Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 79 of 175
Found at i:24440534 original size:51 final size:50
Alignment explanation
Indices: 24440268--24440659 Score: 320
Period size: 51 Copynumber: 7.8 Consensus size: 50
24440258 ATTTTTATCA
* *
24440268 TTCGATACACGTAGTAGCCTTCTCATAGTACTACACACGTGATC--AGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * * *
24440316 TTAC-AGTTCACATAGTAGCCTTTACATAGTACTACACACGTGATC--AGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
24440365 TTAC-AGTTCACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTT
1 TT-CGA-TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
24440415 TTACGGCT-CACGTAGTAGCCTTCACAT-GTACTACATACGTGACCAAAGCTT
1 TT-C-GATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAG-TT
* * * * * * * **
24440466 TTCGGTACCCATTGTAGCCTTCACTTAGTACTACACATGTAACCGTAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* * *
24440516 TATCGATACACGTAGTAGCATTCACACAGTACTACACACCTG-CTCAAAGCTT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGAC-CAAAG-TT
* * * * * * *
24440568 TTCGGTACACATAGTAGTCTTCACTTAGTACTACGCATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
24440618 TATCGATACACGTAGTAGCCTCCACACAGTACTACACACGTG
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
24440660 TTCATCGACA
Statistics
Matches: 280, Mismatches: 49, Indels: 27
0.79 0.14 0.08
Matches are distributed among these distances:
48 3 0.01
49 100 0.36
50 53 0.19
51 119 0.43
52 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:24443126 original size:15 final size:17
Alignment explanation
Indices: 24443108--24443140 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24443098 TTGTAAGCAA
24443108 TGAAATG-G-ATTAAGT
1 TGAAATGAGAATTAAGT
24443123 TGAAATGAGAATTAAGT
1 TGAAATGAGAATTAAGT
24443140 T
1 T
24443141 AAACATTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
TGAAATGAGAATTAAGT
Found at i:24443534 original size:46 final size:46
Alignment explanation
Indices: 24443431--24443727 Score: 422
Period size: 46 Copynumber: 6.5 Consensus size: 46
24443421 CATGATTTAG
* * * *
24443431 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTAT-TGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
24443476 ATGAATAAGACCATGGTTGAAAGACACTATGACATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
24443522 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCG-GAAA
* *
24443567 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* *
24443613 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
* * *
24443659 ATGAGTAAGACCATGGTTGAAAGACATTATGACATCATA-CGGAAA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
*
24443704 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
24443728 AGTCATAGCA
Statistics
Matches: 227, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
44 11 0.05
45 93 0.41
46 112 0.49
47 11 0.05
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (46 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATCGGAAA
Found at i:24443544 original size:91 final size:91
Alignment explanation
Indices: 24443431--24443727 Score: 438
Period size: 91 Copynumber: 3.3 Consensus size: 91
24443421 CATGATTTAG
* * *
24443431 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
24443496 AAGACACTATGACATCATATCGGAAA
66 AAGACACTATGACATCATATCGGAAA
*
24443522 ATGAATAAGACCATGGTTGAAAGACAC--TGGCATCATATTGAAAAAATGAATAAGACTATGGTT
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTG--AAAATGAATAAGACCATGGTT
* *
24443585 GAAAGACACTATGGCATCATATCAGAAA
64 GAAAGACACTATGACATCATATCGGAAA
* * * *
24443613 ATGAATAAGACCATGGTTGAAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-TGAAAATGAATAAGACCATGGTTG
*
24443678 AAAGACATTATGACATCATA-CGGAAA
65 AAAGACACTATGACATCATATCGGAAA
*
24443704 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
24443728 AGTCATAGCA
Statistics
Matches: 185, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
89 12 0.06
91 123 0.66
92 38 0.21
93 11 0.06
94 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (91 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATTGAAAATGAATAAGACCATGGTTGA
AAGACACTATGACATCATATCGGAAA
Found at i:24443739 original size:137 final size:136
Alignment explanation
Indices: 24443431--24443727 Score: 427
Period size: 137 Copynumber: 2.2 Consensus size: 136
24443421 CATGATTTAG
* * * *
24443431 ATGAGTAAGACCATAGTTGAAAGACACTATGGCATCTTATTGAAAATGAATAAGACCATGGTTGA
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
* * * *
24443496 AAGACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACACTGGCATCATATT
66 AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
24443561 GAAAAA
131 GAAAAA
*
24443567 ATGAATAAGACTATGGTTGAAAGACACTATGGCATCATATCAGAAAATGAATAAGACCATGGTTG
1 ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATAT-AGAAAATGAATAAGACCATGGTTG
* * *
24443632 AAAAACATTATGGCATCATATCGGAAAATGAGTAAGACCATGGTTGAAAGACATTATGACATCAT
65 AAAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACA--ATGACATCAT
*
24443697 A-CG-GAAA
128 ATCGAAAAA
*
24443704 GTGAATAAGACCATGGTTGAAAGA
1 ATGAATAAGACCATGGTTGAAAGA
24443728 AGTCATAGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 36 0.25
137 97 0.68
138 1 0.01
139 9 0.06
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (136 bp):
ATGAATAAGACCATGGTTGAAAGACACTATGGCATCATATAGAAAATGAATAAGACCATGGTTGA
AAAACACTATGACATCATATCGGAAAATGAATAAGACCATGGTTGAAAGACAATGACATCATATC
GAAAAA
Found at i:24448294 original size:21 final size:20
Alignment explanation
Indices: 24448265--24448315 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
24448255 TTGCATAAAT
* *
24448265 TAAACACAAAGTAATAAAAAC
1 TAAAAACAAAATAA-AAAAAC
*
24448286 TAAAAACAAAATAAAAACAC
1 TAAAAACAAAATAAAAAAAC
24448306 TATAAAACAA
1 TA-AAAACAA
24448316 GTCATTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.71, C:0.14, G:0.02, T:0.14
Consensus pattern (20 bp):
TAAAAACAAAATAAAAAAAC
Found at i:24454590 original size:40 final size:40
Alignment explanation
Indices: 24454547--24454776 Score: 264
Period size: 40 Copynumber: 5.8 Consensus size: 40
24454537 AATTGTTTAA
* *
24454547 TGAATGCACATACATGCCCCTGTTTGTACTTTGGTACCCA
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
24454587 TGAATGCACATATGTGCCCTTGTTTGTA-TTTCGGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTT-GGTACCCC
* * *
24454627 TTAATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * **
24454667 TTAATTCACATATGTGCCCCTATTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
24454707 TAAATGCACATACGTGCCCCTATTTATACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
24454747 TGAATGCACTTCCGTGCCCCTGTTTATACT
1 TGAATGCACATACGTGCCCCTGTTTGTACT
24454777 CTAGTAACTC
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
39 3 0.02
40 161 0.97
41 2 0.01
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:24454764 original size:80 final size:80
Alignment explanation
Indices: 24454549--24454784 Score: 294
Period size: 80 Copynumber: 3.0 Consensus size: 80
24454539 TTGTTTAATG
* * *
24454549 AATGCACATACATGCCCCTGTTTGTACTTTGGTACCCATGAATGCACATATGTGCCCTTGTTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
* * *
24454614 ATTTCGGTAACCCTT
66 ACTTCAGTAACCCTA
* * * * *
24454629 AATGCACATATGTGCCCCTGTTTGTACTTCGGTACCCCTTAATTCACATATGTGCCCCTATTTGT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
*
24454694 ACTTCAGTACCCCTA
66 ACTTCAGTAACCCTA
* * * ** *
24454709 AATGCACATACGTGCCCCTATTTATACTTTGGTACCCCTGAATGCACTTCCGTGCCCCTGTTTAT
1 AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
24454774 AC-TCTAGTAAC
66 ACTTC-AGTAAC
24454785 TCTGAATCAT
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
79 2 0.02
80 129 0.98
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (80 bp):
AATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTGAATGCACATATGTGCCCCTGTTTGT
ACTTCAGTAACCCTA
Found at i:24460025 original size:24 final size:24
Alignment explanation
Indices: 24459998--24460046 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
24459988 AGTCATACCA
* *
24459998 ATCACAAACAAATTAGTCATTTAC
1 ATCACAAACAAATCAATCATTTAC
**
24460022 ATCACGGACAAATCAATCATTTAC
1 ATCACAAACAAATCAATCATTTAC
24460046 A
1 A
24460047 CTCGAGGGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (24 bp):
ATCACAAACAAATCAATCATTTAC
Found at i:24460122 original size:27 final size:27
Alignment explanation
Indices: 24460067--24460303 Score: 209
Period size: 27 Copynumber: 8.8 Consensus size: 27
24460057 AAAACAGTTA
* * * *
24460067 TTTACCCTTTAGGGGCATTACGATCAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
*
24460094 TTTACCCTACAGGGGTAATTT-GATAAT
1 TTTACCCTTCAGGGGT-ATTTCGATAAT
24460121 TTTACCCTTC-GAGGGTATTTCGATAAT
1 TTTACCCTTCAG-GGGTATTTCGATAAT
* * *
24460148 TTTATCCTTCAGGAGTATTTCGGTAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
* * *
24460175 TTTACCCTTCAAGGTTATTTCAATAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
* * * *
24460202 CTTACCTTTCGGGGGTATTTTGATAAT
1 TTTACCCTTCAGGGGTATTTCGATAAT
**
24460229 TTTACCCTTC-GGGAGT-TTTTTAGTAAT
1 TTTACCCTTCAGGG-GTATTTCGA-TAAT
24460256 TTTACCCTTC-GAGGGTATTTC-AGTAAT
1 TTTACCCTTCAG-GGGTATTTCGA-TAAT
24460283 TTTACCCTTC-GAGGGTATTTC
1 TTTACCCTTCAG-GGGTATTTC
24460304 AATCATTCGA
Statistics
Matches: 176, Mismatches: 26, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.07
27 154 0.88
28 9 0.05
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
TTTACCCTTCAGGGGTATTTCGATAAT
Found at i:24460227 original size:81 final size:81
Alignment explanation
Indices: 24460092--24460303 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
24460082 CATTACGATC
* * * *
24460092 ATTTTACCCTACAGGGGTAATTT-GATAATTTTACCCTTCGAGGGTATTTCGATAATTTTATCCT
1 ATTTTACCCTTCAAGGGT-ATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCT
*
24460156 TCAGGAGTATTTCGGTA
65 TCAGGAGTATTTCAGTA
* * * * *
24460173 ATTTTACCCTTCAAGGTTATTTCAATAATCTTACCTTTCGGGGGTATTTTGATAATTTTACCCTT
1 ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
* * *
24460238 CGGGAGTTTTTTAGTA
66 CAGGAGTATTTCAGTA
* *
24460254 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTC
1 ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTC
