCGACCTCTTTCTTTGATGG
1 TATGAACTTCTTCGCTGAAATGTTGCTCCACCTCATTCTATGATGG
1939881 GTTTGAACCT
Statistics
Matches: 109, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 109 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (76 bp):
TATGAACTTCTTCGCTGAAATGTTGCTCCACCTCATTCTATGATGGATGAATCAAGATCGAACAA
GTTCTTCTCAT
Found at i:1940233 original size:36 final size:35
Alignment explanation
Indices: 1940168--1940530 Score: 251
Period size: 35 Copynumber: 10.3 Consensus size: 35
1940158 GTCTCATGGA
* *
1940168 AGATGAAATTTATTTTAAGAAAAACAATCTTAAGTA
1 AGATAAAATTTATTTTAAGAAAAA-AATCTTAAGTG
* *
1940204 AGATAAAAATTTGTTTTGAGAAAAAAATCTCT-AGTG
1 AGAT-AAAATTTATTTTAAGAAAAAAATCT-TAAGTG
* * *
1940240 AGACAAAATTTGTTTTAAGTAAAAAATCTTAAGTG
1 AGATAAAATTTATTTTAAGAAAAAAATCTTAAGTG
* *
1940275 AGATAAAATTCATTTTGAGAAAAACAATCTCT-AGTG
1 AGATAAAATTTATTTTAAGAAAAA-AATCT-TAAGTG
** * * *
1940311 AGACGAAATTTGTTTTAAG-AAAAAATCTCATGTG
1 AGATAAAATTTATTTTAAGAAAAAAATCTTAAGTG
* * *
1940345 AGATAAAATTCATTTTGAGAAAAAAATCACT-AGTG
1 AGATAAAATTTATTTTAAGAAAAAAATC-TTAAGTG
** * * * *
1940380 AG--ACGATTTTTTTTAAGAAAAACAATATCAAGTA
1 AGATAAAATTTATTTTAAGAAAAA-AATCTTAAGTG
* *
1940414 AGATAAAATTTGTTTTTAAGAAAAATACTCTGT-AGTG
1 AGATAAAATTT-ATTTTAAGAAAAA-AATCT-TAAGTG
* * *
1940451 AGACAAAATTTTGTTTTAAGAAAAAACAATCTTAAATG
1 AGATAAAA-TTTATTTTAAG-AAAAA-AATCTTAAGTG
* * *
1940489 AGAT--AATTT-TTTTAATAAAAACAATCTCAATTG
1 AGATAAAATTTATTTTAAGAAAAA-AATCTTAAGTG
1940522 AGATAAAAT
1 AGATAAAAT
1940531 CTTGAGTGAA
Statistics
Matches: 256, Mismatches: 52, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
33 34 0.13
34 37 0.14
35 69 0.27
36 45 0.18
37 53 0.21
38 18 0.07
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.33
Consensus pattern (35 bp):
AGATAAAATTTATTTTAAGAAAAAAATCTTAAGTG
Found at i:1940252 original size:35 final size:35
Alignment explanation
Indices: 1940173--1940476 Score: 269
Period size: 35 Copynumber: 8.6 Consensus size: 35
1940163 ATGGAAGATG
* * *
1940173 AAATTTATTTTAAGAAAAACAATCT-TAAGTAAGATAA
1 AAATTTGTTTTAAGAAAAA-AATCTCT-AGTGAGA-CA
*
1940210 AAATTTGTTTTGAGAAAAAAATCTCTAGTGAGACA
1 AAATTTGTTTTAAGAAAAAAATCTCTAGTGAGACA
* *
1940245 AAATTTGTTTTAAGTAAAAAATCT-TAAGTGAGATA
1 AAATTTGTTTTAAGAAAAAAATCTCT-AGTGAGACA
** * *
1940280 AAATTCATTTTGAGAAAAACAATCTCTAGTGAGACG
1 AAATTTGTTTTAAGAAAAA-AATCTCTAGTGAGACA
*
1940316 AAATTTGTTTTAAG-AAAAAATCTC-ATGTGAGATA
1 AAATTTGTTTTAAGAAAAAAATCTCTA-GTGAGACA
** * *
1940350 AAATTCATTTTGAGAAAAAAATCACTAGTGAGAC-
1 AAATTTGTTTTAAGAAAAAAATCTCTAGTGAGACA
* * * * * *
1940384 -GATTTTTTTTAAGAAAAACAATATCAAGTAAGATA
1 AAATTTGTTTTAAGAAAAA-AATCTCTAGTGAGACA
* *
1940419 AAATTTGTTTTTAAGAAAAATACTCTGTAGTGAGACA
1 AAATTTG-TTTTAAGAAAAA-AATCTCTAGTGAGACA
1940456 AAATTTTGTTTTAAGAAAAAA
1 AAA-TTTGTTTTAAGAAAAAA
1940477 CAATCTTAAA
Statistics
Matches: 214, Mismatches: 41, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
33 15 0.07
34 34 0.16
35 65 0.30
36 40 0.19
37 56 0.26
38 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (35 bp):
AAATTTGTTTTAAGAAAAAAATCTCTAGTGAGACA
Found at i:1940298 original size:70 final size:72
Alignment explanation
Indices: 1940173--1940494 Score: 370
Period size: 70 Copynumber: 4.5 Consensus size: 72
1940163 ATGGAAGATG
* * **
1940173 AAATTTATTTTAAGAAAAACAATCTTAAGTAAGATAAAAATTTGTTTTGAGAAAAA-AATCTCTA
1 AAATTTGTTTTAAGAAAAACAATCTTAAGTGAGAT-AAAATTCATTTTGAGAAAAACAATCTCTA
1940237 GTGAGACA
65 GTGAGACA
*
1940245 AAATTTGTTTTAAGTAAAA-AATCTTAAGTGAGATAAAATTCATTTTGAGAAAAACAATCTCTAG
1 AAATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAAATTCATTTTGAGAAAAACAATCTCTAG
*
1940309 TGAGACG
66 TGAGACA
* * *
1940316 AAATTTGTTTTAAG-AAAA-AATCTCATGTGAGATAAAATTCATTTTGAGAAAAA-AATCACTAG
1 AAATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAAATTCATTTTGAGAAAAACAATCTCTAG
1940378 TGAGAC-
66 TGAGACA
* * * * * ** * * * *
1940384 -GATTTTTTTTAAGAAAAACAATATCAAGTAAGATAAAATTTGTTTTTAAGAAAAATACTCTGTA
1 AAATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAAA-TTCATTTTGAGAAAAACAATCTCTA
1940448 GTGAGACA
65 GTGAGACA
*
1940456 AAATTTTGTTTTAAGAAAAAACAATCTTAAATGAGATAA
1 AAA-TTTGTTTTAAG-AAAAACAATCTTAAGTGAGATAA
1940495 TTTTTTTAAT
Statistics
Matches: 215, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
67 11 0.05
68 4 0.02
69 30 0.14
70 68 0.32
71 55 0.26
72 17 0.08
73 1 0.00
74 10 0.05
75 19 0.09
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (72 bp):
AAATTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAAATTCATTTTGAGAAAAACAATCTCTAG
TGAGACA
Done.