Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 123 of 356
Found at i:39167657 original size:33 final size:34
Alignment explanation
Indices: 39167615--39167678 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
39167605 TGGAAAGGTT
39167615 AGGTATACTTTGTGTATACCATAT-GAAAGGGAA
1 AGGTATACTTTGTGTATACCATATGGAAAGGGAA
* *
39167648 AGGTATACTTTGTGTGTACCATTTGGAAAGG
1 AGGTATACTTTGTGTATACCATATGGAAAGG
39167679 AATGTACACC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 22 0.79
34 6 0.21
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (34 bp):
AGGTATACTTTGTGTATACCATATGGAAAGGGAA
Found at i:39172841 original size:20 final size:19
Alignment explanation
Indices: 39172816--39172865 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
39172806 AGAATGAAAT
*
39172816 AAATAACATAAAACAATTTA
1 AAATAA-ATAAAACAACTTA
*
39172836 AAATAAAATAAAGCAACTTA
1 AAAT-AAATAAAACAACTTA
39172856 AAATAAATAA
1 AAATAAATAA
39172866 TATATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 6 0.22
20 19 0.70
21 2 0.07
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATAAATAAAACAACTTA
Found at i:39172877 original size:46 final size:45
Alignment explanation
Indices: 39172812--39172915 Score: 138
Period size: 46 Copynumber: 2.3 Consensus size: 45
39172802 CAAAAGAATG
* *
39172812 AAATAAATAACATAAAACAATTTAAAATAAAATAAAGCAACT-TA
1 AAATAAATAATATAAAACAATTTAAAATAAAATAAAGAAACTCTA
* * *
39172856 AAATAAATAATATATATAACAATTTAAAATAACATATAGAAAGTCTA
1 AAATAAATAATATA-A-AACAATTTAAAATAAAATAAAGAAACTCTA
39172903 AAATAAATAATAT
1 AAATAAATAATAT
39172916 GTAAAAAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
44 13 0.25
45 1 0.02
46 23 0.44
47 15 0.29
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (45 bp):
AAATAAATAATATAAAACAATTTAAAATAAAATAAAGAAACTCTA
Found at i:39172959 original size:30 final size:29
Alignment explanation
Indices: 39172901--39172987 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 29
39172891 ATAGAAAGTC
*
39172901 TAAAATAAATAATAT-GTAAAAAGA-AATT
1 TAAAATAAATAATATAATAAAAA-ATAATT
*
39172929 TAAAAGAAATAATATACATAAAAAATAATT
1 TAAAATAAATAATATA-ATAAAAAATAATT
*
39172959 TAATATAAATAATATATATATAAAAATAA
1 TAAAATAAATAATATA-ATA-AAAAATAA
39172988 AATGAATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.28
29 1 0.02
30 27 0.54
31 8 0.16
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (29 bp):
TAAAATAAATAATATAATAAAAAATAATT
Found at i:39172985 original size:17 final size:17
Alignment explanation
Indices: 39172935--39172987 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 17
39172925 AATTTAAAAG
*
39172935 AAATAATATACATA-AA
1 AAATAATATATATATAA
*
39172951 AAATAAT-T-TA-ATAT
1 AAATAATATATATATAA
39172965 AAATAATATATATATAA
1 AAATAATATATATATAA
39172982 AAATAA
1 AAATAA
39172988 AATGAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.03
14 9 0.30
15 2 0.07
16 9 0.30
17 9 0.30
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAATATATATATAA
Found at i:39173002 original size:22 final size:23
Alignment explanation
Indices: 39172960--39173005 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
39172950 AAAATAATTT
39172960 AATATAAATAATATATATATAAA
1 AATATAAATAATATATATATAAA
*
39172983 AATA-AAATGAATA-ATGTATAAA
1 AATATAAAT-AATATATATATAAA
39173005 A
1 A
39173006 GAGTTTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
AATATAAATAATATATATATAAA
Found at i:39173053 original size:25 final size:25
Alignment explanation
Indices: 39172965--39173059 Score: 72
Period size: 26 Copynumber: 3.8 Consensus size: 25
39172955 AATTTAATAT
39172965 AAAT-AATATATATATAAAAA--T-A
1 AAATAAATA-ATATATAAAAACTTGA
* * * *
39172987 AAATGAATAATGTATAAAAGAGTTTA
1 AAATAAATAATATATAAAA-ACTTGA
* *
39173013 AGATAAACAATATATAAAAACTTGA
1 AAATAAATAATATATAAAAACTTGA
39173038 AAATAAATAATCTATATAAAAA
1 AAATAAATAA--TATATAAAAA
