Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 257 of 425
Found at i:79023085 original size:25 final size:24
Alignment explanation
Indices: 79023051--79023103 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
79023041 CACAAATGCA
79023051 GCTCTTTATGAG-TGTCCTGATATAG
1 GCTCTTTATGAGCT-TCCTGATAT-G
*
79023076 GCTCTTTATGAGCTTCTTGATATG
1 GCTCTTTATGAGCTTCCTGATATG
79023100 GCTC
1 GCTC
79023104 GCTTGAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 20 0.77
26 1 0.04
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCTGATATG
Found at i:79025989 original size:40 final size:39
Alignment explanation
Indices: 79025896--79026081 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
79025886 TTGAATGATG
* * *
79025896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
79025936 TCCAGACTGAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
79025976 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
** *
79026016 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
* * *
79026057 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
79026082 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 115 0.90
41 11 0.09
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79026073 original size:80 final size:81
Alignment explanation
Indices: 79025896--79026081 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 81
79025886 TTGAATGATG
* *
79025896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACTATATCCAGACTGAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTGACTAAATCCAGACTAAGATCCGAAGGCATT
*
79025960 TGTGCGAGTTACTAAA
66 TGTGCGAGCTACTAAA
* * * **
79025976 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTGAGTGACTAAATCCAGACTAAGATC-CGAAGGCA
79026038 TTTGTGCGAGCTACTATAA
64 TTTGTGCGAGCTACTA-AA
* *
79026057 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
79026082 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 3 0.03
80 77 0.86
81 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTGAGTGACTAAATCCAGACTAAGATCCGAAGGCATT
TGTGCGAGCTACTAAA
Found at i:79026088 original size:80 final size:79
Alignment explanation
Indices: 79025950--79026104 Score: 190
Period size: 80 Copynumber: 1.9 Consensus size: 79
79025940 GACTGAGATC
* **
79025950 CGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTA
1 CGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTA
79026014 AATCCGGGTTAAGTCT
65 AATCC-GGTTAAGTCT
* * *
79026030 CGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGCT
1 CGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCT
*
79026093 ATATCCGGTTAA
64 AAATCCGGTTAA
79026105 ACTCCAAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 54 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAGTCT
Found at i:79031505 original size:9 final size:9
Alignment explanation
Indices: 79031491--79031516 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
79031481 TCCAAACCTC
79031491 TGAAATCAG
1 TGAAATCAG
79031500 TGAAATCAG
1 TGAAATCAG
79031509 TGAAATCA
1 TGAAATCA
79031517 ATGAGGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (9 bp):
TGAAATCAG
Found at i:79033040 original size:24 final size:24
Alignment explanation
Indices: 79032943--79033032 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 24
79032933 AGTTACCTGT
**
79032943 TAAGCTCGCATGAGCTTTTTGATT-
1 TAAGCTCGCATGAGCTTCCTG-TTA
** *
79032967 TAAGCTCTTATGAGCTTCCTATTA
1 TAAGCTCGCATGAGCTTCCTGTTA
* * *
79032991 TTGAGCTCGGATAAGCTTCCTGTTA
1 -TAAGCTCGCATGAGCTTCCTGTTA
*
79033016 TAAGCTCACATGAGCTT
1 TAAGCTCGCATGAGCTT
79033033 TTTGTTATTT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
23 2 0.04
24 29 0.58
25 19 0.38
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (24 bp):
TAAGCTCGCATGAGCTTCCTGTTA
Found at i:79036600 original size:50 final size:50
Alignment explanation
Indices: 79036475--79036661 Score: 186
Period size: 50 Copynumber: 3.7 Consensus size: 50
79036465 TGAGGTCGCA
* * * * *
79036475 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-GT-GATCACG
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTA-CC--AGACTGGTGGGTCACG
* **
79036526 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGGTG-GGTCACG
* *
79036576 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGTTGGTTGCA--
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGGTGGGT-CACG
* *
79036625 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGA
79036662 TAGCTTCGGC
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 35 0.30
50 42 0.36
51 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGGTGGGTCACG
Found at i:79040358 original size:42 final size:42
Alignment explanation
Indices: 79040300--79040464 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
79040290 ACATTAGGGT
* *
79040300 TATGAG-TTTACATGTAAGACCATATCTGGGATATGGTATCGT
1 TATGAGATTT-CATGTAAGACCATATCTGGGATATGGCATCGA
* *
79040342 TATGAGATTTCGTGTAAGACCATGTCTGGGATATGGCATCGA
1 TATGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGA
* * * * * * *
79040384 TATGAGA-ATCGTGTAAGACCATAGCTAGGCTATTGACATTGA
1 TATGAGATTTCATGTAAGACCATATCTGGGATA-TGGCATCGA
**
79040426 TATGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TATGAGATTTCATGTAAGACCATATCTGGGATATGGCAT
79040465 TGGTATGATT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 20 0.20
42 60 0.59
43 22 0.22
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCTGGGATATGGCATCGA
Found at i:79051205 original size:21 final size:21
Alignment explanation
Indices: 79051179--79051219 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79051169 ATCTGCTCAA
* *
79051179 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
79051200 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
79051220 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:79060751 original size:40 final size:40
Alignment explanation
Indices: 79060705--79060853 Score: 199
Period size: 40 Copynumber: 3.7 Consensus size: 40
79060695 ATAATCCACA
* * * *
79060705 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* *
79060745 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* * *
79060785 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATGATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* *
79060825 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
79060854 TATCATTCAA
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
Found at i:79069271 original size:40 final size:40
Alignment explanation
Indices: 79069216--79069379 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
79069206 TGAATGATAC
* * *
79069216 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
79069256 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * * *
79069296 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
79069336 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
79069376 CCGG
1 CCGG
79069380 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:79069349 original size:80 final size:80
Alignment explanation
Indices: 79069216--79069393 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 80
79069206 TGAATGATAC
* * * * * *
79069216 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
79069280 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
79069296 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
**
79069361 TGCTTGTGGTTATAT
66 TGCGAGTGGTTATAT
79069376 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
79069394 TACGTGACTC
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 66 0.79
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAGACCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:79072144 original size:40 final size:40
Alignment explanation
Indices: 79072099--79072245 Score: 172
Period size: 39 Copynumber: 3.7 Consensus size: 40
79072089 ATAATCCACA
* * * *
79072099 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* * *
79072139 TGCACAAATGCCTTCGGGTCTTAGCCC-GATATAACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* * *
79072178 CGCACGAATGCCTTC-GGTCTTAGCCCGGATATGATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
* *
79072217 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
79072246 GTATCATTCA
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
38 11 0.12
39 42 0.47
40 36 0.40
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACT
Found at i:79072209 original size:39 final size:40
Alignment explanation
Indices: 79072079--79072245 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
79072069 TCTTCGGAAT
* * *
79072079 TTAG-CCGGATATAATCCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * *** *
79072119 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
79072159 TTAGCCC-GATATAACAACTCGCACGAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
79072197 TTAGCCCGGATATGATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AACAACTAGCACAAATGCCTTCGGGTC
79072237 TTAGCCCGG
1 TTAGCCCGG
79072246 GTATCATTCA
Statistics
Matches: 102, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
38 11 0.11
39 41 0.40
40 43 0.42
41 7 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:79081010 original size:46 final size:47
Alignment explanation
Indices: 79080943--79081209 Score: 232
Period size: 46 Copynumber: 5.7 Consensus size: 47
79080933 TGTAACCCGC
* * *
79080943 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGAG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* * *
79080989 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC--GTTCGCAT
* * * * *
79081039 --TTCA-CGAGCTCGGACTCAAGTCAACGAGTTC-AGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* *
79081082 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC--GTTCGCAT
* *
79081132 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-AGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
* *
79081175 CCATAAGTGAACTCGGACTCGACTCAACAAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
79081210 GATGCCCAAA
Statistics
Matches: 174, Mismatches: 28, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
42 6 0.03
43 6 0.03
44 5 0.03
45 6 0.03
46 78 0.45
47 51 0.29
48 6 0.03
49 4 0.02
50 6 0.03
51 6 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACGTTCGCAT
Found at i:79081063 original size:47 final size:46
Alignment explanation
Indices: 79080998--79081162 Score: 190
