Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_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: 1560963
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1336107 original size:42 final size:41
Alignment explanation
Indices: 1336022--1336144 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
1336012 GTGAATCGGG
* * * * *
1336022 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
1336064 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
1336106 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
1336145 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:1338200 original size:33 final size:33
Alignment explanation
Indices: 1338158--1338254 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
1338148 ACGAGATAAT
*
1338158 GAGAATCGCAACGCGGAAATGACTAT-GCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
1338191 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
1338224 GACAATCGCAACGC-AAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
1338255 GCGAAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 25 0.44
33 32 0.56
ACGTcount: A:0.40, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:1338276 original size:19 final size:19
Alignment explanation
Indices: 1338133--1338315 Score: 156
Period size: 19 Copynumber: 10.1 Consensus size: 19
1338123 TCTTTTGGTT
*
1338133 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1338152 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1338172 GGAAATGACTAT-GCAA--C
1 -GAAATGAAAATCGCAACGC
*
1338189 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
1338205 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
1338223 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1338238 -AAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
1338257 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1338276 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1338295 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1338314 GA
1 GA
1338316 TTTTGGTTTC
Statistics
Matches: 135, Mismatches: 15, Indels: 28
0.76 0.08 0.16
Matches are distributed among these distances:
13 4 0.03
14 15 0.11
15 2 0.01
16 3 0.02
17 2 0.01
18 12 0.09
19 59 0.44
20 36 0.27
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1338344 original size:19 final size:19
Alignment explanation
Indices: 1338311--1338377 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1338301 AAAATCGCAA
**
1338311 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
1338330 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
1338349 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
1338369 TGCGATTTT
1 TGCGATTTT
1338378 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:1338911 original size:20 final size:20
Alignment explanation
Indices: 1338887--1339000 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
1338877 CGCTATGTAA
* *
1338887 ATCGCATTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
1338907 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
1338927 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
1338948 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
1338968 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1338988 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1339001 TTTCCCAATT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1338985 original size:61 final size:61
Alignment explanation
Indices: 1338887--1339003 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
1338877 CGCTATGTAA
* * * *
1338887 ATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
1338948 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
1339004 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:1339019 original size:61 final size:61
Alignment explanation
Indices: 1338887--1339021 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
1338877 CGCTATGTAA
* * * * * ** *
1338887 ATCGCATTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* *
1338948 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
*
1339010 -TCGCGTTGCGAT
1 ATCGCATTGCGAT
1339022 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:1339111 original size:21 final size:21
Alignment explanation
Indices: 1339071--1339111 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1339061 ATTGTAGACC
**
1339071 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1339092 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1339112 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1346443 original size:33 final size:34
Alignment explanation
Indices: 1346396--1346465 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 34
1346386 AATAATCCCC
1346396 TAAACCCTACAATTTAAAGCTAAGCTTATCTTCT
1 TAAACCCTACAATTTAAAGCTAAGCTTATCTTCT
* *
1346430 TAAA-CCTCCAATTTAAGGCTAAGCTTATCTTCT
1 TAAACCCTACAATTTAAAGCTAAGCTTATCTTCT
1346463 TAA
1 TAA
1346466 TAAAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (34 bp):
TAAACCCTACAATTTAAAGCTAAGCTTATCTTCT
Found at i:1347024 original size:2 final size:2
Alignment explanation
Indices: 1347019--1347049 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1347009 TATTTGAAGA
1347019 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1347050 GTAAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1351014 original size:29 final size:29
Alignment explanation
Indices: 1350980--1351047 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
1350970 CATTCATGTT
1350980 ATTGAACTTTCAATTGTTTCA-ATAAAAAC
1 ATTGAACTTTCAATTGTTT-AGATAAAAAC
* *
1351009 ATTGAACTTTCAATTGTTTAGATGAAAGC
1 ATTGAACTTTCAATTGTTTAGATAAAAAC
1351038 ATTGAACTTT
1 ATTGAACTTT
1351048 TATTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (29 bp):
ATTGAACTTTCAATTGTTTAGATAAAAAC
Found at i:1374584 original size:2 final size:2
Alignment explanation
Indices: 1374577--1374608 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1374567 CCATTATTTC
1374577 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
1374609 TAAATTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1375079 original size:16 final size:17
Alignment explanation
Indices: 1375058--1375094 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
1375048 TGATTGGTGA
1375058 AAAATATT-ATTTAATT
1 AAAATATTAATTTAATT
1375074 AAAATATTAAATTTAATT
1 AAAATATT-AATTTAATT
1375092 AAA
1 AAA
1375095 TTAATCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATTAATTTAATT
Found at i:1378174 original size:7 final size:7
Alignment explanation
Indices: 1378162--1378188 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1378152 AAAAGACAGT
1378162 TGAAGGA
1 TGAAGGA
1378169 TGAAGGA
1 TGAAGGA
1378176 TGAAGGA
1 TGAAGGA
1378183 TGAAGG
1 TGAAGG
1378189 GGATTTACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
TGAAGGA
Found at i:1379070 original size:10 final size:10
Alignment explanation
Indices: 1379055--1379085 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
1379045 TGGAACCAGT
1379055 ACCTACAAGC
1 ACCTACAAGC
1379065 ACCTACAAGC
1 ACCTACAAGC
1379075 ACCTACAAGC
1 ACCTACAAGC
1379085 A
1 A
1379086 TAGAGACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.42, C:0.39, G:0.10, T:0.10
Consensus pattern (10 bp):
ACCTACAAGC
Found at i:1381850 original size:16 final size:16
Alignment explanation
Indices: 1381814--1381847 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1381804 CACGTGAGGA
1381814 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1381830 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1381847 T
1 T
1381848 ATTGTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1391429 original size:13 final size:12
Alignment explanation
Indices: 1391413--1391454 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
1391403 ACTTTTGTTG
*
1391413 TTTTGTTTTTCA
1 TTTTTTTTTTCA
1391425 TTTTTTTCTTTCA
1 TTTTTTT-TTTCA
1391438 TGTTTTTTTTTC-
1 T-TTTTTTTTTCA
1391450 TTTTT
1 TTTTT
1391455 CTTTCGAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.15
12 7 0.26
13 10 0.37
14 6 0.22
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTTCA
Found at i:1391474 original size:21 final size:19
Alignment explanation
Indices: 1391444--1391492 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 19
1391434 TTCATGTTTT
*
1391444 TTTTTCTTTTTCTTTCGAACAA
1 TTTTT-TTTTTCATTC-AAC-A
1391466 TTTTTTTTTTCATTCAACA
1 TTTTTTTTTTCATTCAACA
1391485 TTTTTTTT
1 TTTTTTTT
1391493 CGATGGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
20 3 0.12
21 9 0.35
22 5 0.19
ACGTcount: A:0.16, C:0.14, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTTTCATTCAACA
Found at i:1405817 original size:26 final size:26
Alignment explanation
Indices: 1405781--1405841 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
1405771 TTGTTCTCCA
*
1405781 TTCTTTCTCCTCCATATCTACGGGTT
1 TTCTTCCTCCTCCATATCTACGGGTT
1405807 TTCTTCCTCCTCCATATCTACGGGTT
1 TTCTTCCTCCTCCATATCTACGGGTT
1405833 TTCTTCCTC
1 TTCTTCCTC
1405842 AATGGTGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.10, C:0.34, G:0.10, T:0.46
Consensus pattern (26 bp):
TTCTTCCTCCTCCATATCTACGGGTT
Found at i:1406580 original size:40 final size:38
Alignment explanation
Indices: 1406508--1406590 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 38
1406498 CTATTTAGGG
* *
1406508 ACCAAAGATGAAATTCCCATATGCAAAGTTGGCCACCT
1 ACCAAAGACGAAATTCCCATATGCAAAGTTGGCCACCA
* * *
1406546 ACCAAAGACGAATTTTCTCATATGTATAAGTTGGCCACCA
1 ACCAAAGACGAA-ATTCCCATATGCA-AAGTTGGCCACCA
1406586 ACCAA
1 ACCAA
1406591 CTTGTCAACT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
38 11 0.29
39 10 0.26
40 17 0.45
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.23
Consensus pattern (38 bp):
ACCAAAGACGAAATTCCCATATGCAAAGTTGGCCACCA
Found at i:1408167 original size:29 final size:29
Alignment explanation
Indices: 1408113--1408170 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1408103 GAATTAATTG
* *
1408113 CTAATTTTTATTTTATTGCATATTAACCA
1 CTAACTTTTATTTTATTACATATTAACCA
1408142 CTAACTTTTATTTTATTACACT-TTAACCA
1 CTAACTTTTATTTTATTACA-TATTAACCA
1408171 TTGTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (29 bp):
CTAACTTTTATTTTATTACATATTAACCA
Found at i:1408598 original size:16 final size:16
Alignment explanation
Indices: 1408573--1408608 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1408563 ATTTCTATTA
*
1408573 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
*
1408589 TTTAAATTTATGCCCT
1 TTTAAATTTATGCACT
1408605 TTTA
1 TTTA
1408609 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:1412366 original size:7 final size:7
Alignment explanation
Indices: 1412356--1412402 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
1412346 AAAAATAAGC
1412356 AAAGAGA
1 AAAGAGA
1412363 AAAGAGAA
1 AAAGAG-A
*
1412371 AAAGAAGC
1 AAAG-AGA
1412379 AAAGAGGA
1 AAAGA-GA
1412387 AAA-AGA
1 AAAGAGA
1412393 AAAGAGA
1 AAAGAGA
1412400 AAA
1 AAA
1412403 AACAAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 5 0.15
7 14 0.41
8 13 0.38
9 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAGA
Found at i:1412372 original size:23 final size:23
Alignment explanation
Indices: 1412346--1412400 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
1412336 AAAAAAAATA
*
1412346 AAAAATAAGCAAAGA-GAAAAGAG
1 AAAAAGAAGCAAAGAGGAAAA-AG
1412369 AAAAAGAAGCAAAGAGGAAAAAG
1 AAAAAGAAGCAAAGAGGAAAAAG
1412392 AAAAGAGAA
1 AAAA-AGAA
1412401 AAAACAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.02
Consensus pattern (23 bp):
AAAAAGAAGCAAAGAGGAAAAAG
Found at i:1415327 original size:105 final size:103
Alignment explanation
Indices: 1415084--1415363 Score: 309
Period size: 104 Copynumber: 2.7 Consensus size: 103
1415074 TTTGAAATTT
** * * *
1415084 TTGAAACAAAATTAATCTCACTTGAGCTTGT-TTTCTTAAAAACAAATTTTGTCTTGATTGAGAC
1 TTGAAACAAAATTAATAACATTTGAGATTGTATTTCTTAAAAACAAATTTTGTCTTGCTTGAGAC
*
1415148 AGTTTCCCCTAAAAACACAAATTCTGAAATTGTTTCAC
66 AATTTCCCCTAAAAACACAAATTCTGAAATTGTTTCAC
* * * *
1415186 TTGAAACAAAATTGATAACATTTGAGATTGTTTTTCTTAAAAAACAAATTTCGTCTCGCTTGAGA
1 TTGAAACAAAATTAATAACATTTGAGATTGTATTTCTT-AAAAACAAATTTTGTCTTGCTTGAGA
* * *
1415251 CAATTTTCCCTCAAAACACAAAATT-TGGAAGTTGTTTCAC
65 CAATTTCCCCTAAAAACAC-AAATTCT-GAAATTGTTTCAC