39173060 AAGAGTTTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
22 13 0.23
23 5 0.09
25 13 0.23
26 16 0.28
27 10 0.18
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATAAATAATATATAAAAACTTGA
Found at i:39173191 original size:22 final size:22
Alignment explanation
Indices: 39173093--39173193 Score: 71
Period size: 23 Copynumber: 4.3 Consensus size: 22
39173083 ATATAAATTT
39173093 ATAATA-ATAAAACAATTCAAAA
1 ATAATATATAAAACAATTC-AAA
*
39173115 ATAATATATAAAA-AGAGTTTAAA
1 ATAATATATAAAACA-A-TTCAAA
* * *
39173138 ATAAATAAATAAAGCAATGTAAAGTA
1 AT-AATATATAAAACAAT-TCAA--A
*
39173164 ATTAATATATAAAATAATTCAAA
1 A-TAATATATAAAACAATTCAAA
39173187 ATAATAT
1 ATAATAT
39173194 GTATTAAAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
22 13 0.21
23 15 0.24
24 15 0.24
25 4 0.06
26 14 0.23
27 1 0.02
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (22 bp):
ATAATATATAAAACAATTCAAA
Found at i:39173261 original size:26 final size:26
Alignment explanation
Indices: 39173114--39173253 Score: 105
Period size: 26 Copynumber: 5.5 Consensus size: 26
39173104 ACAATTCAAA
*
39173114 AATAATATATAAAAAGAGTTTAAAATA
1 AATAATATATAAAAA-AGTTTAAAATG
** * *
39173141 AATAA-ATA-AAGCAA-TGTAAAGT-
1 AATAATATATAAAAAAGTTTAAAATG
*
39173163 AATTAATATATAAAATAA-TTCAAAAT-
1 AA-TAATATATAAAA-AAGTTTAAAATG
* *
39173189 AAT-ATGTATTAAAACAGTTTAAAATG
1 AATAATATA-TAAAAAAGTTTAAAATG
* *
39173215 AATACTATATAAAAAAATTTAAAATG
1 AATAATATATAAAAAAGTTTAAAATG
39173241 AATAATATATAAA
1 AATAATATATAAA
39173254 TTAGTTTATA
Statistics
Matches: 88, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
22 2 0.02
23 9 0.10
24 9 0.10
25 18 0.20
26 42 0.48
27 8 0.09
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (26 bp):
AATAATATATAAAAAAGTTTAAAATG
Found at i:39175125 original size:132 final size:131
Alignment explanation
Indices: 39174963--39175246 Score: 372
Period size: 132 Copynumber: 2.2 Consensus size: 131
39174953 ATATGTTCCT
* **
39174963 CTGTAACTTTAGGGAGATAAGACTAATGGCTTCAATATGCTCCATTGCAACTTCAGGGAGACGCG
1 CTGTAACTTTAGGGAGATAAGACTAATGGCTTCAATATGCTCCACTGCAACTTCAGGGAGACAAG
* * *
39175028 ATTTGTAACATCAACCTGCTCCACTGCAACTTT-AGGAAGATAAGGTTTATGGTTTTAATCTACT
66 ATTGGCAACATCAACCTGCTCCACTGCAACTTTAAGG-AGATAAGGTTTATGGTTGTAA-CTACT
*
39175092 CTA
129 CCA
* * * * * *
39175095 CTGTAACTTTAAGGAGATAAGATTAGTGGCTTCAATCTGCTCCACTGCAATTTCAGGGAGATAAG
1 CTGTAACTTTAGGGAGATAAGACTAATGGCTTCAATATGCTCCACTGCAACTTCAGGGAGACAAG
* * * *
39175160 ATTGGCCACTTGAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTGTGGTTGTAACTACTCC
66 ATTGGCAACATCAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATGGTTGTAACTACTCC
39175225 A
131 A
* *
39175226 CTGCAACTTCAGGGAGATAAG
1 CTGTAACTTTAGGGAGATAAG
39175247 GTTTAACATG
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
131 25 0.19
132 103 0.79
133 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (131 bp):
CTGTAACTTTAGGGAGATAAGACTAATGGCTTCAATATGCTCCACTGCAACTTCAGGGAGACAAG
ATTGGCAACATCAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATGGTTGTAACTACTCC
A
Found at i:39175132 original size:44 final size:44
Alignment explanation
Indices: 39175046--39175246 Score: 169
Period size: 44 Copynumber: 4.6 Consensus size: 44
39175036 CATCAACCTG
* *
39175046 CTCCACTGCAACTTT-AGGAAGATAAGGTTTA-TGGTTTTAATCTA
1 CTCCACTGCAACTTTAAGG-AGATAA-GATTAGTGGCTTTAATCTA
* * * *
39175090 CTCTACTGTAACTTTAAGGAGATAAGATTAGTGGCTTCAATCTG
1 CTCCACTGCAACTTTAAGGAGATAAGATTAGTGGCTTTAATCTA
* * *** * * *
39175134 CTCCACTGCAA-TTTCAGGGAGATAAGATTGGCCACTTGAACCTG
1 CTCCACTGCAACTTT-AAGGAGATAAGATTAGTGGCTTTAATCTA
* *
39175178 CTCCACTGCAACTTTAAGGAGATAAGGTTTGTGG-TTGTAA-CTA
1 CTCCACTGCAACTTTAAGGAGATAAGATTAGTGGCTT-TAATCTA
* *
39175221 CTCCACTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTTAAGGAGATAAG
39175247 GTTTAACATG
Statistics
Matches: 127, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