Period size: 47 Copynumber: 3.5 Consensus size: 46
79080988 TCCATAAGTA
79080998 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCACG
* * * * * * * * * *
79081045 AGCTCGGACTCAAGTCAACGAGTTCAGACG-TTCGCATCCA-TAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-CG
79081091 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCACG
79081138 AACTCGGACTCAACTCAACGAGTTC
1 AACTCGGACTCAACTCAACGAGTTC
79081163 AGACGTTCGC
Statistics
Matches: 93, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 32 0.34
47 57 0.61
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCACG
Found at i:79081079 original size:93 final size:93
Alignment explanation
Indices: 79080950--79081215 Score: 444
Period size: 93 Copynumber: 2.9 Consensus size: 93
79080940 CGCCCATAAG
* * *
79080950 CGAACTCAGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTAAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCAGA-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
*
79081014 AACGAGTTCGGATGCCTAGTTACATTTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
79081043 CGAGCTCGGACTCAAGTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
79081108 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
79081136 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
79081201 ACAAGTTCGGATGCC
66 ACGAGTTCGGATGCC
79081216 CAAATATCCA
Statistics
Matches: 162, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
93 160 0.99
94 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:79084560 original size:19 final size:20
Alignment explanation
Indices: 79084536--79084573 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
79084526 GGTACCACCA
79084536 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
79084555 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
79084574 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:79084912 original size:93 final size:93
Alignment explanation
Indices: 79084802--79084972 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
79084792 GCCCCTAAGT
* *
79084802 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
79084867 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
79084895 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
79084960 CGAGTTCGGATGC
66 CGAGTTCGGATGC
79084973 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:79084969 original size:46 final size:46
Alignment explanation
Indices: 79084797--79084969 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
79084787 AACCCGCCCC
* * * *
79084797 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
79084843 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
79084891 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
79084936 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
79084970 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:79096605 original size:40 final size:40
Alignment explanation
Indices: 79096561--79096689 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
79096551 TGCTGGAAAT
* * *
79096561 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
79096601 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
79096641 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
79096681 TATATCCGG
1 TATATCCGG
79096690 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:79099667 original size:46 final size:47
Alignment explanation
Indices: 79099520--79099691 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 47
79099510 TTATTTGTAT
* * * *
79099520 GCTAGTGTAAGACATGTCTAGGACATGCATCAACCAC-A-TCATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGT-AGA
* * * *
79099566 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-AGA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCCTCGAGACGTAGA
79099614 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAGA
* * *
79099660 GCCAGTGTAAGACATGTCTGGGACATGTATCA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCA
79099692 ACTACAAGAT
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 56 0.53
47 27 0.25
48 21 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAGA
Found at i:79107254 original size:46 final size:46
Alignment explanation
Indices: 79107201--79107409 Score: 183
Period size: 46 Copynumber: 4.5 Consensus size: 46
79107191 TTTGTGTGCT
*
79107201 AGTGTAAGACATGTCTAGGACATGAATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
* * * * * * * *
79107247 AGTGTAAGACCATGTTTGGGGCATGGCATCGACATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTA-AGCC
* * *
79107295 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
* * * * **
79107341 AATGGAAAACATGTCTAGGACATGCATCGG-CTACAAGATGT--GTT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGAGATGTAAGCC
79107385 AGTGTAAGACCATGTCTAGGACATG
1 AGTGTAAGA-CATGTCTAGGACATG
79107410 GCATTTGCAC
Statistics
Matches: 129, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
44 7 0.05
45 17 0.13
46 55 0.43
47 26 0.20
48 24 0.19
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:79108544 original size:28 final size:28
Alignment explanation
Indices: 79108503--79108567 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
79108493 CACAGACTAA
* *
79108503 GACACGGGCGTGTCATGGCCTTGTGAGG
1 GACACGGGCATGTCATGGCCGTGTGAGG
79108531 GACACGGGCATGTCATGGCCGTGTGAGG
1 GACACGGGCATGTCATGGCCGTGTGAGG
79108559 GACACGGGC
1 GACACGGGC
79108568 CATAGACACG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (28 bp):
GACACGGGCATGTCATGGCCGTGTGAGG
Found at i:79108582 original size:28 final size:27
Alignment explanation
Indices: 79108524--79108583 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
79108514 GTCATGGCCT
* *
79108524 TGTGAGGGACACGGGCATGTCATGGCCG
1 TGTGAGGGACACGGGCATGACACGG-CG
79108552 TGTGAGGGACACGGGCCATAGACACGG-G
1 TGTGAGGGACACGGG-CAT-GACACGGCG
79108580 TGTG
1 TGTG
79108584 TGTCAAGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 20 0.71
29 3 0.11
30 5 0.18
ACGTcount: A:0.20, C:0.20, G:0.43, T:0.17
Consensus pattern (27 bp):
TGTGAGGGACACGGGCATGACACGGCG
Found at i:79108742 original size:21 final size:20
Alignment explanation
Indices: 79108716--79108754 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
79108706 GTCATAATGA
79108716 CCACACGGGCATGTTGCCCAT
1 CCACACGGGCATG-TGCCCAT
*
79108737 CCACACGGGCGTGTGCCC
1 CCACACGGGCATGTGCCC
79108755 TGTTTCAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.41, G:0.28, T:0.15
Consensus pattern (20 bp):
CCACACGGGCATGTGCCCAT
Found at i:79119060 original size:37 final size:37
Alignment explanation
Indices: 79119010--79119196 Score: 320
Period size: 37 Copynumber: 5.1 Consensus size: 37
79119000 CTTTAGCTCA
* * *
79119010 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
79119047 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCT
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
79119084 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
79119121 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
79119158 GACATAATCTCCACACGTAGTCATCGGGCCTTACCCG
1 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
79119195 GA
1 GA
79119197 ATATATTTCC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 144 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:79119430 original size:50 final size:50
Alignment explanation
Indices: 79119371--79119522 Score: 295
Period size: 50 Copynumber: 3.0 Consensus size: 50
79119361 CATTCGGCTT
79119371 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
*
79119421 TACATATCTCATATATATATTTCTCATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
79119471 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
1 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
79119521 TA
1 TA
79119523 TGCATGTTCA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.39
Consensus pattern (50 bp):
TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATA
Found at i:79119568 original size:47 final size:47
Alignment explanation
Indices: 79119492--79119591 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 47
79119482 TATATATATT
* * *
79119492 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCACAATCA
1 TCACATTAGCCATTCGGCCTTACCACATATATACACGTTCACAATCA
* * * *
79119539 TCACATTGGCCATTCGGCCTTATCTCATATATACACGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTACCACATATATACACGTTCACAATCA
79119586 TCACAT
1 TCACAT
79119592 AAAATCCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTACCACATATATACACGTTCACAATCA
Found at i:79123132 original size:29 final size:29
Alignment explanation
Indices: 79123099--79123181 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
79123089 AAATTCACAT
*
79123099 ACCTGTATTTGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
79123128 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * *
79123157 ACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
79123182 GTCACATTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:79127620 original size:28 final size:28
Alignment explanation
Indices: 79127588--79127702 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
79127578 TACCTGTATC
* *
79127588 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
79127616 TGGCCCATTAGGCCCAAATTACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
79127645 TGGCCCATTAGGCTCAAATCACATTTATA
1 TGGCCCATTAGGC-CCAATCACATTCATA
* *
79127674 TGGCCCTTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
79127702 T
1 T
79127703 TCCTGCTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
28 28 0.39
29 42 0.58
30 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:79127639 original size:57 final size:58
Alignment explanation
Indices: 79127578--79127689 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
79127568 CAAATTCACA
* * *
79127578 TACCTGTATCTGGCCCATTAAGC-CCAATCATATTCATATGGCCCATTAGGCCCAAAT
1 TACCTGTATATGGCCCATTAAGCTCAAATCACATTCATATGGCCCATTAGGCCCAAAT
* * *
79127635 TACCTGTATATGGCCCATTAGGCTCAAATCACATTTATATGGCCCTTTAGGCCCA
1 TACCTGTATATGGCCCATTAAGCTCAAATCACATTCATATGGCCCATTAGGCCCA
79127690 GTCACATTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.44
58 27 0.56
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (58 bp):
TACCTGTATATGGCCCATTAAGCTCAAATCACATTCATATGGCCCATTAGGCCCAAAT
Found at i:79128406 original size:27 final size:28
Alignment explanation
Indices: 79128350--79128420 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 28