**
1415291 TTGAAACAAAAATTAATAA-ATCTTTGAGA-T-TATTTCTCTCGAAACAAAGTTTTGTCTTGCTT
1 TTGAAAC-AAAATTAATAACA--TTTGAGATTGTATTTCT-TAAAAACAAA-TTTTGTCTTGCTT
*
1415353 GAGACAGTTTC
61 GAGACAATTTC
1415364 TCTTGAAACA
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
102 26 0.17
103 6 0.04
104 40 0.27
105 38 0.26
106 32 0.21
107 7 0.05
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.36
Consensus pattern (103 bp):
TTGAAACAAAATTAATAACATTTGAGATTGTATTTCTTAAAAACAAATTTTGTCTTGCTTGAGAC
AATTTCCCCTAAAAACACAAATTCTGAAATTGTTTCAC
Found at i:1415373 original size:105 final size:104
Alignment explanation
Indices: 1415084--1415405 Score: 291
Period size: 105 Copynumber: 3.1 Consensus size: 104
1415074 TTTGAAATTT
** * * * *
1415084 TTGAAACAAAATTAATCTCACTTGAGCTTGTTT-TCTT-AAAAACAAATTTTGTCTTGATTGAGA
1 TTGAAACAAAATTAATAACATTTGAGATTATTTCTCTTAAAAAACAAATTTTGTCTTGCTTGAGA
* *
1415147 CAGTTTCCCCTAAAAACACAAATTCTGAAATTGTTTCAC
66 CAGTTTCCCTTAAACACACAAATTCTGAAATTGTTTCAC
* * * * *
1415186 TTGAAACAAAATTGATAACATTTGAGATTGTTTTTCTTAAAAAACAAATTTCGTCTCGCTTGAGA
1 TTGAAACAAAATTAATAACATTTGAGATTATTTCTCTTAAAAAACAAATTTTGTCTTGCTTGAGA
* * *
1415251 CAATTTTCCCTCAAA-ACACAAAATT-TGGAAGTTGTTTCAC
66 C-AGTTTCCCTTAAACACAC-AAATTCT-GAAATTGTTTCAC
**
1415291 TTGAAACAAAAATTAATAA-ATCTTTGAGATTATTTCTC-T-CGAAACAAAGTTTTGTCTTGCTT
1 TTGAAAC-AAAATTAATAACA--TTTGAGATTATTTCTCTTAAAAAACAAA-TTTTGTCTTGCTT
* * * ** * *
1415353 GAGACAGTTTCTCTTGAAACATATACCTT-TGAGATTGTTTCTC
62 GAGACAGTTTCCCTT-AAACACACAAATTCTGAAATTGTTTCAC
1415396 TTGAAACAAA
1 TTGAAACAAA
1415406 TTTTGTCTCA
Statistics
Matches: 180, Mismatches: 29, Indels: 20
0.79 0.13 0.09
Matches are distributed among these distances:
102 28 0.16
103 4 0.02
104 32 0.18
105 66 0.37
106 34 0.19
107 16 0.09
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (104 bp):
TTGAAACAAAATTAATAACATTTGAGATTATTTCTCTTAAAAAACAAATTTTGTCTTGCTTGAGA
CAGTTTCCCTTAAACACACAAATTCTGAAATTGTTTCAC
Found at i:1415385 original size:67 final size:67
Alignment explanation
Indices: 1415312--1415506 Score: 277
Period size: 66 Copynumber: 2.9 Consensus size: 67
1415302 ATTAATAAAT
* * *
1415312 CTTTGAGATTATTTCTCTCGAAACAAAGTTTTGTCTTGCTTGAGACAGTTTCTCTTGAAACATAT
1 CTTTGAGATTATTTCTCTCGAAACAAAGTTTTGTCTAGCTTGAGACAGTTTCTCTTGAAACACAA
1415377 AC
66 AC
* * *
1415379 CTTTGAGATTGTTTCTCTTGAAACAAA-TTTTGTCTCA-TTTGAGACAGTTTCTCTTGAAACACA
1 CTTTGAGATTATTTCTCTCGAAACAAAGTTTTGTCT-AGCTTGAGACAGTTTCTCTTGAAACACA
1415442 AAC
65 AAC
** * *
1415445 CTTTGAGATTATTTCTCTCGAAACAAAGTTTCATCTAGCTTGAGATAGTTTCTATTGAAACA
1 CTTTGAGATTATTTCTCTCGAAACAAAGTTTTGTCTAGCTTGAGACAGTTTCTCTTGAAACA
1415507 AAGTTTGTCT
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
66 60 0.54
67 52 0.46
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.39
Consensus pattern (67 bp):
CTTTGAGATTATTTCTCTCGAAACAAAGTTTTGTCTAGCTTGAGACAGTTTCTCTTGAAACACAA
AC
Found at i:1415393 original size:30 final size:30
Alignment explanation
Indices: 1415359--1415469 Score: 96
Period size: 30 Copynumber: 3.5 Consensus size: 30
1415349 GCTTGAGACA
1415359 GTTTCTCTTGAAACATATACCTTTGAGATT
1 GTTTCTCTTGAAACATATACCTTTGAGATT
* * **
1415389 GTTTCTCTTGAAACAAATTTTGTCTCATTTGAGACA
1 GTTTCTCTTGAAAC--A-TAT-AC-C-TTTGAGATT
* *
1415425 GTTTCTCTTGAAACACAAACCTTTGAGATT
1 GTTTCTCTTGAAACATATACCTTTGAGATT
* *
1415455 ATTTCTCTCGAAACA
1 GTTTCTCTTGAAACA
1415470 AAGTTTCATC
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
30 34 0.54
31 1 0.02
32 2 0.03
33 2 0.03
34 2 0.03
35 1 0.02
36 21 0.33
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (30 bp):
GTTTCTCTTGAAACATATACCTTTGAGATT
Found at i:1415429 original size:36 final size:35
Alignment explanation
Indices: 1415323--1415439 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 35
1415313 TTTGAGATTA
*
1415323 TTTCTCTCGAAACAAAGTTTTGTCT-TGCTTGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCT--TTGAGACAG
* * **
1415360 TTTCTCTTGAAAC--A-TAT-AC-CTTTGAGATTG
1 TTTCTCTTGAAACAAATTTTGTCTCTTTGAGACAG
1415390 TTTCTCTTGAAACAAATTTTGTCTCATTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTC-TTTGAGACAG
1415426 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1415440 CAAACCTTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
30 20 0.31
32 3 0.05
33 4 0.06
34 1 0.02
35 2 0.03
36 22 0.34
37 12 0.19
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (35 bp):
TTTCTCTTGAAACAAATTTTGTCTCTTTGAGACAG
Found at i:1415548 original size:88 final size:87
Alignment explanation
Indices: 1415428--1415593 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 87
1415418 TGAGACAGTT
1415428 TCTCTTGAAACACAAACCTTTGAGATTATTTCTCTCGAAACAAAGTTTCATCTAGCTTGAGATAG
1 TCTCTTGAAACACAAACCTTTGAGATTATTTCTCTCGAAACAAA-TTTCATCTAGCTTGAGATAG
1415493 TTTCTATTGAAACAAAGTTTGTC
65 TTTCTATTGAAACAAAGTTTGTC
* * * ** *
1415516 TCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGATAGT
1 TCTCTTGAAACACAAACCTTTGAGATTATTTCTCTCGAAACAAATTTCATCTAGCTTGAGATAGT
*
1415581 TTCTCTTGAAACA
66 TTCTATTGAAACA
1415594 TAAGCCATTG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 30 0.42
88 41 0.58
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (87 bp):
TCTCTTGAAACACAAACCTTTGAGATTATTTCTCTCGAAACAAATTTCATCTAGCTTGAGATAGT
TTCTATTGAAACAAAGTTTGTC
Found at i:1415587 original size:66 final size:66
Alignment explanation
Indices: 1415516--1415726 Score: 212
Period size: 66 Copynumber: 3.2 Consensus size: 66
1415506 AAAGTTTGTC
*
1415516 TCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTGAGATAGT
1 TCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCGCTTGAGATAGT
1415581 T
66 T
* * * * *
1415582 TCTCTTGAAACATAAGCCATTGAGATTGTTTCTCTCGAAACAAAGTTTCGTCTCGTTTGAGACAA
1 TCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTCGAAACAAA-TTTTGTCTCGCTTGAGA-TA
*
1415647 ATT
64 GTT
* * * ** * * * *
1415650 T-TCCTTGAAACACAAA-TTTTGA-AATGTTTAACTCAAAACAAAATTTTATCTCACATGAGATA
1 TCT-CTTGAAACATAAACCTTTGAGATTGTTTCTCTCGAAAC-AAATTTTGTCTCGCTTGAGATA
*
1415712 GCT
64 GTT
1415715 TCTCTTGAAACA
1 TCTCTTGAAACA
1415727 AATTTCCTTC
Statistics
Matches: 117, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
65 12 0.10
66 67 0.57
67 23 0.20
68 15 0.13
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (66 bp):
TCTCTTGAAACATAAACCTTTGAGATTGTTTCTCTCGAAACAAATTTTGTCTCGCTTGAGATAGT
T
Found at i:1415607 original size:30 final size:30
Alignment explanation
Indices: 1415511--1415623 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 30
1415501 GAAACAAAGT
* * *
1415511 TTGTCTCTCTTGAAACATAAACCTTTGAGA
1 TTGTTTCTCTTGAAACATAAGCCATTGAGA
*
1415541 TTGTTTCTCTTGAAACA-AATTTTGTCTCGCTTGAGA
1 TTGTTTCTCTTGAAACATAA----G-C-C-ATTGAGA
*
1415577 TAGTTTCTCTTGAAACATAAGCCATTGAGA
1 TTGTTTCTCTTGAAACATAAGCCATTGAGA
*
1415607 TTGTTTCTCTCGAAACA
1 TTGTTTCTCTTGAAACA
1415624 AAGTTTCGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
29 2 0.03
30 37 0.54
31 1 0.01
32 1 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 22 0.32
37 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (30 bp):
TTGTTTCTCTTGAAACATAAGCCATTGAGA
Found at i:1416100 original size:139 final size:139
Alignment explanation
Indices: 1415850--1416117 Score: 311
Period size: 139 Copynumber: 1.9 Consensus size: 139
1415840 ATTGGCAACC
* * * * * *
1415850 GATCAGATCTCCTCAACGCGTAGAAGCAGCGTCATCTTTAGATAACCAGACTTTCTCATCACATA
1 GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
* * **
1415915 AGAACCCTGTTATCTATAAATTATCTATAAAGACGGTTAGACGTCCTCATCACATATGAACAATA
66 AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAATA
1415980 CCGTCCACT
131 CCGTCCACT
* * **
1415989 GATCAGATCTCCTCAACACGAAGAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCAGGTA
1 GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
* * * * * * * * * * *
1416054 GGAACCGTGTTGTTTCCAAATTATCCCTAAAGCCGACTAGATGTCCTTATCACGTATGATCAAT
66 AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAAT
1416118 TTCATCCACA
Statistics
Matches: 104, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
139 104 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (139 bp):
GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAATA
CCGTCCACT
Found at i:1416126 original size:139 final size:139
Alignment explanation
Indices: 1415850--1416147 Score: 308
Period size: 139 Copynumber: 2.1 Consensus size: 139
1415840 ATTGGCAACC
* * * * * *
1415850 GATCAGATCTCCTCAACGCGTAGAAGCAGCGTCATCTTTAGATAACCAGACTTTCTCATCACATA
1 GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
* * **
1415915 AGAACCCTGTTATCTATAAATTATCTATAAAGACGGTTAGACGTCCTCATCACATATGAACAATA
66 AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAATA
* *
1415980 CCGTCCACT
131 CCATCCACA
* * **
1415989 GATCAGATCTCCTCAACACGAAGAAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCAGGTA
1 GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
* * * * * * * * * * * *
1416054 GGAACCGTGTTGTTTCCAAATTATCCCTAAAGCCGACTAGATGTCCTTATCACGTATGATCAATT
66 AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAATA
*
1416119 TCATCCACA
131 CCATCCACA
* * *
1416128 GACCATATCTCATCAACACG
1 GATCAGATCTCCTCAACACG
1416148 TAGGATCAAT
Statistics
Matches: 127, Mismatches: 32, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
139 127 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (139 bp):
GATCAGATCTCCTCAACACGAAGAAGCAGCGTCATCCTCAGACAACCAGACTTCCTCATCACATA
AGAACCCTGTTATCTACAAATTATCCATAAAGACGACTAGACGTCCTCATCACATATGAACAATA
CCATCCACA
Found at i:1416159 original size:40 final size:40
Alignment explanation
Indices: 1416104--1416190 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
1416094 ATGTCCTTAT
*
1416104 CACGTATGATCAATTTCATCCACAGACCATATCTCATCAA
1 CACGTAGGATCAATTTCATCCACAGACCATATCTCATCAA
*
1416144 CACGTAGGATCAATTTCATCTACAGACCATATCTCATCAA
1 CACGTAGGATCAATTTCATCCACAGACCATATCTCATCAA
1416184 CACGTAG
1 CACGTAG
1416191 AAGTAATGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.29, G:0.10, T:0.26
Consensus pattern (40 bp):
CACGTAGGATCAATTTCATCCACAGACCATATCTCATCAA
Found at i:1416203 original size:40 final size:40
Alignment explanation
Indices: 1416104--1416209 Score: 135
Period size: 40 Copynumber: 2.6 Consensus size: 40
1416094 ATGTCCTTAT
*
1416104 CACGTATG-ATCAATTTCATCCACAGACCATATCTCATCAA
1 CACGTA-GAATCAATGTCATCCACAGACCATATCTCATCAA
* * *
1416144 CACGTAGGATCAATTTCATCTACAGACCATATCTCATCAA
1 CACGTAGAATCAATGTCATCCACAGACCATATCTCATCAA
*
1416184 CACGTAGAAGT-AATGTCATCCTCAGA
1 CACGTAGAA-TCAATGTCATCCACAGA
1416210 TAACCAGACT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 1 0.02
40 57 0.97
41 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (40 bp):
CACGTAGAATCAATGTCATCCACAGACCATATCTCATCAA
Found at i:1419984 original size:77 final size:77
Alignment explanation
Indices: 1419901--1420043 Score: 232
Period size: 77 Copynumber: 1.9 Consensus size: 77
1419891 TTGAATTTAT
* *
1419901 AATAAACTATGATAATTAATATGATTATTTTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
1 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
1419966 TTTTGTCAATTA
66 TTTTGTCAATTA
* * * *
1419978 AATAAACTATGATAGTTAATATGATTACTCTTTAAAAGTTAACATAAATTGTTAGTTATGTTAAT
1 AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
1420043 T
66 T
1420044 AAATTAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 60 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (77 bp):
AATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTATGATAAT
TTTTGTCAATTA
Found at i:1420034 original size:40 final size:37
Alignment explanation
Indices: 1419916--1420035 Score: 86
Period size: 40 Copynumber: 3.1 Consensus size: 37
1419906 ACTATGATAA
*
1419916 TTAATATGATTATTTTTTAAAAGTTAAAACAAATTGTTAG
1 TTAATATGATTA--TTTTAAAAGTT-AAATAAATTGTTAG
* * *
1419956 TT-ATGATAATT-TTTGT-CAA-TTAAATAAACTATGATAG
1 TTAAT-ATGATTATTT-TAAAAGTTAAATAAA-T-TGTTAG
1419993 TTAATATGATTACTCTTTAAAAGTTAACATAAATTGTTAG
1 TTAATATGATTA-T-TTTAAAAGTTAA-ATAAATTGTTAG
1420033 TTA
1 TTA
1420036 TGTTAATTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
35 6 0.10
36 3 0.05
37 17 0.27
38 3 0.05
39 4 0.06
40 19 0.31
41 5 0.08
42 5 0.08
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (37 bp):
TTAATATGATTATTTTAAAAGTTAAATAAATTGTTAG
Found at i:1420091 original size:14 final size:13
Alignment explanation