24460304 AATCATTCGA
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 4 0.04
81 106 0.96
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTCAAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTT
CAGGAGTATTTCAGTA
Found at i:24460304 original size:27 final size:27
Alignment explanation
Indices: 24460092--24460304 Score: 213
Period size: 27 Copynumber: 7.9 Consensus size: 27
24460082 CATTACGATC
* *
24460092 ATTTTACCCTAC-AGGGGTAATTTGA-TA
1 ATTTTACCCTTCGA-GGGT-ATTTCAGTA
24460119 ATTTTACCCTTCGAGGGTATTTC-GATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
24460146 ATTTTATCCTTC-AGGAGTATTTCGGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
* * *
24460173 ATTTTACCCTTCAAGGTTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
* * * *
24460200 ATCTTACCTTTCGGGGGTATTT-TGATA
1 ATTTTACCCTTCGAGGGTATTTCAG-TA
* *
24460227 ATTTTACCCTTCG-GGAGTTTTTTAGTA
1 ATTTTACCCTTCGAGG-GTATTTCAGTA
24460254 ATTTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
24460281 ATTTTACCCTTCGAGGGTATTTCA
1 ATTTTACCCTTCGAGGGTATTTCA
24460305 ATCATTCGAA
Statistics
Matches: 156, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.06
27 139 0.89
28 8 0.05
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:24461831 original size:25 final size:25
Alignment explanation
Indices: 24461794--24461847 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
24461784 TGAACCTCTA
24461794 ACCTCCTTACCACACATGTGACACC
1 ACCTCCTTACCACACATGTGACACC
* * * *
24461819 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACATGTGACACC
24461844 ACCT
1 ACCT
24461848 TACCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.46, G:0.11, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACATGTGACACC
Found at i:24465130 original size:40 final size:40
Alignment explanation
Indices: 24465075--24465195 Score: 152
Period size: 40 Copynumber: 3.0 Consensus size: 40
24465065 TACGTGCCCC
* *
24465075 TGTACTTCGGTACCCCTTAATGCACATATGTGCCCCTCTT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * **
24465115 TGTACTTCAGTACCCCGAAATGCACATACATGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
* * * *
24465155 TGTACTGCGGGACCCCTAAATGCACTTGTGTGCCCCTATT
1 TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
24465195 T
1 T
24465196 ATACCCCAGT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (40 bp):
TGTACTTCGGTACCCCTAAATGCACATATGTGCCCCTATT
Found at i:24473931 original size:56 final size:50
Alignment explanation
Indices: 24473833--24474073 Score: 275
Period size: 50 Copynumber: 4.7 Consensus size: 50
24473823 ATTTGGGTAA
* * * *
24473833 AGAGATCCCATGTAAGGCCATGTCTGGGACATGACATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAG---ATG
* *
24473889 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* ** *
24473939 AGAGGTCCCATGTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
** * *
24473989 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
**
24474039 AGAACATCCCATGTAAGACCATGTCTGGGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
24474074 ATTTGGCATG
Statistics
Matches: 160, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
50 91 0.57
51 28 0.17
53 3 0.02
55 1 0.01
56 37 0.23
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:24474017 original size:100 final size:101
Alignment explanation
Indices: 24473886--24474070 Score: 309
Period size: 100 Copynumber: 1.8 Consensus size: 101
24473876 CCTTGAGATC
* * * * **
24473886 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGATGAG-AGGTCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
24473950 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
66 GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
24473986 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
24474051 GTAAGACCATGTCTGGGACA
66 GTAAGACCATGTCTGGGACA
24474071 TGGATTTGGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 51 0.65
101 27 0.35
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.19
Consensus pattern (101 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGACATGAGAACATCCCAT
GTAAGACCATGTCTGGGACAAGGTGTTGGCACCGAG
Found at i:24476651 original size:22 final size:22
Alignment explanation
Indices: 24476623--24476669 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
24476613 CAGTGTTATC
24476623 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
24476645 AGTGGCAGTTTATCTATAAATT
1 AGTGGCAGTTTATCTACAAATT
24476667 AGT
1 AGT
24476670 TGTGGCATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:24477358 original size:21 final size:21
Alignment explanation
Indices: 24477332--24477377 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
24477322 TAAATACGTG
*
24477332 ATTTCAAAATTAAATCTGTTT
1 ATTTCAAAATTAAATATGTTT
* *
24477353 ATTTCAACATTATATATGTTT
1 ATTTCAAAATTAAATATGTTT
24477374 ATTT
1 ATTT
24477378 TAACTCATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTTCAAAATTAAATATGTTT
Found at i:24486725 original size:6 final size:6
Alignment explanation
Indices: 24486658--24486870 Score: 74
Period size: 6 Copynumber: 35.5 Consensus size: 6
24486648 TAGTATTACC
* * * * * ** *
24486658 ATTATT TTTACTT -TTATT TTTATT TTTATT TTTAAT ATTGCT ATTACT
1 ATTATT ATTA-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* * *
24486706 ATTATT -GTATTT ATTATT ATTACTT ACT-TT ATTATT ATTATC ATTATT
1 ATTATT ATTA-TT ATTATT ATTA-TT ATTATT ATTATT ATTATT ATTATT
** * * * * * **
24486754 ATTACA ATTAAT ATTAAT ATTAAT ATTGTT ATTATT ACTATT GCTATT
1 ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
** * * * * * ** *
24486802 ACTT-TT ATTATT ACCAAT ATTTTT ATTTTT ATTTTT ATTTTT ACCACT
1 A-TTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
* *
24486850 ATTATT ATCATT ATTTTT ATT
1 ATTATT ATTATT ATTATT ATT
24486871 TTTAAACTGT
Statistics
Matches: 158, Mismatches: 41, Indels: 16
0.73 0.19 0.07
Matches are distributed among these distances:
5 10 0.06
6 139 0.88
7 9 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (6 bp):
ATTATT
Found at i:24486737 original size:15 final size:16
Alignment explanation
Indices: 24486718--24486758 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
24486708 TATTGTATTT
24486718 ATTATTATTACTTA-C
1 ATTATTATTACTTATC
*
24486733 TTTATTATTA-TTATC
1 ATTATTATTACTTATC
24486748 ATTATTATTAC
1 ATTATTATTAC
24486759 AATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTACTTATC
Found at i:24486871 original size:30 final size:30
Alignment explanation
Indices: 24486799--24486874 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
24486789 TACTATTGCT
* * * *
24486799 ATTACTTTTATTATTACCAATATTTTTATT
1 ATTATTTTTATTTTTACCAATATTATTATC
* *
24486829 TTTATTTTTATTTTTACCACTATTATTATC
1 ATTATTTTTATTTTTACCAATATTATTATC
24486859 ATTATTTTTATTTTTA
1 ATTATTTTTATTTTTA
24486875 AACTGTTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.64
Consensus pattern (30 bp):
ATTATTTTTATTTTTACCAATATTATTATC
Found at i:24487016 original size:12 final size:11
Alignment explanation
Indices: 24486987--24487026 Score: 64
Period size: 12 Copynumber: 3.6 Consensus size: 11
24486977 AATTAGTTAG
24486987 TTTTATTTT-T
1 TTTTATTTTGT
24486997 TTTTATTTTGT
1 TTTTATTTTGT
24487008 TTCTTATTTTGT
1 TT-TTATTTTGT
24487020 TTTTATT
1 TTTTATT
24487027 CTTAATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.32
11 8 0.29
12 11 0.39
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTATTTTGT
Found at i:24488952 original size:25 final size:25
Alignment explanation
Indices: 24488921--24489002 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
24488911 TTAACTATCA
* * * *
24488921 CCTCTGCTGCATCGCCATCAACACT
1 CCTCTGCTGTATCACCGTCGACACT
24488946 CCTCTGCCT-TATCACCGTCGACACT
1 CCTCTG-CTGTATCACCGTCGACACT
*
24488971 CCTCTACTGTATCACCGTCGACACT
1 CCTCTGCTGTATCACCGTCGACACT
24488996 CCTCTGC
1 CCTCTGC
24489003 CCCAAAACAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.04
25 45 0.92
26 2 0.04
ACGTcount: A:0.17, C:0.44, G:0.12, T:0.27
Consensus pattern (25 bp):
CCTCTGCTGTATCACCGTCGACACT
Found at i:24489176 original size:21 final size:22
Alignment explanation
Indices: 24489129--24489178 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
24489119 CCGAAACATC
*
24489129 TATTTTTTGGGTTAATATTTAT
1 TATTTTTTGGGTTAATATTCAT
24489151 TATTTTTTGGGTT-ATA-TCAT
1 TATTTTTTGGGTTAATATTCAT
*
24489171 TAATTTTT
1 TATTTTTT
24489179 ATTATGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 3 0.12
22 13 0.50
ACGTcount: A:0.22, C:0.02, G:0.12, T:0.64
Consensus pattern (22 bp):
TATTTTTTGGGTTAATATTCAT
Found at i:24491352 original size:72 final size:71
Alignment explanation
Indices: 24491272--24491554 Score: 266
Period size: 72 Copynumber: 4.0 Consensus size: 71
24491262 AGTAAATTCA
*
24491272 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATCTTAAGT
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
*
24491337 GAAATCG
66 -AAACCG
* *
24491344 TTTATTTAATTATGTGTTTTT-AAAATTTTAATTTAATTAAATTTATTGAA-TTTTGATATTAAG
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATT-AAGTTTTGATATTAAG
24491407 TAGAACCG
65 TA-AACCG
** * ** * * * * *
24491415 TTTATCCAATTATGTATTTTTAAAAAGGCTACTTTAGTTCAATTCATTGAGTTTCGATATTAAGT
1 TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
24491480 AAAACCG
66 -AAACCG
* * * * * * * * ** * *
24491487 TTTACTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTTTTAATATTAAG
1 TTTATTTAA-TTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAG
24491551 TAAA
65 TAAA
24491555 ATTGTTTATT
Statistics
Matches: 173, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
70 1 0.01
71 63 0.36
72 103 0.60
73 6 0.03
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (71 bp):
TTTATTTAATTATGTGTTTTTAAAAAGTTTAATTTAGTTAAATTTATTAAGTTTTGATATTAAGT
AAACCG
Found at i:24492054 original size:13 final size:13
Alignment explanation
Indices: 24492036--24492063 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24492026 AAAAAAACCA
24492036 AAATAATCAATTT
1 AAATAATCAATTT
24492049 AAATAATCAATTT
1 AAATAATCAATTT
24492062 AA
1 AA
24492064 TATCTTTAAA
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:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATAATCAATTT
Found at i:24493516 original size:46 final size:46
Alignment explanation
Indices: 24493449--24493542 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
24493439 ATGCCAAGAT
24493449 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
*
24493495 ATGAATAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
1 ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
24493541 AT
1 AT
24493543 AGTTGCCCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (46 bp):
ATGAAGAAACTGATAAAAGATTCAGGCCTTGGGTACGACAACATTC
Found at i:24498334 original size:66 final size:66
Alignment explanation
Indices: 24498223--24498356 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
24498213 GAAAATTGCT
* * * * * * *
24498223 CAACTTAAAGTGGAGGCAGCATCGATAGAAACAGAGGCTTAAAGAAAATATGATGAACTCCAACT
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
24498288 A
66 A
* * *
24498289 CAACTTAAAATGGAGGCAACAGCGAGGGAAATAGAGGC-AACAAGAAAATACGGCGAACTCCAAC
1 CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAA-AAGAAAATACGACGAACTCCAAC
24498353 TA
65 TA
24498355 CA
1 CA
24498357 GCTTCAGAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (66 bp):
CAACTTAAAATGGAGGCAACAGCGAGAGAAACAGAGGCTAAAAGAAAATACGACGAACTCCAACT
A
Found at i:24505027 original size:20 final size:20
Alignment explanation
Indices: 24505002--24505082 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
24504992 TTGTACAGAA
24505002 TTGCACTTCGGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
*
24505022 TTGCACAATT--GTGCCTTTGT
1 TTGCAC--TTCGGTGCCTCTGT
** *
24505042 TTGCACTTCAATTCCTCTGT
1 TTGCACTTCGGTGCCTCTGT
24505062 TACT-CATCTTCGGTGCCTCTG
1 T--TGCA-CTTCGGTGCCTCTG
24505083 GGATGGTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.04
20 29 0.62
21 2 0.04
22 14 0.30
ACGTcount: A:0.11, C:0.28, G:0.19, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGGTGCCTCTGT
Found at i:24507859 original size:15 final size:15
Alignment explanation
Indices: 24507836--24507869 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
24507826 ATTTCATGCC
24507836 TCAAACACCGTGTTA
1 TCAAACACCGTGTTA
*
24507851 TCAATCACCGTGTTA
1 TCAAACACCGTGTTA
24507866 TCAA
1 TCAA
24507870 GGAACAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (15 bp):
TCAAACACCGTGTTA
Found at i:24514525 original size:15 final size:15
Alignment explanation
Indices: 24514490--24514519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24514480 GCCCCTTTTC
24514490 ATAATTTAATTAACA
1 ATAATTTAATTAACA
*
24514505 ATAATTTATTTAACA
1 ATAATTTAATTAACA
24514520 CAAATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTTAATTAACA
Found at i:24537775 original size:40 final size:40
Alignment explanation
Indices: 24537692--24537916 Score: 258
Period size: 40 Copynumber: 5.7 Consensus size: 40
24537682 TTGAATGCTG
* * * * *
24537692 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATACA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
24537732 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24537772 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24537812 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24537852 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
24537891 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
24537917 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 35 0.21
40 121 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24545321 original size:80 final size:78
Alignment explanation
Indices: 24545184--24545441 Score: 268
Period size: 80 Copynumber: 3.3 Consensus size: 78
24545174 TTGAATGCTG
* * * * * *
24545184 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATACATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
24545248 TGTGCGAGAGACTAAA
64 TGTGCGAG-GACTAAA
* * *
24545264 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
24545329 GTGCGAGTTATTAAA
65 GTGCGAG-GACTAAA
* * * * *
24545344 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
** *
24545409 AACGAGGAGCTATA
66 TGCGAGGA-CTAAA
*
24545423 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24545442 TACGTGATTT
Statistics
Matches: 149, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
78 15 0.10
79 46 0.31
80 84 0.56
81 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGGACTAAA
Found at i:24545388 original size:39 final size:40
Alignment explanation
Indices: 24545184--24545406 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
24545174 TTGAATGCTG
* * * * * *
24545184 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * **
24545224 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAGACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
24545264 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
24545304 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
24545344 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
24545383 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24545407 TGAACGAGGA
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 36 0.22
40 120 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:24554449 original size:22 final size:22
Alignment explanation
Indices: 24554424--24554465 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
24554414 TAGAGCTATG
*
24554424 ATTTAATTGATTCTTGGACTAA
1 ATTTAATTGATTCTAGGACTAA
24554446 ATTTAATTGATTCTAGGACT
1 ATTTAATTGATTCTAGGACT
24554466 GAACGTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
ATTTAATTGATTCTAGGACTAA
Found at i:24558457 original size:20 final size:21
Alignment explanation
Indices: 24558434--24558477 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
24558424 AGTGAACCTA
24558434 CCCT-CGATGTCATGACATAC
1 CCCTCCGATGTCATGACATAC
* *
24558454 CCCTCCTATGTCGTGACATAC
1 CCCTCCGATGTCATGACATAC
24558475 CCC
1 CCC
24558478 CTACGTAGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.25
Consensus pattern (21 bp):
CCCTCCGATGTCATGACATAC
Found at i:24567209 original size:25 final size:23
Alignment explanation
Indices: 24567161--24567205 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
24567151 CGGAACTAAA
24567161 AAAATGAATTGAGATTCAAAAAG
1 AAAATGAATTGAGATTCAAAAAG
*
24567184 AAAATGAATTGTGATTCAAAAA
1 AAAATGAATTGAGATTCAAAAA
24567206 AAGAGTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.16, T:0.24
Consensus pattern (23 bp):
AAAATGAATTGAGATTCAAAAAG
Found at i:24568277 original size:21 final size:21
Alignment explanation
Indices: 24568244--24568292 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
24568234 AAATCAAGAA
*
24568244 AAAAAGAGCTTGAGAGAAAAT-
1 AAAAAGAGATTGA-AGAAAATG
* *
24568265 AAAAATAGATTGAAGAACATG
1 AAAAAGAGATTGAAGAAAATG
24568286 AAAAAGA
1 AAAAAGA
24568293 AAAAGTGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.61, C:0.04, G:0.20, T:0.14
Consensus pattern (21 bp):
AAAAAGAGATTGAAGAAAATG
Found at i:24572369 original size:27 final size:27
Alignment explanation
Indices: 24572338--24572579 Score: 258
Period size: 27 Copynumber: 9.0 Consensus size: 27
24572328 CAAATTTACT
** *
24572338 GAAATACCCTTAAAGGGTAAAATTACC
1 GAAATACCCTCGAAGGGTAAAATGACC
* *
24572365 AAAATACCC-CTGAAGGGTAAAATGACT
1 GAAATACCCTC-GAAGGGTAAAATGACC
* *
24572392 GAAATACCCCCGAAGGGTAAAATGATC
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
24572419 GAAATACCCCCGAAGGGTTAAATGACT
1 GAAATACCCTCGAAGGGTAAAATGACC
* * *
24572446 AAAATA-CGTCTGAAGGGTAAAATAACC
1 GAAATACCCTC-GAAGGGTAAAATGACC
**
24572473 GAAATACCCTCGAAGGGTAAAATGATG
1 GAAATACCCTCGAAGGGTAAAATGACC
*
24572500 GAAATACCCTC-ATAGGGTAAAATGACT
1 GAAATACCCTCGA-AGGGTAAAATGACC
*
24572527 GAAATACCCTCGAAGGGTAACATGACC
1 GAAATACCCTCGAAGGGTAAAATGACC
*
24572554 GAAATACCCTC-ATAGGGTGAAATGAC
1 GAAATACCCTCGA-AGGGTAAAATGAC
24572580 TGTTATACCC
Statistics
Matches: 180, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.02
27 171 0.95
28 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATGACC
Found at i:24572589 original size:81 final size:81
Alignment explanation
Indices: 24572338--24572578 Score: 301
Period size: 81 Copynumber: 3.0 Consensus size: 81
24572328 CAAATTTACT
* * * * *
24572338 GAAATACCCTTAAAGGGTAAAATTACCAAAATACCC-CTGAAGGGTAAAATGACTGAAATACCCC
1 GAAATACCC-TCAAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
24572402 CGAAGGGTAAAATGATC
65 CGAAGGGTAAAATGATC
* * * *
24572419 GAAATACCCCCGAAGGGTTAAATGACTAAAATA-CGTCTGAAGGGTAAAATAACCGAAATACCCT
1 GAAATACCCTC-AAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
*
24572483 CGAAGGGTAAAATGATG
65 CGAAGGGTAAAATGATC
* *
24572500 GAAATACCCTCATAGGGTAAAATGACTGAAATACCCTC-GAAGGGTAACATGACCGAAATACCCT
1 GAAATACCCTCA-AGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCT
*
24572564 C-ATAGGGTGAAATGA
65 CGA-AGGGTAAAATGA
24572579 CTGTTATACC
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.02
81 132 0.96
82 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (81 bp):
GAAATACCCTCAAGGGTAAAATGACTAAAATACCCTCTGAAGGGTAAAATGACCGAAATACCCTC
GAAGGGTAAAATGATC
Found at i:24572787 original size:26 final size:26
Alignment explanation
Indices: 24572758--24572855 Score: 115
Period size: 26 Copynumber: 3.8 Consensus size: 26
24572748 ACAAATATTG
* *
24572758 TTACTGGCAACTCTGCTGCGTTACTT
1 TTACTGGCAGCTCTGCTGCGTTACTA
* * *
24572784 TTACTGGTAGCTCTGTTGCGTTACTG
1 TTACTGGCAGCTCTGCTGCGTTACTA
* * *
24572810 TTACTGGTAGCTATGCTGCGTTACCA
1 TTACTGGCAGCTCTGCTGCGTTACTA
*
24572836 TTACTGGCAGCTTTGCTGCG
1 TTACTGGCAGCTCTGCTGCG
24572856 ATATTGGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.38
Consensus pattern (26 bp):
TTACTGGCAGCTCTGCTGCGTTACTA
Found at i:24575690 original size:42 final size:42
Alignment explanation
Indices: 24575631--24575781 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
24575621 ACAACCTAGC
* *
24575631 ACACGACTTGACACACGGGCGTGTGAGGCCATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
* * *
24575673 ACACGGCTTAGCACACGGGCGTGAGAGGCCATTTTGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
24575715 ACACGGCTTGGCACATAGGTGTGTGAGGCCATTTCGAGAGTT
1 ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
** *
24575757 GTACGGCCTGGCACACGGGCGTGTG