79128340 AAATTTGTAG
*
79128350 AGCACTAAGTGTGCAAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
79128378 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
79128405 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
79128421 ACTCACTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:79128430 original size:27 final size:27
Alignment explanation
Indices: 79128374--79128431 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
79128364 AAGTTTGATC
** * *
79128374 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAACTCACT
79128401 ATATAGCACTAAGTGTGCGAACTCACT
1 ATATAGCACTAAGTGTGCGAACTCACT
79128428 ATAT
1 ATAT
79128432 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAACTCACT
Found at i:79131935 original size:40 final size:40
Alignment explanation
Indices: 79131808--79131937 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
79131798 ATGCTGGAAA
* *
79131808 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
79131848 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
79131888 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
79131928 TTATATCCGG
1 TTATATCCGG
79131938 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:79139372 original size:27 final size:28
Alignment explanation
Indices: 79139316--79139385 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
79139306 AAATTTGTAC
79139316 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
79139344 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
79139371 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
79139386 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:79139396 original size:27 final size:27
Alignment explanation
Indices: 79139316--79139397 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
79139306 AAATTTGTAC
* *
79139316 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
79139344 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
79139371 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
79139398 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:79150847 original size:29 final size:29
Alignment explanation
Indices: 79150814--79151002 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
79150804 GTGACGAGAT
79150814 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79150843 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79150872 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79150901 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
79150930 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
79150959 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
79150988 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
79151003 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:79158960 original size:29 final size:29
Alignment explanation
Indices: 79158927--79159086 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
79158917 GTGACGAGAT
79158927 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79158956 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
79158985 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
79159014 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
79159043 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
79159072 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
79159087 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:79161075 original size:26 final size:26
Alignment explanation
Indices: 79161001--79161075 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
79160991 GCTATATAAC
* *
79161001 AGGAAGCTCAT-AAGAGCC-ATAATT
1 AGGAAGCTCATAAAGAACCTTTAATT
* * *
79161025 AAGAAGTTCACAAAGAA-CTTGTAATT
1 AGGAAGCTCATAAAGAACCTT-TAATT
79161051 AGGAAGCTCATAAAGAACCTTTAAT
1 AGGAAGCTCATAAAGAACCTTTAAT
79161076 CATGAGCTCT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
24 9 0.23
25 4 0.10
26 23 0.59
27 3 0.08
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.24
Consensus pattern (26 bp):
AGGAAGCTCATAAAGAACCTTTAATT
Found at i:79173345 original size:28 final size:28
Alignment explanation
Indices: 79173312--79173372 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
79173302 TCAATGCCCG
79173312 TGTTCCTCACACGACCATGACACACCCA
1 TGTTCCTCACACGACCATGACACACCCA
* * *
79173340 TGTTCCTCACACGACCATGGCACGCCCG
1 TGTTCCTCACACGACCATGACACACCCA
79173368 TGTTC
1 TGTTC
79173373 TAGCCGGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.41, G:0.16, T:0.21
Consensus pattern (28 bp):
TGTTCCTCACACGACCATGACACACCCA
Found at i:79174834 original size:30 final size:30
Alignment explanation
Indices: 79174800--79174857 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
79174790 AAATTTACAC
* *
79174800 CTTTGGTAAAATGACAATTTTGTCCCTAGA
1 CTTTGGCAAAATGACAATTTTGCCCCTAGA
*
79174830 CTTTGGCAAAATGACCATTTTGCCCCTA
1 CTTTGGCAAAATGACAATTTTGCCCCTA
79174858 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACAATTTTGCCCCTAGA
Found at i:79178302 original size:28 final size:27
Alignment explanation
Indices: 79178238--79178307 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
79178228 ATAGTGAGTC
79178238 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* * *
79178265 AGCAAACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*
79178293 CGCACACTTAATGCT
1 CGCACACTTAGTGCT
79178308 GTACAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:79185476 original size:28 final size:27
Alignment explanation
Indices: 79185413--79185482 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
79185403 ATAGTGAGTC
79185413 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
79185440 AGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
79185468 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
79185483 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:79189309 original size:47 final size:47
Alignment explanation
Indices: 79189275--79189520 Score: 429
Period size: 47 Copynumber: 5.2 Consensus size: 47
79189265 CACTTCCACG
**
79189275 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
79189322 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
79189369 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
79189416 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
79189463 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCAAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
79189510 TTCATCACATT
1 TTCATCACATT
79189521 AAATCCTAAA
Statistics
Matches: 189, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 189 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:79189423 original size:25 final size:25
Alignment explanation
Indices: 79189394--79189518 Score: 63
Period size: 23 Copynumber: 5.2 Consensus size: 25
79189384 ATTCGGCCTT
79189394 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
79189419 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
** *
79189441 ATCACGTATATGCATGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
* * *
79189466 AT--CACAT-TGGCCA-TTCGGCCTT-
1 ATCACACATAT-GCAAGTTC-ACATTC
79189488 ATCACACATATGCAAGTTCACATTC
1 ATCACACATATGCAAGTTCACATTC
79189513 ATCACA
1 ATCACA
79189519 TTAAATCCTA
Statistics
Matches: 68, Mismatches: 18, Indels: 28
0.60 0.16 0.25
Matches are distributed among these distances:
22 12 0.18
23 19 0.28
24 19 0.28
25 18 0.26
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (25 bp):
ATCACACATATGCAAGTTCACATTC
Found at i:79195713 original size:46 final size:45
Alignment explanation
Indices: 79195561--79195818 Score: 196
Period size: 46 Copynumber: 5.5 Consensus size: 45
79195551 GTACCGATTT
* * *
79195561 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCAAGGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTC-TCGAGGCCGATG
* * ** * * * *
79195609 CCATGTCCCAGACATGGTCGTACGCTAACAT-ATCTAGCA-GCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTCG-AGGCCGATG
79195655 CATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGAGGCCGATG
* * * * *
79195701 CATGTGCCAGACATGTCTTACACTAGCACTCGTCTCGATGCCGGTG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCGAGGCCGATG
* * * * * *
79195747 CCATGTCCTAGACATGGTCTTACACTGGCTCTCATATTGTGTCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTCGAGGCCGATG
*
79195795 CATGTCCCAGACATGTTTTACACT
1 CATGTCCCAGACATGTCTTACACT
79195819 AGCTCACACA
Statistics
Matches: 168, Mismatches: 33, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
44 10 0.06
45 15 0.09
46 66 0.39
47 30 0.18
48 23 0.14
49 24 0.14
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAGGCCGATG
Found at i:79195776 original size:94 final size:91
Alignment explanation
Indices: 79195561--79195821 Score: 260
Period size: 94 Copynumber: 2.8 Consensus size: 91
79195551 GTACCGATTT
* *
79195561 CATGTCCCAGACATGGTCTTACACTGGC-TATCATCTTCAAGGCCAATGCCATGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CATC-TCGAGGCCGATG-CATGTCCCAGACAT-
* * *
79195625 GTCGTACGCTAACATATCTAGCAGCCAATG
62 GTCTTACACTAGCATATCTAGCAGCCAATG
* *
79195655 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTGCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCT
* * **
79195719 TACACTAGCACTCGTCTCG-ATGCCGGTG
66 TACACTAGCA-T-ATCTAGCA-GCCAATG
* * * * *
79195747 CCATGTCCTAGACATGGTCTTACACTGGCTCT-CATATTGTGTCCGATGCATGTCCCAGACATGT
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAGGCCGATGCATGTCCCAGACATGT
*
79195811 TTTACACTAGC
64 CTTACACTAGC
79195822 TCACACAAGT
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
90 11 0.08
91 15 0.11
92 19 0.13
93 29 0.21
94 66 0.47
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (91 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCT
TACACTAGCATATCTAGCAGCCAATG
Found at i:79197223 original size:27 final size:27
Alignment explanation
Indices: 79197193--79197386 Score: 198
Period size: 27 Copynumber: 7.3 Consensus size: 27
79197183 TCCTACCCTA
* *
79197193 CAGGGGTATCTC-GATAATTTTGCAAAT
1 CAGGGGTATTTCAG-TAATTTTACAAAT
*
79197220 CAGGGGTATTTCAGTAATTTCACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
*
79197247 TAGGGGTATTTCAGTAA-TTTACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
* *
79197273 TAGGGGTATTTTAGTAATTTTACAAATT
1 CAGGGGTATTTCAGTAATTTTACAAA-T
* * * * *
79197301 TAGGGTTTTTTTA-TAATTTCACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
* **