Indices: 1420069--1420107 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
1420059 ACTTTCTATA
1420069 TTAATTATAATCC
1 TTAATTATAATCC
1420082 TTATATTATAAAT-C
1 TTA-ATTAT-AATCC
1420096 TTAATTATAATC
1 TTAATTATAATC
1420108 AATAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 9 0.39
15 3 0.13
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAATTATAATCC
Found at i:1420104 original size:13 final size:14
Alignment explanation
Indices: 1420069--1420105 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
1420059 ACTTTCTATA
1420069 TTAATTAT-AATCC
1 TTAATTATAAATCC
1420082 TTATATTATAAAT-C
1 TTA-ATTATAAATCC
1420096 TTAATTATAA
1 TTAATTATAA
1420106 TCAATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAATTATAAATCC
Found at i:1420335 original size:2 final size:2
Alignment explanation
Indices: 1420328--1420449 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
1420318 TTAAACAATA
1420328 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
1420370 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
1420412 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
1420450 CACATGACTG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1420596 original size:36 final size:33
Alignment explanation
Indices: 1420549--1420617 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
1420539 AAATTTTGAC
1420549 AAAATGGATTTTTTTGTCAAAATTTAGAAGATGAAA
1 AAAATGGA-TTTTTTG--AAAATTTAGAAGATGAAA
* *
1420585 AAAATTGATTTTTTGATAATTTAGAAGATGAAA
1 AAAATGGATTTTTTGAAAATTTAGAAGATGAAA
1420618 GAGGGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 17 0.55
35 7 0.23
36 7 0.23
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.38
Consensus pattern (33 bp):
AAAATGGATTTTTTGAAAATTTAGAAGATGAAA
Found at i:1428185 original size:45 final size:44
Alignment explanation
Indices: 1428085--1428397 Score: 387
Period size: 45 Copynumber: 7.0 Consensus size: 44
1428075 TGAAAATAAT
** **
1428085 AATGCATATGGGTGCATTAACGGCATGAAAGATATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACA-GAAAG-TATGCTATAGTTGA
*
1428131 AATGCATATGGGTGCATTGTCAACATAAATGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAAA-GTATGCTATAGTTGA
** *
1428176 AATTAATATGGGTGCATTGTCAACAGAAAGATATGCTATAGTTTA
1 AATGCATATGGGTGCATTGTCAACAGAAAG-TATGCTATAGTTGA
*
1428221 AATGCATATGGGTGCATTGTCAACAGAAAGGTATGCTATAGTTAA
1 AATGCATATGGGTGCATTGTCAACAGAAA-GTATGCTATAGTTGA
*
1428266 AATGCATATGGGTGCATTGTCAACAGAAGAGTATGATATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAA-AGTATGCTATAGTTGA
* * * *
1428311 AATACATAT-GGTGTATTGTTAACAGAAAAATATGCTATAGATT-A
1 AATGCATATGGGTGCATTGTCAACAG-AAAGTATGCTATAG-TTGA
* *
1428355 AATGCATATGGGTACATTGTCAGCAAGAAAGTATGCTATAGTT
1 AATGCATATGGGTGCATTGTCAAC-AGAAAGTATGCTATAGTT
1428398 AAAAATACAT
Statistics
Matches: 234, Mismatches: 25, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
44 36 0.15
45 172 0.74
46 26 0.11
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (44 bp):
AATGCATATGGGTGCATTGTCAACAGAAAGTATGCTATAGTTGA
Found at i:1428403 original size:135 final size:135
Alignment explanation
Indices: 1428085--1428401 Score: 453
Period size: 134 Copynumber: 2.3 Consensus size: 135
1428075 TGAAAATAAT
** * * *
1428085 AATGCATATGGGTGCATTAACGGCATGAAAGATATGCTATAGTTGAAATGCATATGGGTGCATTG
1 AATGCATATGGGTGCATTGTCAGCAAGAAAG-TATGCTATAGTTAAAATGCATATGGGTGCATTG
* * *
1428150 TCAACATAAATGTATGCTATAGTTGAAATTAATATGGGTGCATTGTCAACAGAAAGATATGCTAT
65 TCAACAGAAATGTATGATATAGTTGAAATTAATATGGGTGCATTGTCAACAGAAAAATATGCTAT
*
1428215 AGTTTA
130 AGATTA
*
1428221 AATGCATATGGGTGCATTGTCAAC-AGAAAGGTATGCTATAGTTAAAATGCATATGGGTGCATTG
1 AATGCATATGGGTGCATTGTCAGCAAGAAA-GTATGCTATAGTTAAAATGCATATGGGTGCATTG
* *
1428285 TCAACAGAAGA-GTATGATATAGTTGAAA-TACATAT-GGTGTATTGTTAACAGAAAAATATGCT
65 TCAACAGAA-ATGTATGATATAGTTGAAATTA-ATATGGGTGCATTGTCAACAGAAAAATATGCT
1428347 ATAGATTA
128 ATAGATTA
*
1428355 AATGCATATGGGTACATTGTCAGCAAGAAAGTATGCTATAGTTAAAA
1 AATGCATATGGGTGCATTGTCAGCAAGAAAGTATGCTATAGTTAAAA
1428402 ATACATAATG
Statistics
Matches: 163, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
134 72 0.44
135 69 0.42
136 22 0.13
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (135 bp):
AATGCATATGGGTGCATTGTCAGCAAGAAAGTATGCTATAGTTAAAATGCATATGGGTGCATTGT
CAACAGAAATGTATGATATAGTTGAAATTAATATGGGTGCATTGTCAACAGAAAAATATGCTATA
GATTA
Found at i:1434196 original size:20 final size:21
Alignment explanation
Indices: 1434142--1434205 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
1434132 TGTCGATACC
*
1434142 GTAAGGAGTATCGGTACCATA
1 GTAAGGAGTATCGATACCATA
* *
1434163 GTATGGTAGTATCGATACCATG
1 GTAAGG-AGTATCGATACCATA
*
1434185 GTAAGG-GTATCGATAACATA
1 GTAAGGAGTATCGATACCATA
1434205 G
1 G
1434206 AACCTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 13 0.36
21 5 0.14
22 18 0.50
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (21 bp):
GTAAGGAGTATCGATACCATA
Found at i:1434283 original size:88 final size:87
Alignment explanation
Indices: 1434128--1434287 Score: 214
Period size: 88 Copynumber: 1.8 Consensus size: 87
1434118 GAATCTAAAA
* * * * * *
1434128 TTGGTGTCGATACCGTAAGGAGTATCGGTACCATAGTATGGTAGTATCGATACCATGGTAAGGGT
1 TTGGTATCGATACCGGAAGAAGTATCGGTACCATAGTATGGAAGTATCGATACCAGGGTAAGAGT
1434193 ATCGATAACATAGAACCTAATT
66 ATCGATAACATAGAACCTAATT
* * *
1434215 TTGGTATCGATACCCGGAAGAAGTATCGGTACCATAGTATTGAAGTATCGGTACTAGGGT-AGTA
1 TTGGTATCGATA-CCGGAAGAAGTATCGGTACCATAGTATGGAAGTATCGATACCAGGGTAAG-A
1434279 GTATCGATA
64 GTATCGATA
1434288 CAACTGAGCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 13 0.21
88 49 0.79
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (87 bp):
TTGGTATCGATACCGGAAGAAGTATCGGTACCATAGTATGGAAGTATCGATACCAGGGTAAGAGT
ATCGATAACATAGAACCTAATT
Found at i:1434781 original size:45 final size:45
Alignment explanation
Indices: 1434698--1434977 Score: 409
Period size: 45 Copynumber: 6.2 Consensus size: 45
1434688 TGAAAGTAAT
* * ** *
1434698 AATGCATATGAGTGCATTATCGGCATGAAAGGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACA-GAAATGTATGCTATAGTTGA
* ** * *
1434744 AATGCATTTGGACGAATTGTCAACAGAAATATATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
1434789 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
1434834 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
* *
1434879 AATGCATATGGGTGCATTGTCAACAGAAAAGTGTGCTATAGTTGA
1 AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
*
1434924 AATGCATATGGGTGCATTGTCAACAAGAAA-GTATGCTATAGTTAAA
1 AATGCATATGGGTGCATTGTCAAC-AGAAATGTATGCTATAGTT-GA
1434970 AATGCATA
1 AATGCATA
1434978 ATGGTGTATT
Statistics
Matches: 213, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 182 0.85
46 31 0.15
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (45 bp):
AATGCATATGGGTGCATTGTCAACAGAAATGTATGCTATAGTTGA
Found at i:1435894 original size:19 final size:19
Alignment explanation
Indices: 1435858--1435900 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1435848 CAATGGAGAG
1435858 ATAAAAGTAAAAATAAGGAA
1 ATAAAAGTAAAAATAAGG-A
1435878 ATAAAA-TAAAAGA-AAGGA
1 ATAAAAGTAAAA-ATAAGGA
1435896 ATAAA
1 ATAAA
1435901 TCAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (19 bp):
ATAAAAGTAAAAATAAGGA
Found at i:1439671 original size:77 final size:77
Alignment explanation
Indices: 1439579--1439729 Score: 275
Period size: 77 Copynumber: 2.0 Consensus size: 77
1439569 CAATTGAACT
* *
1439579 AAGATCACATAGTGCCTTTCGAATGAAGTTAGCTCCTATAGAATACGGAATAATGAAGTTGCCCG
1 AAGATCACATAGTGCCTTTCCAATGAAATTAGCTCCTATAGAATACGGAATAATGAAGTTGCCCG
1439644 AATCATTTTACC
66 AATCATTTTACC
*
1439656 AAGATCACATAGTGCCTTTCCAATGAAATTAGTTCCTATAGAATACGGAATAATGAAGTTGCCCG
1 AAGATCACATAGTGCCTTTCCAATGAAATTAGCTCCTATAGAATACGGAATAATGAAGTTGCCCG
1439721 AATCATTTT
66 AATCATTTT
1439730 TCTTTCGTAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (77 bp):
AAGATCACATAGTGCCTTTCCAATGAAATTAGCTCCTATAGAATACGGAATAATGAAGTTGCCCG
AATCATTTTACC
Found at i:1440366 original size:21 final size:21
Alignment explanation
Indices: 1440322--1440366 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1440312 AGACTAGCTA
* * *
1440322 TGACTTTGAAGTAAGGCGCCT
1 TGACTATGAAGTAAAGCGCAT
*
1440343 TGACTATGAAGTAAAGCTCAT
1 TGACTATGAAGTAAAGCGCAT
1440364 TGA
1 TGA
1440367 TTCTTAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (21 bp):
TGACTATGAAGTAAAGCGCAT
Found at i:1444199 original size:3 final size:3
Alignment explanation
Indices: 1444191--1444230 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
1444181 AGATCTCCCT
* *
1444191 TTA TTA TTA TTA TTA TTA TGA TTA TGA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1444231 ATTCATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1444310 original size:21 final size:22
Alignment explanation
Indices: 1444272--1444327 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
1444262 TTAATCTAAT
*
1444272 CCTAAACCTTAAACAAAA-AAC
1 CCTAAACCTTAAACAAAATAAA
*
1444293 CCTAAACCATTATA-AAAATAAA
1 CCTAAACC-TTAAACAAAATAAA
*
1444315 CCT-AACCCTAAAC
1 CCTAAACCTTAAAC
1444328 CACTCCAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (22 bp):
CCTAAACCTTAAACAAAATAAA
Found at i:1449572 original size:18 final size:19
Alignment explanation
Indices: 1449546--1449581 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1449536 TCAAACCCTA
*
1449546 ATAATAATAAG-GCTTAAT
1 ATAAAAATAAGTGCTTAAT
1449564 ATAAAAATAAGTGCTTAA
1 ATAAAAATAAGTGCTTAA
1449582 ATTATACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (19 bp):
ATAAAAATAAGTGCTTAAT
Found at i:1451253 original size:2 final size:2
Alignment explanation
Indices: 1451233--1451272 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1451223 AAATAAATAA
* *
1451233 AT AT AT -T AT TT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1451273 CTTCAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1451437 original size:24 final size:23
Alignment explanation
Indices: 1451392--1451437 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
1451382 ATATTTTTAG
*
1451392 ATAAATAAATATATCCTCATTTT
1 ATAAATAAATATATCCTAATTTT
* *
1451415 ATAAATTATATATATCTTAATTT
1 ATAAA-TAAATATATCCTAATTT
1451438 AAATTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAAATAAATATATCCTAATTTT
Found at i:1451479 original size:157 final size:152
Alignment explanation
Indices: 1451263--1451553 Score: 374
Period size: 150 Copynumber: 1.9 Consensus size: 152
1451253 TATATATATA
* *
1451263 TATATATATACTTCAATTTTATTATTTTTAGGAAAAATTATTATCTTCTTATAAATATTTATTTA
1 TATATATATACTTCAATTTAATTATTTTTAGGAAAAATTATTA---TCTAATAAATATTTATTTA
* * *
1451328 TTTATTAATTTTAAAGAAATGAGCTGTCTTAAAGCAACTAGATGTCCCATTCTGATATTTTTAGA
63 -TT-TTAATATT-AAGAAATGAGCTGTCTTAAAGCAACTAGATGTCCCATTCTGATATTTTCAAA
1451393 TAAATAAATATATCCTCATTTTATAAAT
125 TAAATAAATATATCCTCATTTTATAAAT
**
1451421 TATATATAT-CTT-AATTTAAATTATTTTTAGGAAAATATT-TTAT-TAATATTTATTTATTTAT
1 TATATATATACTTCAATTT-AATTATTTTTAGGAAAA-ATTATTATCTAATAAATATTTATTTAT
* * ** *
1451482 TTTAATATTAAGAAATGGGTTGTCTTAAAGCAACTAGATGTCCTTTTCTGATATTTTCAAATGAA
64 TTTAATATTAAGAAATGAGCTGTCTTAAAGCAACTAGATGTCCCATTCTGATATTTTCAAATAAA
1451547 TAAATAT
129 TAAATAT
1451554 CATATTTATA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
150 56 0.47
151 7 0.06
152 2 0.02
153 14 0.12
154 1 0.01
156 5 0.04
157 22 0.18
158 12 0.10
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (152 bp):
TATATATATACTTCAATTTAATTATTTTTAGGAAAAATTATTATCTAATAAATATTTATTTATTT
TAATATTAAGAAATGAGCTGTCTTAAAGCAACTAGATGTCCCATTCTGATATTTTCAAATAAATA
AATATATCCTCATTTTATAAAT
Found at i:1452193 original size:20 final size:20
Alignment explanation
Indices: 1452154--1452193 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1452144 GTTTTCTTTT
*
1452154 TTTTTAAAAATATAATATTA
1 TTTTTAAAAATATAAAATTA
* *
1452174 TTTTTAAAATTTTAAAATTA
1 TTTTTAAAAATATAAAATTA
1452194 CCAGGTTGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTTAAAAATATAAAATTA
Found at i:1452810 original size:19 final size:17
Alignment explanation
Indices: 1452786--1452824 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1452776 AATTTAATCC
1452786 TAATTTAAATAAATATAAT
1 TAATTT-AAT-AATATAAT
*
1452805 TAATTTAATCATATAAT
1 TAATTTAATAATATAAT
1452822 TAA
1 TAA
1452825 ATTGTGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 3 0.16