1 ACACGGCTTGGCACACGGGCGTGTG
24575782 GTTCGGTCGT
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.22
Consensus pattern (42 bp):
ACACGGCTTGGCACACGGGCGTGTGAGGCCATTTCGAGAGTT
Found at i:24582852 original size:21 final size:21
Alignment explanation
Indices: 24582826--24582869 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24582816 TTGGTATTTG
24582826 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
24582847 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
24582868 GG
1 GG
24582870 TATTAAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.36, T:0.30
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:24582857 original size:11 final size:11
Alignment explanation
Indices: 24582837--24582869 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24582827 GAATTGGTAC
24582837 GAAATGGTATG
1 GAAATGGTATG
*
24582848 GAATTGGTAT-
1 GAAATGGTATG
24582858 GAAATGGTATG
1 GAAATGGTATG
24582869 G
1 G
24582870 TATTAAAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (11 bp):
GAAATGGTATG
Found at i:24583960 original size:10 final size:10
Alignment explanation
Indices: 24583945--24583986 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
24583935 TTTGCAAGTT
24583945 TTGAGCTAAA
1 TTGAGCTAAA
* *
24583955 TTGAGCTGAT
1 TTGAGCTAAA
*
24583965 TTGAGCT-TA
1 TTGAGCTAAA
24583974 TTGAGCTAAA
1 TTGAGCTAAA
24583984 TTG
1 TTG
24583987 GAAGCTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:24587034 original size:16 final size:16
Alignment explanation
Indices: 24587008--24587061 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
24586998 TCTCTTTTTA
24587008 TTCTCTTTTTTTGAATT
1 TTCT-TTTTTTTGAATT
* *
24587025 TTCTTTTTTTTTCATTT
1 TTC-TTTTTTTTGAATT
*
24587042 TTCTTTTCTTTTGTATT
1 TTCTTTT-TTTTGAATT
24587059 TTC
1 TTC
24587062 GCTCTTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.13
17 25 0.83
18 1 0.03
ACGTcount: A:0.07, C:0.13, G:0.04, T:0.76
Consensus pattern (16 bp):
TTCTTTTTTTTGAATT
Found at i:24589285 original size:11 final size:12
Alignment explanation
Indices: 24589259--24589298 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
24589249 ATGCAATTTT
*
24589259 TTTTTCTTTTCAA
1 TTTTT-TTTTCGA
24589272 TTTTTTTTT-GA
1 TTTTTTTTTCGA
24589283 TTTTTTTTTCGA
1 TTTTTTTTTCGA
24589295 TTTT
1 TTTT
24589299 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 10 0.40
13 5 0.20
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:24589286 original size:18 final size:17
Alignment explanation
Indices: 24589252--24589286 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
24589242 AGACTGTATG
*
24589252 CAATTTTTTTTTCTTTT
1 CAATTTTTTTTTATTTT
24589269 CAATTTTTTTTTGATTTT
1 CAATTTTTTTTT-ATTTT
24589287 TTTTTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
CAATTTTTTTTTATTTT
Found at i:24589298 original size:19 final size:18
Alignment explanation
Indices: 24589277--24589312 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24589267 TTCAATTTTT
*
24589277 TTTTGATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
24589295 TTTTAATTTTTTTTTCGA
1 TTTTAATTTTTTTTTCGA
24589313 ACTCCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (18 bp):
TTTTAATTTTTTTTTCGA
Found at i:24589648 original size:21 final size:21
Alignment explanation
Indices: 24589622--24589665 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
24589612 TTGGTATTTG
24589622 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
24589643 GGAATTTGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
24589664 GG
1 GG
24589666 TATGGTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:24614095 original size:23 final size:24
Alignment explanation
Indices: 24614053--24614111 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
24614043 ACCAAATCGT
24614053 ACCT-AACCTAAATCACTTTTCAA
1 ACCTAAACCTAAATCACTTTTCAA
* *
24614076 ACCTAAACCTAACTCA-TTTTCAT
1 ACCTAAACCTAAATCACTTTTCAA
*
24614099 ACCTAATCCTAAA
1 ACCTAAACCTAAA
24614112 CCATTCCGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 21 0.68
24 10 0.32
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.31
Consensus pattern (24 bp):
ACCTAAACCTAAATCACTTTTCAA
Found at i:24615523 original size:24 final size:24
Alignment explanation
Indices: 24615499--24615545 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
24615489 AAACTACTTC
24615499 TACAGAAAACTCAAGAGAGAATTCT
1 TACAGAAAACTCAA-AGAGAATTCT
*
24615524 TAGAGAAAACTCAAAGAGAATT
1 TACAGAAAACTCAAAGAGAATT
24615546 TTTCACTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (24 bp):
TACAGAAAACTCAAAGAGAATTCT
Found at i:24621168 original size:20 final size:21
Alignment explanation
Indices: 24621140--24621178 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24621130 AAAATGAGCA
*
24621140 AAACAAGCT-CATTGAGCTGG
1 AAACAAGCTGAATTGAGCTGG
*
24621160 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
24621179 CAACGAGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGG
Found at i:24621952 original size:28 final size:28
Alignment explanation
Indices: 24621920--24621981 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
24621910 TGGACAAATA
24621920 AAGACATGAATTT-AATATGTAATATACT
1 AAGACATG-ATTTAAATATGTAATATACT
* *
24621948 AAGACATGATTTAAATATGTCATATGCT
1 AAGACATGATTTAAATATGTAATATACT
24621976 AAGACA
1 AAGACA
24621982 AAATAATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (28 bp):
AAGACATGATTTAAATATGTAATATACT
Found at i:24623548 original size:11 final size:11
Alignment explanation
Indices: 24623513--24623551 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
24623503 AGCTTGATCC
*
24623513 AGCTCAA-TCG
1 AGCTCAATTCT
24623523 AGCTCAATT-T
1 AGCTCAATTCT
24623533 AGCTCAATTCT
1 AGCTCAATTCT
24623544 AGCTCAAT
1 AGCTCAAT
24623552 AAGCTCGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:24623549 original size:21 final size:20
Alignment explanation
Indices: 24623513--24623551 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
24623503 AGCTTGATCC
24623513 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTT
*
24623533 AGCTCAATTCTAGCTCAAT
1 AGCTCAA-TCGAGCTCAAT
24623552 AAGCTCGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTT
Found at i:24623556 original size:20 final size:20
Alignment explanation
Indices: 24623513--24623557 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24623503 AGCTTGATCC
*
24623513 AGCTCAATCGAGCTCAATTT
1 AGCTCAATCGAGCTCAATTA
*
24623533 AGCTCAATTCTAGCTCAA-TA
1 AGCTCAA-TCGAGCTCAATTA
24623553 AGCTC
1 AGCTC
24623558 GTTCCTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (20 bp):
AGCTCAATCGAGCTCAATTA
Found at i:24629258 original size:15 final size:15
Alignment explanation
Indices: 24629240--24629270 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24629230 CGAAAGGAGG
*
24629240 TATTGTATGCAAACC
1 TATTGTATACAAACC
24629255 TATTGTATACAAACC
1 TATTGTATACAAACC
24629270 T
1 T
24629271 TAAGAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (15 bp):
TATTGTATACAAACC
Found at i:24635331 original size:27 final size:28
Alignment explanation
Indices: 24635283--24635348 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
24635273 ACAAGAACAT
24635283 ATTAAAAACATGTAATAGACTAAGACAA
1 ATTAAAAACATGTAATAGACTAAGACAA
* * *
24635311 ATTAAAAACATGTACTA-ACTATGACAT
1 ATTAAAAACATGTAATAGACTAAGACAA
24635338 ATT-AAAACATG
1 ATTAAAAACATG
24635349 CATTAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 8 0.23
27 11 0.31
28 16 0.46
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (28 bp):
ATTAAAAACATGTAATAGACTAAGACAA
Found at i:24637465 original size:17 final size:17
Alignment explanation
Indices: 24637392--24637466 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
24637382 AGAAAGTAAA
*
24637392 AAAAGAAATTGCAAAAG
1 AAAAGAAATTGAAAAAG
* *
24637409 AAAAGAAATCGAACAAG
1 AAAAGAAATTGAAAAAG
* * **
24637426 TGAGAGAAAAAGAAAACAAAG
1 -AAAAGAAATTG--AA-AAAG
24637447 AAAAGAAATTGAAAAAG
1 AAAAGAAATTGAAAAAG
24637464 AAA
1 AAA
24637467 TTGAGATTGA
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
17 21 0.50
18 9 0.21
20 9 0.21
21 3 0.07
ACGTcount: A:0.68, C:0.05, G:0.19, T:0.08
Consensus pattern (17 bp):
AAAAGAAATTGAAAAAG
Found at i:24642367 original size:24 final size:23
Alignment explanation
Indices: 24642335--24642397 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 23
24642325 ATTTTTTTGA
24642335 TTTCTTTTTCTTTAGCAATTTCTTT
1 TTTC-TTTTCTTT-GCAATTTCTTT
* *
24642360 TTTCTTTTCTTCTTCACTTTCTTT
1 TTTCTTTTCTT-TGCAATTTCTTT
24642384 TCTTCTTCTTCTTT
1 T-TTCTT-TTCTTT
24642398 TTCGTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 17 0.52
25 11 0.33
26 5 0.15
ACGTcount: A:0.06, C:0.22, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTCTTTTCTTTGCAATTTCTTT
Found at i:24642400 original size:20 final size:19
Alignment explanation
Indices: 24642358--24642405 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 19
24642348 AGCAATTTCT
24642358 TTTTTCTTTTCTTCTTCAC
1 TTTTTCTTTTCTTCTTCAC
*
24642377 --TTTCTTTTCTTCTTCTTC
1 TTTTTCTTTTCTTCTTC-AC
24642395 TTTTTCGTTTT
1 TTTTTC-TTTT
24642406 TATTACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 15 0.62
18 1 0.04
20 4 0.17
21 4 0.17
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTCTTCTTCAC
Found at i:24643292 original size:12 final size:11
Alignment explanation
Indices: 24643270--24643294 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24643260 TTTTTTAATA
24643270 TACGATTTTTT
1 TACGATTTTTT
24643281 TACGATTTTTT
1 TACGATTTTTT
24643292 TAC
1 TAC
24643295 AAATCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (11 bp):
TACGATTTTTT
Found at i:24656152 original size:40 final size:40
Alignment explanation
Indices: 24656101--24656377 Score: 446
Period size: 40 Copynumber: 6.9 Consensus size: 40
24656091 ATAACCGCAA
* * * *
24656101 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
24656141 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
24656181 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24656221 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
24656261 GCACAAATGCCTTCGGGTCGTAGCCCGGATTTATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