79197327 TAGGGGTATTTCAGTAATTTTACAACC
1 CAGGGGTATTTCAGTAATTTTACAAAT
*
79197354 CA-GGGTATTTCAATAATTTTACAAAT
1 CAGGGGTATTTCAGTAATTTTACAAAT
*
79197380 CGGGGGT
1 CAGGGGT
79197387 CTTAACGACC
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
26 57 0.40
27 72 0.51
28 13 0.09
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCAGTAATTTTACAAAT
Found at i:79197291 original size:80 final size:79
Alignment explanation
Indices: 79197196--79197386 Score: 231
Period size: 80 Copynumber: 2.4 Consensus size: 79
79197186 TACCCTACAG
* * *
79197196 GGGTATCTCGATAATTTTGCAAATCAGGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTCAG
1 GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCA-TAATTTCACAAATTAGGGGTATTTCAG
**
79197261 TAA-TTTACAAATTA
65 TAATTTTACAAACCA
* * * * * *
79197275 GGGGTATTTTAGTAATTTTACAAATTTAGGGTTTTTTTATAATTTCACAAATTAGGGGTATTTCA
1 -GGGTATTTCAATAATTTTACAAA-TCAGGGGTATTTCATAATTTCACAAATTAGGGGTATTTCA
*
79197340 GTAATTTTACAACCCA
64 GTAATTTTACAAACCA
*
79197356 GGGTATTTCAATAATTTTACAAATCGGGGGT
1 GGGTATTTCAATAATTTTACAAATCAGGGGT
79197387 CTTAACGACC
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 5 0.05
80 69 0.75
81 18 0.20
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (79 bp):
GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCATAATTTCACAAATTAGGGGTATTTCAGT
AATTTTACAAACCA
Found at i:79197386 original size:53 final size:53
Alignment explanation
Indices: 79197196--79197386 Score: 213
Period size: 53 Copynumber: 3.6 Consensus size: 53
79197186 TACCCTACAG
* * * *
79197196 GGGTATCTCGATAATTTTGCAAATCAGGGGTATTTCAGTAATTTCACAAATTA
1 GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATTA
* * *
79197249 GGGGTATTTCAGTAA-TTTACAAATTAGGGGTATTTTAGTAATTTTACAAATTTA
1 -GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAA-TTA
* ** * * ***
79197303 GGGTTTTTTTATAATTTCACAAATTAGGGGTATTTCAGTAATTTTACAACCCA
1 GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATTA
*
79197356 GGGTATTTCAATAATTTTACAAATCGGGGGT
1 GGGTATTTCAATAATTTTACAAATCAGGGGT
79197387 CTTAACGACC
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
53 67 0.59
54 46 0.41
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (53 bp):
GGGTATTTCAATAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAATTA
Found at i:79200799 original size:20 final size:20
Alignment explanation
Indices: 79200774--79200818 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
79200764 AGGGACTAAA
* *
79200774 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
79200794 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
79200814 ATGAA
1 ATGAA
79200819 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:79201565 original size:12 final size:12
Alignment explanation
Indices: 79201548--79201578 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
79201538 TCTCGATTAA
79201548 GTGCCCTAATGG
1 GTGCCCTAATGG
79201560 GTGCCCTAATGG
1 GTGCCCTAATGG
79201572 GTGCCCT
1 GTGCCCT
79201579 TGAGTAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.29, G:0.32, T:0.26
Consensus pattern (12 bp):
GTGCCCTAATGG
Found at i:79204611 original size:32 final size:32
Alignment explanation
Indices: 79204570--79204633 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
79204560 TTTTTAAAGG
*
79204570 AAAAATAGTTGGCTATAAAAGCCACCTACCGC
1 AAAAATAGTTGGCTACAAAAGCCACCTACCGC
79204602 AAAAATAGTTGGCTACAAAAGCCACCTACCGC
1 AAAAATAGTTGGCTACAAAAGCCACCTACCGC
79204634 TCAAGTTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.17
Consensus pattern (32 bp):
AAAAATAGTTGGCTACAAAAGCCACCTACCGC
Found at i:79205597 original size:2 final size:2
Alignment explanation
Indices: 79205592--79205628 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
79205582 TGAGTTTTAT
*
79205592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
79205629 CTATGCGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:79208980 original size:20 final size:20
Alignment explanation
Indices: 79208920--79208983 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
79208910 AGCCCCATTA
79208920 CAAATTTTACAGCACATTATTCAT
1 CAAATTTTACA--AC-TT-TTCAT
* * * *
79208944 AAAATTTCAGAATTTTTCAT
1 CAAATTTTACAACTTTTCAT
79208964 CAAATTTTACAACTTTTCAT
1 CAAATTTTACAACTTTTCAT
79208984 TTTAGTCCCT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 21 0.66
21 2 0.06
22 1 0.03
24 8 0.25
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (20 bp):
CAAATTTTACAACTTTTCAT
Found at i:79215410 original size:40 final size:40
Alignment explanation
Indices: 79215340--79215481 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
79215330 CAACCAAGTA
** * *
79215340 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
79215379 CCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
**
79215419 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
79215459 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
79215482 CATCCGAGTA
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 12 0.13
40 77 0.87
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:79223419 original size:39 final size:40
Alignment explanation
Indices: 79223342--79223517 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
79223332 CAACCAAGTA
* *
79223342 CCTTCGGG-TTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
79223380 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
79223419 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
79223459 CCTTCGGGACTTAGCCCGGAAATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
79223499 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79223518 TTATCATCCG
Statistics
Matches: 129, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 8 0.06
39 42 0.33
40 79 0.61
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:79223486 original size:79 final size:80
Alignment explanation
Indices: 79223342--79223517 Score: 270
Period size: 79 Copynumber: 2.2 Consensus size: 80
79223332 CAACCAAGTA
* * * **
79223342 CCTTCGGG-TTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGAAATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
79223405 TAACTCGCAC-AATG
66 TAACTCGCACAAATG
79223419 CCTTCGGGACTTAGCCCGGAAATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATA
1 CCTTCGGGACTTAGCCCGGAAATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATA
79223483 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
79223499 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79223518 TTATCATCCG
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
77 8 0.09
78 5 0.06
79 54 0.60
80 23 0.26
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAAATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAATAG
TAACTCGCACAAATG
Found at i:79229545 original size:37 final size:36
Alignment explanation
Indices: 79229492--79229581 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 36
79229482 TATAAAAGAA
79229492 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATC-G
* *
79229529 GTCTTACCCGGTCATAATTTCCACACGTAGTCATCG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
*
79229565 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
79229582 TTCCAAGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 11 0.23
37 37 0.77
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCG
Found at i:79229734 original size:49 final size:49
Alignment explanation
Indices: 79229675--79229939 Score: 473
Period size: 49 Copynumber: 5.5 Consensus size: 49
79229665 TTTTGCATTA
* *
79229675 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
79229724 GCCATTAGGCCTTATCACATATACATACACTTCCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
79229773 GCCATTAGGCCTTATCACATATAC--CCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
79229820 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
79229869 GCCATTAGGCCTTATCACATATACATACAC-TTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
79229917 GCCATTAGGCCTTATCACATATA
1 GCCATTAGGCCTTATCACATATA
79229940 TATTATATCA
Statistics
Matches: 208, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
47 45 0.22
48 41 0.20
49 122 0.59
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Found at i:79229789 original size:22 final size:22
Alignment explanation
Indices: 79229764--79229839 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
79229754 TTCCACATTC
79229764 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** *** *
79229786 ATCACATATACCCACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
79229810 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
79229833 ATCACAT
1 ATCACAT
79229840 ATACATACAC
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:79229831 original size:145 final size:144
Alignment explanation
Indices: 79229675--79229939 Score: 503
Period size: 145 Copynumber: 1.8 Consensus size: 144
79229665 TTTTGCATTA
*
79229675 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
79229740 ACATATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATACCCACTTTC
66 ACATATACATACACTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATACCCACTTTC
79229805 ACATTCATCACATCG
130 ACATTCATCACATCG
*
79229820 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
79229885 ACATATACATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
66 ACATATACATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
79229940 TATTATATCA
Statistics
Matches: 118, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
144 39 0.33
145 79 0.67
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (144 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACCCACTTTCA
CATTCATCACATCG
Found at i:79229841 original size:96 final size:97
Alignment explanation
Indices: 79229675--79229939 Score: 462
Period size: 96 Copynumber: 2.7 Consensus size: 97
79229665 TTTTGCATTA
* *
79229675 GCCATTAGGCCTTATCACATGTACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACA-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
79229740 ACATATACATACACTTCCACATTCATCACATCG
65 ACATATACATACACTTCCACATTCATCACATCG
*
79229773 GCCATTAGGCCTTATCACATATAC-CCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GCCATTAGGCCTTATCACATATACAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
79229837 CATATACATACACTTTCACATTCATCACATCG
66 CATATACATACACTTCCACATTCATCACATCG