19 6 0.32
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTTAATAATATAAT
Found at i:1455387 original size:17 final size:18
Alignment explanation
Indices: 1455350--1455401 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
1455340 AAAAAAGGAG
*
1455350 TGAAGATAAAAATGAATA
1 TGAAGAAAAAAATGAATA
*
1455368 TGATA-AAAAAAATTAA-A
1 TGA-AGAAAAAAATGAATA
1455385 TGAAGAAAAAAA-GAATA
1 TGAAGAAAAAAATGAATA
1455402 ATAATGATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 12 0.43
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.19
Consensus pattern (18 bp):
TGAAGAAAAAAATGAATA
Found at i:1455477 original size:19 final size:18
Alignment explanation
Indices: 1455421--1455499 Score: 68
Period size: 19 Copynumber: 4.1 Consensus size: 18
1455411 ATAATATATT
*
1455421 AATAATAAACATGTAAATAA
1 AATAA-AAAAATGTAAAT-A
* *
1455441 AAAAGAAGAAAATATAAATA
1 AATA-AA-AAAATGTAAATA
1455461 AATAAAACAAATGTAAATA
1 AATAAAA-AAATGTAAATA
*
1455480 AGATAAAAAAATGAAAATA
1 A-ATAAAAAAATGTAAATA
1455499 A
1 A
1455500 GGAATAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 1 0.02
19 24 0.49
20 14 0.29
21 10 0.20
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.19
Consensus pattern (18 bp):
AATAAAAAAATGTAAATA
Found at i:1455500 original size:19 final size:19
Alignment explanation
Indices: 1455456--1455515 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
1455446 AAGAAAATAT
*
1455456 AAATAA-ATAAAACAAATGT
1 AAATAAGATAAAA-AAATGA
1455475 AAATAAGATAAAAAAATGA
1 AAATAAGATAAAAAAATGA
* *
1455494 AAATAAG-GAATAAAATGA
1 AAATAAGATAAAAAAATGA
1455512 AAAT
1 AAAT
1455516 GAAATAGAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.35
19 18 0.49
20 6 0.16
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (19 bp):
AAATAAGATAAAAAAATGA
Found at i:1455720 original size:13 final size:13
Alignment explanation
Indices: 1455704--1455731 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1455694 TAATGAAAAA
1455704 ATTATATATATAT
1 ATTATATATATAT
1455717 ATTATATATATAT
1 ATTATATATATAT
1455730 AT
1 AT
1455732 AATAATACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:1457009 original size:78 final size:81
Alignment explanation
Indices: 1456900--1457136 Score: 225
Period size: 78 Copynumber: 2.9 Consensus size: 81
1456890 GCTATAAATT
* * * * * *
1456900 TGATTTGCCTCTGAGTTGAACGGAATCGAACTCGAAGGTCTTTATTGACCGATAACCCTTCTCGC
1 TGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTTGACCGATAACCCTTCTCGA
*
1456965 CTTGAG-T-TA-TGC-
66 CTTAAGCTATACTGCA
* *
1456977 TGGATATGCCTTTGAGTTGAATGTAATTGAACTCGAAGGTCTTTGGTT-AGC-ATATATCCCTTC
1 T-GATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTT-GTTGACCGATA-A-CCCTTC
1457040 TCGACTTAAGCTATACTGCAAA
62 TCGACTTAAGCTATACTGC--A
* * * * ** *
1457062 TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTTTTTTCGA
1 TGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTTGACCGATAACCCTTCTCGA
*
1457127 CTTAAACTAT
66 CTTAAGCTAT
1457137 GCTGTCGGAA
Statistics
Matches: 129, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
77 4 0.03
78 40 0.31
79 16 0.12
80 1 0.01
81 2 0.02
82 3 0.02
83 19 0.15
84 40 0.31
85 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (81 bp):
TGATATGCCTTTGAGTTGAATGTAATCGAACTCGAAGGTCTTTGTTGACCGATAACCCTTCTCGA
CTTAAGCTATACTGCA
Found at i:1457190 original size:34 final size:34
Alignment explanation
Indices: 1457152--1457239 Score: 115
Period size: 35 Copynumber: 2.6 Consensus size: 34
1457142 CGGAAAACAG
1457152 TTTTTTT-TTTCAAGAGAAACAATTTCAAAGGTT
1 TTTTTTTGTTTCAAGAGAAACAATTTCAAAGGTT
* * **
1457185 TTTTTTGTGTTCCAAGATAAATGATTTCAAAGGTT
1 TTTTTT-TGTTTCAAGAGAAACAATTTCAAAGGTT
*
1457220 TTTTTGTGTTTCAAGAGAAA
1 TTTTTTTGTTTCAAGAGAAA
1457240 TTGTCTCAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
33 6 0.13
34 13 0.28
35 27 0.59
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (34 bp):
TTTTTTTGTTTCAAGAGAAACAATTTCAAAGGTT
Found at i:1457212 original size:35 final size:34
Alignment explanation
Indices: 1457151--1457240 Score: 114
Period size: 34 Copynumber: 2.7 Consensus size: 34
1457141 TCGGAAAACA
**
1457151 GTTTTTTT-T-TT-CAAGAGAAACAATTTCAAAG
1 GTTTTTTTGTGTTCCAAGAGAAATGATTTCAAAG
*
1457182 GTTTTTTTTGTGTTCCAAGATAAATGATTTCAAAG
1 G-TTTTTTTGTGTTCCAAGAGAAATGATTTCAAAG
*
1457217 GTTTTTTTGTGTTTCAAGAGAAAT
1 GTTTTTTTGTGTTCCAAGAGAAAT
1457241 TGTCTCAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
31 1 0.02
32 7 0.14
33 1 0.02
34 23 0.46
35 18 0.36
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.46
Consensus pattern (34 bp):
GTTTTTTTGTGTTCCAAGAGAAATGATTTCAAAG
Found at i:1457267 original size:37 final size:36
Alignment explanation
Indices: 1457226--1457720 Score: 476
Period size: 36 Copynumber: 14.1 Consensus size: 36
1457216 GGTTTTTTTG
*
1457226 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
1457263 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1457299 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
1457336 AGTTCCAAAAGAAACAGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1457372 TGTTTCAAG-GAAAACATAT-TC-A-A-AG-----A--
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* *
1457398 T-TTTGAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1457433 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1457469 TGTTTCAAGAGAAACTGTCACAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * ** * *
1457506 AGTTCCAAAAGAAACTGTCTCGTGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1457542 TGTTTCAAG-GAAAACATAT-T-TA-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAATT
* * *
1457571 TGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
1457607 TGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
1457643 TGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1457679 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
1457716 TGTTT
1 TGTTT
1457721 TGAGTAAATT
Statistics
Matches: 384, Mismatches: 45, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
24 2 0.01
25 12 0.03
26 3 0.01
27 1 0.00
28 5 0.01
29 17 0.04
30 2 0.01
31 1 0.00
32 1 0.00
33 5 0.01
35 4 0.01
36 231 0.60
37 100 0.26
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:1457305 original size:73 final size:73
Alignment explanation
Indices: 1457226--1457720 Score: 313
Period size: 73 Copynumber: 7.1 Consensus size: 73
1457216 GGTTTTTTTG
* * * ** * *
1457226 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
1457291 ACAAAATT
66 ACAAAATT
*
1457299 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
1457364 ACAAAATT
66 ACAAAATT
* * ** *
1457372 TGTTTCAAG-GAAAACATAT-TC-A-A-AG-----A-TT--TT-GAAGGGAAACTGTCTCAAGAG
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAG
1457423 AGACAAAATT
64 AGACAAAATT
* * * * * *
1457433 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCACAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
1457497 ACAAAACTT
66 ACAAAA-TT
* * * ** * * * * * * **
1457506 AGTTCCAAAAGAAACTGTCTCGTGGGAGACGAAA-TTTGTTTC-AAGGAAAACA-TATTTA-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAG-AAACAGTCTCAAGAGA
*
1457566 G----ATTT
65 GACAAAATT
* * * * * ** ** *
1457571 TGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAA-TTTGTTTCAAGGGAAACTCTCTCAAGAGAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
1457635 ACAAAATT
66 ACAAAATT
* * * * ** *
1457643 TGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
1457707 ACAAAATTT
66 ACAAAA-TT
1457716 TGTTT
1 TGTTT
1457721 TGAGTAAATT
Statistics
Matches: 340, Mismatches: 56, Indels: 52
0.76 0.12 0.12
Matches are distributed among these distances:
60 2 0.01
61 41 0.12
62 4 0.01
63 1 0.00
64 4 0.01
65 39 0.11
66 7 0.02
67 1 0.00
68 1 0.00
69 3 0.01
70 4 0.01
71 4 0.01
72 100 0.29
73 127 0.37
74 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGAGAG
ACAAAATT
Found at i:1457313 original size:36 final size:37
Alignment explanation
Indices: 1457226--1457384 Score: 225
Period size: 37 Copynumber: 4.4 Consensus size: 37
1457216 GGTTTTTTTG
*
1457226 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* *
1457263 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1457299 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
* * * * *
1457336 AGTTCCAAAAGAAACAGTCTCAAGGGAGACAAAA-TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1457372 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
1457385 ACATATTCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
35 4 0.04
36 42 0.39
37 62 0.57
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.25
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
Found at i:1457440 original size:21 final size:21
Alignment explanation
Indices: 1457416--1457480 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
1457406 GGAAACTGTC
1457416 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
1457437 TCAAG-G-G---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
1457452 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
1457473 TCAAGAGA
1 TCAAGAGA
1457481 AACTGTCACA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 8 0.24
16 4 0.12
17 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.25
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:1457535 original size:170 final size:171
Alignment explanation
Indices: 1457236--1457720 Score: 733
Period size: 170 Copynumber: 2.8 Consensus size: 171
1457226 TGTTTCAAGA
* *
1457236 GAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAATTTG
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTG
* *
1457301 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACAGTCTCAAGGGAGAC
65 TTTCAAGAGAAACTGTCACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGAC
1457366 AAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTG-AAGG
130 AAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTAAGG
1457407 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
** *
1457472 TTCAAGAGAAACTGTCACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCGTGGGAGACG
66 TTCAAGAGAAACTGTCACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACA
*
1457537 AAATTTGTTTCAAGGAAAACATATTTAAAGATTTTGTTTCAAGG
131 AAATTTGTTTCAAGGAAAACATATTCAAAGATTTTG--T-AAGG
* * * *
1457581 GAAACTCTCTCAAGAGAAACAAAATTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATTTGT
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
* * * ** *
1457646 TTCAAGGGAAACTGTCTA-AAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
66 TTCAAGAGAAACTGTC-ACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGAC
1457709 AAAATTTTGTTT
130 AAAA-TTTGTTT
1457721 TGAGTAAATT
Statistics
Matches: 287, Mismatches: 21, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
170 135 0.47
171 23 0.08
173 28 0.10
174 100 0.35
175 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (171 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
TTCAAGAGAAACTGTCACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACA
AAATTTGTTTCAAGGAAAACATATTCAAAGATTTTGTAAGG
Found at i:1457593 original size:138 final size:137
Alignment explanation
Indices: 1457431--1457693 Score: 373
Period size: 138 Copynumber: 1.9 Consensus size: 137
1457421 AGAGACAAAA
* * *
1457431 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCACAAGAGA
1 TTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATTTGTTTCAAGAGAAACTCTCACAAGAGA
* *** * *
1457496 GACAAAACTTAGTTCCAAAAGAAACTGTCTCGTGGGAGACGAAATTTGTTTCAAGGAAAACATAT
66 AACAAAA-TTAGTTCCAAAAGAAACTGTCTAAAGAGAGACAAAATTTGTTTCAAGGAAAACATAT
1457561 TTAAAGAT
130 TTAAAGAT
* *
1457569 TTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATTTGTTTCAAGGGAAACTCTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATTTGTTTCAAGAGAAACTCTCACAAGAGA
* * ** *
1457634 AACAAAATTTGTTTCAAGGGAAACTGTCTAAAGAGAGACAAAATTTGTTTCAAGGGAAAC
66 AACAAAATTAGTTCCAAAAGAAACTGTCTAAAGAGAGACAAAATTTGTTTCAAGGAAAAC
1457694 TGTCTCAAGA
Statistics
Matches: 109, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
137 43 0.39
138 66 0.61
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (137 bp):
TTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAATTTGTTTCAAGAGAAACTCTCACAAGAGA
AACAAAATTAGTTCCAAAAGAAACTGTCTAAAGAGAGACAAAATTTGTTTCAAGGAAAACATATT
TAAAGAT
Found at i:1457620 original size:21 final size:21