24656301 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
24656341 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
24656378 ATGCTCATGC
Statistics
Matches: 218, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:24664502 original size:20 final size:19
Alignment explanation
Indices: 24664444--24664618 Score: 59
Period size: 19 Copynumber: 9.0 Consensus size: 19
24664434 AAGTGAAAAT
*
24664444 TAGGGGTACTAAAGTACAA
1 TAGGGGTACCAAAGTACAA
* * ** * *
24664463 CAGGGGCATGAATGTGCAA
1 TAGGGGTACCAAAGTACAA
24664482 TTAGGGGTACCAAAGTACAA
1 -TAGGGGTACCAAAGTACAA
* * * ***
24664502 TAGGGGCACGAATGTGTGA
1 TAGGGGTACCAAAGTACAA
**
24664521 TCAGGGGTACTGAAGTACAA
1 T-AGGGGTACCAAAGTACAA
* * * *
24664541 CAGGGGCA-CATATGTGCAA
1 TAGGGGTACCA-AAGTACAA
*
24664560 TCAGGGGTACCAAAGTACAG
1 T-AGGGGTACCAAAGTACAA
* *
24664580 TA-AGG-ACACATATGTACAA
1 TAGGGGTAC-CA-AAGTACAA
*
24664599 TTAGGGGTACCGAAGTACAA
1 -TAGGGGTACCAAAGTACAA
24664619 CAGTGGCACG
Statistics
Matches: 104, Mismatches: 42, Indels: 19
0.63 0.25 0.12
Matches are distributed among these distances:
17 2 0.02
18 4 0.04
19 46 0.44
20 45 0.43
21 5 0.05
22 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (19 bp):
TAGGGGTACCAAAGTACAA
Found at i:24664537 original size:78 final size:77
Alignment explanation
Indices: 24664445--24664682 Score: 280
Period size: 78 Copynumber: 3.1 Consensus size: 77
24664435 AGTGAAAATT
* *
24664445 AGGGGTACTAAAGTACAACAGGGGCATGAATGTGCAATTAGGGGTACCAAAGTACAATAGGGGCA
1 AGGGGTACTGAAGTACAACAGGGGCA-GAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
24664510 CGAATGTGTGATC
65 CGAATGTGTGATC
* * * *
24664523 AGGGGTACTGAAGTACAACAGGGGCACATATGTGCAATCAGGGGTACCAAAGTACAGTAAGGACA
1 AGGGGTACTGAAGTACAACAGGGGCAGA-ATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
*** *
24664588 C-ATATGTACAATT
65 CGA-ATGTGTGATC
* * * * * *
24664601 AGGGGTACCGAAGTACAACAGTGGCACGTATGTGTAATCAGGGGTATCGAAGTACAATAGGGGCA
1 AGGGGTACTGAAGTACAACAGGGGCA-GAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCA
*
24664666 CGTATGTGTGATC
65 CGAATGTGTGATC
24664679 AGGG
1 AGGG
24664683 AATAATTACA
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
77 2 0.02
78 129 0.98
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.20
Consensus pattern (77 bp):
AGGGGTACTGAAGTACAACAGGGGCAGAATGTGCAATCAGGGGTACCAAAGTACAATAGGGGCAC
GAATGTGTGATC
Found at i:24664666 original size:39 final size:39
Alignment explanation
Indices: 24664427--24664682 Score: 242
Period size: 39 Copynumber: 6.5 Consensus size: 39
24664417 ATGTAATCAA
* * * **
24664427 GGCACGTAAGTGAAAATTAGGGGTACTAAAGTACAACAGG
1 GGCACGTATGTG-CAATCAGGGGTACCGAAGTACAACAGG
* * * * *
24664467 GGCATGAATGTGCAATTAGGGGTACCAAAGTACAATAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* ** *
24664506 GGCACGAATGTGTGATCAGGGGTACTGAAGTACAACAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * ** *
24664545 GGCACATATGTGCAATCAGGGGTACCAAAGTACAGTAAG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * * * *
24664584 GACACATATGTACAATTAGGGGTACCGAAGTACAACAGT
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
* * *
24664623 GGCACGTATGTGTAATCAGGGGTATCGAAGTACAATAGG
1 GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
**
24664662 GGCACGTATGTGTGATCAGGG
1 GGCACGTATGTGCAATCAGGG
24664683 AATAATTACA
Statistics
Matches: 177, Mismatches: 39, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
39 168 0.95
40 9 0.05
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (39 bp):
GGCACGTATGTGCAATCAGGGGTACCGAAGTACAACAGG
Found at i:24692859 original size:11 final size:10
Alignment explanation
Indices: 24692841--24692866 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24692831 TGAATTTCTC
24692841 TCTTTTTTTT
1 TCTTTTTTTT
24692851 TCTTTTTTTT
1 TCTTTTTTTT
24692861 TCTTTT
1 TCTTTT
24692867 CTTATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:24697185 original size:30 final size:30
Alignment explanation
Indices: 24697151--24697208 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
24697141 TTCGAGCTTG
24697151 GGGAC-AAATATGTAATTATACAAAAGTTTA
1 GGGACAAAAT-TGTAATTATACAAAAGTTTA
* *
24697181 GGGACAAAATTGTAATTTTATAAAAGTT
1 GGGACAAAATTGTAATTATACAAAAGTT
24697209 GAGTCGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (30 bp):
GGGACAAAATTGTAATTATACAAAAGTTTA
Found at i:24697580 original size:51 final size:50
Alignment explanation
Indices: 24697498--24697995 Score: 212
Period size: 51 Copynumber: 9.7 Consensus size: 50
24697488 GATGAACACG
** *
24697498 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * *
24697549 TGTGTAGTACTAAGTGAAGGCTATTATGTGTACCGA-AATTCTTTGAG-CACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA--ATATG-GTCACA
** * * * * *
24697600 TGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * * *
24697651 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGTGCTTTGAGCA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA--TATGGT-C----A-CA
** * * * * * *
24697708 CGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACA
1 --TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * * * *
24697761 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA--TATGGTCACA
* * * * *
24697812 TATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTA-TCGATAAATA--TGGTCACA
* * * * *
24697862 TGTGTAATACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAATA-TGGTCACA
* * ** *
24697911 TGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTAATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAAATA-TGGTCACA
* *
24697960 TGTGTAGTATTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGA
24697996 ATGATAAAAA
Statistics
Matches: 347, Mismatches: 76, Indels: 49
0.74 0.16 0.10
Matches are distributed among these distances:
49 86 0.25
50 54 0.16
51 163 0.47
52 4 0.01
53 2 0.01
54 1 0.00
56 1 0.00
57 2 0.01
59 31 0.09
60 3 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:24697670 original size:102 final size:103
Alignment explanation
Indices: 24697494--24697983 Score: 475
Period size: 102 Copynumber: 4.8 Consensus size: 103
24697484 TGTCGATGAA
* * * * *
24697494 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACT-ACGATCACATGTGTAGTA
** *
24697558 CTAAGTGAAGGCTATTATGTGTACCG-AAATTCTTTGAG
65 CTAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTGAG
* * *
24697596 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGATCACATGTGTAGTAC
24697661 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTGCTTTGAG
66 TAAGTGAAGGCTACAATGGGTACCGAAAA----T--T-CTTTGAG
* *
24697706 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGATCACATGTGTAGTAC
*
24697771 TAAGTGAAGGCTACAATGGGTACCGAAAA-GCTTTG-G
66 TAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTGAG
* * * * * * *
24697807 TCACGTATGTAGTACTATGTGAAGGCTACTACGT-GAGCCGTAAAACT-TGATCACGTGTGTAAT
1 -CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGT-AAACTACGATCACATGTGTAGT
* * * * * * *
24697870 ACTATGTGAAGGCTACTACGTGAACTGTAAAA--C--TGAT
64 ACTAAGTGAAGGCTACAATGGGTACCG-AAAATTCTTTGAG
* * * *
24697907 CACGTGTGTAGTACTATGTGAAGGCTACTACGT-GAACTGTAAAACTA--ATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGT-AAACTACGATCACATGTGTAGTA
* *
24697969 TTATGTGAAGGCTAC
65 CTAAGTGAAGGCTAC
24697984 TACGTGTATC
Statistics
Matches: 342, Mismatches: 32, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
98 28 0.08
99 45 0.13
101 40 0.12
102 123 0.36
103 4 0.01
107 1 0.00
109 1 0.00
110 100 0.29
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (103 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGGATCGGTAAACTACGATCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAATTCTTTGAG
Found at i:24697782 original size:110 final size:110
Alignment explanation
Indices: 24697589--24697807 Score: 429
Period size: 110 Copynumber: 2.0 Consensus size: 110
24697579 TACCGAAATT
*
24697589 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGGTTACATGT
1 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
24697654 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
66 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
24697699 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
1 CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
24697764 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
66 GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGT
24697808 CACGTATGTA
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (110 bp):
CTTTGAGCACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGTAAACTACGATTACATGT
GTAGTACTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGGTG
Found at i:24697926 original size:49 final size:49
Alignment explanation
Indices: 24697706--24697989 Score: 320
Period size: 49 Copynumber: 5.7 Consensus size: 49
24697696 GTGCTTTGAG
* * * *
24697706 CACGTGTGTAGTACTGTGTGAATGCTACTACGTGGATCGGT-AAACTACGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT-GAACCGTAAAACT--GAT
* * * * * * * *
24697757 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C--TGAT
* *
24697808 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-TGAT
* *
24697858 CACGTGTGTAATACTATGTGAAGGCTACTACGTGAACTGTAAAACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGAT
* *
24697907 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGAT
*
24697956 CACGTGTGTAGTATTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
24697990 TATCGAATGA
Statistics
Matches: 199, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
49 84 0.42
50 51 0.26
51 59 0.30
52 4 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTGAT
Found at i:24704956 original size:30 final size:30
Alignment explanation
Indices: 24704922--24704978 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
24704912 TCGAGCTTGA
24704922 GGACAAAGA-TGTAATTCTACAAAAGTTTAG
1 GGACAAA-ATTGTAATTCTACAAAAGTTTAG
* *
24704952 GGACAAAATTGTAATTTTATAAAAGTT
1 GGACAAAATTGTAATTCTACAAAAGTT
24704979 GAGTCGAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.32
Consensus pattern (30 bp):
GGACAAAATTGTAATTCTACAAAAGTTTAG
Found at i:24705440 original size:102 final size:102
Alignment explanation
