Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 122 of 332
Found at i:39444218 original size:27 final size:27
Alignment explanation
Indices: 39444182--39444618 Score: 468
Period size: 27 Copynumber: 16.2 Consensus size: 27
39444172 GTAATTTCAC
*
39444182 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
39444209 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
39444236 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * * **
39444263 AATTAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
39444290 AATCGAGGGTAAAACGGTAATTCGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
39444317 AATCGAGGGTAAAATAGTAATTCTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
39444344 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
39444371 AATCGAGGGTAAAACAGTAAGTT-TACA
1 AATCGAGGGTAAAACGGTAA-TTCTGTA
* * * *
39444398 AATTGAGGATAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
**
39444425 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
39444452 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
39444479 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
39444506 AA-CTGAGGGTAAAACGGTAATTTTTTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
39444533 AATCGAGGGTAAAACAATAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
39444560 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
39444587 AATCGAGGGTAAAACGATAATTCTGAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
39444614 AATCG
1 AATCG
39444619 GGAGTACTTT
Statistics
Matches: 339, Mismatches: 63, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
26 5 0.01
27 330 0.97
28 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:39446187 original size:35 final size:35
Alignment explanation
Indices: 39446141--39446212 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
39446131 ATCTCTGCCT
39446141 CAACAAAACAATTTCATCAAAGTTAGGAGATATCA
1 CAACAAAACAATTTCATCAAAGTTAGGAGATATCA
39446176 CAACAAAACAATTTCATCAAAGTTAGGAGATATCA
1 CAACAAAACAATTTCATCAAAGTTAGGAGATATCA
39446211 CA
1 CA
39446213 CTATCACAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (35 bp):
CAACAAAACAATTTCATCAAAGTTAGGAGATATCA
Found at i:39446697 original size:30 final size:30
Alignment explanation
Indices: 39446663--39446720 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39446653 CAAATTGAAG
*
39446663 TCACACGGCCAAAACACATACCCGTGTCCT
1 TCACACGGCCAAAACACACACCCGTGTCCT
* * *
39446693 TCACACGGCTAAGACACACGCCCGTGTC
1 TCACACGGCCAAAACACACACCCGTGTC
39446721 TCTGCCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.40, G:0.17, T:0.16
Consensus pattern (30 bp):
TCACACGGCCAAAACACACACCCGTGTCCT
Found at i:39448354 original size:42 final size:42
Alignment explanation
Indices: 39448295--39448409 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
39448285 GTTCCAATGC
*
39448295 CATATCCCAGATATGGTCTTACACGAAGTCTCATATC-GATGA
1 CATATCCCAGATATGGTCTTACACAAAGTCTCAT-TCTGATGA
** **
39448337 CATATCCCAGATATGGTCTTTTACAAAGTCTCATTCTGATTC
1 CATATCCCAGATATGGTCTTACACAAAGTCTCATTCTGATGA
* * * *
39448379 CATATTCCAGATATGTTCCTACACATAGTCT
1 CATATCCCAGATATGGTCTTACACAAAGTCT
39448410 TAGTAACCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACAAAGTCTCATTCTGATGA
Found at i:39453444 original size:28 final size:28
Alignment explanation
Indices: 39453404--39453459 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39453394 CAAGAAGGAA
39453404 TGAGATGCCCTTAACAAACATTTTGGAG
1 TGAGATGCCCTTAACAAACATTTTGGAG
39453432 TGAGATGCCCTTAACAAACATTTTGGAG
1 TGAGATGCCCTTAACAAACATTTTGGAG
39453460 ATTGAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (28 bp):
TGAGATGCCCTTAACAAACATTTTGGAG
Found at i:39455815 original size:20 final size:21
Alignment explanation
Indices: 39455790--39455829 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39455780 CTCTTGAAAC
*
39455790 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACACCCATGTGGA
*
39455810 AGGGCAACACACCCGTGTGG
1 AGGGCAACACACCCATGTGG
39455830 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.30, G:0.35, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCATGTGGA
Found at i:39464733 original size:27 final size:27
Alignment explanation
Indices: 39464689--39464762 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
39464679 TATAGAAATG
* * *
39464689 CCCTCGACTTGTAAAATTACCAAAGTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*****
39464716 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCAAAGTA
*
39464743 CCCTTGATTTATAGAATTAC
1 CCCTCGATTTATAGAATTAC
39464763 TGTTTTACCC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCAAAGTA
Found at i:39464763 original size:27 final size:27
Alignment explanation
Indices: 39464714--39464805 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
39464704 ATTACCAAAG
39464714 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
39464741 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
39464768 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
39464795 TACCCTTGATT
1 TACCCTCGATT
39464806 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.45
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:39464827 original size:27 final size:27
Alignment explanation
Indices: 39464797--39464935 Score: 97
Period size: 27 Copynumber: 5.2 Consensus size: 27
39464787 TACTGTTTTA
* *
39464797 CCCTTGATTGTGAAATTACTGAAATAC
1 CCCTAGATTGTGAAATTACCGAAATAC
* **
39464824 CCCTATAGGGT-AGAATTACC-AAATAC
1 CCCTAGATTGTGA-AATTACCGAAATAC
* * *
39464850 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTAGATTGTGAAATTACCGAAATAC
* * *
39464877 CACTAGTTTATGAAATTACCGAAATA-
1 CCCTAGATTGTGAAATTACCGAAATAC
* *
39464903 CCCTCA-ATTTGTAAAATTACCAAAATAC
1 CCCT-AGA-TTGTGAAATTACCGAAATAC
*
39464931 ACCTA
1 CCCTA
39464936 ATTTACACAA
Statistics
Matches: 87, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
26 24 0.28
27 60 0.69
28 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
CCCTAGATTGTGAAATTACCGAAATAC
Found at i:39464938 original size:27 final size:26
Alignment explanation
Indices: 39464837--39464939 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
39464827 TATAGGGTAG
*
39464837 AATTACC-AAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAATTTGTAA
* * *
39464863 AATTACCAAAATACCACTAGTTTATGA
1 AATTACCAAAATACC-CTAATTTGTAA
*
39464890 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AATTTGTAA
39464917 AATTACCAAAATACACCTAATTT
1 AATTACCAAAATAC-CCTAATTT
39464940 ACACAATTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.17
27 52 0.79
28 3 0.05
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (26 bp):
AATTACCAAAATACCCTAATTTGTAA
Found at i:39464948 original size:54 final size:55
Alignment explanation
Indices: 39464837--39464960 Score: 150
Period size: 54 Copynumber: 2.3 Consensus size: 55
39464827 TATAGGGTAG
* * *
39464837 AATTACC-AAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTATGA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAATTTATCA
39464890 AATTACCGAAATACCCTC-AATTTGTAAAATTACCAAAATA-CACCTAATTTA-CA
1 AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCA-CTAATTTATCA
**
39464943 CAATTATAGAAATACCCT
1 -AATTACCGAAATACCCT
39464961 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
53 10 0.16
54 51 0.82
55 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.29
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTAATTTATCA
Found at i:39465011 original size:27 final size:27
Alignment explanation
Indices: 39464937--39465022 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
39464927 ATACACCTAA
* * *
39464937 TTTACACAATTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
39464965 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
39464993 TTTACAAAATTACTA-AAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
39465020 TTT
1 TTT
39465023 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 22 0.44
28 8 0.16
29 20 0.40
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:39465106 original size:27 final size:26
Alignment explanation
Indices: 39465076--39465136 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
39465066 GCCCCTAATA
39465076 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAA-ACCGTAATA-CCCCTGTAG
* *
39465103 GGTAAAGTAACCGTAATACCCCTGTAT
1 GGTAAA-AAACCGTAATACCCCTGTAG
39465130 GGTAAAA
1 GGTAAAA
39465137 TGACGAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
GGTAAAAAACCGTAATACCCCTGTAG
Found at i:39466025 original size:24 final size:25
Alignment explanation
Indices: 39465949--39466018 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
39465939 AGGAAGTGTT
* * *
39465949 AAAAA-GGCTATGCCCTAGTTTACC
1 AAAAAGGGCTTTGCCCCAGTTTATC
*
39465973 GAAAAGGGCTTTGCCCCAGTTTATC
1 AAAAAGGGCTTTGCCCCAGTTTATC
39465998 AAAAAGGGCTTTGCCCCAGTT
1 AAAAAGGGCTTTGCCCCAGTT
39466019 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 4 0.10
25 36 0.90
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAAGGGCTTTGCCCCAGTTTATC
Found at i:39466031 original size:24 final size:25
Alignment explanation
Indices: 39465949--39466031 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
39465939 AGGAAGTGTT
* * *
39465949 AAAA-AGGCTATGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
39465973 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
*
39465998 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
39466022 AAAAGAGGCT
1 AAAAGAGGCT
39466032 AGGCCTCCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
24 16 0.32
25 34 0.68
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:39470284 original size:18 final size:18
Alignment explanation
Indices: 39470263--39470302 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
39470253 GAGATTTTCT
39470263 CGAAGATTTACATTTGAC
1 CGAAGATTTACATTTGAC
39470281 CGAAGATTTACATTTGAC
1 CGAAGATTTACATTTGAC
39470299 CGAA
1 CGAA
39470303 TCTCGGTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (18 bp):
CGAAGATTTACATTTGAC
Found at i:39474478 original size:15 final size:14
Alignment explanation
Indices: 39474458--39474489 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
39474448 ACATTCAATT
39474458 AAAAGGAAAAAGAAG
1 AAAAGGAAAAAG-AG
39474473 AAAAGGAAAAAGAG
1 AAAAGGAAAAAGAG
39474487 AAA
1 AAA
39474490 CCTAGATCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAAAGAG
Found at i:39478029 original size:54 final size:53
Alignment explanation
Indices: 39477888--39478082 Score: 189
Period size: 54 Copynumber: 3.6 Consensus size: 53
39477878 ATTAGGGTTT
* * * **
39477888 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTCATAA-G-TTCATAAGGC
* * *
39477943 AAGGAAATCATGTAAGACCATGTCAAGACATGGCGTTCATAAGTTACTATAA-GC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTT-C-ATAAGGC
* * * ** *
39477997 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTTCATAAGGC
39478050 AAGGATACCATGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
39478083 AAATGGTAAG
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
52 10 0.09
53 30 0.26
54 38 0.33
55 36 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTCATAAGTTCATAAGGC
Found at i:39479682 original size:37 final size:37
Alignment explanation
Indices: 39479632--39479706 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