Alignment explanation
Indices: 1457590--1457657 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
1457580 GGAAACTCTC
1457590 TCAAGAGAAACAAAATTTGTT
1 TCAAGAGAAACAAAATTTGTT
* * *
1457611 TCAAGGGAAAC------TCTC
1 TCAAGAGAAACAAAATTTGTT
1457626 TCAAGAGAAACAAAATTTGTT
1 TCAAGAGAAACAAAATTTGTT
*
1457647 TCAAGGGAAAC
1 TCAAGAGAAAC
1457658 TGTCTAAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
15 12 0.35
21 22 0.65
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (21 bp):
TCAAGAGAAACAAAATTTGTT
Found at i:1457656 original size:102 final size:102
Alignment explanation
Indices: 1457467--1457657 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 102
1457457 AGAGACAAAA
* * * ** *
1457467 TTTGTTTCAAGAGAAACTGTCACAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCGTGGG
1 TTTGTTTCAAGAGAAACTCTCACAAGAGAAACAAAACTTAGTTCCAAAAGAAACTCTCTCAAGAG
* *
1457532 AGACGAAATTTGTTTCAAGGAAAACATATTTAAAGAT
66 AAACAAAATTTGTTTCAAGGAAAACATATTTAAAGAT
* * * * **
1457569 TTTGTTTCAAGGGAAACTCTCTCAAGAGAAACAAAA-TTTGTTTCAAGGGAAACTCTCTCAAGAG
1 TTTGTTTCAAGAGAAACTCTCACAAGAGAAACAAAACTTAGTTCCAAAAGAAACTCTCTCAAGAG
*
1457633 AAACAAAATTTGTTTCAAGGGAAAC
66 AAACAAAATTTGTTTCAAGGAAAAC
1457658 TGTCTAAAGA
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
101 42 0.57
102 32 0.43
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTCTCACAAGAGAAACAAAACTTAGTTCCAAAAGAAACTCTCTCAAGAG
AAACAAAATTTGTTTCAAGGAAAACATATTTAAAGAT
Found at i:1459428 original size:26 final size:25
Alignment explanation
Indices: 1459381--1459434 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
1459371 TTTTCACTGT
1459381 TTTGTTTTTTATTTTTTATTTTCTC
1 TTTGTTTTTTATTTTTTATTTTCTC
*
1459406 TTTGCTTTTTTCTTTATTT-TTTTCTC
1 TTTG-TTTTTTATTT-TTTATTTTCTC
1459432 TTT
1 TTT
1459435 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 19 0.73
27 3 0.12
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.80
Consensus pattern (25 bp):
TTTGTTTTTTATTTTTTATTTTCTC
Found at i:1461025 original size:406 final size:415
Alignment explanation
Indices: 1460248--1461065 Score: 1340
Period size: 406 Copynumber: 2.0 Consensus size: 415
1460238 GCAAATATGA
*
1460248 AAGATTAAAAACGTGTACACACAAGACAATGCTCTCAATGTAAATGGTAGATGCAATGCCCCATT
1 AAGATTAAAAACGTGTACACACAAGACAATACTCTCAATGTAAATGGTAGATGCAATGCCCCATT
*
1460313 CTTCGATTGCCCATGCCCCTGAATCTATCAACTGATCAGGCTCCTGTACTGATTTCAATTTTTCT
66 CTTCGAATGCCCATGCCCCTGAATCTATCAACTGATCAGGCTCCTGTACTGATTTCAATTTTTCT
* * *
1460378 TTTAATTGTTAAAATTTTGCTTCCATCTTCCTTTGCGTAAGTGTTGTGAGGATGACACATGTCCG
131 TTTAATTGTTAAAATTCTGCTTCCATCTTCCTTTGCGTAAGTGTTGTGAGGATGACAAATGTCCA
* *
1460443 AAGCTTGTGGAGGTACGTCCAGTGTTTGTACTCCTTTGTTCATGAAAATCTTTTATTAGTTCGTG
196 AAGCTTGTGGAGGTACATCCAGTGTTTGTACCCCTTTGTTCATGAAAATCTTTTATTAGTTCGTG
* * * *
1460508 TTGATGTAATGAAAAAGAGAAATTATGTGAAATATGCAAGAATGCAGATGCATGAAATGTTCGAG
261 TGGATGCAATGAAAAAGAGAAATTATGTGAAATATGCAAGAATGCAGATGCATGAAATATTCAAG
*
1460573 GCATTGATCCAAAAATATGTATGTTATTGTAAATAATCCTTATTGGGGCCAAAAGTGTTACGTCT
326 GCATTGATCCAAAAATATGTATGTTATTGTAAATAATCCTTATTGGGGCCAAAAGTGTTACATCT
1460638 TAAGAGAC-AAAACATTTTAACATG
391 TAAGAGACAAAAACATTTTAACATG
*
1460662 AAGATT-AAAACGTGTTC-CACAAGACAATACTCTCAATGTAAATGGTAGATGCAATGCCCCATT
1 AAGATTAAAAACGTGTACACACAAGACAATACTCTCAATGTAAATGGTAGATGCAATGCCCCATT
*
1460725 CTTC-AATGTCCA-GCCCCTGAATCTATCAA-TGATCAGGCTCCCACTGTACTGATTTCAATTTT
66 CTTCGAATGCCCATGCCCCTGAATCTATCAACTGATCAGGCT--C-CTGTACTGATTTCAATTTT
1460787 TCTTTTAATTGTT-AAA-TCTGCTT-CATCTTCC-TTGCGT-AGTG-TGTGAGGATGACAAATGT
128 TCTTTTAATTGTTAAAATTCTGCTTCCATCTTCCTTTGCGTAAGTGTTGTGAGGATGACAAATGT
* *
1460846 CCAAAGCTTGTGGAGGTACATCTAGTGTTTGTACCCCTTTGTTCATGAAAATCTTTTGTTAGTTC
193 CCAAAGCTTGTGGAGGTACATCCAGTGTTTGTACCCCTTTGTTCATGAAAATCTTTTATTAGTTC
1460911 GTGTGGATGCAATGAAAAAGAGAAATTATGTGAAATATGCAAGAATGCATGATGCATGAAATATT
258 GTGTGGATGCAATGAAAAAGAGAAATTATGTGAAATATGCAAGAATGCA-GATGCATGAAATATT
1460976 CAAGGCATTGATCCAAAAAATATGT-TGTTATTGT-AATAATCCTTATTGGGGCCAAAAGTGTTA
322 CAAGGCATTGATCC-AAAAATATGTATGTTATTGTAAATAATCCTTATTGGGGCCAAAAGTGTTA
1461039 CATCTTAAGAGACAAAAAACATTTTAA
386 CATCTTAAGAGAC-AAAAACATTTTAA
1461066 AGGTATAGAC
Statistics
Matches: 381, Mismatches: 16, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
406 165 0.43
407 40 0.10
408 28 0.07
409 18 0.05
410 23 0.06
411 10 0.03
412 81 0.21
413 10 0.03
414 6 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (415 bp):
AAGATTAAAAACGTGTACACACAAGACAATACTCTCAATGTAAATGGTAGATGCAATGCCCCATT
CTTCGAATGCCCATGCCCCTGAATCTATCAACTGATCAGGCTCCTGTACTGATTTCAATTTTTCT
TTTAATTGTTAAAATTCTGCTTCCATCTTCCTTTGCGTAAGTGTTGTGAGGATGACAAATGTCCA
AAGCTTGTGGAGGTACATCCAGTGTTTGTACCCCTTTGTTCATGAAAATCTTTTATTAGTTCGTG
TGGATGCAATGAAAAAGAGAAATTATGTGAAATATGCAAGAATGCAGATGCATGAAATATTCAAG
GCATTGATCCAAAAATATGTATGTTATTGTAAATAATCCTTATTGGGGCCAAAAGTGTTACATCT
TAAGAGACAAAAACATTTTAACATG
Found at i:1462671 original size:8 final size:8
Alignment explanation
Indices: 1462658--1462698 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
1462648 AACGTGTTAG
1462658 ATAAAAAA
1 ATAAAAAA
*
1462666 ATAAAAAT
1 ATAAAAAA
1462674 A-AAAAAA
1 ATAAAAAA
1462681 ATAAAAAAA
1 AT-AAAAAA
1462690 ATAAAAAA
1 ATAAAAAA
1462698 A
1 A
1462699 AAGACTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 6 0.21
8 15 0.52
9 8 0.28
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:1462680 original size:9 final size:9
Alignment explanation
Indices: 1462668--1462699 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
1462658 ATAAAAAAAT
1462668 AAAAATAAA
1 AAAAATAAA
1462677 AAAAATAAA
1 AAAAATAAA
1462686 AAAAATAAA
1 AAAAATAAA
1462695 AAAAA
1 AAAAA
1462700 AGACTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAATAAA
Found at i:1462680 original size:15 final size:14
Alignment explanation
Indices: 1462660--1462700 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
1462650 CGTGTTAGAT
1462660 AAAAAAATAAAAATA
1 AAAAAAATAAAAA-A
1462675 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
1462689 AATAAAAA-AAAA
1 AA-AAAAATAAAA
1462701 GACTGAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAAAAATAAAAAA
Found at i:1462870 original size:27 final size:26
Alignment explanation
Indices: 1462808--1462876 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
1462798 TACATAATAA
*
1462808 ACAAGTAAATAAAAAAAGAAGAAAAT
1 ACAAATAAATAAAAAAAGAAGAAAAT
*
1462834 ACAAATAAATAAAACAAAGTAAAGAAGAT
1 ACAAATAAATAAAA-AAAG--AAGAAAAT
1462863 A-AAA-AAATAAAAAA
1 ACAAATAAATAAAAAA
1462877 TAAGGAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 15 0.39
27 12 0.32
28 3 0.08
29 8 0.21
ACGTcount: A:0.75, C:0.04, G:0.09, T:0.12
Consensus pattern (26 bp):
ACAAATAAATAAAAAAAGAAGAAAAT
Found at i:1462874 original size:8 final size:8
Alignment explanation
Indices: 1462814--1462876 Score: 54
Period size: 8 Copynumber: 7.2 Consensus size: 8
1462804 ATAAACAAGT
1462814 AAATAAAA
1 AAATAAAA
* *
1462822 AAAGAAGA
1 AAATAAAA
1462830 AAATACAAA
1 AAATA-AAA
1462839 TAAATAAAA
1 -AAATAAAA
1462848 CAAAGTAAAGA
1 -AAA-TAAA-A
*
1462859 AGATAAAA
1 AAATAAAA
1462867 AAATAAAA
1 AAATAAAA
1462875 AA
1 AA
1462877 TAAGGAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
8 20 0.45
9 12 0.27
10 11 0.25
11 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:1462945 original size:42 final size:42
Alignment explanation
Indices: 1462865--1462946 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 42
1462855 AAGAAGATAA
*
1462865 AAAAATAAAAAATAAGGAATAAAAATAAAAATGAAATAGAGGG
1 AAAAATAAAAAATAAGGAATAAAAAT-AAAATAAAATAGAGGG
*
1462908 AAAAATAAAAAA-AAGGTAAATAGAAAT-AAATAAAATAGA
1 AAAAATAAAAAATAAGG--AATAAAAATAAAATAAAATAGA
1462947 ATAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 15 0.43
43 12 0.34
44 8 0.23
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (42 bp):
AAAAATAAAAAATAAGGAATAAAAATAAAATAAAATAGAGGG
Found at i:1463322 original size:17 final size:20
Alignment explanation
Indices: 1463287--1463323 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
1463277 AAGTATATAT
1463287 AATAATAATAGTAAGAAAAA
1 AATAATAATAGTAAGAAAAA
1463307 AATAA-AATA-TAA-AAAAA
1 AATAATAATAGTAAGAAAAA
1463324 TTGAATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 4 0.24
20 5 0.29
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (20 bp):
AATAATAATAGTAAGAAAAA
Found at i:1463539 original size:389 final size:386
Alignment explanation
Indices: 1463108--1463884 Score: 1331
Period size: 391 Copynumber: 2.0 Consensus size: 386
1463098 TATATATATA
1463108 TAATAATAAAAATAATAATAATACGTATAGATAAAAGAGAGAAAAAAAAT-ATGGTAGG-ATGAA
1 TAATAATAAAAATAATAATAATACGTATAGATAAAAGAGAGAAAAAAAATAATGGTAGGAATGAA
1463171 ATAAAATAAGAT-AAACA-AT-ATGAATATGCATATAAATAAAATGTTTTAAATAATAATAATAA
66 ATAAAATAAGATAAAACATATAATGAATATGCATATAAAT-AAATGTTTTAAATAATAATAAT-A
1463233 ATTAAAAAAAAAAAGATAAAACAAAACAAAATATATAAAATATGAAGTATATATAATAATAATAG
129 ATT-AAAAAAAAAAGATAAAACAAAAC-AAA-ATATAAAATATGAAG--TATAT-A-AATAATAG
1463298 TAAGAAAAAAATAAAATATAAAAAAATTGAATTTTTTAAAGCTCTTCCC-TCCTCTTT-CAAATG
187 TAAGAAAAAAATAAAATATAAAAAAATTGAATTTTTTAAAGCTCTTCCCGTCCTCTTTCCAAATG
1463361 TCCGAACGATTTTCACAAAATAGCCTCGGGG-TCCGTAGATCTAAAAAGTTAGTTTCGAAAAAAA
252 TCCGAACGATTTTCACAAAATAGCCTCGGGGTTCCGTAGATCTAAAAAGTTAGTTTCGAAAAAAA
1463425 AAA-CTCCGGTCATTGGCCTTTTGAGTTTTTGTTGTTTTACAAATCGAAAGTAAGAAACAAACGA
317 AAACCTCCGGTCATTGGCCTTTTGAGTTTTTGTTGTTTTACAAATCGAAAGTAAGAAACAAACGA
1463489 CACAT
382 CACAT
* *
1463494 TAATAATAATAATAATAATAATA-GTATAGATAACTAATAGAGAGAAAAAATATAATGGTAGGAA
1 TAATAATAAAAATAATAATAATACGTATAGAT-A--AA-AGAGAGAAAAAAAATAATGGTAGG--
1463558 AATGAAATAAAATAAGATAAAACATATAATGAATATGCATATAAATAAATGTTTTAAATAATAAT
60 AATGAAATAAAATAAGATAAAACATATAATGAATATGCATATAAATAAATGTTTTAAATAATAAT
1463623 AATAATTAAAAAAAAAAGATAAAACAAAACAAAATATAAAATATGAAGTATATAAATAATAGTAA
125 AATAATTAAAAAAAAAAGATAAAACAAAACAAAATATAAAATATGAAGTATATAAATAATAGTAA
1463688 GAAAAAAATAAAATATAAAAAAATTGAATTTTTTAAAGCTCTTCCCGTCCTCTTTCCAAATGTCC
190 GAAAAAAATAAAATATAAAAAAATTGAATTTTTTAAAGCTCTTCCCGTCCTCTTTCCAAATGTCC
1463753 GAACGATTTTCACAAAATAGCCTCGGGGTTCCGTAGATCTAAAAAGTTAGTTTCGAAAAAAAAAA
255 GAACGATTTTCACAAAATAGCCTCGGGGTTCCGTAGATCTAAAAAGTTAGTTTCGAAAAAAAAAA
1463818 CCTCCGGTCATTGGCCTTTTGAGTTTTTGTTGTTTTACAAATCGAAAGTAAGAAACAAACGACAC
320 CCTCCGGTCATTGGCCTTTTGAGTTTTTGTTGTTTTACAAATCGAAAGTAAGAAACAAACGACAC
1463883 AT
385 AT
1463885 GCAAGCCTAA
Statistics
Matches: 374, Mismatches: 2, Indels: 25
0.93 0.00 0.06
Matches are distributed among these distances:
385 8 0.02
386 23 0.06
387 57 0.15
388 11 0.03
389 56 0.15
390 44 0.12
391 81 0.22
392 3 0.01
393 40 0.11
394 9 0.02
395 24 0.06
396 18 0.05
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (386 bp):
TAATAATAAAAATAATAATAATACGTATAGATAAAAGAGAGAAAAAAAATAATGGTAGGAATGAA
ATAAAATAAGATAAAACATATAATGAATATGCATATAAATAAATGTTTTAAATAATAATAATAAT
TAAAAAAAAAAGATAAAACAAAACAAAATATAAAATATGAAGTATATAAATAATAGTAAGAAAAA
AATAAAATATAAAAAAATTGAATTTTTTAAAGCTCTTCCCGTCCTCTTTCCAAATGTCCGAACGA
TTTTCACAAAATAGCCTCGGGGTTCCGTAGATCTAAAAAGTTAGTTTCGAAAAAAAAAACCTCCG
GTCATTGGCCTTTTGAGTTTTTGTTGTTTTACAAATCGAAAGTAAGAAACAAACGACACAT
Found at i:1469262 original size:167 final size:164
Alignment explanation
Indices: 1468966--1469296 Score: 610
Period size: 167 Copynumber: 2.0 Consensus size: 164
1468956 ACATATCATT
1468966 AATCGCACGGATAAGCAGTTGGGATCCGTCTCGTTTCCAAGGTCTTCCAGATCGTACGCGGGGAA
1 AATCGCACGGATAAGCAGTTGGGATCCGTCTCGTTTCCAAGGTCTTCCAGATCGTACGCGGGGAA
1469031 CGCTATCATACGCCTTCTCAAGGTCATGAACGCCATGTGAAGATCTCTATTTTTCCCCTATATTT
66 CGCTATCATACGCCTTCTCAAGGTCATGAACGCCATGTGAAGATCTCTATTTTTCCCCTATATTT
1469096 CTCCATAAGCCGTCGAAGTAGATGAATCGCCTCC
131 CTCCATAAGCCGTCGAAGTAGATGAATCGCCTCC
*
1469130 AATCGCACGGATATAAGCAGTTGGGATCCGTCTCGTTTCCAAGGTCTTCTAGATCGTATCGCGGG
1 AATCGCACGG--ATAAGCAGTTGGGATCCGTCTCGTTTCCAAGGTCTTCCAGATCGTA-CGCGGG
1469195 GAACGCTATCATACGCCTTCTCAAGGTCAATGAACGCCATGTGAAGATCTCTATTTTT-CCCTAT
63 GAACGCTATCATACGCCTTCTCAAGGTC-ATGAACGCCATGTGAAGATCTCTATTTTTCCCCTAT
1469259 ATTTCTCCATAAGCCGTCGAAGTAGATGAATCGCCTCC
127 ATTTCTCCATAAGCCGTCGAAGTAGATGAATCGCCTCC
1469297 GTAGTAGACC
Statistics
Matches: 162, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
164 10 0.06
166 45 0.28
167 78 0.48
168 29 0.18
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (164 bp):