43 35 0.28
44 86 0.68
45 6 0.05
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTTAAGGAGATAAGATTAGTGGCTTTAATCTA
Found at i:39175543 original size:44 final size:44
Alignment explanation
Indices: 39175486--39175842 Score: 231
Period size: 44 Copynumber: 8.1 Consensus size: 44
39175476 AGAGGTATAG
* * * *
39175486 GATTTGTTACTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 GATTTGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA
* * * * * * *
39175530 GACTTGTAACTTTAA-CTTGCCCCCACTGCAACTTTAGGGGGATAA
1 GATTTGTAACTTCAATC-T-ACTCCACTACAACTTCAGGGAGATAA
* * ** * * *
39175575 GGTTTGCTATCTTTGATCTACTCCACTGCAACTCCAGAGAGATCAA
1 GATTTG-TAACTTCAATCTACTCCACTACAACTTCAGGGAGAT-AA
* *
39175621 -ATCTGTAACTTCAATCTACTCCACTGCAAC-TCTAGGGAGATAA
1 GATTTGTAACTTCAATCTACTCCACTACAACTTC-AGGGAGATAA
* * ** * * *
39175664 GACTCGTGGCTTCAA-CTTGCCCCACTACAACTTTAGGG-GATAA
1 GATTTGTAACTTCAATC-TACTCCACTACAACTTCAGGGAGATAA
* * * * *
39175707 GGTTTGCTATCTTCGATC-ACTCTACTACAACTCCAGGGAGATAA
1 GATTTG-TAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA
* * ** *
39175751 GATTTGTAACTCCAATCTATTCCACTACAACTTTTGCGAGATAA
1 GATTTGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA
* ** * *
39175795 GATTAGTGGCTTCAATCTACTTCACTACAACTTCAAGGAGATAA
1 GATTTGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA
39175839 GATT
1 GATT
39175843 CGCCATGGTG
Statistics
Matches: 236, Mismatches: 64, Indels: 26
0.72 0.20 0.08
Matches are distributed among these distances:
43 36 0.15
44 141 0.60
45 48 0.20
46 10 0.04
47 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GATTTGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAA
Found at i:39175775 original size:131 final size:133
Alignment explanation
Indices: 39175499--39175809 Score: 396
Period size: 131 Copynumber: 2.3 Consensus size: 133
39175489 TTGTTACTTT
* * ** * *
39175499 AATCTACTCTACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAACTTGCCCCCACTGCAACTT
1 AATCTACTCCACTGCAACTT-AGGGAGATAAGACTAGTGGCTTCAACTTGCCCCCACTACAACTT
* *
39175564 TAGGGGGATAAGGTTTGCTATCTTTGATCTACTCCACTGCAACTCCAGAGAGATCAAATCTGTAA
65 TAGGGGGATAAGGTTTGCTATCTTCGATCTACTCCACTACAACTCCAGAGAGATCAAATCTGTAA
*
39175629 CTTC
130 CTCC
*
39175633 AATCTACTCCACTGCAACTCTAGGGAGATAAGACTCGTGGCTTCAACTTG-CCCCACTACAACTT
1 AATCTACTCCACTGCAACT-TAGGGAGATAAGACTAGTGGCTTCAACTTGCCCCCACTACAACTT
* * *
39175697 TA-GGGGATAAGGTTTGCTATCTTCGATC-ACTCTACTACAACTCCAGGGAGAT-AAGATTTGTA
65 TAGGGGGATAAGGTTTGCTATCTTCGATCTACTCCACTACAACTCCAGAGAGATCAA-ATCTGTA
39175759 ACTCC
129 ACTCC
* * * * *
39175764 AATCTATTCCACTACAACTTTTGCGAGATAAGATTAGTGGCTTCAA
1 AATCTACTCCACTGCAAC-TTAGGGAGATAAGACTAGTGGCTTCAA
39175810 TCTACTTCAC
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
130 2 0.01
131 69 0.44
132 26 0.17
133 15 0.10
134 43 0.28
135 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (133 bp):
AATCTACTCCACTGCAACTTAGGGAGATAAGACTAGTGGCTTCAACTTGCCCCCACTACAACTTT
AGGGGGATAAGGTTTGCTATCTTCGATCTACTCCACTACAACTCCAGAGAGATCAAATCTGTAAC
TCC
Found at i:39177708 original size:27 final size:27
Alignment explanation
Indices: 39177677--39177729 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
39177667 ACACTTATGG
39177677 CATTTCTTGGCATAACTGATGCAATCA
1 CATTTCTTGGCATAACTGATGCAATCA
39177704 CATTTCTTGGCATAACTGATGCAATC
1 CATTTCTTGGCATAACTGATGCAATC
39177730 CTTCTCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (27 bp):
CATTTCTTGGCATAACTGATGCAATCA
Found at i:39183977 original size:19 final size:19
Alignment explanation
Indices: 39183961--39184005 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
39183951 TTATGAAACT
39183961 TAATGCATATGATGAAATG
1 TAATGCATATGATGAAATG
*
39183980 TAATGCATATGAATAAAATG
1 TAATGCATATG-ATGAAATG
39184000 -AATGCA
1 TAATGCA
39184006 AAAAGAGGCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (19 bp):