39479622 TTATTACGAA
* *
39479632 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
39479669 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
39479706 G
1 G
39479707 ACTTTAGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:39479898 original size:47 final size:47
Alignment explanation
Indices: 39479829--39480827 Score: 1622
Period size: 47 Copynumber: 20.9 Consensus size: 47
39479819 CCCTTCAGGA
*
39479829 CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39479876 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
39479923 CCTATCACATATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39479972 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480019 CTTATCACATATATCTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA--TACACTTTCACATTCATCACATCGGCCATTAGGC
*
39480068 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39480115 CCTATCACATATATATACACTTTCCCATTCATCACATCGGCTATAAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480164 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480213 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480260 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480309 CTTATCACATATATACACTTTCAAATTCGTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480356 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39480403 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480452 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480499 CCTATCACATTCATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACA-T-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480548 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39480595 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480641 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480690 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39480737 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39480784 CTTATCACATATATACACTTTCACTTTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
39480828 CGCCATACTA
Statistics
Matches: 893, Mismatches: 44, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
46 11 0.01
47 524 0.59
48 36 0.04
49 322 0.36
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39479993 original size:96 final size:96
Alignment explanation
Indices: 39479829--39480827 Score: 1612
Period size: 96 Copynumber: 10.5 Consensus size: 96
39479819 CCCTTCAGGA
39479829 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39479892 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * * *
39479923 CCTATCACATATATATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39479988 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39480019 CTTATCACATATATCTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
39480084 ACTTTCACATTCATCACATCAGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39480115 CCTATCACATATATATACACTTTCCCATTCATCACATCGGCTATAAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
39480180 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
39480213 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
39480276 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480309 CTTATCAC--ATATATACACTTTCAAATTCGTCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
39480372 ACTTTCACATTCATCACATCGGCTATTACGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39480403 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39480468 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
39480499 CCTATCACAT-TCATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATA
1 CTTATCACATAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
39480563 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
39480595 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATT-GGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
39480657 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
39480690 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
39480753 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
39480784 CTTATCAC--ATATATACACTTTCACTTTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
39480828 CGCCATACTA
Statistics
Matches: 851, Mismatches: 43, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
93 11 0.01
94 170 0.20
95 84 0.10
96 541 0.64
98 45 0.05
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39480091 original size:143 final size:141
Alignment explanation
Indices: 39479831--39480827 Score: 1627
Period size: 143 Copynumber: 7.0 Consensus size: 141
39479821 CTTCAGGACT
* *
39479831 TATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
* * *
39479896 TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACGTT
66 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
* *
39479961 GGCCACTCGGCCC
129 GGCCATTAGGCCC
*
39479974 TGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATCTACAC
1 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATA--TACAC
39480039 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
39480104 AGCCATTAGGCCC
129 GGCCATTAGGCCC
* *
39480117 TATCACATATATATACACTTTCCCATTCATCACATCGGCTATAAGGCCTTATCACATATATATAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
39480182 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
62 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
39480247 TCGGCCATTAGGCCC
127 TCGGCCATTAGGCCC
39480262 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
39480327 TTTCAAATTCGTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* * *
39480392 GGCTATTACGCCT
129 GGCCATTAGGCCC
39480405 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
39480470 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATTCATATACACTTTCACATTCATCACA
64 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-T-ATATACACTTTCACATTCATCACA
* *
39480535 TCGGCTATTAGGCCT
127 TCGGCCATTAGGCCC
*
39480550 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
*
39480615 TCACATTCATCACATCGGCTATT-GGCCTTATCACATATATATACACTTTCACATTCATCACATC
66 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATC
*
39480679 GGCCATTAGGCCT
129 GGCCATTAGGCCC
*
39480692 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
*
39480757 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACTTTCATCACATCGG
66 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
39480822 CCATTA
131 CCATTA
39480828 CGCCATACTA
Statistics
Matches: 813, Mismatches: 30, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
141 35 0.04
142 135 0.17
143 371 0.46
144 2 0.00
145 265 0.33
147 5 0.01
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCC
Found at i:39483105 original size:21 final size:21
Alignment explanation
Indices: 39483065--39483105 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39483055 TTTCAAAAAA
* **
39483065 ATTTTGAAAGAAATTTCATAT
1 ATTTTGAAAAAAATGCCATAT
39483086 ATTTTGAAAAAAATGCCATA
1 ATTTTGAAAAAAATGCCATA
39483106 ACTTGGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTTTGAAAAAAATGCCATAT
Found at i:39484171 original size:42 final size:43
Alignment explanation
Indices: 39484112--39484206 Score: 174
Period size: 42 Copynumber: 2.2 Consensus size: 43
39484102 GGTTTTCACG
*
39484112 ACTAAGTGTGCGGGCAATAAGTGTTCAC-GTTGTGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGAGAGATTGGC
39484154 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGAGAGATTGGC
1 ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGAGAGATTGGC
39484197 ACTAAGTGTG
1 ACTAAGTGTG
39484207 TGAGCTTGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.25, C:0.14, G:0.34, T:0.27
Consensus pattern (43 bp):
ACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGAGAGATTGGC
Found at i:39484254 original size:28 final size:29
Alignment explanation
Indices: 39484193--39484263 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 29
39484183 GTTGAGAGAT
* *
39484193 TGGCACTAAGTGTGTGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATACA
*
39484222 T-GCACTAAGTGTGCG-G-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TACA
39484249 TGGCACT-AGTGTGCG
1 TGGCACTAAGTGTGCG
39484264 TGGTTGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.14
27 13 0.35
28 18 0.49
29 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATACA
Found at i:39484709 original size:79 final size:79
Alignment explanation
Indices: 39484574--39484750 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 79
39484564 AATGATGTCT
* ** *
39484574 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCGGACTAAGTTCCGAAGAGCATTCGTG
1 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCGGACTAAGACCCAAAGAGCATTCGTG
*
39484639 CTAGTGATGTATCC
66 CTAGTGATATATCC
39484653 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAA-ACCCAAAGAGCATTCG
1 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT-CG-GACTAAGACCCAAAGAGCATTCG
* *
39484716 TGCTGGTGTTATATCC
64 TGCTAGTGATATATCC
* *
39484732 GGGCT-AGGTCCGAAGAGCA
1 GGACTAAGTTCCGAAGAGCA
39484751 ATCATGCTGG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 13 0.15
79 67 0.77
80 6 0.07
81 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCGGACTAAGACCCAAAGAGCATTCGTG
CTAGTGATATATCC
Found at i:39484748 original size:39 final size:40
Alignment explanation
Indices: 39484574--39484750 Score: 236
Period size: 39 Copynumber: 4.5 Consensus size: 40
39484564 AATGATGTCT
*
39484574 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT-C
1 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
*
39484613 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
39484653 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
** * * *
39484693 GTG-CTAA-ACCCAAAGAGCATTCGTGCTGGTGTTATATCC
1 G-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
39484732 GGGCT-AGGTCCGAAGAGCA
1 GGACTAAGTTCCGAAGAGCA
39484751 ATCATGCTGG
Statistics
Matches: 125, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.02
39 77 0.62
40 45 0.36
41 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
Found at i:39597675 original size:27 final size:27
Alignment explanation
Indices: 39597645--39597849 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
39597635 ATATTAAGTC
* *
39597645 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
39597672 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
39597700 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
39597727 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
39597754 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
39597781 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
39597808 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
39597835 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39597850 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:39597784 original size:54 final size:54
Alignment explanation
Indices: 39597645--39597848 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
39597635 ATATTAAGTC
* * * **
39597645 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
39597700 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
39597754 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
39597808 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
39597849 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:39597814 original size:81 final size:81