AATCGCACGGATAAGCAGTTGGGATCCGTCTCGTTTCCAAGGTCTTCCAGATCGTACGCGGGGAA
CGCTATCATACGCCTTCTCAAGGTCATGAACGCCATGTGAAGATCTCTATTTTTCCCCTATATTT
CTCCATAAGCCGTCGAAGTAGATGAATCGCCTCC
Found at i:1481782 original size:33 final size:35
Alignment explanation
Indices: 1481723--1481796 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 35
1481713 TACCTGAACC
1481723 GGATCAATAAGAGAGTAAAATTCCCTTAACCACT-
1 GGATCAATAAGAGAGTAAAATTCCCTTAACCACTG
*
1481757 GGATCAATCAGAGAGT-AAATTCCCTTAACCACTG
1 GGATCAATAAGAGAGTAAAATTCCCTTAACCACTG
1481791 GGATCA
1 GGATCA
1481797 CTCCAAAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 17 0.45
34 21 0.55
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.23
Consensus pattern (35 bp):
GGATCAATAAGAGAGTAAAATTCCCTTAACCACTG
Found at i:1482967 original size:31 final size:31
Alignment explanation
Indices: 1482929--1482988 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1482919 CGAGTGATCG
1482929 ATTTGTTACAAATCAACAACATTAGTAACTA
1 ATTTGTTACAAATCAACAACATTAGTAACTA
* * *
1482960 ATTTGTTACAAATCGATAACATTTGTAAC
1 ATTTGTTACAAATCAACAACATTAGTAAC
1482989 ACCCTTAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (31 bp):
ATTTGTTACAAATCAACAACATTAGTAACTA
Found at i:1483660 original size:15 final size:15
Alignment explanation
Indices: 1483640--1483672 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1483630 TGTAGGACCC
1483640 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
1483655 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
1483670 CTA
1 CTA
1483673 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:1483821 original size:23 final size:26
Alignment explanation
Indices: 1483784--1483852 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
1483774 TTCTCTTGTG
1483784 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
1483808 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
1483833 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
1483853 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:1483834 original size:12 final size:12
Alignment explanation
Indices: 1483817--1483852 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1483807 TATCATGTTC
1483817 TCATATCACATG
1 TCATATCACATG
*
1483829 TCATATCACATA
1 TCATATCACATG
1483841 TCATATCACATG
1 TCATATCACATG
1483853 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:1484267 original size:64 final size:62
Alignment explanation
Indices: 1484159--1484384 Score: 220
Period size: 64 Copynumber: 3.5 Consensus size: 62
1484149 TAATGAAGGT
* * * ** ** *
1484159 ATGCATTGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTACTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTATTATTA-TGGG
*
1484223 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTT-ATTATT-ATGGG
* * ** ***
1484287 ATGCATCGATGCACTACTTATGCATTGATGAATGAATTGCATTCGATGTTT-TTATTTTAAAAG
1 ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTATTA--TTATGGG
* *
1484350 AGTGCATCGATGCACTACTAATGCATCGATACACC
1 A-TGCATCGATGCACTACTTATGCATCGATGCACC
1484385 TTCAAACAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
62 3 0.02
63 5 0.04
64 125 0.93
65 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTATTATTATGGG
Found at i:1489216 original size:3 final size:3
Alignment explanation
Indices: 1489200--1489296 Score: 140
Period size: 3 Copynumber: 31.7 Consensus size: 3
1489190 TTTGGGCTTG
* * * *
1489200 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1489247 TAA TAA TAA TAA TAA TAA 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 TAA
1489295 TA
1 TA
1489297 TAAATATTTA
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
3 80 0.94
4 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1489652 original size:113 final size:113
Alignment explanation
Indices: 1489441--1489656 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 113
1489431 GTTGAATAAA
* ** * *
1489441 TTCTTCTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATAATCCATCA
1 TTCTTCTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGGAAAAGAGAATCCATCA
* *
1489506 AGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 AGTGATAAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
* * * * *
1489554 TTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCCTCTGGAAAAGCGGATCTATC
1 TTCTTC-TCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGGAAAAGAGAATCCATC
**
1489618 AAGTGATGGATTTAAGCAAAAAGTTGAACAAATTCTTCT
65 AAGTGATAAATTTAAGCAAAAAGTTGAACAAATTCTTCT
1489657 TCAGATGACG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 57 0.65
114 31 0.35
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
TTCTTCTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGGAAAAGAGAATCCATCA
AGTGATAAATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
Found at i:1489717 original size:92 final size:89
Alignment explanation
Indices: 1489563--1489748 Score: 209
Period size: 92 Copynumber: 2.1 Consensus size: 89
1489553 CTTCTTCATC
* * * *
1489563 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAGTGATGGA
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAAGCGAATCCATCAAGTGATGAA
1489628 TTTAAGCAAA-AA-GTTGAACAAATT
66 TTTAA--AAATAAGGTTGAACAAATT
* * **
1489652 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCCATCATA-TG
1 CTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TACTCTGGAAAAGCGAATCCATCA-AGTG
1489715 ATGAATTTAAAAATAAGGTTGAACAAATT
61 ATGAATTTAAAAATAAGGTTGAACAAATT
1489744 CTTCT
1 CTTCT
1489749 CATTATGAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
89 11 0.13
90 3 0.04
91 2 0.02
92 63 0.77
93 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (89 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTTACTCTGGAAAAGCGAATCCATCAAGTGATGAA
TTTAAAAATAAGGTTGAACAAATT
Found at i:1489791 original size:113 final size:113
Alignment explanation
Indices: 1489652--1490087 Score: 545
Period size: 113 Copynumber: 3.8 Consensus size: 113
1489642 TGAACAAATT
* * * *
1489652 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGAT
1 CTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGAT
*
1489717 GAATTT-AAAAATAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTC
63 GAATTTGAAAAA-AAGATTGAACAAATTCTTCTCATTATGAACTTATTCTTC
* * *
1489768 CTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCCATCAAATGATGG
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAAGCTAATCCATCAAATGATGA
** * *
1489832 ATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTC
65 ATTTGAAAAAAAGATTGAACAAATTCTTCTCATTATGAACTTATTCTTC
* * * * * * *
1489881 TTTCTTCAGATGAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAA
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGATGAA
*
1489946 TTT-AAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTC
66 TTTGAAA-AAAAGATTGAACAAATTCTTCTCATTATGAACTTATTCTTC
* * * * * *
1489994 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCCCTGGAAAAGCTGATCTATCAAATGATGGA
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGATGAA
**
1490059 TTTGAGCAAAAGATTGAACAAATTCTTCT
66 TTTGAAAAAAAGATTGAACAAATTCTTCT
1490088 TCAGATGACG
Statistics
Matches: 272, Mismatches: 43, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
112 3 0.01
113 253 0.93
114 5 0.02
116 11 0.04
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGATGAA
TTTGAAAAAAAGATTGAACAAATTCTTCTCATTATGAACTTATTCTTC
Found at i:1489813 original size:205 final size:204
Alignment explanation
Indices: 1489460--1490230 Score: 944
Period size: 205 Copynumber: 3.7 Consensus size: 204
1489450 TTCTTCAAAT
* * ** * * **
1489460 GAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATAATCCATCAAGTGATAAATTTGAGCAA-
1 GAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTAATCCATCAA-TGATGAATTT-AAAAAT
* *
1489524 AAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTA
63 AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * *
1489589 TGAACTTCCTCTGGAAAAGCGGATCTATCAAGTGATGGATTTAAGCAAAA-AGTTGAACAAATTC
128 TGAACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGCAAAAGA-TTGAACAAATTC
1489653 TTCTTCAGATGAC
192 TTCTTCAGATGAC
1489666 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGATGAATTTAAAAATAA
1 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCA-ATGATGAATTTAAAAATAA
1489731 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
65 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
*
1489796 AACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
130 AACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
*
1489861 -TCATTATGA-
195 TTCA-GATGAC
* * * * * *
1489870 -ATTTCTTCTTCTTTCTTCAGATGAGTTATTCTCATTATGAACTCG-ACCTGGCAATGTTAATCC
1 GAGTTCTTC-TC---ATT---ATGA---A--CTC----T-ACCTGGCA-AT-G--TT---AATCC
1489933 ATCATATGATGAATTTAAACAA-AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTT
42 ATCA-ATGATGAATTTAAA-AATAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTT
* *
1489997 CTTCAGATGAGTTCTTCTTATTATGAACTTTCCCTGGAAAAGCTGATCTATCAAATGATGGATTT
105 CTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTT
1490062 GAGCAAAAGATTGAACAAATTCTTCTTCAGATGAC
170 GAGCAAAAGATTGAACAAATTCTTCTTCAGATGAC
1490097 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGATGAATTTAAAAATAA
1 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCA-ATGATGAATTTAAAAATAA
* * * *
1490162 GGTTGAACAAATTCTTCTCATTGTGAACTTATTCTTCCTTCTTCAGATGAGTTATTCTTATTTTG
65 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
1490227 AACT
130 AACT
1490231 CGACCTGGCA
Statistics
Matches: 496, Mismatches: 35, Indels: 69
0.83 0.06 0.12
Matches are distributed among these distances:
203 7 0.01
204 10 0.02
205 245 0.49
206 25 0.05
207 2 0.00
208 1 0.00
210 5 0.01
211 5 0.01
212 2 0.00
213 1 0.00
215 3 0.01
216 3 0.01
218 1 0.00
219 2 0.00
220 5 0.01
221 5 0.01
223 1 0.00
224 2 0.00
226 157 0.32
227 7 0.01
228 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (204 bp):
GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAATGATGAATTTAAAAATAAG
GTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTTTCTCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTCT
TCAGATGAC
Found at i:1489930 original size:226 final size:226
Alignment explanation
Indices: 1489666--1490087 Score: 783
Period size: 226 Copynumber: 1.9 Consensus size: 226
1489656 TTCAGATGAC
* *
1489666 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGATGAATTTAAA-AATA
1 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAA-A
1489730 AGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
65 AGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
*
1489795 GAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTT
130 GAACTTTCCCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTT
1489860 CTCATTATGAATTTCTTCTTCTTTCTTCAGAT
195 CTCATTATGAATTTCTTCTTCTTTCTTCAGAT
1489892 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
1 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
*
1489957 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATG
66 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
*
1490022 AACTTTCCCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
131 AACTTTCCCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
1490087 T
196 T
1490088 TCAGATGACG
Statistics
Matches: 190, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
226 188 0.99
227 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (226 bp):
GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG
AACTTTCCCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
TCATTATGAATTTCTTCTTCTTTCTTCAGAT
Found at i:1490147 original size:92 final size:89
Alignment explanation
Indices: 1489994--1490179 Score: 212
Period size: 92 Copynumber: 2.1 Consensus size: 89
1489984 CTTATTCTTC
* * * * * *
1489994 CTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCCCTGGAAAAGCTGATCTATCAAATGATGGA
1 CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGATGAA
**
1490059 TTTGAGCAA-AAGATTGAACAAATT
66 TTT-AAAAATAAGATTGAACAAATT
* * * *
1490083 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGAT
1 CTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGAT
*
1490148 GAATTTAAAAATAAGGTTGAACAAATT
63 GAATTTAAAAATAAGATTGAACAAATT
1490175 CTTCT
1 CTTCT