Indices: 24705264--24705606 Score: 344
Period size: 102 Copynumber: 3.4 Consensus size: 102
24705254 TGTCGATGAA
* * *
24705264 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACATGTGTAGTAC
* * * *
24705329 TGAGTGAAGGCTACTATGTGTACCGAAATGCTTTGAG
66 TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
* * * * *
24705366 CACGTGTGTAGTACTTTGTGAATGCTACTACGTGTATTGGTAAACT-ACGGTTACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TAACGGTCACATGTGTAGTA
**
24705430 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGTT
65 CTAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
* * * *
24705468 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-T-AA-AACTTGATCACGTGTGTAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATAAC--GGTCACATGTGTAG
** * * * *
24705529 TACTATCTGAAGGCTACTACGTGG-ACTGTAAAA-C--TGAT
63 TACTAAGTGAAGGCTACAATG-GGTACCG-AAAAGCTTTGAG
*
24705567 CACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
24705607 ATGATAAAAA
Statistics
Matches: 202, Mismatches: 30, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
99 39 0.19
100 3 0.01
101 34 0.17
102 125 0.62
103 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAACGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGGGTACCGAAAAGCTTTGAG
Found at i:24705591 original size:49 final size:51
Alignment explanation
Indices: 24705264--24705600 Score: 248
Period size: 51 Copynumber: 6.7 Consensus size: 51
24705254 TGTCGATGAA
* * * * * *
24705264 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTA-TCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCG-TAAA-ACTTGAT
* * * * *
24705315 CACATGTGTAGTACTGA-GTGAAGGCTACTATGTGTA-CCG-AAATGCTTTGAG
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGGAGCCGTAAA-AC-TTGAT
* * * *** * *
24705366 CACGTGTGTAGTACTTTGTGAATGCTACTACGTGTATTGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACT-TGAT
* * * * * *
24705417 TACATGTGTAGTACTAAGTGAAGGCTACAATG-GGTA-CCG-AAAAGCTTTGTT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGG-AGCCGTAAAA-C-TTGAT
*
24705468 CACGTATGTAGTACTATGTGAAGGCTACTACGT-GAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
* *
24705518 CACGTGTGTAGTACTATCTGAAGGCTACTACGTGGA-CTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
*
24705567 CACGTGTGTAGTACTATGTAAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
24705601 TATCGAATGA
Statistics
Matches: 228, Mismatches: 43, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
49 40 0.18
50 50 0.22
51 130 0.57
52 8 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGGAGCCGTAAAACTTGAT
Found at i:24708445 original size:136 final size:138
Alignment explanation
Indices: 24708180--24708451 Score: 467
Period size: 136 Copynumber: 2.0 Consensus size: 138
24708170 AAGGAATTAC
* *
24708180 ATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGGCCAAAATTAATTAATATAAC
1 ATTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
* *
24708245 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTAAATTCATATA
66 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
24708310 TTAATTGT
131 TTAATTGT
* *
24708318 ATTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTT-ACCGAAATTAGTTAATATAAC
1 ATTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
*
24708382 -TTTTTTATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
66 ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
24708446 TTAATT
131 TTAATT
24708452 ATATCTATGT
Statistics
Matches: 127, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 67 0.53
137 18 0.14
138 42 0.33
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (138 bp):
ATTCTGTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAATATAAC
ATTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTACGAATCAAATTCATATA
TTAATTGT
Found at i:24710694 original size:27 final size:27
Alignment explanation
Indices: 24710663--24710840 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24710653 TAAATTGTAC
24710663 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24710690 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24710716 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24710744 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24710772 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24710799 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24710826 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24710841 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24710804 original size:82 final size:81
Alignment explanation
Indices: 24710664--24710819 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24710654 AAATTGTACA
* *
24710664 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
24710729 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
24710745 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
24710809 GTGCGAGTTGA
64 GTGCGAATTGA
24710820 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24710831 original size:82 final size:81
Alignment explanation
Indices: 24710660--24710840 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24710650 GATTAAATTG
* *
24710660 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24710725 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24710741 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24710805 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24710823 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24710841 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24718880 original size:27 final size:27
Alignment explanation
Indices: 24718849--24719026 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24718839 TAAATTGTAC
24718849 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
24718876 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24718902 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
24718930 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
24718958 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
24718985 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
24719012 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
24719027 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:24718963 original size:82 final size:81
Alignment explanation
Indices: 24718850--24719005 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24718840 AAATTGTACA
* *
24718850 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
24718914 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
24718931 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
24718996 TGCGAGTTGA
65 TGCGAATTGA
24719006 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:24719017 original size:82 final size:81
Alignment explanation
Indices: 24718846--24719026 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
24718836 GATTAAATTG
* *
24718846 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
24718911 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
24718927 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
24718991 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
24719009 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
24719027 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:24722000 original size:13 final size:13
Alignment explanation
Indices: 24721982--24722012 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24721972 TGGATGATTA
24721982 ATTCATGAACAAT
1 ATTCATGAACAAT
*
24721995 ATTCATGAATAAT
1 ATTCATGAACAAT
24722008 ATTCA
1 ATTCA
24722013 AAGGAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (13 bp):
ATTCATGAACAAT
Found at i:24722774 original size:15 final size:17
Alignment explanation
Indices: 24722742--24722774 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
24722732 GGTTTGTTCT
24722742 TCAACATTAGTCTAAAC
1 TCAACATTAGTCTAAAC
24722759 TCAAC-TTAGT-TAAAC
1 TCAACATTAGTCTAAAC
24722774 T
1 T
24722775 ATCCATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.39, C:0.21, G:0.06, T:0.33
Consensus pattern (17 bp):
TCAACATTAGTCTAAAC
Found at i:24725250 original size:27 final size:27
Alignment explanation
Indices: 24725197--24725250 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
24725187 TAATTAAAAG
* *
24725197 AAACACTTATTAAATAAAGTTTAATGA
1 AAACACTTATTAAATAAAGCTAAATGA
*
24725224 AAACACTTATTAATTAAA-CTAAGATGA
1 AAACACTTATTAAATAAAGCTAA-ATGA
24725251 GTTTAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.31
Consensus pattern (27 bp):
AAACACTTATTAAATAAAGCTAAATGA
Found at i:24731230 original size:39 final size:39
Alignment explanation
Indices: 24731116--24731231 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 39
24731106 ATTTTAGTTT
* * *
24731116 GAGTCTTTAATTATGTCAGAATTTGAACATCAATAATAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
24731155 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
24731194 GAGTCTTTAATTATGTCATAGTTTGGACAT-ATTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCA-TTAATA
24731232 CATGTTTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 1 0.01
39 66 0.99
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:24735259 original size:40 final size:40
Alignment explanation
Indices: 24735077--24735299 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
24735067 TCCTCGTTCA
* * * * *
24735077 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
24735116 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24735156 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24735196 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
24735236 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24735276 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24735300 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24735308 original size:41 final size:41
Alignment explanation
Indices: 24735231--24735308 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
24735221 TTAGTATCTC
* * *
24735231 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
24735272 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
24735309 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:24740319 original size:19 final size:20