79229869 GCCATTAGGCCTTATCACATATACATACAC-TTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACA-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
79229933 ACATATA
65 ACATATA
79229940 TATTATATCA
Statistics
Matches: 160, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
96 93 0.58
97 41 0.26
98 26 0.16
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (97 bp):
GCCATTAGGCCTTATCACATATACAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATACATACACTTCCACATTCATCACATCG
Found at i:79238141 original size:40 final size:39
Alignment explanation
Indices: 79238075--79238225 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
79238065 AAATTGAATG
* * *
79238075 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
79238114 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
79238154 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
79238194 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
79238226 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:79238239 original size:40 final size:39
Alignment explanation
Indices: 79238112--79238241 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
79238102 ATGCTGGAAA
* *
79238112 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
79238152 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
79238192 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
79238232 TTATATCCGG
1 TTATATCCGG
79238242 TTATATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:79239660 original size:18 final size:18
Alignment explanation
Indices: 79239637--79239695 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
79239627 TCTGCTTGCA
79239637 TACTGCACTGATTACTGT
1 TACTGCACTGATTACTGT
* *
79239655 TACTGCATTGATCA-TGGT
1 TACTGCACTGATTACT-GT
* *
79239673 TACTACACTGATTACTAT
1 TACTGCACTGATTACTGT
79239691 TACTG
1 TACTG
79239696 AAAAGGGCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 30 0.94
19 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (18 bp):
TACTGCACTGATTACTGT
Found at i:79239754 original size:33 final size:34
Alignment explanation
Indices: 79239685--79239815 Score: 183
Period size: 34 Copynumber: 3.9 Consensus size: 34
79239675 CTACACTGAT
* *
79239685 TACTATTACTGAAAAGGGCTAAAGCCTAGACTGC
1 TACTATTACTGAAATGGGCTAAAGCCCAGACTGC
79239719 TACTATTACTGAAATGGGCTAAA-CCCAGACTGC
1 TACTATTACTGAAATGGGCTAAAGCCCAGACTGC
*
79239752 TACTGTTACTGAAATGGGCTAAAGCCCAGACTGC
1 TACTATTACTGAAATGGGCTAAAGCCCAGACTGC
* * * * *
79239786 TATTGTTACTGATATGGGCTTAGGCCCAGA
1 TACTATTACTGAAATGGGCTAAAGCCCAGA
79239816 ATGTATTTGC
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 31 0.35
34 58 0.65
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (34 bp):
TACTATTACTGAAATGGGCTAAAGCCCAGACTGC
Found at i:79240799 original size:157 final size:153
Alignment explanation
Indices: 79240627--79241091 Score: 540
Period size: 155 Copynumber: 2.9 Consensus size: 153
79240617 TTTAAAGGAG
*
79240627 AAAGTTTAGATTTTTAAAAATAATAAAAAAAAGTTTTTTAGTCATTTTAAAGGAAAGTTTAAATT
1 AAAGTTTAGATTTTT--AAA-AATAAAAAATAGTTTTTTAGTCATTTTAAAGGAAAGTTTAAATT
*
79240692 TTTGAAAAAAAGTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTTGATCTTTAAGAAAAGTA
63 TTT-AAAAAAAGTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAGAAAAGTA
79240757 GTGATTTTTTAAAAGAAAAAAAAACAA
127 GTGATTTTTTAAAAGAAAAAAAAACAA
* * * * **
79240784 AAAGTTTAGATTTTTAAAAATAAAAATTTGTTTTTTTAGTTATTTTAAAGGAAAGTTAAAAAAAT
1 AAAGTTTAGATTTTTAAAAATAAAAAATAG-TTTTTTAGTCATTTTAAAGGAAAGTT-TAAATTT
* * * * *
79240849 TTAAACAGAGTTTTGACTTTTCTTTTTCAATTATTTCGAAATAAAAACTTTAATATTTAAGAAAA
64 TTAAAAAAAG-TTTGA---TT-TTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAGAAAA
* *
79240914 GTAGTGATTTTTT-AAAG--AAAAAAAGAG
124 GTAGTGATTTTTTAAAAGAAAAAAAAACAA
* *
79240941 AAAGTTTAGATTTTTAAAAATAAAAACTATTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTT
1 AAAGTTTAGATTTTTAAAAATAAAAAATAGTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTT
* * ** * * *
79241006 AAAATAATTTTTTTATTTTTTCAACTATTTTGAAATAAAAGCTTTGATTTTTTTTTAAAAAAAGT
66 AAAAAAAGTTTGAT-TTTTTTCAACTATTTCGAAATAAAAGCTTTGA----TATTTAAGAAAAGT
79241071 AGTGATTTTTTTAAAAGAAAA
126 AGTGA-TTTTTTAAAAGAAAA
79241092 CTTTGATTTT
Statistics
Matches: 258, Mismatches: 34, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
151 28 0.11
152 1 0.00
154 12 0.05
155 61 0.24
156 42 0.16
157 54 0.21
159 8 0.03
160 52 0.20
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.42
Consensus pattern (153 bp):
AAAGTTTAGATTTTTAAAAATAAAAAATAGTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTT
AAAAAAAGTTTGATTTTTTTCAACTATTTCGAAATAAAAGCTTTGATATTTAAGAAAAGTAGTGA
TTTTTTAAAAGAAAAAAAAACAA
Found at i:79241067 original size:22 final size:23
Alignment explanation
Indices: 79241033--79241101 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
79241023 TTTTCAACTA
* *
79241033 TTTTGAAATAAAAGCTTTGATTT
1 TTTTTAAAAAAAAGCTTTGATTT
* *
79241056 TTTTTTAAAAAAAG-TAGTGA-TT
1 TTTTTAAAAAAAAGCT-TTGATTT
79241078 TTTTTAAAAGAAAA-CTTTGATTT
1 TTTTTAAAA-AAAAGCTTTGATTT
79241101 T
1 T
79241102 GAACACAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTTTAAAAAAAAGCTTTGATTT
Found at i:79241068 original size:23 final size:23
Alignment explanation
Indices: 79241033--79241101 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 23
79241023 TTTTCAACTA
*
79241033 TTTTGAAATAAAAGCTTTGATTTT
1 TTTTTAAA-AAAAGCTTTGATTTT
*
79241057 TTTTTAAAAAAAG-TAGTGA--TT
1 TTTTTAAAAAAAGCT-TTGATTTT
*
79241078 TTTTTAAAAGAAAACTTTGATTTT
1 TTTTTAAAA-AAAGCTTTGATTTT
79241102 GAACACAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
21 11 0.31
22 7 0.19
23 9 0.25
24 9 0.25
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTTTAAAAAAAGCTTTGATTTT
Found at i:79243131 original size:27 final size:27
Alignment explanation
Indices: 79243093--79243147 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
79243083 AATTCTCCTT
79243093 GAGCCGATTATCTAAGTCAAGATAAAA
1 GAGCCGATTATCTAAGTCAAGATAAAA
79243120 GAGCCGATTATCTAAGTCAAGATAAAA
1 GAGCCGATTATCTAAGTCAAGATAAAA
79243147 G
1 G
79243148 CATCAATATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (27 bp):
GAGCCGATTATCTAAGTCAAGATAAAA
Found at i:79245279 original size:18 final size:17
Alignment explanation
Indices: 79245256--79245293 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
79245246 TTCGCATTTC
79245256 TTTTCATTTGACTTTATT
1 TTTTCA-TTGACTTTATT
*
79245274 TTTTCATTGACTTTGTT
1 TTTTCATTGACTTTATT
79245291 TTT
1 TTT
79245294 CTTGTGTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.13, C:0.11, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTCATTGACTTTATT
Found at i:79253066 original size:98 final size:98
Alignment explanation
Indices: 79252892--79253077 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 98
79252882 TGAGAAAAAG
* *
79252892 ATTAGTGTTTTAAAAGTTTTTGGTGACTCAGAGTTAGTTGTTTACCAATTAAGAGGAGAATGGGA
1 ATTAGTGTTTTAAAAGTTTTTGGTGACTCAGAATTAGTTGTTTACCAATTAAAAGGAGAATGGGA
* * *
79252957 AATAAGGGATTCCAAACTGATTCCAAACAAGGC
66 AACAAGAGATTCCAAACTAATTCCAAACAAGGC
* *
79252990 ATTAGTGTTTTAAAAGTTTTTGGTGACTTA-ACATTAGTTGTTTACTAATTAAAAGGAGAATGGG
1 ATTAGTGTTTTAAAAGTTTTTGGTGACTCAGA-ATTAGTTGTTTACCAATTAAAAGGAGAATGGG
*
79253054 AAACAATAGATTCCAAACTAATTC
65 AAACAAGAGATTCCAAACTAATTC
79253078 ACTATCAAAC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 1 0.01
98 78 0.99
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (98 bp):
ATTAGTGTTTTAAAAGTTTTTGGTGACTCAGAATTAGTTGTTTACCAATTAAAAGGAGAATGGGA
AACAAGAGATTCCAAACTAATTCCAAACAAGGC
Found at i:79258751 original size:32 final size:32
Alignment explanation
Indices: 79258714--79258778 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
79258704 AGCATGTGGG
79258714 CTTGAATATGGTATTTGGACTATTGTTTTAGA
1 CTTGAATATGGTATTTGGACTATTGTTTTAGA
79258746 CTTGAATATGGTATTTGGACTATTGTTTTAGA
1 CTTGAATATGGTATTTGGACTATTGTTTTAGA
79258778 C
1 C
79258779 ATTTTGATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.46
Consensus pattern (32 bp):
CTTGAATATGGTATTTGGACTATTGTTTTAGA
Found at i:79259247 original size:19 final size:20
Alignment explanation
Indices: 79259223--79259261 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
79259213 ACAACAAGCA
79259223 TTCTA-TTTCTTTTTTTTTC
1 TTCTACTTTCTTTTTTTTTC
79259242 TTCTATCTTTCTTTTTTTTT
1 TTCTA-CTTTCTTTTTTTTT
79259262 TGCCGTAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTCTACTTTCTTTTTTTTTC
Found at i:79261554 original size:27 final size:27
Alignment explanation
Indices: 79261497--79261554 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
79261487 TATACCGGTG
* **
79261497 GCTTCGCCACATATACTATTTCCGATG
1 GCTTCGCCACATATACTATTACCGACA
* * *
79261524 GCTTTGCCACATATACTATTACTGGCA
1 GCTTCGCCACATATACTATTACCGACA
79261551 GCTT
1 GCTT
79261555 GCTGCGGTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (27 bp):
GCTTCGCCACATATACTATTACCGACA
Found at i:79261974 original size:21 final size:21
Alignment explanation
Indices: 79261928--79261974 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
79261918 CCGCACGGCT
*
79261928 GGCCACATGCCCGTGTCTCTA
1 GGCCGCATGCCCGTGTCTCTA
79261949 GGCCGCATGCCCGTGTCTCTA
1 GGCCGCATGCCCGTGTCTCTA
79261970 GGCCG
1 GGCCG
79261975 TGTCCCTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.11, C:0.38, G:0.30, T:0.21
Consensus pattern (21 bp):
GGCCGCATGCCCGTGTCTCTA
Found at i:79265031 original size:46 final size:46
Alignment explanation
Indices: 79264875--79265152 Score: 219
Period size: 46 Copynumber: 6.0 Consensus size: 46
79264865 CTTACAAATA
* * ** * *
79264875 TCGATGCCGATGCTATATCCCAGTTATGGTCTTACACTGGCTCTCATATA
1 TCGAGGCCGATGC-ATGTCCCAGACAT-GTCTTACACTGGCT-T-ACATC
* *
79264925 TC-AGTGCCAATGCATGTCCCAGACATGTTTTACACTAGG---ACATC
1 TCGAG-GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTACATC
*
79264969 TC-ATAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATC
1 TCGA-GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATC
* * *
79265015 TCGAGGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCT-CGTC
1 TCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATC
* * * * * * *
79265061 TCAATGCCAATGCATGTCCCAAACATGTCTTACACTAGCATTTCATAA
1 TCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTACAT-C
* * *
79265109 T-GTGGCCGATGCATGTCGCAGACATGTCTTACACTGGCTCACAT
1 TCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT
79265153 AACACTAGTG