TAATGCATATGATGAAATG
Found at i:39184527 original size:28 final size:26
Alignment explanation
Indices: 39184477--39184530 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
39184467 CTAACTCTGC
**
39184477 CACTTTAGCTCTTAACCTCTCCTTTT
1 CACTTTAGCTCTTAACAACTCCTTTT
39184503 CACTTTAGCTCTCTAACAAACTCCTTTT
1 CACTTTAGCTCT-TAAC-AACTCCTTTT
39184531 TATAGCATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 4 0.17
28 8 0.33
ACGTcount: A:0.20, C:0.33, G:0.04, T:0.43
Consensus pattern (26 bp):
CACTTTAGCTCTTAACAACTCCTTTT
Found at i:39188706 original size:27 final size:27
Alignment explanation
Indices: 39188667--39188844 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
39188657 ATTTTGAGCC
* * *
39188667 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
39188694 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
39188721 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
** * *
39188749 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
39188776 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
39188803 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
39188830 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39188845 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:39188806 original size:82 final size:81
Alignment explanation
Indices: 39188688--39188843 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
39188678 TGCTATATAA
* *
39188688 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACCTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA--TCGC
39188752 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
39188770 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
39188834 CACTTAGTGC
65 CACTTAGTGC
39188844 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 16 0.24
82 48 0.73
83 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:39190994 original size:25 final size:24
Alignment explanation
Indices: 39190966--39191142 Score: 98
Period size: 26 Copynumber: 7.2 Consensus size: 24
39190956 AATTTTAAAT
*
39190966 AAATAATATATAAAAAATAAGTTTA
1 AAATAATATATAAAAAACAA-TTTA
*
39190991 AAATAGGTAT-TATAAAAACAATTTA
1 AAATA-ATATATA-AAAAACAATTTA
*
39191016 AAATAATTAATATACAAAACAATTTA
1 AAATAA-T-ATATAAAAAACAATTTA
* *
39191042 AAATAA-A-AT--AAAGCAACTTA
1 AAATAATATATAAAAAACAATTTA
* *
39191062 AAATAAATAATATATATAACAATTTA
1 AAAT-AAT-ATATAAAAAACAATTTA
* ** **
39191088 AAATAACATATAGAAAGTCTAAAAT-
1 AAATAATATATA-AAAAAC-AATTTA
*
39191113 AAATAATATGTAAAAAGA-AATTTA
1 AAATAATATATAAAAA-ACAATTTA
39191137 AAATAA
1 AAATAA
39191143 ATAATATACA
Statistics
Matches: 115, Mismatches: 22, Indels: 31
0.68 0.13 0.18
Matches are distributed among these distances:
20 13 0.11
21 2 0.02
22 2 0.02
23 5 0.04
24 16 0.14
25 31 0.27
26 44 0.38
27 2 0.02
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (24 bp):
AAATAATATATAAAAAACAATTTA
Found at i:39191041 original size:26 final size:25
Alignment explanation
Indices: 39190954--39191093 Score: 101
Period size: 26 Copynumber: 5.6 Consensus size: 25
39190944 AAATAATGAG
* *
39190954 ACAATTTTAAATAAATAATATATAAAAA
1 ACAATTTAAAAT-AATTA-ATAT-AAAA
* ** *
39190982 ATAAGTTTAAAATAGGTATTATAAAA
1 ACAA-TTTAAAATAATTAATATAAAA
39191008 ACAATTTAAAATAATTAATATACAAA
1 ACAATTTAAAATAATTAATATA-AAA
39191034 ACAATTTAAAAT-A--AA-AT-AAA
1 ACAATTTAAAATAATTAATATAAAA
* * * *
39191054 GCAACTTAAAATAAATAATATATATA
1 ACAATTTAAAATAATTAATATA-AAA
39191080 ACAATTTAAAATAA
1 ACAATTTAAAATAA
39191094 CATATAGAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
20 13 0.15
21 1 0.01
22 2 0.02
23 4 0.04
24 2 0.02
25 16 0.18
26 36 0.40
27 3 0.03
28 5 0.06
29 7 0.08
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (25 bp):
ACAATTTAAAATAATTAATATAAAA
Found at i:39191065 original size:46 final size:45
Alignment explanation