Alignment explanation
Indices: 39597699--39597848 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
39597689 ATAATCAAAC
* * * * * *
39597699 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
39597764 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
39597780 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
39597845 GTGC
66 GTGC
39597849 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:39599752 original size:39 final size:39
Alignment explanation
Indices: 39599697--39600019 Score: 499
Period size: 39 Copynumber: 8.3 Consensus size: 39
39599687 TAATGGAGAA
39599697 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
39599736 TTATATCTGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39599775 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCT-ATG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39599813 TTATATCCGGGCTAAGTCCC-AAGGAATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
39599851 TTATATCCGGGCTAAGTCCCGAAGGCATTCGCGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
39599890 TTATATCCGGGCTAAGTCCCAAAGGCAGTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
39599929 TTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39599968 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
39600007 TTATATCCGGGCT
1 TTATATCCGGGCT
39600020 TAAAGTCTCG
Statistics
Matches: 260, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
37 13 0.05
38 44 0.17
39 192 0.74
40 11 0.04
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:39607907 original size:47 final size:47
Alignment explanation
Indices: 39607842--39608010 Score: 197
Period size: 47 Copynumber: 3.6 Consensus size: 47
39607832 TAAGTGAACT
* *
39607842 CGAACTC-AACTCAACTCAAAGAGTTCGGATGCCTAGTTACATCTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
* *
39607888 CGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA
* *
39607933 GTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
*
39607981 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
39608011 CATTCGCATC
Statistics
Matches: 104, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 35 0.34
47 49 0.47
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:39607999 original size:98 final size:93
Alignment explanation
Indices: 39607791--39608059 Score: 412
Period size: 93 Copynumber: 2.8 Consensus size: 93
39607781 GCCCCTAAGT
* * *** *
39607791 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39607856 CTCAAAGAGTTCGGATGCCTAGTTACATCTCAC
66 --C---GAGTTCGGATGCCTAGTTACATCTCAC
39607889 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
39607954 CGAGTTCGAATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
39607982 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
39608047 CGAGTTCGGATGC
66 CGAGTTCGGATGC
39608060 TCAACCATCC
Statistics
Matches: 161, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
93 101 0.63
96 1 0.01
98 59 0.37
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:39608048 original size:46 final size:46
Alignment explanation
Indices: 39607786--39608056 Score: 234
Period size: 46 Copynumber: 5.7 Consensus size: 46
39607776 AACCTGCCCC
* * ***
39607786 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
39607832 TAAGTGAACTCGAACTCAACTCAACTCAAAGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAA--C---GAGTTCGGA---C-A-TTCGCATCCA
* *
39607885 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
39607930 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
*
39607976 TCTCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
39608023 TAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39608057 TGCTCAACCA
Statistics
Matches: 182, Mismatches: 20, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 6 0.03
45 6 0.03
46 81 0.45
47 39 0.21
48 4 0.02
49 4 0.02
50 2 0.01
51 7 0.04
52 18 0.10
53 2 0.01
54 1 0.01
55 3 0.02
56 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:39608512 original size:30 final size:30
Alignment explanation
Indices: 39608478--39608538 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
39608468 CATTTAGTAC
39608478 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
39608508 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
39608538 A
1 A
39608539 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:39613544 original size:30 final size:30
Alignment explanation
Indices: 39613502--39613595 Score: 136
Period size: 30 Copynumber: 3.2 Consensus size: 30
39613492 CAAGTAGCCG
39613502 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* * *
39613531 AATCTAGTTTAAATCGCACACTTTGTGCTA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* *
39613561 AAGCTAATTTAAATCCCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
39613591 AAGCT
1 AAGCT
39613596 TCTGATTCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 6 0.11
30 50 0.89
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:39625641 original size:44 final size:43
Alignment explanation
Indices: 39625575--39625725 Score: 134
Period size: 43 Copynumber: 3.5 Consensus size: 43
39625565 TGTGAGTTAT
* **
39625575 CATGTAAGACCACATCAAGGACATTCGCAT-ATATTTGAGATTTA
1 CATGTAAGACCACGTCTGGGACA-TCGCATCATATTT-AGATTTA
* *
39625619 CATGTAAGACCATGTCTGGGACATCGGCATCGTATTTA-ATTT-
1 CATGTAAGACCACGTCTGGGACATC-GCATCATATTTAGATTTA
* *
39625661 CATGTAAGACC-CTGTCTGGGATAGTGGCATCGATATTT-GA-TTA
1 CATGTAAGACCAC-GTCTGGGACA-TCGCATC-ATATTTAGATTTA
*
39625704 CATGTAAGACCACGTTTGGGAC
1 CATGTAAGACCACGTCTGGGAC
39625726 GTTGGCATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
42 27 0.31
43 31 0.35
44 25 0.28
45 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACATCGCATCATATTTAGATTTA
Found at i:39625677 original size:42 final size:43
Alignment explanation
Indices: 39625605--39625733 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
39625595 ACATTCGCAT
39625605 ATATTTGAGATTTACATGTAAGACCATGTCTGGGACA-TCGGCATCG
1 ATATTT-A-ATTT-CATGTAAGACCATGTCTGGGACAGT-GGCATCG
* *
39625651 -TATTTAATTTCATGTAAGACCCTGTCTGGGATAGTGGCATCG
1 ATATTTAATTTCATGTAAGACCATGTCTGGGACAGTGGCATCG
* * * *
39625693 ATATTTGATTACATGTAAGACCACGTTTGGGAC-GTTGGCAT
1 ATATTTAATTTCATGTAAGACCATGTCTGGGACAG-TGGCAT
39625734 TGTACGAGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
42 29 0.40
43 37 0.51
44 1 0.01
45 5 0.07
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
ATATTTAATTTCATGTAAGACCATGTCTGGGACAGTGGCATCG
Found at i:39625712 original size:43 final size:42
Alignment explanation
Indices: 39625616--39625725 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
39625606 TATTTGAGAT
39625616 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTAA
1 TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTAA
* * * *
39625658 TTTCATGTAAGACCCTGTCTGGGATAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGACA-TCGGCATCG-TATTTAA
* *
39625701 TTACATGTAAGACCACGTTTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
39625726 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 30 0.53
43 27 0.47
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCGGCATCGTATTTAA
Found at i:39638013 original size:24 final size:24
Alignment explanation
Indices: 39637986--39638031 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
39637976 ACCTTCTTGG
*
39637986 GAAGTTCACAAAGAACTATATCAA
1 GAAGTTCACAAAGAACCATATCAA
39638010 GAAGTTCACAAAGAACCATATC
1 GAAGTTCACAAAGAACCATATC
39638032 GGGGAGCTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.20
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATATCAA
Found at i:39642012 original size:37 final size:37
Alignment explanation
Indices: 39641962--39642035 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
39641952 TAATAATAGA
39641962 GAAACAATAGAGAGGACCTATGAGTACTTACCGATCC
1 GAAACAATAGAGAGGACCTATGAGTACTTACCGATCC
39641999 GAAACAATAGAGAGGACCTATGAGTACTTACCGATCC
1 GAAACAATAGAGAGGACCTATGAGTACTTACCGATCC
39642036 AATAGAACCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (37 bp):
GAAACAATAGAGAGGACCTATGAGTACTTACCGATCC
Found at i:39643735 original size:39 final size:39
Alignment explanation
Indices: 39643671--39643799 Score: 111
Period size: 39 Copynumber: 3.3 Consensus size: 39
39643661 GGTCTTTAAC
* ***
39643671 CCGGATATTTTTCCAGCACGCAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCAAGT
* * * **
39643710 CTC-GATATATTTCTAGCATATAGCCTACGGATCTCGTGT
1 C-CGGATATATTTCCAGCATATAGCCTGCGGACCTCAAGT
* *
39643749 CCGGATATTTTTCCAGCATAT-GTCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAG-CCTGCGGACCTCAAGT
*
39643788 TCGGATAT-TTTC
1 CCGGATATATTTC
39643800 AATCTCATAC
Statistics
Matches: 72, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
38 6 0.08
39 65 0.90
40 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCAAGT
Found at i:39651684 original size:38 final size:39
Alignment explanation
Indices: 39651642--39651755 Score: 151
Period size: 38 Copynumber: 3.0 Consensus size: 39
39651632 TCTTTAACCC
**
39651642 GATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT-CG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCG
* * * *
39651680 GATATATTTCTAGCATATAGCCTGC-GATCTCATGTCCG
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCG
*
39651718 GATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCC
39651756 AGAATTTGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 8 0.12
38 46 0.71
39 11 0.17
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (39 bp):
GATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCG
Found at i:39654527 original size:15 final size:16
Alignment explanation
Indices: 39654494--39654527 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
39654484 GAAGGAACAA
39654494 GTCGAATTACTACAGGG
1 GTCGAATTACTA-AGGG
39654511 GTCGAATTACT-AGGG
1 GTCGAATTACTAAGGG
39654526 GT
1 GT
39654528 ATTTCTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (16 bp):
GTCGAATTACTAAGGG
Found at i:39657005 original size:39 final size:39
Alignment explanation
Indices: 39656946--39657060 Score: 140
Period size: 39 Copynumber: 2.9 Consensus size: 39
39656936 TTTAACCCGA
* ** *
39656946 ATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCTGG
1 ATATATTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
* * * *
39656985 ATATATTTCTAGCATATAGCCTGTGGATCTCATGTCCGG
1 ATATATTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
* *
39657024 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 ATATATTTCCAGCATATAGCCTGCGGACCTCAAGTCC
39657061 AGAGATTTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
ATATATTTCCAGCATATAGCCTGCGGACCTCAAGTCCGG
Found at i:39663571 original size:29 final size:29
Alignment explanation
Indices: 39663536--39663609 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39663526 GTTGTGAGAT
* *
39663536 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39663565 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39663594 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39663610 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39669366 original size:56 final size:56
Alignment explanation
Indices: 39669267--39669463 Score: 272
Period size: 56 Copynumber: 3.5 Consensus size: 56
39669257 TCTTATATAG
* *
39669267 GGTCTTCCTCGTACACATATATC-AAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