Statistics
Matches: 186, Mismatches: 31, Indels: 26
0.77 0.13 0.11
Matches are distributed among these distances:
43 2 0.01
44 35 0.19
46 82 0.44
47 35 0.19
48 10 0.05
49 13 0.07
50 9 0.05
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
TCGAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATC
Found at i:79265074 original size:92 final size:92
Alignment explanation
Indices: 79264903--79265152 Score: 276
Period size: 92 Copynumber: 2.7 Consensus size: 92
79264893 CCCAGTTATG
* * * *
79264903 GTCTTACACTGGCTCTCATATATC-AGTGCCAATGCATGTCCCAGACATGTTTTACACTAG--GA
1 GTCTTACACTGGCT-T-ACATATCGAG-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
* *
79264965 CATCTCATAGCCGATGCATGTCCCAGACAT
63 CATCTCATAGCCAATGCATGTCCCAAACAT
* * * *
79264995 GTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTAAACTAGCTCTCGT
1 GTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACAT
79265060 CTCA-ATGCCAATGCATGTCCCAAACAT
66 CTCATA-GCCAATGCATGTCCCAAACAT
* * * * *
79265087 GTCTTACACTAGCATTTCATAAT-GTGGCCGATGCATGTCGCAGACATGTCTTACACTGGCTCAC
1 GTCTTACACTGGC-TTACAT-ATCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCAC
79265151 AT
64 AT
79265153 AACACTAGTG
Statistics
Matches: 133, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
90 35 0.26
91 4 0.03
92 51 0.38
93 42 0.32
94 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (92 bp):
GTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACAT
CTCATAGCCAATGCATGTCCCAAACAT
Found at i:79270594 original size:48 final size:48
Alignment explanation
Indices: 79270531--79270657 Score: 191
Period size: 48 Copynumber: 2.6 Consensus size: 48
79270521 AGATGCCATA
*
79270531 TCCCAGATATGGTCTTACACTGGCTCTCATATATCCATGCCGATACATG
1 TCCCAGACAT-GTCTTACACTGGCTCTCATATATCCATGCCGATACATG
* * *
79270580 TCTCAGACATGTCTTACACTGGCTCTCATATATCTATGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTCTCATATATCCATGCCGATACATG
* *
79270628 TCCCAGACATGTCTTACACTAGCTCACATA
1 TCCCAGACATGTCTTACACTGGCTCTCATA
79270658 ACACCAGTGT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 63 0.89
49 8 0.11
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTGGCTCTCATATATCCATGCCGATACATG
Found at i:79275509 original size:144 final size:144
Alignment explanation
Indices: 79275249--79275514 Score: 381
Period size: 144 Copynumber: 1.8 Consensus size: 144
79275239 AGGTCCCGTG
* * * * *
79275249 TAAGACCATGTCTGGGAAATGGCATTGGCATTGATATGTGAGCCCGTGTAAGACCATGTCTTGGA
1 TAAGACCATGTCTAGGAAATGGCATTGCCATTGATATGTGAGCCAGAGCAAGACCATGTCTTGGA
* **
79275314 CATGGCATCAGCATTGATATATGAGCCCGTGTAAGACCATCTTTGGGACATGGCATCTGTGTTAA
66 CATGGCATCAGCATTGATATATGAGCCAGTGTAAGACCATCTAAGGGACATGGCATCTGTGTTAA
79275379 TATGTGAGCCAGTA
131 TATGTGAGCCAGTA
* *
79275393 TAAGACCATGTCTAGGACATGGCATTGCCGTTGATATGTGAGCCAGAGCAAGACCATGT-TTGGG
1 TAAGACCATGTCTAGGAAATGGCATTGCCATTGATATGTGAGCCAGAGCAAGACCATGTCTT-GG
* * * * *
79275457 ACATGGCATCAGCGTTGATATGTGTGCTAGTGTAAGACCATGTAAGGGACATGGCATC
65 ACATGGCATCAGCATTGATATATGAGCCAGTGTAAGACCATCTAAGGGACATGGCATC
79275515 GACACTGACA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
143 2 0.02
144 104 0.98
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (144 bp):
TAAGACCATGTCTAGGAAATGGCATTGCCATTGATATGTGAGCCAGAGCAAGACCATGTCTTGGA
CATGGCATCAGCATTGATATATGAGCCAGTGTAAGACCATCTAAGGGACATGGCATCTGTGTTAA
TATGTGAGCCAGTA
Found at i:79275514 original size:48 final size:48
Alignment explanation
Indices: 79275246--79275514 Score: 299
Period size: 48 Copynumber: 5.6 Consensus size: 48
79275236 ATGAGGTCCC
* * ** * *
79275246 GTGTAAGACCATGTCTGGGAAATGGCATTGGCATTGATATGTGAGCCC
1 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGAGCCA
* * *
79275294 GTGTAAGACCATGTCTT-GGACATGGCATCAGCATTGATATATGAGCCC
1 GTGTAAGACCATGT-TTGGGACATGGCATCAGCGTTGATATGTGAGCCA
* * * *
79275342 GTGTAAGACCATCTTTGGGACATGGCATCTGTGTTAATATGTGAGCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGAGCCA
* * * *
79275390 GTATAAGACCATGTCTAGGACATGGCAT-TGCCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTTTGGGACATGGCATCAG-CGTTGATATGTGAGCCA
* * * *
79275438 GAGCAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGTGCTA
1 GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGAGCCA
**
79275486 GTGTAAGACCATGTAAGGGACATGGCATC
1 GTGTAAGACCATGTTTGGGACATGGCATC
79275515 GACACTGACA
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
47 4 0.02
48 181 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTTTGGGACATGGCATCAGCGTTGATATGTGAGCCA
Found at i:79279204 original size:40 final size:39
Alignment explanation
Indices: 79279023--79279174 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
79279013 AATGTTCGAG
*
79279023 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
79279062 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * * *
79279101 TGATACCCGAGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
79279140 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
79279175 GGTTACCATA
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:79285649 original size:48 final size:47
Alignment explanation
Indices: 79285584--79285801 Score: 258
Period size: 48 Copynumber: 4.6 Consensus size: 47
79285574 GAGATCCCGA
* *
79285584 GTAAGACCATGTCTGGGACATGGCATTGGTGTTGATATGTGATCCCTT
1 GTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTGA-CCATT
* * * * *
79285632 GTAATACCATGTTTGGGACATGGCATCGACGTTGATATATGAGCC-TGT
1 GTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTGA-CCAT-T
* * * *
79285680 GTAAGACCATGTCTGAGACATGGCATTAGCGTGGATATGTGAGCCAAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTGA-CCATT
* * *
79285728 GTAAGACCATGTTTGGGGCATGGCATTGGCGTTGATATGTGAACCAGT
1 GTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTG-ACCATT
79285776 GTAAGACCATGTCTGGGACATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
79285802 CGGCACTGAC
Statistics
Matches: 143, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 141 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (47 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCGTTGATATGTGACCATT
Found at i:79285750 original size:96 final size:96
Alignment explanation
Indices: 79285584--79285801 Score: 310
Period size: 96 Copynumber: 2.3 Consensus size: 96
79285574 GAGATCCCGA
* * * * ** *
79285584 GTAAGACCATGTCTGGGACATGGCATTGGTGTTGATATGTGATCCCTTGTAATACCATGTTTGGG
1 GTAAGACCATGTCTGGGACATGGCATTAGCGTGGATATGTGAGCCAATGTAAGACCATGTTTGGG
* *
79285649 ACATGGCATCGACGTTGATATATGAGCCTGT
66 ACATGGCATCGACGTTGATATATGAACCAGT
*
79285680 GTAAGACCATGTCTGAGACATGGCATTAGCGTGGATATGTGAGCCAATGTAAGACCATGTTTGGG
1 GTAAGACCATGTCTGGGACATGGCATTAGCGTGGATATGTGAGCCAATGTAAGACCATGTTTGGG
* * * *
79285745 GCATGGCATTGGCGTTGATATGTGAACCAGT
66 ACATGGCATCGACGTTGATATATGAACCAGT
79285776 GTAAGACCATGTCTGGGACATGGCAT
1 GTAAGACCATGTCTGGGACATGGCAT
79285802 CGGCACTGAC
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 107 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (96 bp):
GTAAGACCATGTCTGGGACATGGCATTAGCGTGGATATGTGAGCCAATGTAAGACCATGTTTGGG
ACATGGCATCGACGTTGATATATGAACCAGT
Found at i:79285857 original size:67 final size:67
Alignment explanation
Indices: 79285756--79285883 Score: 220
Period size: 67 Copynumber: 1.9 Consensus size: 67
79285746 CATGGCATTG
*
79285756 GCGTTGATATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACGTGAGGCAT
1 GCGTTGATATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACATGAGGCAT
79285821 CA
66 CA
** *
79285823 GCGTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACATGAG
1 GCGTTGATATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACATGAG
79285884 ACTTTGTATA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (67 bp):
GCGTTGATATGTGAACCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGACATGAGGCAT
CA
Found at i:79290363 original size:17 final size:17
Alignment explanation
Indices: 79290341--79290380 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
79290331 CATTTCACTC
79290341 TCAATATGTTAGTCTCA
1 TCAATATGTTAGTCTCA
79290358 TCAATATGTTAGTCTCA
1 TCAATATGTTAGTCTCA
*
79290375 TAAATA
1 TCAATA
79290381 CATATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (17 bp):
TCAATATGTTAGTCTCA
Found at i:79290454 original size:127 final size:127
Alignment explanation
Indices: 79290228--79290472 Score: 481
Period size: 127 Copynumber: 1.9 Consensus size: 127
79290218 ACACGACCAT
79290228 TCATCAATATGTTAGTCTCATAAATACATATAATCAACCTTTATCTCAATTACATACATCAGTGT
1 TCATCAATATGTTAGTCTCATAAATACATATAATCAACCTTTATCTCAATTACATACATCAGTGT
*
79290293 ATCATATCAAATTAATTTATCATGTACATCATTTGTAACATTTCACTCTCAATATGTTAGTC
66 ATCATATCAAATTAATATATCATGTACATCATTTGTAACATTTCACTCTCAATATGTTAGTC
79290355 TCATCAATATGTTAGTCTCATAAATACATATAATCAACCTTTATCTCAATTACATACATCAGTGT
1 TCATCAATATGTTAGTCTCATAAATACATATAATCAACCTTTATCTCAATTACATACATCAGTGT
79290420 ATCATATCAAATTAATATATCATGTACATCATTTGTAACATTTCACTCTCAAT
66 ATCATATCAAATTAATATATCATGTACATCATTTGTAACATTTCACTCTCAAT
79290473 CATATAAACA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 117 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (127 bp):
TCATCAATATGTTAGTCTCATAAATACATATAATCAACCTTTATCTCAATTACATACATCAGTGT
ATCATATCAAATTAATATATCATGTACATCATTTGTAACATTTCACTCTCAATATGTTAGTC
Found at i:79290722 original size:24 final size:23
Alignment explanation
Indices: 79290669--79290785 Score: 92
Period size: 24 Copynumber: 4.8 Consensus size: 23
79290659 GGGCTGATAG
*
79290669 ACAGTAAGCTCTATTGAGCTG-AA
1 ACAGTAAGCTCTA-CGAGCTGAAA
*
79290692 ACGGTAAGCTCTGACGAGCTGAAA
1 ACAGTAAGCTCT-ACGAGCTGAAA
* *
79290716 ACAGTAAGCTCTTACAAGCTGATA
1 ACAGTAAGCTC-TACGAGCTGAAA
* * *
79290740 ACAATAAGCCCTTACAAGCTGATATA
1 ACAGTAAGCTC-TACGAGCTGA-A-A
*
79290766 TCAGTAAGCTCATACGAGCT
1 ACAGTAAGCTC-TACGAGCT
79290786 ATGGTGAGTC
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
23 17 0.22
24 42 0.55
25 1 0.01
26 16 0.21
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (23 bp):
ACAGTAAGCTCTACGAGCTGAAA
Found at i:79292258 original size:2 final size:2
Alignment explanation
Indices: 79292251--79292279 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79292241 TCATCGCATC
79292251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79292280 AGAAACACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79297250 original size:24 final size:24
Alignment explanation
Indices: 79297149--79297277 Score: 102