1490180 CATTGTGAAC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
89 11 0.14
91 3 0.04
92 66 0.82
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (89 bp):
CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGCTAATCCATCAAATGATGAA
TTTAAAAATAAGATTGAACAAATT
Found at i:1490251 original size:431 final size:431
Alignment explanation
Indices: 1489441--1490268 Score: 1333
Period size: 431 Copynumber: 1.9 Consensus size: 431
1489431 GTTGAATAAA
* *** **
1489441 TTCTTCTCTTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATAATCCATCA
1 TTCTTCTCTTTCTTCAAATGAGTTATTCTCATTATGAACTCGACGCTGGCAATGATAATCCATCA
* * *
1489506 AGTGATAAATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCA
66 AGTGATAAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCATCCTTCTTCA
*
1489571 GATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAGTGATGGATTTAAGCA
131 GATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAAGCA
1489636 AAAAGTTGAACAAATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGT
196 AAAAGTTGAACAAATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGT
1489701 TAATCCATCATATGATGAATTTAAAAATAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCT
261 TAATCCATCATATGATGAATTTAAAAATAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCT
* **
1489766 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATG
326 TCCTTCTTCAGATGAGTTATTCTCATTATGAACTGACTCTGGAAAAGCTGATCCATCAAATGATG
1489831 GATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAAT
391 GATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAAT
* *
1489872 TTCTTCTTCTTTCTTCAGATGAGTTATTCTCATTATGAACTCGAC-CTGGCAATGTTAATCCATC
1 TTCTTC-TCTTTCTTCAAATGAGTTATTCTCATTATGAACTCGACGCTGGCAATGATAATCCATC
* *
1489936 ATA-TGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTT
65 A-AGTGATAAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCATCCTTCTT
* * *
1490000 CAGATGAGTTCTTCTTATTATGAACTTTCC-CTGGAAAAGCTGATCTATCAAATGATGGATTTGA
129 CAGATGAGTTCTTCTCATTATGAAC-TTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAA
1490064 GC-AAAAGATTGAACAAATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCA
193 GCAAAAAG-TTGAACAAATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCA
*
1490128 ATGTTAATCCATCATATGATGAATTTAAAAATAAGGTTGAACAAATTCTTCTCATTGTGAACTTA
257 ATGTTAATCCATCATATGATGAATTTAAAAATAAGGTTGAACAAATTCTTCTCATTATGAACTTA
* * * * * *
1490193 TTCTTCCTTCTTCAGATGAGTTATTCTTATTTTGAACTCGAC-CTGGCAATGTTGATCCATCGAA
322 TTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACT-GACTCTGGAAAAGCTGATCCATCAAA
1490257 TGATGGATTTGA
386 TGATGGATTTGA
1490269 ATCTTTGCTA
Statistics
Matches: 365, Mismatches: 27, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
430 5 0.01
431 321 0.88
432 39 0.11
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (431 bp):
TTCTTCTCTTTCTTCAAATGAGTTATTCTCATTATGAACTCGACGCTGGCAATGATAATCCATCA
AGTGATAAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCATCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTTCCTCTGGAAAAGCGGATCTATCAAATGATGGATTTAAGCA
AAAAGTTGAACAAATTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGT
TAATCCATCATATGATGAATTTAAAAATAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCT
TCCTTCTTCAGATGAGTTATTCTCATTATGAACTGACTCTGGAAAAGCTGATCCATCAAATGATG
GATTTGAGCAAAAGATTGAACAAATTCTTCTCATTATGAAT
Found at i:1490261 original size:205 final size:205
Alignment explanation
Indices: 1489892--1490268 Score: 621
Period size: 205 Copynumber: 1.8 Consensus size: 205
1489882 TTCTTCAGAT
1489892 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
1 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
*
1489957 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTTATTATG
66 GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTATTCTTATTATG
*** *
1490022 AACTTTCCCTGGAAAAGCTGATCTATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
131 AACTCGACCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
1490087 TTCAGATGAC
196 TTCAGATGAC
* *
1490097 GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCATATGATGAATTTAAA-AATA
1 GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAA-A
* *
1490161 AGGTTGAACAAATTCTTCTCATTGTGAACTTATTCTTCCTTCTTCAGATGAGTTATTCTTATTTT
65 AGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTATTCTTATTAT
* * * *
1490226 GAACTCGACCTGGCAATGTTGATCCATCGAATGATGGATTTGA
130 GAACTCGACCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
1490269 ATCTTTGCTA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
204 2 0.01
205 156 0.99
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (205 bp):
GAGTTATTCTCATTATGAACTCGACCTGGCAATGTTAATCCATCATATGATGAATTTAAACAAAA
GGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTATTCTTATTATG
AACTCGACCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAATTCTTC
TTCAGATGAC
Found at i:1491438 original size:84 final size:85
Alignment explanation
Indices: 1491079--1491484 Score: 701
Period size: 85 Copynumber: 4.8 Consensus size: 85
1491069 TTGGGGTTCA
1491079 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1491144 CCAAATTCAATAACTAGTTT
66 CCAAATTCAATAACTAGTTT
*
1491164 TACCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1491229 CCAAATTCAATAACTAGTTT
66 CCAAATTCAATAACTAGTTT
*
1491249 TACCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
* *
1491314 CCAAATTCAATAATTGGTTT
66 CCAAATTCAATAACTAGTTT
* *
1491334 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCATATTCATCTAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCT-T
* *
1491398 T-CAAATTCAATAATTGGTTT
65 TCCAAATTCAATAACTAGTTT
*
1491418 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
1491482 CCA
66 CCA
1491485 GCTAATGTTT
Statistics
Matches: 312, Mismatches: 7, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
83 2 0.01
84 95 0.30
85 215 0.69
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (85 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTT
CCAAATTCAATAACTAGTTT
Found at i:1498208 original size:27 final size:27
Alignment explanation
Indices: 1498170--1498234 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
1498160 GGCCTGAATT
1498170 GTTGTGGAATTATACCGGCTAAAGAGA
1 GTTGTGGAATTATACCGGCTAAAGAGA
1498197 GTTGTGGAATTATACCGGCTAAAGAGA
1 GTTGTGGAATTATACCGGCTAAAGAGA
1498224 GTTGTTGGAAT
1 GTTG-TGGAAT
1498235 ACCCAAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 31 0.84
28 6 0.16
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (27 bp):
GTTGTGGAATTATACCGGCTAAAGAGA
Found at i:1504947 original size:3 final size:3
Alignment explanation
Indices: 1504931--1505018 Score: 104
Period size: 3 Copynumber: 28.7 Consensus size: 3
1504921 TTTGGGCTTG
* * * *
1504931 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAG TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* *
1504978 TTA TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1505019 TAAATATTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
3 67 0.93
4 5 0.07
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1507180 original size:15 final size:15
Alignment explanation
Indices: 1507160--1507189 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1507150 GGACCCCTAC
1507160 ATCCCGAAGGACTAT
1 ATCCCGAAGGACTAT
1507175 ATCCCGAAGGACTAT
1 ATCCCGAAGGACTAT
1507190 TATACCCTCG
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:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (15 bp):
ATCCCGAAGGACTAT
Found at i:1507337 original size:23 final size:26
Alignment explanation
Indices: 1507300--1507368 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
1507290 TTCTCTTGTG
1507300 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
1507324 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
1507349 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
1507369 AACATACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:1507350 original size:12 final size:12
Alignment explanation
Indices: 1507333--1507368 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
1507323 TATCATGTTC
1507333 TCATATCACATG
1 TCATATCACATG
*
1507345 TCATATCACATA
1 TCATATCACATG
1507357 TCATATCACATG
1 TCATATCACATG
1507369 AACATACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:1507894 original size:64 final size:64
Alignment explanation
Indices: 1507671--1507901 Score: 225
Period size: 64 Copynumber: 3.6 Consensus size: 64
1507661 TCTTTTAATG
* * ** ** * *
1507671 AAGGTATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATT-ATTATTG
1 AAGG-ATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGT-TTCATTATTA
*
1507735 C
64 A
** * *
1507736 TGGGATGCATCGATGCACTCCTTATGCATCAATGCACCAATTGCATTCGATGTTTCATTATTAA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAA
** ** *
1507800 TTGGATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAA
1 AAGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATG-TTTCATTATTAA
* *
1507864 AA-GAGTGCATCGATGCACTACTAATGCATCGATACACC
1 AAGGA-TGCATCGATGCACTACTTATGCATCGATGCACC
1507902 TTCAAACAAT
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
63 4 0.03
64 126 0.91
65 8 0.06
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
AAGGATGCATCGATGCACTACTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAA
Found at i:1517830 original size:31 final size:31
Alignment explanation
Indices: 1517785--1517862 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
1517775 TAAATTACGC
* * *
1517785 ATTTAGTATCTAAACTATCGGTTTTGATCCG
1 ATTTAATACCTAAACTATCGGTTTTAATCCG
*
1517816 ATTTAATACTTAAACTATCGGTTTTAATCCG
1 ATTTAATACCTAAACTATCGGTTTTAATCCG
*
1517847 ATTTAGTACCTAAACT
1 ATTTAATACCTAAACT
1517863 TTTAATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (31 bp):
ATTTAATACCTAAACTATCGGTTTTAATCCG
Found at i:1525867 original size:37 final size:37
Alignment explanation
Indices: 1525824--1525894 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
1525814 GGCAACCAAC
1525824 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
1 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
* * *
1525861 TTTGAAAAATTGTTTTTCAAAGTTTGGTAGATGT
1 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGT
1525895 CTATTGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (37 bp):
TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTT
Found at i:1525902 original size:36 final size:37
Alignment explanation
Indices: 1525825--1525904 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
1525815 GCAACCAACT
* *
1525825 TTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTTT
1 TTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTCTA
* * *
1525862 TTGAAAAATTGTTTTTCAAAGTTTGGTAGATG-TCTA
1 TTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTCTA
1525898 TTGAAAA
1 TTGAAAA
1525905 TGATAATGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 9 0.24
37 29 0.76
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.44
Consensus pattern (37 bp):
TTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTCTA
Found at i:1537024 original size:16 final size:16
Alignment explanation
Indices: 1536995--1537031 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
1536985 TGCTGTGTTC
1536995 TCTTTCTCTGTTTTTT
1 TCTTTCTCTGTTTTTT
1537011 TCTTT-TCTGTTTTTT
1 TCTTTCTCTGTTTTTT
1537026 T-TTTCT
1 TCTTTCT
1537032 TGTCGTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 3 0.15
15 12 0.60
16 5 0.25
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.78
Consensus pattern (16 bp):
TCTTTCTCTGTTTTTT
Found at i:1537306 original size:27 final size:27
Alignment explanation
Indices: 1537270--1537333 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1537260 GCAGTGAGGC
* *
1537270 GGCGGCTGGGATTCTTGAAGTATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
1537297 GGCGGCTGGGATTCTGGAAGCATCAGA
1 GGCGGCTGGGATTCTGGAAGCATCAGA
1537324 GGCGGCTGGG
1 GGCGGCTGGG
1537334 GGTGGCTAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.19, C:0.17, G:0.44, T:0.20
Consensus pattern (27 bp):
GGCGGCTGGGATTCTGGAAGCATCAGA
Found at i:1537459 original size:3 final size:3
Alignment explanation
Indices: 1537451--1537561 Score: 150
Period size: 3 Copynumber: 36.7 Consensus size: 3
1537441 TTATTTATTA
* * *
1537451 AAT AAT AAT AAT ATAT AAT ATT GAT AAT AAT AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * **
1537497 AAT AAT AAT AAT TAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT TTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1537545 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
1537562 ATTTAAATGA
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 90 0.97
4 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:1538334 original size:112 final size:111
Alignment explanation
Indices: 1538190--1539262 Score: 768
Period size: 113 Copynumber: 9.2 Consensus size: 111
1538180 ATCTCCTTCT
* * * *
1538190 GTGATAGAATT-ATGCAAAAAGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCCTTCTTCA
1 GTGAT-GAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
1538254 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGCTGCTCCATCAA
65 GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA-CTGATCCATCAA
* ** *
1538302 GTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
1538367 ATGAGTTCTTCTTATTATGAACCTTTTCTGGCAAAAATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAA-CTTCTCTGG-AAAACTGATCCATCAA
1538415 GTGATGAATTC-AGACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATGAATTCAAG-CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * * *
1538479 GATGAGTTCTTCTCATTATGGACTTCTCTGGCAAAAATAATCCATC-T
65 GATGAGTTCTTCTCATTATGAACTTCTCTGG-AAAACTGATCCATCAA
* * * * * ****** * ** * *
1538526 G-GCA-AAAAT-AATCCATCAAGTGATGAATTCAGAAAAAAGGT--TGAACAAATTCTTC-TCAT
1 GTG-ATGAATTCAA-GCA-AAAG-GTTGAA--CA-AATTCTTCTCATTATGAACTTCTTCTTCCT
* ** ** *** * * * ** **
1538585 TATGAACTTCTTCTTCCTTCTTCA-GATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGTTGA
59 TCTTCAGAT-GAGTT-CTTC-TCATTATGA--ACTTCTC--T-GGAA---AACT-G---A-TCCA
1538649 TTCATCAA
108 T----CAA
* ** *
1538657 GTGATGGATTTGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
1538722 ATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGCAACAA-TAATCCATCAA
66 AT---GAGTTCTTCTCATTATGAACT-T--CTCTGG-AA-AACTGATCCATCAA
* *
1538775 GTGATGAATTCAAACAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 GTGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
1538840 GATGAGTTCTTCTCATTATGAAC-TCTACCTGGAAAGGCTGATCCAGCAA
65 GATGAGTTCTTCTCATTATGAACTTCT--CTGGAAA-ACTGATCCATCAA
* * *
1538889 ATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAA
1 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--
*
1538954 ATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGAAATACTGAAT-CATCGAA
64 A-GATGAGTTCTTCTCATTATGAACT-T--CTCTGGAAA-ACTG-ATCCATC-AA
* *
1539008 -TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1539071 GATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGAAATACTGAAT-CATCGAA
65 GAT---GAGTTCTTCTCATTATGAACT-T--CTCTGGAAA-ACTG-ATCCATC-AA
*
1539126 -TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 GTGATGAATTCAAGC-AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
*
1539189 GATGAGTTCTTCTCATTATGAAC-TCGAACTGGAAATACTGAAT-CATCGAA
65 GATGAGTTCTTCTCATTATGAACTTC--TCTGGAAA-ACTG-ATCCATC-AA
1539239 -TGATGAATTCAAGCGAAAA-GTTGA
1 GTGATGAATTCAAGC-AAAAGGTTGA
1539263 TCCATCATAT
Statistics
Matches: 782, Mismatches: 113, Indels: 131
0.76 0.11 0.13
Matches are distributed among these distances:
110 7 0.01
111 10 0.01
112 115 0.15
113 203 0.26
114 38 0.05
115 29 0.04
116 49 0.06
118 198 0.25
119 59 0.08
120 2 0.00
121 1 0.00
122 3 0.00
123 1 0.00
125 1 0.00
126 3 0.00
127 3 0.00
128 2 0.00
129 13 0.02
130 20 0.03
131 13 0.02
132 11 0.01
133 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (111 bp):
GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCTCTGGAAAACTGATCCATCAA
Found at i:1538528 original size:18 final size:18
Alignment explanation
Indices: 1538505--1538542 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1538495 TATGGACTTC
1538505 TCTGGCAAAAATAATCCA
1 TCTGGCAAAAATAATCCA
1538523 TCTGGCAAAAATAATCCA
1 TCTGGCAAAAATAATCCA
1538541 TC
1 TC
1538543 AAGTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (18 bp):
TCTGGCAAAAATAATCCA
Found at i:1538564 original size:130 final size:129
Alignment explanation
Indices: 1538393--1538643 Score: 475
Period size: 130 Copynumber: 1.9 Consensus size: 129
1538383 ATGAACCTTT
*
1538393 TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACAAATTCTTCTCATTAT
1 TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTAT
*
1538458 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGGACTTCTCTGGCAAAAATAATCCA
66 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGG-AAAAATAATCCA
1538523 TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTAT
1 TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTAT
1538588 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
66 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAA
1538644 GTTGATTCAT
Statistics
Matches: 119, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
129 4 0.03
130 115 0.97
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (129 bp):
TCTGGCAAAAATAATCCATCAAGTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTAT
GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAATAATCCA
Found at i:1539041 original size:118 final size:115
Alignment explanation
Indices: 1538546--1539262 Score: 924
Period size: 118 Copynumber: 6.2 Consensus size: 115
1538536 ATCCATCAAG
**
1538546 TGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1538610 ATGAGTTCTTCTCATTATGAACT-T-CTCTGGAAA-AGTTGATTCATC-AA
66 ACGAGTTCTTCTCATTATGAACTCTACTCTGGAAATA-CTGAATCATCGAA
* ** *
1538657 GTGATGGATTTGAGC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 -TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC-
* * *
1538721 GATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGCAACAAT-AATCCATC-AA
64 -A-GACGAGTTCTTCTCATTATGAACTCTA-CTCTGGAAATACTGAAT-CATCGAA
* * *
1538775 GTGATGAATTCAAACAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 -TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* ** * *
1538840 GATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAGGCTG-ATCCAGCAAA
65 GACGAGTTCTTCTCATTATGAACTCTACTCTGGAAATACTGAAT-CATCGAA
* *
1538890 TGATGGATTCAAG-TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAA
1 TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--
1538954 ATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGAAATACTGAATCATCGAA
64 A-GACGAGTTCTTCTCATTATGAACTCTA-CTCTGGAAATACTGAATCATCGAA
* *
1539008 TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--
1539072 ATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGAAATACTGAATCATCGAA
64 A-GACGAGTTCTTCTCATTATGAACTCTA-CTCTGGAAATACTGAATCATCGAA
*
1539126 TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * *
1539190 ATGAGTTCTTCTCATTATGAACTCGA-ACTGGAAATACTGAATCATCGAA
66 ACGAGTTCTTCTCATTATGAACTCTACTCTGGAAATACTGAATCATCGAA
1539239 TGATGAATTCAAGCGAAAA-GTTGA
1 TGATGAATTCAAGCGAAAAGGTTGA
1539263 TCCATCATAT
Statistics
Matches: 548, Mismatches: 38, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
112 55 0.10
113 95 0.17
114 25 0.05
115 52 0.09
116 54 0.10
117 4 0.01
118 210 0.38
119 53 0.10
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (115 bp):
TGATGAATTCAAGCGAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ACGAGTTCTTCTCATTATGAACTCTACTCTGGAAATACTGAATCATCGAA
Found at i:1539234 original size:231 final size:227
Alignment explanation
Indices: 1538546--1539262 Score: 961
Period size: 231 Copynumber: 3.1 Consensus size: 227
1538536 ATCCATCAAG
*
1538546 TGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * **
1538610 ATGAGTTCTTCTCATTATGAACT-T-CTCTGGAAAAGTTGATTCATCAAGTGATGGATTTGAGCA
66 ATGAGTTCTTCTCATTATGAACTCTACTCTGGAAAA-CTGAATCATCAA-TGATGGATTCAAGCA
1538673 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTC
129 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTC
* * *
1538738 ATTATGAACTCTACCTCTGGCAACAAT-AATCCATC-AA
191 ATTATGAACTCTA-CTCTGGAAATACTGAAT-CATCGAA
* *
1538775 GTGATGAATTCAAACAAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 -TGATGAATTCAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
1538840 GATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAAGGCTG-ATCCAGCAAATGATGGATTCAAG
65 GATGAGTTCTTCTCATTATGAACTCTACTCTGGAAA-ACTGAAT-CATC-AATGATGGATTCAAG
* * *
1538903 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGACGAGTTCTTC
127 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTC
1538968 TCATTATGAACTCTACCTCTGGAAATACTGAATCATCGAA
189 TCATTATGAACTCTA-CTCTGGAAATACTGAATCATCGAA
* * *
1539008 TGATGAATTCAAGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
*
1539072 ATGACGAGTTCTTCTCATTATGAACTCTACCTCTGGAAATACTGAATCATCGAATGATGAATTCA
66 AT---GAGTTCTTCTCATTATGAACTCTA-CTCTGGAAA-ACTGAATCATC-AATGATGGATTCA
1539137 AGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
125 AGC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
1539201 TCATTATGAACTCGA-ACTGGAAATACTGAATCATCGAA
189 TCATTATGAACTCTACTCTGGAAATACTGAATCATCGAA
*
1539239 TGATGAATTCAAGCGAAAA-GTTGA
1 TGATGAATTCAAGCAAAAAGGTTGA
1539263 TCCATCATAT
Statistics
Matches: 439, Mismatches: 30, Indels: 35
0.87 0.06 0.07
Matches are distributed among these distances:
230 10 0.02
231 165 0.38
232 127 0.29
233 33 0.08
234 26 0.06
235 3 0.01
236 69 0.16
237 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (227 bp):
TGATGAATTCAAGCAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACTCTACTCTGGAAAACTGAATCATCAATGATGGATTCAAGCAAA
AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTACTCTGGAAATACTGAATCATCGAA
Found at i:1539708 original size:22 final size:22
Alignment explanation
Indices: 1539683--1539737 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1539673 CATAAAGTTT
*
1539683 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
1539705 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1539727 TCATCTTTGAA
1 TCATCTTTGAA
1539738 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1540232 original size:54 final size:54
Alignment explanation
Indices: 1540108--1540308 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 54
1540098 CACTGGTTCA
* * *
1540108 TAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-TC-GA-G-ATG
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGCTCAGATGTTTG
*
1540158 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
* * **
1540212 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGATGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGATGTTTG
* *
1540266 TAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1540309 CAAGATTTCT
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
50 33 0.25
51 7 0.05
52 2 0.02
53 5 0.04
54 80 0.61
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTTG
Found at i:1542605 original size:84 final size:84
Alignment explanation
Indices: 1542464--1543103 Score: 1155
Period size: 84 Copynumber: 7.7 Consensus size: 84
1542454 ATTCCTACCG
* * *
1542464 AACCAGATCAGATAACTCAAAGAACATTTCCAAAAGATGCTATTGAACACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
* *
1542529 TCAATGATTAG-TCTTGTTC
66 TCAATGATTGGTTC-TGTCC
1542548 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
*
1542613 TCAATGATTAGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
1542632 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
*
1542697 TCAATGATTAGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
1542716 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1542781 TCAATGATTGG-TCTTGTCC
66 TCAATGATTGGTTC-TGTCC
1542800 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1542865 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
1542884 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1542949 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
*
1542968 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTA-TATT-C-AAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
1543030 TCAATGATTGGTTCTGTCC
66 TCAATGATTGGTTCTGTCC
1543049 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTAT
1543104 ATTTGTTCCA
Statistics
Matches: 546, Mismatches: 6, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
81 76 0.14
82 1 0.00
83 5 0.01
84 460 0.84
85 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTATTCTTCCAAAT
TCAATGATTGGTTCTGTCC
Done.