** ** * *
39669322 GGTCTTACTCATACACATATATCGGAATCACATATCGATACCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
*
39669378 GGTCTTACTCGCACACATAT-TCCAAAATCACATATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATAT-CAAAATCACATATCGATGCCAACGTATTAAACGT
* *
39669434 GGTCTTACTTGCACACATATATCAGAATCA
1 GGTCTTACTCGCACACATATATCAAAATCA
39669464 GATGTCACAA
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
55 22 0.18
56 102 0.82
57 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:39675791 original size:43 final size:41
Alignment explanation
Indices: 39675645--39675791 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 41
39675635 TATCCTATAT
* * * * *
39675645 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACACGTAATCATATA-CGATGCCAATGTCCCA-AC
* * *
39675688 AGGGTCTTACACGAAATCATATAACGATGCCAATGTCCCAAA
1 ATGGTCTTACACGTAATCATAT-ACGATGCCAATGTCCCAAC
* *
39675730 ATGGTCTTACACATAATCATAATACAATGCCAATGTCCCATAC
1 ATGGTCTTACACGTAATCAT-ATACGATGCCAATGTCCCA-AC
*
39675773 ATGGTCTTACATGTAATCA
1 ATGGTCTTACACGTAATCA
39675792 CATCTTGGTA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 34 0.40
43 51 0.59
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (41 bp):
ATGGTCTTACACGTAATCATATACGATGCCAATGTCCCAAC
Found at i:39676078 original size:24 final size:25
Alignment explanation
Indices: 39676026--39676077 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
39676016 TAACCTTCGA
39676026 TTTCCCCTATCTAAATTCGATTTCT
1 TTTCCCCTATCTAAATTCGATTTCT
*
39676051 TTTCCCTTATCTAAATTCGATTTCT
1 TTTCCCCTATCTAAATTCGATTTCT
39676076 TT
1 TT
39676078 CTTTCAGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTCCCCTATCTAAATTCGATTTCT
Found at i:39689478 original size:43 final size:46
Alignment explanation
Indices: 39689351--39689512 Score: 131
Period size: 47 Copynumber: 3.5 Consensus size: 46
39689341 TGAGAGCCAT
* * * *
39689351 TGTAAGACCATGTCTGGGACATGGCATCAACCT-TGAGACGTAAGCCT-G
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CTAAGAGA-AT-AG-ATAG
* * *
39689399 TGTAAGA-AATGTCTGGGACAT-GCATCGGCTATGAG-AT-GATAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGAATAGATAG
*
39689441 TGTAAGACCATGTCTAGGACATGGCATCGAC-AAGAGATATGAGATAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGA-AT-AGATAG
* *
39689488 TATAAGACCGTGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
39689513 GTCAGCACCT
Statistics
Matches: 94, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 9 0.10
43 16 0.17
44 8 0.09
45 4 0.04
46 9 0.10
47 40 0.43
48 7 0.07
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTAAGAGAATAGATAG
Found at i:39704825 original size:27 final size:27
Alignment explanation
Indices: 39704795--39705070 Score: 363
Period size: 27 Copynumber: 10.2 Consensus size: 27
39704785 TTAGTTTACC
*
39704795 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
39704822 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
39704849 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
39704876 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
39704903 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
39704930 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
39704957 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
39704984 AAATTACCAAAATACCCCTCATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
39705011 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
39705038 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
39705065 AAATTA
1 AAATTA
39705071 TTGAAATACC
Statistics
Matches: 212, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 212 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:39704932 original size:81 final size:80
Alignment explanation
Indices: 39704795--39705135 Score: 360
Period size: 81 Copynumber: 4.2 Consensus size: 80
39704785 TTAGTTTACC
* * * * * *
39704795 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
*
39704860 ATACCTCTGGTTTGTA
66 ATACC-CTAGTTTGTA
* * *
39704876 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
39704941 ATACCCTTTGTTTATA
66 ATACCC-TAGTTTGTA
* ** *
39704957 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCATTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
39705022 ATACCCCTAGTTTGTA
66 ATA-CCCTAGTTTGTA
* * * *** *** ***
39705038 AAATTACCAAAATATCCCTGATTTGTGAAATTATTGAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAA
* *
39705102 AATACCCTCGACTTGTA
65 AATACCCTAG-TTTGTA
39705119 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
39705136 TTGATTTACA
Statistics
Matches: 221, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
80 10 0.05
81 208 0.94
82 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
ATACCCTAGTTTGTA
Found at i:39705062 original size:54 final size:54
Alignment explanation
Indices: 39704795--39705135 Score: 382
Period size: 54 Copynumber: 6.3 Consensus size: 54
39704785 TTAGTTTACC
* * * *
39704795 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
* * *
39704849 AAATCACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
*
39704903 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-TTGATTTATA
* * * *
39704957 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
* * * *
39705011 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCC-TGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA-CCCTTGATTTATA
*** *** *** * * *
39705065 AAATTATTGAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGATTTATA
39705119 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
39705136 TTGATTTACA
Statistics
Matches: 248, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
53 8 0.03
54 232 0.94
55 8 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTATA
Found at i:39705077 original size:27 final size:27
Alignment explanation
Indices: 39704795--39705142 Score: 285
Period size: 27 Copynumber: 12.9 Consensus size: 27
39704785 TTAGTTTACC
* *
39704795 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTGATTTGTA
* * * *
39704822 AAATTA-CTAGAATACCCTTGGTTTATA
1 AAATTATC-AAAATACCCCTGATTTGTA
* * * *
39704849 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTATCAAAATACCCCTGATTTGTA
* * * *
39704876 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTATCAAAATACCCCTGATTTGTA
* *
39704903 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTGATTTGTA
* *
39704930 AAATTA-CTAAAATACCCTTTG-TTTATA
1 AAATTATC-AAAATACCC-CTGATTTGTA
* * *
39704957 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTATCAAAATACCCCTGATTTGTA
* *
39704984 AAATTACCAAAATACCCCTCATTTGTA
1 AAATTATCAAAATACCCCTGATTTGTA
39705011 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTATCAAAATACCCCTGA-TTTGTA
* * *
39705038 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTATCAAAATACCCCTGATTTGTA
** **
39705065 AAATTATTGAAATA-CCCTCGACCTGTA
1 AAATTATCAAAATACCCCT-GATTTGTA
** *
39705092 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTATCAAAATACCCCT-GATTTGTA
* *
39705119 AAATTACCAAAATACCCTTGATTT
1 AAATTATCAAAATACCCCTGATTT
39705143 ACAGAATTAT
Statistics
Matches: 273, Mismatches: 38, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
26 9 0.03
27 256 0.94
28 8 0.03
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTATCAAAATACCCCTGATTTGTA
Found at i:39705150 original size:27 final size:27
Alignment explanation
Indices: 39704832--39705192 Score: 136
Period size: 27 Copynumber: 13.4 Consensus size: 27
39704822 AAATTACTAG
* * * *
39704832 AATACCCTTGGTTTATAAAATCACCAA
1 AATACCCTTGATTTACAAAATTACCGA
* ** *
39704859 AATA-CCTCTGGTTTGTAAAATTACCAA
1 AATACCCT-TGATTTACAAAATTACCGA
* * *
39704886 AATACCCTTGGTTTATAAAATTACCAA
1 AATACCCTTGATTTACAAAATTACCGA
* * ** **
39704913 AATACCCCTGGTTTGTAAAATTACTAA
1 AATACCCTTGATTTACAAAATTACCGA
* * *
39704940 AATACCCTTTG-TTTATAAAATCACCAA
1 AATACCC-TTGATTTACAAAATTACCGA
* * ** *
39704967 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTACAAAATTACCGA
* * ** * *
39704994 AATACCCCTCATTTGTAAAATTATCAA
1 AATACCCTTGATTTACAAAATTACCGA
* ** *
39705021 AATACCCCT-AGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTTACAAAATTACCGA
*** **
39705048 AATATCCC-TGATTTGTGAAATTATTGA
1 AATA-CCCTTGATTTACAAAATTACCGA
* ** ** **
39705075 AATACCCTCGACCTGTAAAATTATTGA
1 AATACCCTTGATTTACAAAATTACCGA
* * ** *
39705102 AATACCCTCGACTTGTAAAATTACCAA
1 AATACCCTTGATTTACAAAATTACCGA
* * *
39705129 AATACCCTTGATTTACAGAATTATCGT
1 AATACCCTTGATTTACAAAATTACCGA
** *
39705156 TTTACCCTCGATTTACAAAATTACCGA
1 AATACCCTTGATTTACAAAATTACCGA
39705183 AATACCCTTG
1 AATACCCTTG
39705193 TAAGGTAGAA
Statistics
Matches: 280, Mismatches: 46, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.03
27 262 0.94
28 9 0.03
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTACAAAATTACCGA
Found at i:39705211 original size:27 final size:27
Alignment explanation
Indices: 39705174--39705447 Score: 270
Period size: 27 Copynumber: 10.2 Consensus size: 27
39705164 CGATTTACAA
* * *
39705174 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39705201 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
39705228 AATTACCGAAATACCCTTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39705255 AATTA-TCG-CATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
39705281 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
39705308 AATTA-TCGGAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
** *
39705335 AATTACAAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
39705362 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
39705389 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
39705416 AATTACAGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
39705442 AATTAC
1 AATTAC
39705448 CATTTTGCCC
Statistics
Matches: 211, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 38 0.18
27 173 0.82
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:39705430 original size:81 final size:81
Alignment explanation
Indices: 39705174--39705430 Score: 313
Period size: 81 Copynumber: 3.2 Consensus size: 81
39705164 CGATTTACAA
* * * * * * *
39705174 AATTACCGAAATACCCTTGTAAGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACAGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
* *
39705239 TACCCTTATAGGGTAA
66 TACCCCTATAGGGTAG
* * * *
39705255 AATTATC-G-CATACCCCTATAGGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTA-TCGG
1 AATTA-CAGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACT-GA
39705317 AATACCCCTATAGGGTAG
64 AATACCCCTATAGGGTAG
* *
39705335 AATTACAAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAA
1 AATTACAGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
* *
39705400 TACCCCTGTAGGGTGG
66 TACCCCTATAGGGTAG
*
39705416 AATTACAGAGATACC
1 AATTACAGAAATACC
39705431 TTGTGGGGTA
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 64 0.43
81 82 0.55
82 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (81 bp):
AATTACAGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
TACCCCTATAGGGTAG
Found at i:39705918 original size:22 final size:21
Alignment explanation
Indices: 39705875--39705939 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
39705865 TTAAAGCCTT
* *
39705875 CTGATTATGGCTTCGTGTCAAC
1 CTGAATATGGCTT-GTGCCAAC