Alignment explanation
Indices: 24740295--24740334 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
24740285 TGAGTTGGTT
*
24740295 GGAGCTGGAA-TAAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
*
24740314 GGAGCTGAAATTGAGCTAAA
1 GGAGCTGAAATTAAGCTAAA
24740334 G
1 G
24740335 TCAGCTTGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.40, C:0.10, G:0.33, T:0.17
Consensus pattern (20 bp):
GGAGCTGAAATTAAGCTAAA
Found at i:24746638 original size:39 final size:39
Alignment explanation
Indices: 24746579--24746674 Score: 129
Period size: 39 Copynumber: 2.5 Consensus size: 39
24746569 ATTTTAGTTT
* * * *
24746579 AAGTCTTTAATTATGTCATAATTTGAACATCATTAATAT
1 AAGTTTTTAATTATGTCATAATCTAAACATCATTAATAA
* *
24746618 GAGTTTTTAATTATGTCATAATCTAAACATCATTGATAA
1 AAGTTTTTAATTATGTCATAATCTAAACATCATTAATAA
*
24746657 AATTTTTTAATTATGTCA
1 AAGTTTTTAATTATGTCA
24746675 AAGTTTGGAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (39 bp):
AAGTTTTTAATTATGTCATAATCTAAACATCATTAATAA
Found at i:24748099 original size:41 final size:40
Alignment explanation
Indices: 24748036--24748225 Score: 200
Period size: 41 Copynumber: 4.6 Consensus size: 40
24748026 CTTTAAATGT
* * *
24748036 AAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTTATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGAT-TAA
* * *
24748077 AAGGGGTTGCTATGTGCTGATTCCTCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
* * * *
24748117 AAGGTGGTTGCTAAGTGCTGATTCCACCATATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCCTCGA-ATCATTGA-T-TAA
* * * *
24748161 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
24748201 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
24748226 ACCGATATCC
Statistics
Matches: 123, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
40 10 0.08
41 73 0.59
42 14 0.11
43 21 0.17
44 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCTCGAATCATTGATTAA
Found at i:24748179 original size:84 final size:85
Alignment explanation
Indices: 24748076--24748237 Score: 308
Period size: 84 Copynumber: 1.9 Consensus size: 85
24748066 CATTTATCAA
*
24748076 AAAGGGGTTGCTATGTGCTGATTCCTCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
24748141 CACC-ATATCCTTGATTGTG
66 CACCGATATCCTTGATTGTG
24748160 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
24748225 CACCGATATCCTT
66 CACCGATATCCTT
24748238 TGAACATGAG
Statistics
Matches: 76, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
84 68 0.89
85 8 0.11
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGATATCCTTGATTGTG
Found at i:24748256 original size:44 final size:43
Alignment explanation
Indices: 24748081--24748273 Score: 227
Period size: 41 Copynumber: 4.6 Consensus size: 43
24748071 ATCAAAAAGG
* * * *
24748081 GGTTGCTATGTGCTGATTCC-TCG-TATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
*
24748122 GGTTGCTAAGTGCTGATTCCACC-ATATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATG--AGGT
* * *
24748165 GGTTGCTATGTGCTGATTCC-CCG-TATCATTGATTATAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
**
24748206 GGTTGCTAAGTGCTGATTCCACCGATATCCTTTGAACATGAGGT
1 GGTTGCTAAGTGCTGATTCCACCGATATCC-TTGATTATGAGGT
24748250 GGTTGCTAAGTGCTGATTCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
24748274 TGTAACGATT
Statistics
Matches: 129, Mismatches: 14, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.02
41 38 0.29
42 28 0.22
43 23 0.18
44 37 0.29
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGATATCCTTGATTATGAGGT
Found at i:24753034 original size:57 final size:58
Alignment explanation
Indices: 24752962--24753070 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 58
24752952 GCCCACTGAT
*
24752962 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTTGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * *
24753019 CGATTTCGCACACATAGTGCTTGGTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTTGGTTAAAAGAACTCGCACACACAGTGCCTC
24753071 TAATCATTCG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 25 0.53
58 22 0.47
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTTGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:24753326 original size:40 final size:40
Alignment explanation
Indices: 24753282--24753708 Score: 680
Period size: 40 Copynumber: 10.7 Consensus size: 40
24753272 CCAGCATGAT
* * *
24753282 TGCTCTTCGGGACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
24753322 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
*
24753362 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753402 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753442 TGCTCTTCGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
24753482 GGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753522 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753562 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753602 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
24753641 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
24753681 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
24753709 GTCGAGACCT
Statistics
Matches: 361, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 42 0.12
40 317 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:24756004 original size:47 final size:47
Alignment explanation
Indices: 24755933--24756399 Score: 603
Period size: 47 Copynumber: 9.6 Consensus size: 47
24755923 CCCTTCGGGA
* * * *
24755933 CTTATCACAT-TGATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATAT-ATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
24755980 CCTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
24756027 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
24756074 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
24756121 CTGATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
24756170 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
24756217 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCGAATCATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCC--AT--T-----A---GGC
*
24756278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
24756325 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
24756374 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
24756400 CACAATTATC
Statistics
Matches: 376, Mismatches: 25, Indels: 38
0.86 0.06 0.09
Matches are distributed among these distances:
47 204 0.54
48 1 0.00
49 121 0.32
50 1 0.00
51 2 0.01
53 1 0.00
55 1 0.00
57 2 0.01
58 1 0.00
59 31 0.08
61 11 0.03
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:24756011 original size:25 final size:25
Alignment explanation
Indices: 24755983--24756061 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
24755973 ACTCGGCCCT
24755983 ATCACATATGTACACTTTCACATTC
1 ATCACATATGTACACTTTCACATTC
* ** *** *
24756008 ATCACAT-CGGCCA-TTAGGC-CTC
1 ATCACATATGTACACTTTCACATTC
*
24756030 ATCACATATATACACTTTCACATTC
1 ATCACATATGTACACTTTCACATTC
24756055 ATCACAT
1 ATCACAT
24756062 CGGCTATTAG
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
22 9 0.25
23 5 0.14
24 6 0.17
25 16 0.44
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (25 bp):
ATCACATATGTACACTTTCACATTC
Found at i:24756191 original size:96 final size:96
Alignment explanation
Indices: 24755933--24756399 Score: 672
Period size: 96 Copynumber: 4.8 Consensus size: 96
24755923 CCCTTCGGGA
* * * * * *
24755933 CTTATCACAT-T-GATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATGTAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
24755996 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
24756027 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
24756090 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
24756121 CTGATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
24756186 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
24756217 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCGAATCATCGGCCATTCGGCCTTA
1 CTTATCACATATATATACACTTTCACATTCAT--CA-----C--AT--T-GGCCATTCGGCCTTA
24756282 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24756325 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
24756390 ACATTCACAT
66 ACTTTCACAT
24756400 CACAATTATC
Statistics
Matches: 338, Mismatches: 19, Indels: 30
0.87 0.05 0.08
Matches are distributed among these distances:
93 1 0.00
94 87 0.26
96 148 0.44
97 1 0.00
98 2 0.01
99 2 0.01
101 1 0.00
103 1 0.00
105 2 0.01
106 2 0.01
107 1 0.00
108 90 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24756290 original size:108 final size:108
Alignment explanation
Indices: 24756159--24756366 Score: 416
Period size: 108 Copynumber: 1.9 Consensus size: 108
24756149 TCATCACATT
24756159 GGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
24756224 CATATATATACACTTTCACATTCATCACATTGGCCGAATCATC
66 CATATATATACACTTTCACATTCATCACATTGGCCGAATCATC
24756267 GGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
24756332 CATATATATACACTTTCACATTCATCACATTGGCC
66 CATATATATACACTTTCACATTCATCACATTGGCC
24756367 ATTCGGCCTT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (108 bp):
GGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATATACACTTTCACATTCATCACATTGGCCGAATCATC
Found at i:24756467 original size:204 final size:203
Alignment explanation
Indices: 24755945--24756399 Score: 659
Period size: 204 Copynumber: 2.3 Consensus size: 203
24755935 TATCACATTG
* * * * * *
24755945 ATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATGTACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCAT
*
24756010 CACATCGGCCATTAGGCC-TCATCAC--ATATATACACTTTCACA-T-T--CA-T---C--A-CA
66 CACATCAGCCATTAGGCCAT-ATCACATATATATACACTTTCACATTATCACATTGGCCGAATCA
* *
24756061 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTGAT
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTGAT
24756126 CACATATAT
195 CACATATAT
*
24756135 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCAT
* *
24756200 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCGAATCA
66 CACATCAGCCATTAGGCCATATCACATATATATACACTTTCACATT-ATCACATTGGCCGAATCA
* *