Period size: 24 Copynumber: 5.2 Consensus size: 24
79297139 GAGCTATGAT
*
79297149 CAGTAAGCTCCTCATGAGCTGATAGA
1 CAGTAAGCT-CTTATGAGCTGATA-A
*
79297175 CAATAAGCTC-TATTGAGCTGA-AA
1 CAGTAAGCTCTTA-TGAGCTGATAA
* * * * *
79297198 CGGTAAGCTCTGACGAGCTAAAAA
1 CAGTAAGCTCTTATGAGCTGATAA
*
79297222 TAGTAAGCTCTTATGAGCTGATAA
1 CAGTAAGCTCTTATGAGCTGATAA
*
79297246 CAGTATGCTCTT-TCGAGCTGATATA
1 CAGTAAGCTCTTAT-GAGCTGATA-A
79297271 TCAGTAA
1 -CAGTAA
79297278 ACTCATACAA
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
23 16 0.20
24 42 0.52
25 10 0.12
26 13 0.16
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
CAGTAAGCTCTTATGAGCTGATAA
Found at i:79302500 original size:17 final size:18
Alignment explanation
Indices: 79302478--79302511 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79302468 TTTTTTCTAG
79302478 AATTTTA-AAATAGAATT
1 AATTTTAGAAATAGAATT
*
79302495 AATTTTAGAAATTGAAT
1 AATTTTAGAAATAGAAT
79302512 GTATTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
AATTTTAGAAATAGAATT
Found at i:79308910 original size:27 final size:28
Alignment explanation
Indices: 79308878--79309012 Score: 152
Period size: 27 Copynumber: 5.0 Consensus size: 28
79308868 GTAAAATTAA
79308878 CGAAATACCCCTGTAGGGTAGAATTACT
1 CGAAATACCCCTGTAGGGTAGAATTACT
* *
79308906 -GAAATACTCCTGTAGGATAGAATTA-T
1 CGAAATACCCCTGTAGGGTAGAATTACT
* * *
79308932 CGAAATAACCTTGTAGGGTAGAAATAC-
1 CGAAATACCCCTGTAGGGTAGAATTACT
*
79308959 CGAAATACCCCTTTAGGGTAGAATTA-T
1 CGAAATACCCCTGTAGGGTAGAATTACT
* * * *
79308986 CGAGATACCCTTGTAGGATAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
79309013 CATTTTGCCC
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
26 1 0.01
27 86 0.99
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (28 bp):
CGAAATACCCCTGTAGGGTAGAATTACT
Found at i:79308954 original size:54 final size:54
Alignment explanation
Indices: 79308872--79309013 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
79308862 TAAGTTGTAA
* * * *
79308872 AATTAACGAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCTGTAGGATAG
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAG
* * * *
79308926 AATTATCGAAATAACCTTGTAGGGTAGAAATACCGAAATACCCCTTTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAG
* * *
79308980 AATTATCGAGATACCCTTGTAGGATAAAATTACC
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACC
79309014 ATTTTGCCCT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGATAG
Found at i:79309746 original size:2 final size:2
Alignment explanation
Indices: 79309739--79309770 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
79309729 GCTTCGCCAC
79309739 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79309771 GTTCTGGTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79309803 original size:27 final size:26
Alignment explanation
Indices: 79309765--79309824 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
79309755 ATATATATAT
* *
79309765 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
79309791 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
79309818 ATATCTG
1 ATATCTG
79309825 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:79310250 original size:49 final size:49
Alignment explanation
Indices: 79310189--79310292 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
79310179 TTGATTTTTC
*
79310189 TAAGTTAGTTTATTTTTATTATTTTATATTTTGATTTAATTTTGGGTTT
1 TAAGTTAGTTTATTTTTATTATTTTATATTCTGATTTAATTTTGGGTTT
79310238 TAAGTTAGTTTATTTTTATTATTTTATATTCTGATTTAATTTTGGGTTT
1 TAAGTTAGTTTATTTTTATTATTTTATATTCTGATTTAATTTTGGGTTT
79310287 TAAGTT
1 TAAGTT
79310293 GTAATAAGGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.23, C:0.01, G:0.12, T:0.63
Consensus pattern (49 bp):
TAAGTTAGTTTATTTTTATTATTTTATATTCTGATTTAATTTTGGGTTT
Found at i:79310310 original size:49 final size:49
Alignment explanation
Indices: 79310208--79310310 Score: 109
Period size: 49 Copynumber: 2.1 Consensus size: 49
79310198 TTATTTTTAT
* * ***** *
79310208 TATTTTATATTTTGATTTAATTTTGGGTTTTAAGTTAGTTTATTTTTAT
1 TATTTTATATTCTGATTTAATTTTGGGTTTTAAGTTAGTATAAGGCCAC
*
79310257 TATTTTATATTCTGATTTAATTTTGGGTTTTAAGTT-GTAATAAGGCCGC
1 TATTTTATATTCTGATTTAATTTTGGGTTTTAAGTTAGT-ATAAGGCCAC
79310306 TATTT
1 TATTT
79310311 AAATTTCTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
48 2 0.05
49 42 0.95
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (49 bp):
TATTTTATATTCTGATTTAATTTTGGGTTTTAAGTTAGTATAAGGCCAC
Found at i:79319459 original size:29 final size:27
Alignment explanation
Indices: 79319425--79319527 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
79319415 TACTCAATCA
*
79319425 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
79319454 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
79319483 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
79319512 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
79319528 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:79327108 original size:29 final size:27
Alignment explanation
Indices: 79327074--79327176 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
79327064 TACTCAATCA
*
79327074 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
79327103 CGCACACGTAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
79327132 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
79327161 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
79327177 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:79329937 original size:30 final size:30
Alignment explanation
Indices: 79329903--79329961 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
79329893 TAATGTATGT
79329903 ATGATAGTTATATGATTGATACCGAGCCTG
1 ATGATAGTTATATGATTGATACCGAGCCTG
79329933 ATGATAGTTATATGATTGATACCGAGCCT
1 ATGATAGTTATATGATTGATACCGAGCCT
79329962 AACATCCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (30 bp):
ATGATAGTTATATGATTGATACCGAGCCTG
Found at i:79333528 original size:43 final size:43
Alignment explanation
Indices: 79333478--79333566 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
79333468 ATTTGTGATT
**
79333478 TTGATATGTGTTTACAGGTAAGACC-CTGTCTGGCACAG-TGGCA
1 TTGATATGTGGCTACAGGTAAGACCAC-GTCTGGCAC-GTTGGCA
* *
79333521 TTGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TTGATATGTGGCTACAGGTAAGACCACGTCTGGCACGTTGGCA
79333564 TTG
1 TTG
79333567 TACGAATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 1 0.03
43 38 0.95
44 1 0.03
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
TTGATATGTGGCTACAGGTAAGACCACGTCTGGCACGTTGGCA
Found at i:79335295 original size:2 final size:2
Alignment explanation
Indices: 79335288--79335312 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79335278 GAGACTAGTC
79335288 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
79335313 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79337344 original size:30 final size:30
Alignment explanation
Indices: 79337310--79337370 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
79337300 TCCTTAACTC
79337310 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
79337340 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
79337370 A
1 A
79337371 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:79343864 original size:53 final size:53
Alignment explanation
Indices: 79343785--79343895 Score: 215
Period size: 53 Copynumber: 2.1 Consensus size: 53
79343775 GCTTAGTAAG
79343785 TTTTA-AGCAGTGACAACAGATAACAATCAAATTATAACATAGTTGTTCGTAT
1 TTTTATAGCAGTGACAACAGATAACAATCAAATTATAACATAGTTGTTCGTAT
79343837 TTTTATAGCAGTGACAACAGATAACAATCAAATTATAACATAGTTGTTCGTAT
1 TTTTATAGCAGTGACAACAGATAACAATCAAATTATAACATAGTTGTTCGTAT
79343890 TTTTAT
1 TTTTAT
79343896 TTCACTCTTC
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 5 0.09
53 53 0.91
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (53 bp):
TTTTATAGCAGTGACAACAGATAACAATCAAATTATAACATAGTTGTTCGTAT
Found at i:79344311 original size:37 final size:37
Alignment explanation
Indices: 79344252--79344360 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
79344242 AGCTCAAACG
* * *
79344252 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
79344289 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
79344326 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
79344361 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:79344636 original size:47 final size:47
Alignment explanation
Indices: 79344574--79345112 Score: 682
Period size: 47 Copynumber: 11.1 Consensus size: 47
79344564 ACACGTTTCG
* * *
79344574 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
79344621 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
79344668 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
79344715 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
79344762 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
79344815 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
79344862 CATTGGCCATTCGGCCTTATCACGCATATATACATACAGGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCA--CATATATGCAT----GTTCACATTCATCA
* *
79344915 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
79344962 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
79345013 CATTGGCAATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
79345060 CATTGGCCATTCGGCCTTATCACACATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACATTCATCA
79345109 CATT
1 CATT
79345113 AAATCCTAAA
Statistics
Matches: 432, Mismatches: 42, Indels: 34
0.85 0.08 0.07
Matches are distributed among these distances:
47 267 0.62
49 41 0.09
51 47 0.11
53 77 0.18
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:79344840 original size:100 final size:98
Alignment explanation
Indices: 79344574--79345112 Score: 810
Period size: 100 Copynumber: 5.6 Consensus size: 98
79344564 ACACGTTTCG
* * *
79344574 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
79344635 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
79344668 CATTGGCCATTTGGCCTTATCAC----ACATACGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
79344729 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
79344762 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CATATATATATACAGGTTCACATTCATCACATTGGCCATTC
79344827 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
* *