39705897 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCT-TGTGCCAAC
*
39705919 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCT-TGTGCCAA
39705940 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 1 0.03
22 33 0.92
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
CTGAATATGGCTTGTGCCAAC
Found at i:39706127 original size:27 final size:26
Alignment explanation
Indices: 39706097--39706197 Score: 85
Period size: 27 Copynumber: 3.8 Consensus size: 26
39706087 ATTCTGTTAA
* * *
39706097 GTGGCTTTGCTACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
39706124 GTGGCTATGCCACAAATGTCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
39706151 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* * * *
39706178 ATGACTCTGTCACAATATCT
1 GTGGCTATGCCACAATATCT
39706198 AATAACTGAG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.79
28 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:39706373 original size:6 final size:6
Alignment explanation
Indices: 39706359--39706472 Score: 108
Period size: 6 Copynumber: 18.7 Consensus size: 6
39706349 TTCTCTTACT
* * *
39706359 TGATAC TGATTC TGATTT TGATTC TG-TTACC TGATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* * *
39706408 TGATTC TGATTC TG-TCACC TAATTC TGATTC TAATTC TGATTC TGATTC
1 TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC TGATTC TGATTC
39706457 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
39706473 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.04
6 77 0.87
7 6 0.07
8 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:39706394 original size:31 final size:31
Alignment explanation
Indices: 39706335--39706415 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
39706325 TTGCATTCAC
* *
39706335 ATTCTGATTTTAGATTCTCTTACTTGATACTG
1 ATTCTGATTTT-GATTCTGTTACCTGATACTG
39706367 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
39706398 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
39706416 ATTCTGTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 35 0.76
32 11 0.24
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:39706405 original size:37 final size:37
Alignment explanation
Indices: 39706359--39706458 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
39706349 TTCTCTTACT
* * * *
39706359 TGATACTGATTCTGATTTTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGATTCTGATTCTGTCACCTAATAC
*
39706396 TGATTCTGATTCTGATTCTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGATTCTGATTCTGTCACCTAATAC
*
39706433 TGATTCTAATTCTGATTCTGATTCTG
1 TGATTCTGATTCTGATTCTGATTCTG
39706459 ATTCTAGTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGATTCTGTCACCTAATAC
Found at i:39707217 original size:40 final size:40
Alignment explanation
Indices: 39707172--39707332 Score: 234
Period size: 40 Copynumber: 4.0 Consensus size: 40
39707162 AGAATTGAGA
*
39707172 GTTATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
*
39707212 ATTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
* *
39707252 GTTATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
** * *
39707292 GTTGCATCCGGGCTAAGTC-CTGAAGGGCATTCGTGCCGGT
1 GTTATATCCGGGCTAAGTCTC-GAAGAGCATTCGTGCTGGT
39707332 G
1 G
39707333 ATGTGTAATC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 109 0.99
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.29
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTGGT
Found at i:39707391 original size:43 final size:43
Alignment explanation
Indices: 39707321--39707414 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
39707311 CTGAAGGGCA
39707321 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
* * * * * *
39707364 TTTGTGCTGGTGATGTGTATTCGGGCCTTCGTTCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
39707407 TTCGTGCC
1 TTCGTGCC
39707415 TAGCAGGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.12, C:0.24, G:0.31, T:0.33
Consensus pattern (43 bp):
TTCGTGCCGGTGATGTGTAATCAGGCCTTCATGCCTAGCAGGC
Found at i:39707411 original size:16 final size:16
Alignment explanation
Indices: 39707390--39707424 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
39707380 GTATTCGGGC
*
39707390 CTTCGTTCCTAGCAGG
1 CTTCGTGCCTAGCAGG
39707406 CTTCGTGCCTAGCAGG
1 CTTCGTGCCTAGCAGG
39707422 CTT
1 CTT
39707425 AATGCCGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.31, G:0.26, T:0.31
Consensus pattern (16 bp):
CTTCGTGCCTAGCAGG
Found at i:39707430 original size:16 final size:16
Alignment explanation
Indices: 39707397--39707430 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39707387 GGCCTTCGTT
**
39707397 CCTAGCAGGCTTCGTG
1 CCTAGCAGGCTTAATG
39707413 CCTAGCAGGCTTAATG
1 CCTAGCAGGCTTAATG
39707429 CC
1 CC
39707431 GGTGATTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.24
Consensus pattern (16 bp):
CCTAGCAGGCTTAATG
Found at i:39707594 original size:25 final size:25
Alignment explanation
Indices: 39707556--39707609 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
39707546 GTGTAATAAT
*
39707556 GAATGAATATAGGCATTATGTGTGC
1 GAATGAATATAGGCACTATGTGTGC
*
39707581 GAATGAAT-TGAGGCACTGTGTGTGC
1 GAATGAATAT-AGGCACTATGTGTGC
39707606 GAAT
1 GAAT
39707610 TCTTTAACCG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (25 bp):
GAATGAATATAGGCACTATGTGTGC
Found at i:39707681 original size:28 final size:28
Alignment explanation
Indices: 39707593--39707692 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
39707583 ATGAATTGAG
39707593 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTGTGTGTGCGAATTCTTTAACCGA
* * * * *
39707621 GCACTATAGTGTGCGAGA-TCGGTCAA-TGG
1 GCACTGT-GTGTGCGA-ATTC-TTTAACCGA
39707650 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTGTGTGTGCGAATTCTTTAACCGA
*
39707678 GCACTTTGTGTGCGA
1 GCACTGTGTGTGCGA
39707693 GATCAGTCAG
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.07
28 31 0.55
29 17 0.30
30 4 0.07
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAATTCTTTAACCGA
Found at i:39707709 original size:28 final size:28
Alignment explanation
Indices: 39707629--39707722 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
39707619 GAGCACTATA
*
39707629 GTGTGCGAGATCGGTCAATGGGCACTGT
1 GTGTGCGAGATCAGTCAATGGGCACTGT
* * * * *
39707657 GTGTGCGA-ATTC-TTTAACCGAGCACTTT
1 GTGTGCGAGA-TCAGTCAA-TGGGCACTGT
*
39707685 GTGTGCGAGATCAGTCAGTGGGCACTGT
1 GTGTGCGAGATCAGTCAATGGGCACTGT
39707713 GTGTGC-AGAT
1 GTGTGCGAGAT
39707723 TTCGTTTCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
27 8 0.16
28 40 0.78
29 3 0.06
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.29
Consensus pattern (28 bp):
GTGTGCGAGATCAGTCAATGGGCACTGT
Found at i:39707715 original size:56 final size:57
Alignment explanation
Indices: 39707592--39707718 Score: 220
Period size: 57 Copynumber: 2.2 Consensus size: 57
39707582 AATGAATTGA
*
39707592 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATAGTGTGCGAGATCGGTCAATG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATAGTGTGCGAGATCAGTCAATG
* *
39707649 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACT-TTGTGTGCGAGATCAGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATAGTGTGCGAGATCAGTCAATG
39707705 GGCACTGTGTGTGC
1 GGCACTGTGTGTGC
39707719 AGATTTCGTT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 33 0.49
57 34 0.51
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (57 bp):
GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATAGTGTGCGAGATCAGTCAATG
Found at i:39717842 original size:19 final size:20
Alignment explanation
Indices: 39717818--39717855 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
39717808 GGTACCACCA
39717818 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
39717837 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
39717856 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:39718169 original size:46 final size:46
Alignment explanation
Indices: 39718084--39718202 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 46
39718074 CGCCCCTAAG
* * * *
39718084 TGAACTCGGAATCAACTCAATGAGCTCAGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAA
* * *
39718130 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAA
39718176 TGAACTCGGACTCAACTCAATGAGTTC
1 TGAACTCGGACTCAACTCAATGAGTTC
39718203 GGATGCTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAATGAGTTCAGACATTCGCATCCATAAA
Found at i:39718661 original size:31 final size:30
Alignment explanation
Indices: 39718626--39718686 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39718616 ATTTAATACG
39718626 AACTTTGGAAAAAAATACACTTTTGCCCCTA
1 AACTTTGG-AAAAAATACACTTTTGCCCCTA
* * * *
39718657 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAAATACACTTTTGCCCCTA
39718687 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (30 bp):
AACTTTGGAAAAAATACACTTTTGCCCCTA
Found at i:39720573 original size:43 final size:43
Alignment explanation
Indices: 39720480--39720579 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
39720470 AGGAGTGATT
* * * * *
39720480 ACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATCGATT
1 ACATGTAAGACCATGTCCGGGACAGTGGCATCGATAATCAATA
* * *
39720523 TCGTGTAAGACCCTGTCCGGGACAGTGGCATCGATATAT-AATA
1 ACATGTAAGACCATGTCCGGGACAGTGGCATCGATA-ATCAATA
39720566 ACATGTAAGACCAT
1 ACATGTAAGACCAT
39720580 ATCTAGGATA
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 43 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
ACATGTAAGACCATGTCCGGGACAGTGGCATCGATAATCAATA
Found at i:39724355 original size:194 final size:194
Alignment explanation
Indices: 39724025--39724412 Score: 668
Period size: 194 Copynumber: 2.0 Consensus size: 194
39724015 GGAAAGATCC
* * * *
39724025 ACCTAGACTTTACTTGTTATTCTGGCTCCGAATCGGAGGATTTATTCATTTAACTTGTCCCGTAG
1 ACCTAGACTATACTTGTTATTCTAGCTCCGAATCGGACGATTTATTCATTTAACTTGTCCCGTAA
*
39724090 AGATCCCTAAGTTATGTTATTATCCCTATTCAGGACTAATAACGTTTAATCCCTAGATTGAATAA
66 AGATCCCTAAGTTATGTTATTATCCCTATTCAGGACTAATAACGTCTAATCCCTAGATTGAATAA
* * *
39724155 TTGAGACTTTTCTCTGATTAACACCCTCGGGTTGCATTAACTTGATCTATGGATCCCCTTATTA
131 TTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTA
*
39724219 ACCTAGACTATACTTGTTATTCTAGCTCTGAATCGGACGATTTATTCATTTAACTTGTCCCGTAA
1 ACCTAGACTATACTTGTTATTCTAGCTCCGAATCGGACGATTTATTCATTTAACTTGTCCCGTAA
* *
39724284 AGATCCCTAAGTTATGTTATTATCCCTATTCAGGACTAATAATGTCTAATCCCTAGATTGAATAG
66 AGATCCCTAAGTTATGTTATTATCCCTATTCAGGACTAATAACGTCTAATCCCTAGATTGAATAA
*
39724349 TTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAACTCGATCTATGGATCCTCTTATTA
131 TTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTA
39724413 GGTTTCACCC
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
194 182 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (194 bp):
ACCTAGACTATACTTGTTATTCTAGCTCCGAATCGGACGATTTATTCATTTAACTTGTCCCGTAA
AGATCCCTAAGTTATGTTATTATCCCTATTCAGGACTAATAACGTCTAATCCCTAGATTGAATAA
TTGAGACTTTTCTCTAATTAACACCCTAGGGTTGCATTAACTCGATCTATGGATCCCCTTATTA
Found at i:39734036 original size:43 final size:42
Alignment explanation
Indices: 39733989--39734094 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 42
39733979 TCGATATCAC
* *
39733989 TGTCCCAGACAGGGTCTTACACAAAATCA-TATA-ATGATGCCAA
1 TGTCCCAGACATGGTCTTACACAAAATCACAATACA--ATG-CAA
* * **
39734032 TGTCCAAGACATGGTCTTAGACGTAATCACAATACAATGCAA