Indices: 39191013--39191143 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 45
39191003 TAAAAACAAT
* *
39191013 TTAAAATAATTAATATACAAAACAATTTAAAATAAAATAAAGCAAC
1 TTAAAATAAATAATATA-AAAACAATTTAAAATAAAATAAAGAAAC
* * * *
39191059 TTAAAATAAATAATATATATAACAATTTAAAATAACATATAGAAAG
1 TTAAAATAAATAATATA-AAAACAATTTAAAATAAAATAAAGAAAC
*
39191105 TCTAAAATAAATAATATGTAAAAAGAAATTTAAAATAAA
1 T-TAAAATAAATAATA--TAAAAA-CAATTTAAAATAAA
39191144 TAATATACAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
46 40 0.56
47 14 0.20
48 3 0.04
49 14 0.20
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (45 bp):
TTAAAATAAATAATATAAAAACAATTTAAAATAAAATAAAGAAAC
Found at i:39191163 original size:35 final size:35
Alignment explanation
Indices: 39191123--39191200 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
39191113 AAATAATATG
*
39191123 TAAAAAGAAATTTAAA-ATAAATAATATACATAAAA
1 TAAAAA-AAAGTTAAATATAAATAATATACATAAAA
* *
39191158 TAAAAAATAGTTAAATATAAATAATATATATAAAA
1 TAAAAAAAAGTTAAATATAAATAATATACATAAAA
*
39191193 -AAATAAAA
1 TAAAAAAAA
39191201 TGAATAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 13 0.35
35 24 0.65
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (35 bp):
TAAAAAAAAGTTAAATATAAATAATATACATAAAA
Found at i:39191206 original size:23 final size:24
Alignment explanation
Indices: 39191170--39191216 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
39191160 AAAAATAGTT
39191170 AAATATAAATAAT-ATATATAAAA
1 AAATATAAATAATAATATATAAAA
*
39191193 AAATA-AAATGAATAATGTATAAAA
1 AAATATAAAT-AATAATATATAAAA
39191217 GAGTTTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
AAATATAAATAATAATATATAAAA
Found at i:39191340 original size:27 final size:25
Alignment explanation
Indices: 39191310--39191452 Score: 96
Period size: 25 Copynumber: 5.6 Consensus size: 25
39191300 AACAATTCAA
39191310 AAATAATATATAAAAAGAGTTTAAAAT
1 AAATAATATATAAAAA-A-TTTAAAAT
** * *
39191337 AAATAA-ATA-AATCAATGTAAAGT
1 AAATAATATATAAAAAATTTAAAAT
* *
39191360 AATTAATATATAAAATAATTCAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* *
39191386 -AAT-ATGTATTAAAACAGTTTAAAAT
1 AAATAATATA-TAAAA-AATTTAAAAT
* *
39191411 GAATACTATATAAAAAAAATTTAAAAT
1 AAATA--ATATATAAAAAATTTAAAAT
*
39191438 GAATAATATATAAAA
1 AAATAATATATAAAA
39191453 TAGTTTATAA
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
23 11 0.12
24 8 0.09
25 29 0.33
26 13 0.15
27 20 0.22
28 4 0.04
29 4 0.04
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTAAAAT
Found at i:39191388 original size:22 final size:22
Alignment explanation
Indices: 39191290--39191390 Score: 64
Period size: 23 Copynumber: 4.3 Consensus size: 22
39191280 ATGTAAATTT
*
39191290 ATAATA-ATAAAACAATTCAAAA
1 ATAATATATAAAATAATTC-AAA
*
39191312 ATAATATATAAAA-AGAGTTTAAA
1 ATAATATATAAAATA-A-TTCAAA
* *
39191335 ATAA-ATAAATAAATCAATGTAAAGTA
1 ATAATATATA-AAAT-AAT-TCAA--A
39191361 ATTAATATATAAAATAATTCAAA
1 A-TAATATATAAAATAATTCAAA
39191384 ATAATAT
1 ATAATAT
39191391 GTATTAAAAC
Statistics
Matches: 63, Mismatches: 5, Indels: 22
0.70 0.06 0.24
Matches are distributed among these distances:
22 17 0.27
23 20 0.32
24 6 0.10
25 4 0.06
26 5 0.08
27 7 0.11
28 4 0.06
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (22 bp):
ATAATATATAAAATAATTCAAA
Found at i:39191388 original size:26 final size:26
Alignment explanation
Indices: 39191363--39191459 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
39191353 GTAAAGTAAT
*
39191363 TAATATATAAAATAATTCAAAAT-AA
1 TAATATATAAAATAATTTAAAATGAA
* * *
39191388 T-ATGTATTAAAACAGTTTAAAATGAA
1 TAATATA-TAAAATAATTTAAAATGAA
* *
39191414 TACTATATAAAAAAAATTTAAAATGAA
1 TAATATAT-AAAATAATTTAAAATGAA
*
39191441 TAATATATAAAATAGTTTA
1 TAATATATAAAATAATTTA
39191460 TAAAAGCTGA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
24 4 0.07
25 14 0.25
26 13 0.23
27 26 0.46
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (26 bp):