24756265 TCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTGAT
24756330 CACATATAT
195 CACATATAT
*
24756339 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACATTCACAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACAT
24756400 CACAATTATC
Statistics
Matches: 239, Mismatches: 11, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
190 83 0.35
191 1 0.00
192 17 0.07
193 1 0.00
195 1 0.00
197 2 0.01
198 1 0.00
201 1 0.00
203 1 0.00
204 131 0.55
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (203 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCAT
CACATCAGCCATTAGGCCATATCACATATATATACACTTTCACATTATCACATTGGCCGAATCAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTGATC
ACATATAT
Found at i:24765301 original size:20 final size:20
Alignment explanation
Indices: 24765278--24765319 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24765268 TAGCTCAACG
*
24765278 AGCTCGTTCCTAGCTCACTT
1 AGCTCATTCCTAGCTCACTT
* *
24765298 AGCTCATTCGTAGCTCATTT
1 AGCTCATTCCTAGCTCACTT
24765318 AG
1 AG
24765320 TTTGCATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (20 bp):
AGCTCATTCCTAGCTCACTT
Found at i:24769456 original size:20 final size:22
Alignment explanation
Indices: 24769431--24769479 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
24769421 ATGTAATAAT
*
24769431 CTAAGACAAC-TTTAATT-AAA
1 CTAAGACAACAATTAATTCAAA
24769451 CTAAGAC-ACAATTAATTCAAA
1 CTAAGACAACAATTAATTCAAA
24769472 -TAAGACAA
1 CTAAGACAA
24769480 AGCATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.76
21 4 0.16
ACGTcount: A:0.53, C:0.16, G:0.06, T:0.24
Consensus pattern (22 bp):
CTAAGACAACAATTAATTCAAA
Found at i:24774223 original size:28 final size:27
Alignment explanation
Indices: 24774183--24774242 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
24774173 ACTTTGGACA
* * *
24774183 ACATTAAACCATGCAATAAAATTAGAC
1 ACATTAAAACATGCAATAAAATAAAAC
*
24774210 ACATTAATAACATGCATTAAAATAAAAC
1 ACATTAA-AACATGCAATAAAATAAAAC
24774238 ACATT
1 ACATT
24774243 TATCACAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (27 bp):
ACATTAAAACATGCAATAAAATAAAAC
Found at i:24780926 original size:27 final size:28
Alignment explanation
Indices: 24780869--24780938 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
24780859 TGAAACAAGA
24780869 ACATATTAAAAACATGTAATAGACTAAG
1 ACATATTAAAAACATGTAATAGACTAAG
* *
24780897 ACA-ATTTAAAAACATGTACTAGA-TATG
1 ACATA-TTAAAAACATGTAATAGACTAAG
24780924 ACATATT-AAAACATG
1 ACATATTAAAAACATG
24780939 CATTAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 8 0.21
27 9 0.24
28 21 0.55
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.27
Consensus pattern (28 bp):
ACATATTAAAAACATGTAATAGACTAAG
Found at i:24787891 original size:18 final size:18
Alignment explanation
Indices: 24787870--24787928 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
24787860 AACCTCACAC
24787870 TCTTTTTTTATTTCTTTT
1 TCTTTTTTTATTTCTTTT
** *
24787888 TCTTTTTCAATCTCTTTT
1 TCTTTTTTTATTTCTTTT
24787906 TCTTTTCTTTCAATTTCTTTT
1 TCTTTT-TTT--ATTTCTTTT
24787927 TC
1 TC
24787929 CACTCTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 21 0.66
19 1 0.03
21 10 0.31
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (18 bp):
TCTTTTTTTATTTCTTTT
Found at i:24787935 original size:21 final size:21
Alignment explanation
Indices: 24787892--24787937 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24787882 TCTTTTTCTT
***
24787892 TTTCAATCTCTTTTTCTTTTC
1 TTTCAATCTCTTTTTCCACTC
*
24787913 TTTCAATTTCTTTTTCCACTC
1 TTTCAATCTCTTTTTCCACTC
24787934 TTTC
1 TTTC
24787938 TTTTCCTTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCAATCTCTTTTTCCACTC
Found at i:24787940 original size:30 final size:30
Alignment explanation
Indices: 24787867--24787942 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 30
24787857 TTCAACCTCA
* **
24787867 CACTCTTT-TTTTATTTCTTTTTCTTTTTC
1 CACTCTTTCTTTTCTTTCAATTTCTTTTTC
*
24787896 AATCTCTTTTTCTTTTCTTTCAATTTCTTTTTC
1 CA-CTC--TTTCTTTTCTTTCAATTTCTTTTTC
24787929 CACTCTTTCTTTTC
1 CACTCTTTCTTTTC
24787943 CTTCTCTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 1 0.03
30 12 0.32
32 6 0.16
33 19 0.50
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (30 bp):
CACTCTTTCTTTTCTTTCAATTTCTTTTTC
Found at i:24788028 original size:15 final size:15
Alignment explanation
Indices: 24788005--24788042 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24787995 TTTTGAAATC
24788005 TCATTTTCATATT-TT
1 TCATTTTCAT-TTCTT
*
24788020 TCTTTTTCATTTCTT
1 TCATTTTCATTTCTT
24788035 TCATTTTC
1 TCATTTTC
24788043 GTTATTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TCATTTTCATTTCTT
Found at i:24795597 original size:20 final size:23
Alignment explanation
Indices: 24795553--24795636 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 23
24795543 GAAAAAGAAA
* *
24795553 AGAGCGAAGAAAAATGAGAAGAAG
1 AGAGAGAA-AAAAATGAGAAAAAG
24795577 A-A-AGAAAAAAATGA-AAAAAG
1 AGAGAGAAAAAAATGAGAAAAAG
*
24795597 AGAGTGAAAAAAATGTGAGAAAAGAG
1 AGAGAGAAAAAAA--TGAGAAAA-AG
*
24795623 GGAGATGAAAAAAA
1 AGAGA-GAAAAAAA
24795637 GAAAGGGAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 6 0.12
21 9 0.19
22 11 0.23
23 1 0.02
24 4 0.08
25 4 0.08
26 5 0.10
27 8 0.17
ACGTcount: A:0.64, C:0.01, G:0.27, T:0.07
Consensus pattern (23 bp):
AGAGAGAAAAAAATGAGAAAAAG
Found at i:24795619 original size:24 final size:24
Alignment explanation
Indices: 24795580--24795640 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
24795570 GAAGAAGAAA
24795580 GAAAAAAATGAAAAAAGA-GAG-T
1 GAAAAAAATGAAAAAAGAGGAGAT
*
24795602 GAAAAAAATGTGAGAAAAGAGGGAGAT
1 GAAAAAAA--TGAAAAAAGA-GGAGAT
24795629 GAAAAAAA-GAAA
1 GAAAAAAATGAAA
24795641 GGGAGTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 8 0.25
24 12 0.38
26 3 0.09
27 9 0.28
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (24 bp):
GAAAAAAATGAAAAAAGAGGAGAT
Found at i:24795638 original size:17 final size:17
Alignment explanation
Indices: 24795616--24795657 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
24795606 AAAATGTGAG
24795616 AAAAG-AGGGAGATGAAA
1 AAAAGAAGGGAG-TGAAA
24795633 AAAAGAAAGGGAGTGAAA
1 AAAAG-AAGGGAGTGAAA
*
24795651 AATAGAA
1 AAAAGAA
24795658 TGTATTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (17 bp):
AAAAGAAGGGAGTGAAA
Found at i:24795651 original size:18 final size:19
Alignment explanation
Indices: 24795621--24795657 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24795611 GTGAGAAAAG
24795621 AGGGAGATGAAAAAAAGAA
1 AGGGAGATGAAAAAAAGAA
*
24795640 AGGGAG-TGAAAAATAGAA
1 AGGGAGATGAAAAAAAGAA
24795658 TGTATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.32, T:0.08
Consensus pattern (19 bp):
AGGGAGATGAAAAAAAGAA
Found at i:24803518 original size:15 final size:15
Alignment explanation
Indices: 24803481--24803531 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
24803471 TCGAGCGAGA
24803481 AAAAGAAAAA-AGT-
1 AAAAGAAAAAGAGTG
24803494 AAAAGCAAAAAGAGTG
1 AAAAG-AAAAAGAGTG
**
24803510 AAAAGAAAAAGAAAG
1 AAAAGAAAAAGAGTG
24803525 AAAAGAA
1 AAAAGAA
24803532 TGAAAAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 5 0.15
14 5 0.15
15 18 0.55
16 5 0.15
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAAGAGTG
Found at i:24811336 original size:20 final size:19
Alignment explanation
Indices: 24811293--24811339 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
24811283 GCAAACTAAA
*
24811293 GTGAGCTAAAACGAGCTTT
1 GTGAGCTAAAACGAGCTAT
24811312 GTGAGCTAAGAACGAGCTCAT
1 GTGAGCTAA-AACGAGCT-AT
24811333 -TGAGCTA
1 GTGAGCTA
24811340 GAGTTGAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (19 bp):
GTGAGCTAAAACGAGCTAT
Found at i:24833341 original size:24 final size:24
Alignment explanation
Indices: 24833314--24833388 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
24833304 AAGGGGCCGT
24833314 TACATCAATTAAAGGAGAGCATTA
1 TACATCAATTAAAGGAGAGCATTA
24833338 TACATC-ATTCAAA-G-GAGC-TGT-
1 TACATCAATT-AAAGGAGAGCAT-TA
* * *
24833359 TACATTATTTAAAGGAAAGCATTA
1 TACATCAATTAAAGGAGAGCATTA
24833383 TACATC
1 TACATC
24833389 CTCTAAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
21 9 0.22
22 8 0.20
23 8 0.20
24 15 0.38
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (24 bp):
TACATCAATTAAAGGAGAGCATTA
Found at i:24836572 original size:15 final size:16
Alignment explanation
Indices: 24836548--24836577 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24836538 ACATTGTAAT
24836548 AAAAACGAAAAAGAAG
1 AAAAACGAAAAAGAAG
24836564 AAAAA-GAAAAAGAA
1 AAAAACGAAAAAGAA
24836578 AAAGTGTGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAACGAAAAAGAAG
Found at i:24836622 original size:15 final size:16
Alignment explanation
Indices: 24836602--24836633 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24836592 AGAAAATGAA
24836602 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
24836617 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
24836633 A
1 A
24836634 GTGTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:24836647 original size:51 final size:52
Alignment explanation
Indices: 24836548--24836648 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 52
24836538 ACATTGTAAT
* **
24836548 AAAAACGAAAAAGAAGAAAAAGAAAAAGAAAAAGTGTGCGAGCGAGAAAATG
1 AAAAACGAAAAAGAAGAAAAAGAAAAAGAAAAAGAGTGCGAGAAAGAAAATG
* * * *
24836600 AAAAA-GAAAAAGAA-ATGAAAGAAAAAGAAGATGAGTGTGAGAAAGAAAA
1 AAAAACGAAAAAGAAGA-AAAAGAAAAAGAAAAAGAGTGCGAGAAAGAAAA
24836649 CAAAATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
50 1 0.02
51 35 0.85
52 5 0.12
ACGTcount: A:0.65, C:0.03, G:0.25, T:0.07
Consensus pattern (52 bp):
AAAAACGAAAAAGAAGAAAAAGAAAAAGAAAAAGAGTGCGAGAAAGAAAATG
Found at i:24839123 original size:20 final size:20
Alignment explanation
Indices: 24839089--24839142 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
24839079 TAATTTGTCT
* *
24839089 TGTCTTAGTTAAATTAAATA
1 TGTCTTAATTTAATTAAATA
* * *
24839109 TGTCTTGATTTAATTAAGTT
1 TGTCTTAATTTAATTAAATA
24839129 TGTCTTAATTTAAT
1 TGTCTTAATTTAAT
24839143 ACATGTGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (20 bp):
TGTCTTAATTTAATTAAATA
Done.