1 TGTCCCAGACATGGTCTTACACAAAATCACAATACAATGCAA
39734074 TGTCCCAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
39734095 TGTAATCACA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 22 0.42
43 27 0.51
44 3 0.06
45 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACATGGTCTTACACAAAATCACAATACAATGCAA
Found at i:39742224 original size:79 final size:82
Alignment explanation
Indices: 39742113--39742296 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
39742103 GCTACTCGTT
* * *
39742113 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39742176 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39742193 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39742256 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
39742273 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39742297 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 12 0.13
79 58 0.64
80 20 0.22
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39742230 original size:39 final size:40
Alignment explanation
Indices: 39742113--39742296 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39742103 GCTACTCGTT
*
39742113 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
39742153 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39742193 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
39742232 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39742273 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39742297 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 66 0.53
41 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39852196 original size:53 final size:53
Alignment explanation
Indices: 39852014--39852220 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
39852004 ATTAGGGTTT
* * * * * *
39852014 AAGGATACCAAGTAAGACTATGCCAAGGCATGGCATTGGTAAGCTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
39852068 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
39852123 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
*
39852176 AAGGATACCACGTAAGACCATGTCC-AGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATG-CCAAGACATGGCAATGGTAAGTT
39852221 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 27, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
53 44 0.36
54 39 0.32
55 40 0.33
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:39856875 original size:26 final size:26
Alignment explanation
Indices: 39856754--39856921 Score: 103
Period size: 26 Copynumber: 6.5 Consensus size: 26
39856744 GAGATGTACT
*
39856754 TTATTTAGCAAGCCTTGAGCTAGTGA
1 TTATTTAGCAAGCCTTGAGCCAGTGA
* * * *
39856780 TTGTTTAGCAGGTCTTGAGCC-GATGT
1 TTATTTAGCAAGCCTTGAGCCAG-TGA
* * **
39856806 TTAGTTAGCAAG-CTTTACGCTGGTGA
1 TTATTTAGCAAGCCTTGA-GCCAGTGA
* * **
39856832 TTTTTTATC-TTCCTTTGAGCCAGTGA
1 TTATTTAGCAAGCC-TTGAGCCAGTGA
* *
39856858 TTATTTAGCAAGCCTTGAGCCGGTGT
1 TTATTTAGCAAGCCTTGAGCCAGTGA
* *
39856884 TTATCTAGCAAGCTTTGA--CACGATGA
1 TTATTTAGCAAGCCTTGAGCCA-G-TGA
39856910 TTATTTAGCAAG
1 TTATTTAGCAAG
39856922 TACTATGTAC
Statistics
Matches: 104, Mismatches: 30, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
24 1 0.01
25 6 0.06
26 91 0.88
27 6 0.06
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (26 bp):
TTATTTAGCAAGCCTTGAGCCAGTGA
Found at i:39856911 original size:78 final size:78
Alignment explanation
Indices: 39856768--39856916 Score: 194
Period size: 78 Copynumber: 1.9 Consensus size: 78
39856758 TTAGCAAGCC
* * * * * *
39856768 TTGAGCTAGTGATTGTTTAGCAGGTCTTGAGCCGATGTTTAGTTAGCAAGCTTTACGCTGGTGAT
1 TTGAGCCAGTGATTATTTAGCAAGCCTTGAGCCGATGTTTAGTTAGCAAGCTTTACACTGATGAT
*
39856833 TTTTTATCTTCCT
66 TATTTATCTTCCT
*
39856846 TTGAGCCAGTGATTATTTAGCAAGCCTTGAGCCGGTGTTTA-TCTAGCAAGCTTTGACAC-GATG
1 TTGAGCCAGTGATTATTTAGCAAGCCTTGAGCCGATGTTTAGT-TAGCAAGCTTT-ACACTGATG
39856909 ATTATTTA
64 ATTATTTA
39856917 GCAAGTACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 57 0.93
79 3 0.05
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (78 bp):
TTGAGCCAGTGATTATTTAGCAAGCCTTGAGCCGATGTTTAGTTAGCAAGCTTTACACTGATGAT
TATTTATCTTCCT
Found at i:39857073 original size:33 final size:33
Alignment explanation
Indices: 39857031--39857100 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
39857021 AGTTCTAAAG
39857031 TTAACTCGAATAAGTATTATTATTTTGAGTATC
1 TTAACTCGAATAAGTATTATTATTTTGAGTATC
39857064 TTAACTCGAATAAGTATTATTATTTTGAGTATC
1 TTAACTCGAATAAGTATTATTATTTTGAGTATC
39857097 TTAA
1 TTAA
39857101 ATTAGATGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (33 bp):
TTAACTCGAATAAGTATTATTATTTTGAGTATC
Found at i:39858079 original size:54 final size:54
Alignment explanation
Indices: 39857965--39858067 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
39857955 TGGCACAGTC
* * * * *
39857965 AGTTACATGAGCTAGAGACACAGTTGTGTGACCCTTAGTCACACAAGCACAATG
1 AGTTACATGACCTAGAGACACAATCGTGTGACCCTAAGTAACACAAGCACAATG
* *
39858019 AGTTACATGACCTAGGGCCACAATCGTGTGACCCTGAAG-AACACAAGCA
1 AGTTACATGACCTAGAGACACAATCGTGTGACCCT-AAGTAACACAAGCA
39858068 TAGTTAGTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 39 0.95
55 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (54 bp):
AGTTACATGACCTAGAGACACAATCGTGTGACCCTAAGTAACACAAGCACAATG
Found at i:39861390 original size:14 final size:14
Alignment explanation
Indices: 39861371--39861399 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39861361 TTATTTTGTA
39861371 TGAATTTGAAAATT
1 TGAATTTGAAAATT
39861385 TGAATTTGAAAATT
1 TGAATTTGAAAATT
39861399 T
1 T
39861400 ATCAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (14 bp):
TGAATTTGAAAATT
Found at i:39863881 original size:16 final size:15
Alignment explanation
Indices: 39863843--39863881 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
39863833 TGGATTCTCG
*
39863843 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
39863858 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
39863873 TATTCTTGG
1 TA-TCTTGG
39863882 CTTCTCCGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:39866733 original size:28 final size:28
Alignment explanation
Indices: 39866701--39866784 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
39866691 AACCTCGATC
39866701 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
39866729 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
39866751 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
39866779 ACGTGT
1 ACGTGT
39866785 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:39866774 original size:50 final size:50
Alignment explanation
Indices: 39866645--39866837 Score: 226
Period size: 50 Copynumber: 3.9 Consensus size: 50
39866635 ATCTATTGTG
* * * *
39866645 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACCT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
39866696 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
39866746 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
39866796 -GGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
39866838 AATAGGTTTG
Statistics
Matches: 120, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
49 36 0.30
50 45 0.38
51 39 0.32
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:39896183 original size:42 final size:42
Alignment explanation
Indices: 39896030--39896196 Score: 176
Period size: 42 Copynumber: 4.0 Consensus size: 42
39896020 AATCGTACCA
* ** *
39896030 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* ** * * * *
39896072 ATGCCAATAGCCCATCTATAGTCTTACACG-ATTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAACG
* *
39896114 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
*
39896156 ATGCCATATCCCAAATATGGTCTTACACGTAAA-CTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATAAC
39896197 CTTAATGTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
41 18 0.18
42 62 0.61
43 22 0.22
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAACG
Found at i:39898957 original size:79 final size:81
Alignment explanation
Indices: 39898848--39899030 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
39898838 TACTCGTTCA
* *
39898848 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
39898911 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
39898928 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
39898991 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
39899007 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39899031 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:39899030 original size:40 final size:40
Alignment explanation
Indices: 39898827--39899030 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
39898817 CGGAATTTAA
** *
39898827 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39898867 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39898907 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39898946 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39898986 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39899026 CCGGA
1 CCGGA
39899031 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39906658 original size:39 final size:40
Alignment explanation
Indices: 39906544--39906727 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39906534 GCTACTCGTT
*
39906544 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
39906584 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
39906624 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
39906663 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
39906704 CAAA-G-CTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39906728 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 47 0.38
40 66 0.53
41 10 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:39906721 original size:79 final size:81
Alignment explanation
Indices: 39906511--39906727 Score: 209
Period size: 79 Copynumber: 2.7 Consensus size: 81
39906501 GAACCACGTA
* * ** * *
39906511 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCG-TTCAAATGCCTTCGGGACATAGCCCGG-TTA
1 CCTTCGGAACTTAACCCGGATATAG-TAACTAGCACCAAA-GCCTTCGGGACTTAGCCCGGAATA
39906572 TAGTAACTCGCACAAATG
64 TAGTAACTCGCACAAATG
* * * *
39906590 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGAACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATATA
39906653 GTAACTCGCACAAATG
66 GTAACTCGCACAAATG
** * *
39906669 CCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA-CAAAG-CTTCGGGACTTAGCCCGGA
1 CCTTCGGAA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTCGGGACTTAGCCCGGA
39906728 CATCATTCGA
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
78 9 0.08
79 75 0.65
80 28 0.24
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CCTTCGGAACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCGCACAAATG
Found at i:39911436 original size:20 final size:20
Alignment explanation
Indices: 39911411--39911448 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39911401 ACTCCACAGA
*
39911411 CAAGCCACACGGGTGTGTCC
1 CAAGCCACACGGGCGTGTCC
39911431 CAAGCCACACGGGCGTGT
1 CAAGCCACACGGGCGTGT
39911449 GGAATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.34, G:0.32, T:0.13
Consensus pattern (20 bp):
CAAGCCACACGGGCGTGTCC
Found at i:39928093 original size:43 final size:43
Alignment explanation