TAATATATAAAATAATTTAAAATGAA
Found at i:39191453 original size:16 final size:16
Alignment explanation
Indices: 39191405--39191453 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
39191395 TAAAACAGTT
*
39191405 TAAAATGAATACTATA
1 TAAAATGAATAATATA
39191421 TAAAA--AA-AAT-T-
1 TAAAATGAATAATATA
39191432 TAAAATGAATAATATA
1 TAAAATGAATAATATA
39191448 TAAAAT
1 TAAAAT
39191454 AGTTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
11 5 0.19
12 1 0.04
13 4 0.15
14 5 0.19
15 1 0.04
16 11 0.41
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
TAAAATGAATAATATA
Found at i:39192484 original size:15 final size:15
Alignment explanation
Indices: 39192455--39192503 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
39192445 TTATTTTTTT
39192455 TTGTCTTCTT--C-G
1 TTGTCTTCTTGCCTG
* *
39192467 TTGTTTTCTTGCGTG
1 TTGTCTTCTTGCCTG
*
39192482 TTGGCTTCTTGCCTG
1 TTGTCTTCTTGCCTG
39192497 TTGTCTT
1 TTGTCTT
39192504 TGTCTTGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 9 0.32
15 19 0.68
ACGTcount: A:0.00, C:0.20, G:0.22, T:0.57
Consensus pattern (15 bp):
TTGTCTTCTTGCCTG
Found at i:39193215 original size:57 final size:57
Alignment explanation
Indices: 39193127--39193242 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
39193117 ATAATTTTCT
39193127 TACCTTTTTACATTGAACAATGAAATGCTCACTATTAAATCACCCTTATGAATTAAG
1 TACCTTTTTACATTGAACAATGAAATGCTCACTATTAAATCACCCTTATGAATTAAG
39193184 TACCTTTTTACATTGAACAATGAAATGCTCACTATTAAATCACCCTTATGAATTAAG
1 TACCTTTTTACATTGAACAATGAAATGCTCACTATTAAATCACCCTTATGAATTAAG
39193241 TA
1 TA
39193243 AGTAAAACCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (57 bp):
TACCTTTTTACATTGAACAATGAAATGCTCACTATTAAATCACCCTTATGAATTAAG
Found at i:39194650 original size:20 final size:21
Alignment explanation
Indices: 39194614--39194658 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
39194604 GAGTAGCATG
39194614 ATTTTACATGCATTTATAATT
1 ATTTTACATGCATTTATAATT
* *
39194635 ATTTTACCTG-ATTTATATTT
1 ATTTTACATGCATTTATAATT
39194655 ATTT
1 ATTT
39194659 AATATTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTACATGCATTTATAATT
Found at i:39204660 original size:21 final size:23
Alignment explanation
Indices: 39204634--39204675 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
39204624 GGATCACATT
39204634 GACT-AATGTGA-ATAATAAATA
1 GACTAAATGTGATATAATAAATA
*
39204655 GACTAAATGTGATATTATAAA
1 GACTAAATGTGATATAATAAA
39204676 CCAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (23 bp):
GACTAAATGTGATATAATAAATA
Found at i:39215877 original size:36 final size:34
Alignment explanation
Indices: 39215824--39215909 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
39215814 CAATTTGCAT
**
39215824 CCAAAACATACTTAATTCACATAAC-AAATCTTATG
1 CCAAAACATACCAAATTCAC--AACTAAATCTTATG
*
39215859 CCAAAATCATACCAAATTCTCAACTAAATCTTATG
1 CCAAAA-CATACCAAATTCACAACTAAATCTTATG
* *
39215894 TC-AAACTTACCAAATT
1 CCAAAACATACCAAATT
39215910 GACCATTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 10 0.23
34 6 0.14
35 17 0.39
36 11 0.25
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (34 bp):
CCAAAACATACCAAATTCACAACTAAATCTTATG
Found at i:39216592 original size:43 final size:42
Alignment explanation
Indices: 39216540--39216644 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
39216530 CCAACATCCC
* *
39216540 AGACGTGGTCTTCCATGTAATCAAATATCGATG-CCATTGTCCA
1 AGACATGGTCTTACATGTAATCAAATA-CGATGTCCA-TGTCCA
* * * * * *
39216583 AGACATGGTCGTACACGAAATCATATACGATGTCGATGTCCC
1 AGACATGGTCTTACATGTAATCAAATACGATGTCCATGTCCA
39216625 AGACATGGTCTTACATGTAA
1 AGACATGGTCTTACATGTAA
39216645 ATCTCAAGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.54
43 23 0.46
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (42 bp):
AGACATGGTCTTACATGTAATCAAATACGATGTCCATGTCCA
Found at i:39226139 original size:21 final size:20