79344862 CATTGGCCATTCGGCCTTATCACGCATATATACATACAGGTTCACATCCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CATATATATATACAGGTTCACATTCATCACATTGGCCATTC
79344927 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
79344962 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCAATTCGG
1 CATTGGCCATTCGGCCTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
79345027 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* *
79345060 CATTGGCCATTCGGCCTTATCAC--ACATATATACGGGTTCACATTCATCACATT
1 CATTGGCCATTCGGCCTTATCACATATATATATACAGGTTCACATTCATCACATT
79345113 AAATCCTAAA
Statistics
Matches: 415, Mismatches: 20, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
92 3 0.01
94 99 0.24
95 1 0.00
96 31 0.07
98 94 0.23
100 187 0.45
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACATATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:79344847 original size:147 final size:142
Alignment explanation
Indices: 79344574--79345112 Score: 722
Period size: 147 Copynumber: 3.7 Consensus size: 142
79344564 ACACGTTTCG
* * * **
79344574 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * * *
79344639 ATC-TCATATATGCATGTTCACATTCATCACATTGGCCATTTGGCCTTATCACACATACGCATGT
66 ATCACCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
79344703 TCACATTCATCA
131 TCACATTCATCA
79344715 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
79344780 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCAC-C----ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
79344845 CATGTTCACATTCATCA
126 CATGTTCACATTCATCA
* * * *
79344862 CATTGGCCATTCGGCCTTATCACGCATATATACATACAGGTTCACATCCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--C--ACATAC--GCATGTTCACATTCATCACATTGGCCATTC
* ** * *
79344927 GGCCTTATCA-CACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAT
60 GGCCTTATCACCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
**
79344991 ATATACGGGTTCACATTCATCA
125 GCAT----GTTCACATTCATCA
*
79345013 CATTGGCAATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
79345078 ATCACACATATATACGGGTTCACATTCATCACATT
66 ATCAC-CATATATACAGGTTCACATTCATCACATT
79345113 AAATCCTAAA
Statistics
Matches: 350, Mismatches: 30, Indels: 30
0.85 0.07 0.07
Matches are distributed among these distances:
141 63 0.18
143 1 0.00
145 37 0.11
147 169 0.48
149 2 0.01
151 41 0.12
153 37 0.11
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (142 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACCATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGT
TCACATTCATCA
Found at i:79347895 original size:25 final size:25
Alignment explanation
Indices: 79347867--79347916 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
79347857 TTGAAATCTG
79347867 TTGTACCAAGTTTGTTAAGTGAATT
1 TTGTACCAAGTTTGTTAAGTGAATT
79347892 TTGTACCAAGTTTGTTAAGTGAATT
1 TTGTACCAAGTTTGTTAAGTGAATT
79347917 ATCATTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
TTGTACCAAGTTTGTTAAGTGAATT
Found at i:79348178 original size:42 final size:42
Alignment explanation
Indices: 79348106--79348285 Score: 254
Period size: 42 Copynumber: 4.3 Consensus size: 42
79348096 GGAAAGCATC
*
79348106 CATTGCATTTAGA-GCCCAAGTATGGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTT
* * *
79348147 CATTACATTTAGAGGCCCTAGTGTGGAGGTCCATTCACTTTT
1 CATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTT
* * * *
79348189 CATTGCACTTAGAGCCCCAAATTTGGAGGTCCATTTACTTTT
1 CATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTT
* *
79348231 CATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTAACTTTT
1 CATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTT
*
79348273 CATTACATTTAGA
1 CATTGCATTTAGA
79348286 TACCTAGGCG
Statistics
Matches: 119, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
41 12 0.10
42 107 0.90
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (42 bp):
CATTGCATTTAGAGGCCCAAGTGTGGAGGTCCATTTACTTTT
Found at i:79348361 original size:42 final size:41
Alignment explanation
Indices: 79348298--79348435 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 41
79348288 CCTAGGCGTG
*
79348298 TTTCATTGCATTTAGAAGCCCAGATGTAGAGGTTCATTTACT
1 TTTCATTGCATTTAGAGGCCCAGATGT-GAGGTTCATTTACT
* * *
79348340 TTTCATTACATTTAGTGGCCCA-AGTGTGAAGG-TCAATTCACT
1 TTTCATTGCATTTAGAGGCCCAGA-TGTG-AGGTTC-ATTTACT
* * * *
79348382 TTTCATTGCATTTAAAGGCCTAGGTGTGGAGGTCCATTTACT
1 TTTCATTGCATTTAGAGGCCCAGATGT-GAGGTTCATTTACT
79348424 TTTCATTGCATT
1 TTTCATTGCATT
79348436 GTGTATCAAG
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
41 4 0.05
42 73 0.92
43 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (41 bp):
TTTCATTGCATTTAGAGGCCCAGATGTGAGGTTCATTTACT
Found at i:79348383 original size:112 final size:112
Alignment explanation
Indices: 79348186--79348395 Score: 296
Period size: 112 Copynumber: 1.9 Consensus size: 112
79348176 TCCATTCACT
* * *
79348186 TTTCATTGCACTTAGAGCCCCAAATTTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCCAA
1 TTTCATTGCACTTAGAGCCCCAAATGTAGAGGTCCATTTACTTTTCATTACATTTAAAGGCCCAA
* *
79348251 GTGTGGAGGTCCATTAACTTTTCATTACATTTAGATACCTAGGCGTG
66 GTGTGAAGGTCAATTAACTTTTCATTACATTTAGATACCTAGGCGTG
* * * **
79348298 TTTCATTGCATTTAGAAG-CCCAGATGTAGAGGTTCATTTACTTTTCATTACATTTAGTGGCCCA
1 TTTCATTGCACTTAG-AGCCCCAAATGTAGAGGTCCATTTACTTTTCATTACATTTAAAGGCCCA
* *
79348362 AGTGTGAAGGTCAATTCACTTTTCATTGCATTTA
65 AGTGTGAAGGTCAATTAACTTTTCATTACATTTA
79348396 AAGGCCTAGG
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 83 0.98
113 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (112 bp):
TTTCATTGCACTTAGAGCCCCAAATGTAGAGGTCCATTTACTTTTCATTACATTTAAAGGCCCAA
GTGTGAAGGTCAATTAACTTTTCATTACATTTAGATACCTAGGCGTG
Found at i:79348425 original size:154 final size:154
Alignment explanation
Indices: 79348144--79348435 Score: 406
Period size: 154 Copynumber: 1.9 Consensus size: 154
79348134 TCCATTTACT
* * *
79348144 TTTCATTACATTTAGAGGCCCTAGTGTGGAGGTCCATTCACTTTTCATTGCACTTAGAGCCCCAA
1 TTTCATTACATTTAGAAGCCCTAGTGTAGAGGTCCATTCACTTTTCATTACACTTAGAGCCCCAA
* * * *
79348209 ATTTGGAGGTCCATTTACTTTTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTAACTTTTC
66 ATGTGAAGGTCAATTCACTTTTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTAACTTTTC
79348274 ATTACATTTAGATACCTAGGCGTG
131 ATTACATTTAGATACCTAGGCGTG
* * * * * *
79348298 TTTCATTGCATTTAGAAGCCC-AGATGTAGAGGTTCATTTACTTTTCATTACATTTAGTGGCCCA
1 TTTCATTACATTTAGAAGCCCTAG-TGTAGAGGTCCATTCACTTTTCATTACACTTAGAGCCCCA
* * * *
79348362 AGTGTGAAGGTCAATTCACTTTTCATTGCATTTAAAGGCCTAGGTGTGGAGGTCCATTTACTTTT
65 AATGTGAAGGTCAATTCACTTTTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTAACTTTT
*
79348427 CATTGCATT
130 CATTACATT
79348436 GTGTATCAAG
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
153 2 0.02
154 117 0.98
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (154 bp):
TTTCATTACATTTAGAAGCCCTAGTGTAGAGGTCCATTCACTTTTCATTACACTTAGAGCCCCAA
ATGTGAAGGTCAATTCACTTTTCATTGCATTTAAAGGCCCAAGTGTGGAGGTCCATTAACTTTTC
ATTACATTTAGATACCTAGGCGTG
Found at i:79361535 original size:44 final size:44
Alignment explanation
Indices: 79361333--79361593 Score: 163
Period size: 46 Copynumber: 5.7 Consensus size: 44
79361323 TATGTACGCC
* *
79361333 AGTGTTAA-ACATGTCTGGGACATGCATCGGCCACATA-ATGAGAGCT
1 AGTG-TAAGACATGTCTGGGACATGCATCGGCCTCA-AGAT--GTGCT
* * * * * * *
79361379 AGTTTAAGATCATGTCTAGGACATGGCATCGACATTGAGACAAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCA-AGATGTGCT
* * * * *
79361427 AGTGTAAAACATGTTTGGGACACGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-T-GCT
* *
79361473 AGTGTGAGACATGTCTGGGACATGCGTCGG-CTACAAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGTGCT
* * *
79361517 AGTGTAAGACATGTCTGGGACATGCATGGGCACGGT-TACATGTG-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-C--TCAAGATGTGCT
* *
79361562 CAATGTAAGACATGTCTAGGACATGCATCGGC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGC
79361594 ACGGTTACAT
Statistics
Matches: 166, Mismatches: 36, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
44 32 0.19
45 9 0.05
46 79 0.48
47 24 0.14
48 19 0.11
49 2 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTGCT
Found at i:79361615 original size:46 final size:46
Alignment explanation
Indices: 79361516--79361615 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
79361506 CAAGATGTGC
* * *
79361516 TAGTGTAAGACATGTCTGGGACATGCATGGGCACGGTTACATGTGT
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCACGGTTACATGTCT
* *
79361562 CAATGTAAGACATGTCTAGGACATGCATCGGCACGGTTACATGTCT
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCACGGTTACATGTCT
79361608 TAGTGTAA
1 TAGTGTAA
79361616 AACCTGTCAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTAGGACATGCATCGGCACGGTTACATGTCT
Found at i:79361630 original size:46 final size:46
Alignment explanation
Indices: 79361516--79361630 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 46
79361506 CAAGATGTGC
* * *
79361516 TAGTGTAAGACATGTCTGGGACATGCATGGGCACGGTTACATGTGT
1 TAGTGTAAGACATGTCAGGGACATGCATCGGCACGGTTACATGTCT
* *
79361562 CAATGTAAGACATGTCTA-GGACATGCATCGGCACGGTTACATGTCT
1 TAGTGTAAGACATGTC-AGGGACATGCATCGGCACGGTTACATGTCT
* *
79361608 TAGTGTAAAACCTGTCAGGGACA
1 TAGTGTAAGACATGTCAGGGACA
79361631 CGGCATCGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
45 1 0.02
46 57 0.98
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
TAGTGTAAGACATGTCAGGGACATGCATCGGCACGGTTACATGTCT
Found at i:79362878 original size:18 final size:18
Alignment explanation
Indices: 79362855--79362891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
79362845 GTAAGTAGTT
*
79362855 GTACATCAGAAATGATAA
1 GTACATCAGAAATAATAA
*
79362873 GTACATGAGAAATAATAA
1 GTACATCAGAAATAATAA
79362891 G
1 G
79362892 GTTTTATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (18 bp):
GTACATCAGAAATAATAA
Found at i:79370773 original size:40 final size:40
Alignment explanation
Indices: 79370694--79370870 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
79370684 CGGATGACAA
* * * *
79370694 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
79370734 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
79370774 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
79370814 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
79370854 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
79370871 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Done.