Indices: 39928041--39928132 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
39928031 GACACGCGCG
* * * * *
39928041 TGTGCCTCAATCGTGTGTGATACACGGCTAAGCGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACGGCCAACCGACACGGCCA
*
39928084 TGTGTCTCAACCGTGTGTGACACACGGCCCACCGACACGGCCA
1 TGTGTCTCAACCGTGTGTGACACACGGCCAACCGACACGGCCA
39928127 TGTGTC
1 TGTGTC
39928133 CCCTGTAGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.21
Consensus pattern (43 bp):
TGTGTCTCAACCGTGTGTGACACACGGCCAACCGACACGGCCA
Found at i:39929689 original size:48 final size:48
Alignment explanation
Indices: 39929577--39929709 Score: 128
Period size: 48 Copynumber: 2.8 Consensus size: 48
39929567 ACATTTGGGT
* * * * *
39929577 GATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
* * * *
39929625 GATATGAGAGCCAGTGTAAGACCGTGTTTGGAACATGGCATCAGCAAT
1 GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
*
39929673 G-TAATGTA-AGCTAGTGTAAGACCAAGTCTAGG-ACATG
1 GAT-ATG-AGAGCTAGTGTAAGACCATGTCT-GGAACATG
39929710 TTTGGAACAT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
47 1 0.01
48 65 0.94
49 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.24
Consensus pattern (48 bp):
GATATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCAGCAAC
Found at i:39932410 original size:47 final size:47
Alignment explanation
Indices: 39932334--39932599 Score: 185
Period size: 47 Copynumber: 5.7 Consensus size: 47
39932324 GGGGTAAGGT
*
39932334 GCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGA-TCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCGAA
* *
39932381 GTCGATACCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGAT-CCATGTCCCAGACATGGTCTTACACTGACTCAT-ATCTCGAA
* * * * * * *
39932429 GCCGATGCATGTCCCCGACAT-ATCTTACCCTGGCTTATGTCTC-AA
1 GCCGATCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCGAA
* * * *
39932474 GGCCGATGCATGTCCTAGACAT-GTCTTACACTAGAACTC--GTCTCGAT
1 -GCCGATCCATGTCCCAGACATGGTCTTACACT-G-ACTCATATCTCGAA
* * * *
39932521 GTCGATGTCATGTCCCAAACATGGTCTTACACTGACTCTCATAATGT-G--
1 GCCGAT-CCATGTCCCAGACATGGTCTTACACTGA--CTCAT-ATCTCGAA
* *
39932569 GCTGATGCATGTCCCAGACAT-GTCTTACACT
1 GCCGATCCATGTCCCAGACATGGTCTTACACT
39932600 AGCTCACAAT
Statistics
Matches: 176, Mismatches: 28, Indels: 31
0.75 0.12 0.13
Matches are distributed among these distances:
45 1 0.01
46 66 0.38
47 81 0.46
48 25 0.14
50 1 0.01
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GCCGATCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCGAA
Found at i:39932533 original size:93 final size:93
Alignment explanation
Indices: 39932342--39932554 Score: 229
Period size: 93 Copynumber: 2.3 Consensus size: 93
39932332 GTGCCGATTC
* *
39932342 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATACCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGATCTTACACTGGCTCATATCTCAAGCCGATACCATGTCCCAGACATGGTC
39932407 TTACACTGACTATCATCTCGTAGCCGATG
66 TTACACTGAC-ATCATCTCGTAGCCGATG
* * * * * *
39932436 CATGTCCCCGACAT-ATCTTACCCTGGCTTATGTCTCAAGGCCGAT-GCATGTCCTAGACAT-GT
1 CATGTCCCAGACATGATCTTACACTGGCTCATATCTCAA-GCCGATACCATGTCCCAGACATGGT
* *
39932498 CTTACACTAGA-ACTCGTCTCG-ATGTCGATG
65 CTTACACT-GACA-TCATCTCGTA-GCCGATG
* *
39932528 TCATGTCCCAAACATGGTCTTACACTG
1 -CATGTCCCAGACATGATCTTACACTG
39932555 ACTCTCATAA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
91 2 0.02
92 23 0.23
93 47 0.47
94 27 0.27
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGATCTTACACTGGCTCATATCTCAAGCCGATACCATGTCCCAGACATGGTC
TTACACTGACATCATCTCGTAGCCGATG
Found at i:39939398 original size:47 final size:47
Alignment explanation
Indices: 39939340--39939873 Score: 883
Period size: 47 Copynumber: 11.4 Consensus size: 47
39939330 CAGCCAAGAC
39939340 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39939387 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39939434 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39939481 AGTGTATATGTGTGATAAGGCCAAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39939528 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39939575 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39939622 AGTG--TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39939667 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39939714 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39939761 AGTGTATATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
39939808 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39939855 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39939874 TCCCGAAGGG
Statistics
Matches: 458, Mismatches: 27, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
45 43 0.09
47 415 0.91
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:39942009 original size:29 final size:29
Alignment explanation
Indices: 39941974--39942047 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
39941964 GTTGTGAGAT
*
39941974 TGGCACTAAGTGTGCGGGCTTGAAA-TGA-A
1 TGGCACTAAGTGTGCGAG-TTGAAAGT-ACA
*
39942003 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39942032 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39942048 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 6 0.15
29 35 0.85
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39942473 original size:23 final size:23
Alignment explanation
Indices: 39942447--39942513 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
39942437 CTAAATCCGG
39942447 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
* * * *
39942470 GCT-AGT---GA-TA-TATCCGG
1 GCTAAGTCCCGAGGAGCATTCGT
39942487 GCTAAGTCCCGAGGAGCATTCGT
1 GCTAAGTCCCGAGGAGCATTCGT
39942510 GCTA
1 GCTA
39942514 GTGATATATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 2 0.07
21 2 0.07
22 4 0.13
23 11 0.37
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (23 bp):
GCTAAGTCCCGAGGAGCATTCGT
Found at i:39942499 original size:40 final size:40
Alignment explanation
Indices: 39942362--39942558 Score: 186
Period size: 40 Copynumber: 4.9 Consensus size: 40
39942352 TCGAATGATG
* *
39942362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCT-AGTGACTATA
* * * * *
39942402 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCTAGTGACTATA
*
39942442 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
*
39942482 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGA-TATA
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGACTATA
* ** * * *
39942522 TCCGTGCTAAACCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAC
39942559 GTGTATTCGG
Statistics
Matches: 134, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 112 0.84
41 21 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGACTATA
Found at i:39944413 original size:10 final size:11
Alignment explanation
Indices: 39944384--39944412 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
39944374 AATTTTTTAC
39944384 AAAAAAAATAA
1 AAAAAAAATAA
39944395 AAAAAAAATAA
1 AAAAAAAATAA
39944406 AAAAAAA
1 AAAAAAA
39944413 TGTGATAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:39946288 original size:47 final size:47
Alignment explanation
Indices: 39946235--39946812 Score: 959
Period size: 47 Copynumber: 12.4 Consensus size: 47
39946225 CAGCCAAGAC
39946235 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39946282 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39946328 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39946375 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39946422 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39946469 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39946516 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39946563 AGTG--TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39946608 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGCTGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
39946653 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
39946700 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
39946747 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
39946794 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39946813 TCCCGAAGGG
Statistics
Matches: 503, Mismatches: 25, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
45 86 0.17
46 45 0.09
47 372 0.74
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:39946691 original size:184 final size:183
Alignment explanation
Indices: 39946241--39946755 Score: 922
Period size: 184 Copynumber: 2.8 Consensus size: 183
39946231 AGACAGTGTA
*
39946241 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
39946306 ATGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 ATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
39946371 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
131 TGAAAGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
39946426 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATA--TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
39946491 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39946556 ATGTGAAAGTGTATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
128 ATGTGAAAGTGTATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
39946612 TATATGTGATAAGGCCTAATAGCCGATGTGCTGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
39946677 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 AT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
39946742 GTGAAAGTGTATAT
130 GTGAAAGTGTATAT
39946756 ATGTGACAGG
Statistics
Matches: 319, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
184 136 0.43
185 4 0.01
186 47 0.15
187 62 0.19
188 70 0.22
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (183 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
TGAAAGTGTATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
Found at i:39946692 original size:231 final size:233
Alignment explanation
Indices: 39946235--39946812 Score: 964
Period size: 231 Copynumber: 2.5 Consensus size: 233
39946225 CAGCCAAGAC
39946235 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
39946300 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATGTGTGATAAGGCCTAATAGCCGATGTG
*
39946364 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
130 ATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
* *
39946429 ATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
194 ATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
39946469 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
39946534 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATGTGTGATAAGGCCTAATAGCCGATGTGA
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATGTGTGATAAGGCCTAATAGCCGATGTGA
*
39946598 TGAATGTGAAAGTG-TATATGTGATAAGGCCTAATAGCCGATGTGCTGAATGTGAAAGTGTATAT
131 TGAATGTGAAAGTGATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
39946662 ATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
196 ATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
39946700 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * **
39946765 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATGTGTGATAAG
39946813 TCCCGAAGGG
Statistics
Matches: 324, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
231 173 0.53
233 55 0.17
234 72 0.22
235 24 0.07