Alignment explanation
Indices: 39226112--39226169 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
39226102 AAAATTTTTG
39226112 AGGGATTACAAAATATTCTA
1 AGGGATTACAAAATATTCTA
*
39226132 AGGGGATTCCAAAAT-TTCTA
1 A-GGGATTACAAAATATTCTA
*
39226152 AGGGAATACCAAAATATT
1 AGGGATTA-CAAAATATT
39226170 AAAGAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.16
20 13 0.41
21 14 0.44
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (20 bp):
AGGGATTACAAAATATTCTA
Found at i:39226198 original size:20 final size:20
Alignment explanation
Indices: 39226120--39226199 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
39226110 TGAGGGATTA
** *
39226120 CAAAATATTCTAAGGGGATTC
1 CAAAAT-TTCTAAGGAAATAC
*
39226141 CAAAATTTCTAAGGGAATAC
1 CAAAATTTCTAAGGAAATAC
* *
39226161 CAAAATATT-AAAGAAAATAC
1 CAAAAT-TTCTAAGGAAATAC
*
39226181 CAAAATTTCTGAGGAAATA
1 CAAAATTTCTAAGGAAATA
39226200 TCACATATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 39 0.80
21 8 0.16
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (20 bp):
CAAAATTTCTAAGGAAATAC
Found at i:39227647 original size:21 final size:21
Alignment explanation
Indices: 39227622--39227667 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
39227612 TGTGAAGAGG
* *
39227622 GGCACACGACCGTGTGGCTGA
1 GGCACACGACCGTGTGACTAA
*
39227643 GGCACACGGCCGTGTGACTAA
1 GGCACACGACCGTGTGACTAA
39227664 GGCA
1 GGCA
39227668 TATGCCAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.37, T:0.13
Consensus pattern (21 bp):
GGCACACGACCGTGTGACTAA
Found at i:39228459 original size:21 final size:22
Alignment explanation
Indices: 39228435--39228482 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
39228425 AAGGAAAGGA
39228435 AAATAAAAAAATAAA-AAAAAT
1 AAATAAAAAAATAAATAAAAAT
** *
39228456 AAAT-ACCAAATAAATAAAACT
1 AAATAAAAAAATAAATAAAAAT
39228477 AAATAA
1 AAATAA
39228483 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 13 0.59
22 1 0.05
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATAAAAAAATAAATAAAAAT
Found at i:39228468 original size:20 final size:21
Alignment explanation
Indices: 39228443--39228481 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39228433 GAAAATAAAA
39228443 AAATAAA-AAAAATAAATACC
1 AAATAAATAAAAATAAATACC
*
39228463 AAATAAATAAAACTAAATA
1 AAATAAATAAAAATAAATA
39228482 ATTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (21 bp):
AAATAAATAAAAATAAATACC
Found at i:39230953 original size:37 final size:37
Alignment explanation
Indices: 39230894--39231002 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
39230884 AGCTCAGACG
* * *
39230894 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
39230931 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
39230968 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39231003 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:39231275 original size:47 final size:47
Alignment explanation
Indices: 39231211--39231671 Score: 643
Period size: 47 Copynumber: 9.6 Consensus size: 47
39231201 ACACGTTTCG
* * * **
39231211 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
39231258 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39231305 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39231352 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
39231399 CATTGGCCATTTGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
39231452 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
39231499 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
39231550 CATTGGCCATTCGGCCTTATCACGCATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39231597 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39231644 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
39231672 TATATACGGG
Statistics
Matches: 371, Mismatches: 33, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