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (233 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATGTGTGATAAGGCCTAATAGCCGATGTGA
TGAATGTGAAAGTGATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:39946735 original size:278 final size:279
Alignment explanation
Indices: 39946235--39946812 Score: 971
Period size: 278 Copynumber: 2.1 Consensus size: 279
39946225 CAGCCAAGAC
39946235 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAA
*
39946300 GGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGA
65 GGCCTAATGCCGATGTGATGAATGTGAAAGTGTATA-GTGTGATAAGGCCTAATAGCCGATGTGA
*
39946365 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
129 TGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
39946430 TGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
194 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
* *
39946495 AGCCGATGTGATGAATGTGAA
259 AGCCAACGTGATGAATGTGAA
*
39946516 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATGTGTGATAAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAG
*
39946580 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATA-TGTGATAAGGCCTAATAGCCGATGTGCT
66 GCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATAGTGTGATAAGGCCTAATAGCCGATGTGAT
39946644 GAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
130 GAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
39946709 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTG
195 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATA
*
39946774 GCCAACGTGATGGATGTGAA
260 GCCAACGTGATGAATGTGAA
* *
39946794 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
39946813 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 16, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
278 182 0.65
279 19 0.07
280 28 0.10
281 51 0.18
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (279 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAG
GCCTAATGCCGATGTGATGAATGTGAAAGTGTATAGTGTGATAAGGCCTAATAGCCGATGTGATG
AATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATAG
CCAACGTGATGAATGTGAA
Found at i:39946987 original size:37 final size:37
Alignment explanation
Indices: 39946935--39947009 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
39946925 GCTCTAAAGG
* *
39946935 CCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAGA
*
39946972 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
39947009 C
1 C
39947010 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 33 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:39949447 original size:6 final size:7
Alignment explanation
Indices: 39949431--39949456 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
39949421 GAAATGAATG
39949431 AAAAATA
1 AAAAATA
39949438 AAAAATA
1 AAAAATA
39949445 AAAAATA
1 AAAAATA
39949452 AAAAA
1 AAAAA
39949457 AGTAGCAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:39951396 original size:13 final size:13
Alignment explanation
Indices: 39951378--39951404 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39951368 TCAAACATCA
39951378 ATGCCCCGTTTTG
1 ATGCCCCGTTTTG
39951391 ATGCCCCGTTTTG
1 ATGCCCCGTTTTG
39951404 A
1 A
39951405 CTTCTCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.11, C:0.30, G:0.22, T:0.37
Consensus pattern (13 bp):
ATGCCCCGTTTTG
Found at i:39954239 original size:18 final size:18
Alignment explanation
Indices: 39954218--39954304 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
39954208 ATGGAGAGAT
39954218 TAAATTAAATTTTAAAAA
1 TAAATTAAATTTTAAAAA
*
39954236 TAAATTAAATTAAATTAAAATTT
1 TAAATTAAATT---TTAAAA--A
** * * *
39954259 TATTTTAAA-TGTAGAGAT
1 TAAATTAAATTTTA-AAAA
39954277 TAAATTAAATTTTAAAAA
1 TAAATTAAATTTTAAAAA
39954295 TAAATTAAAT
1 TAAATTAAAT
39954305 AAATTTAATT
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
18 31 0.60
19 5 0.10
20 2 0.04
21 6 0.12
22 1 0.02
23 7 0.13
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
TAAATTAAATTTTAAAAA
Found at i:39954251 original size:59 final size:59
Alignment explanation
Indices: 39954185--39954314 Score: 217
Period size: 59 Copynumber: 2.2 Consensus size: 59
39954175 AGTTTTAAAG
39954185 ATTAAATTAAATTTTTACTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
1 ATTAAATTAAATTTTTACTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
* * *
39954244 ATTAAATTAAAATTTTATTTTAAATGTAGAGATTAAATTAAATTTTAAAAATAAATTAA
1 ATTAAATTAAATTTTTACTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
*
39954303 A-TAAATTTAATT
1 ATTAAATTAAATT
39954315 ATTGTTAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
58 9 0.14
59 57 0.86
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (59 bp):
ATTAAATTAAATTTTTACTTTAAATGGAGAGATTAAATTAAATTTTAAAAATAAATTAA
Found at i:39955958 original size:40 final size:40
Alignment explanation
Indices: 39955914--39956104 Score: 283
Period size: 40 Copynumber: 4.7 Consensus size: 40
39955904 TTGACGACAA
*
39955914 TTCGGCTATGTATGGCACTTACTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
*
39955954 TTCGGCTATGTATGGCATTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
*
39955994 TTCGGCTATGTATGGCACTTAGTGTTCGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
* ** *
39956034 TTCAGCTATGTATGGCACTTAGTGTGCGATATTAAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAT-TCGAGATAGC
* *
39956075 TTCAGCTATGTATTGTCACTTAGTGTGCGA
1 TTCGGCTATGTA-TGGCACTTAGTGTGCGA
39956105 GAATTAGAGT
Statistics
Matches: 139, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 104 0.75
41 19 0.14
42 16 0.12
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
Found at i:39965435 original size:28 final size:28
Alignment explanation
Indices: 39965394--39965463 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
39965384 GTAAACAGTG
* * *
39965394 TATACAGTAACAGTCTGGGCCTTAGCCC
1 TATACAGTATCAGTCTGGGCCTAAACCC
*
39965422 TATACAGTATCAGTGTGGGCCTAAACCC
1 TATACAGTATCAGTCTGGGCCTAAACCC
* *
39965450 AATACAATATCAGT
1 TATACAGTATCAGT
39965464 ACAGTGCAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (28 bp):
TATACAGTATCAGTCTGGGCCTAAACCC
Found at i:39975543 original size:20 final size:21
Alignment explanation
Indices: 39975520--39975558 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39975510 ATAAGTAAGA
*
39975520 TATGTGAT-GTTTATAATGTT
1 TATGTGATGGTTTACAATGTT
39975540 TATGTGATGGTTTACAATG
1 TATGTGATGGTTTACAATG
39975559 GGGTATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (21 bp):
TATGTGATGGTTTACAATGTT
Found at i:39979401 original size:30 final size:30
Alignment explanation
Indices: 39979367--39979427 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39979357 TCCTTAACTC
39979367 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
39979397 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
39979427 A
1 A
39979428 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:39983393 original size:40 final size:40
Alignment explanation
Indices: 39983338--39983530 Score: 241
Period size: 40 Copynumber: 4.8 Consensus size: 40
39983328 TATTCGGATG
39983338 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
39983378 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
39983418 ATATCCGGACTAAGATCCGAAGGCAATT-GTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGC-ATTCGTGCTAGTTACT
* * ** *
39983458 ATAACC-GAGTTAAG-TCCCGAAGGCATTCGTGCGGGTTATT
1 ATATCCGGA-CTAAGAT-CCGAAGGCATTCGTGCTAGTTACT
* **
39983498 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGCT
1 ATATCCGGACTAAGAT-CCGAAGGCATTCGTGCT
39983531 GGTTGTTACA
Statistics
Matches: 141, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
39 6 0.04
40 131 0.93
41 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
Found at i:39983558 original size:40 final size:39
Alignment explanation
Indices: 39983338--39983558 Score: 171
Period size: 40 Copynumber: 5.5 Consensus size: 39
39983328 TATTCGGATG
*
39983338 ATATCCGGACTAAGA-TCCGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGAC-AA-ATTCCGAAGGCATTCGTGCTAGTTATT
*
39983378 ATATCCGGACTAAGA-TCCGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGAC-AA-ATTCCGAAGGCATTCGTGCTAGTTATT
39983418 ATATCCGGACTAAGA-TCCGAAGGCAATT-GTGCTAGTTATT
1 ATATCCGGAC-AA-ATTCCGAAGGC-ATTCGTGCTAGTTATT
* ** * * **
39983458 ATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGGGTTATT
1 ATATCCG-GACAAATTCCGAAGGCATTCGTGCTAGTTATT
* ** * * * *
39983498 ATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTT
1 ATATCC-GGACAAATTCCGAAGGCATTCGTGCTAGTTATT
*
39983538 ACATCCGAGACAAATTCCGAA
1 ATATCCG-GACAAATTCCGAA
39983559 AGTAATTATG
Statistics
Matches: 159, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.03
40 150 0.94
41 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (39 bp):
ATATCCGGACAAATTCCGAAGGCATTCGTGCTAGTTATT
Found at i:39983558 original size:80 final size:80
Alignment explanation
Indices: 39983342--39983558 Score: 235
Period size: 80 Copynumber: 2.7 Consensus size: 80
39983332 CGGATGATAT
*
39983342 CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACTATATCCG-GACTAAGA-TCCGAAGGCATT
1 CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTATTATATCCGAGAC-AA-ATTCCGAAGGCATT
* *
39983405 CGTGCTAGTTACTATAT
64 CGTGCGAGTTACTATAA
* ** * *
39983422 CCGGACTAAGATCCGAAGGCAATT-GTGCTAGTTATTATAACCGAGTTAAGTCCCGAAGGCATTC
1 CCGGACTAAGATCCGAAGGC-ATTCGTGCTAGTTATTATATCCGAGACAAATTCCGAAGGCATTC
* *
39983486 GTGCGGGTTATTATAA
65 GTGCGAGTTACTATAA
** * * *
39983502 CCGGGTTAAG-TCCCGAAGGCATTCGTGCTGGTTGTTACATCCGAGACAAATTCCGAA
1 CCGGACTAAGAT-CCGAAGGCATTCGTGCTAGTTATTATATCCGAGACAAATTCCGAA
39983559 AGTAATTATG
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
79 4 0.04
80 104 0.93
81 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTATTATATCCGAGACAAATTCCGAAGGCATTCG
TGCGAGTTACTATAA
Found at i:39991577 original size:40 final size:40
Alignment explanation
Indices: 39991522--39991669 Score: 219
Period size: 40 Copynumber: 3.7 Consensus size: 40
39991512 TATTCGGATG
39991522 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
39991562 ATATCCGGACTAAGATCCGAAGGCATTCATGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
*
39991602 ATATCCGGACTAAGATCCGAAGGCAATT-GTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGC-ATTCGTGCTAGTTACT
* **
39991642 ATAACCGGGTTAAG-TCCCGAAGGCATTC
1 ATATCCGGACTAAGAT-CCGAAGGCATTC
39991670 ATGCGGGTTA
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.04
40 92 0.93
41 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACT
Found at i:39991680 original size:40 final size:40
Alignment explanation
Indices: 39991526--39991687 Score: 202
Period size: 40 Copynumber: 4.0 Consensus size: 40
39991516 CGGATGATAT
* *
39991526 CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTACTATAT
1 CCGGACTAAGATCCGAAGGCATTCATGCTAGTTACTATAA
*
39991566 CCGGACTAAGATCCGAAGGCATTCATGCTAGTTACTATAT
1 CCGGACTAAGATCCGAAGGCATTCATGCTAGTTACTATAA
* *
39991606 CCGGACTAAGATCCGAAGGCAATT-GTGCTAGTTATTATAA
1 CCGGACTAAGATCCGAAGGC-ATTCATGCTAGTTACTATAA
** ** *
39991646 CCGGGTTAAG-TCCCGAAGGCATTCATGCGGGTTATTATAA
1 CCGGACTAAGAT-CCGAAGGCATTCATGCTAGTTACTATAA
39991686 CC
1 CC
39991688 AAGCCAAATT
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.04
40 103 0.94
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGACTAAGATCCGAAGGCATTCATGCTAGTTACTATAA
Done.