47 285 0.77
49 1 0.00
51 44 0.12
53 41 0.11
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:39231588 original size:245 final size:239
Alignment explanation
Indices: 39231211--39231699 Score: 771
Period size: 245 Copynumber: 2.0 Consensus size: 239
39231201 ACACGTTTCG
* **
39231211 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCAGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
* * *
39231276 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
66 ATCACATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
* *
39231341 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
131 CACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
* *
39231406 CATTTGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
196 CATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCA
* * *
39231452 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
* * *
39231517 ATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACGCATACGCA
66 AT--CAC--ATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCA
39231582 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
127 TGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
*
39231647 TGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
192 TGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
39231695 CATTA
1 CATTA
39231700 AATCCTAAAT
Statistics
Matches: 226, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
241 61 0.27
243 33 0.15
245 132 0.58
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (239 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCAGCCTT
ATCACATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTT
CACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
Found at i:39231729 original size:145 final size:143
Alignment explanation
Indices: 39231283--39231721 Score: 503
Period size: 145 Copynumber: 3.0 Consensus size: 143
39231273 CTTATCTCAT
* * *
39231283 ATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTC
1 ATATACATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
***
39231348 ATCACATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCACATTGGCCAT
66 ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATT----A-
* * * *
39231409 TTGGCCTTATCACGCATATAT
126 AT--CCTAATCA-ACATATAA
* *
39231430 ATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
1 ATATACATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
**
39231495 ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATT-GGCC-
66 ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTAATCCT
* ** * *
39231558 ATTCGGCCTTATCACGC
131 AATC-AACATAT-A--A
** *
39231575 ATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
1 ATATACATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
39231640 ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTAAATCC
66 ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATT-AATCC
*
39231705 TAAATCAAAATATAA
130 T-AATCAACATATAA
39231720 AT
1 AT
39231722 TTTCATGTAT
Statistics
Matches: 253, Mismatches: 27, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
142 6 0.02
143 3 0.01
145 121 0.48
147 99 0.39
148 3 0.01
149 3 0.01
151 18 0.07
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (143 bp):
ATATACATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTC
ATCACATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTAATCCT
AATCAACATATAA
Found at i:39233090 original size:85 final size:85
Alignment explanation
Indices: 39232961--39233139 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
39232951 TATTTTATTG
*
39232961 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
39233026 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
39233046 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
39233111 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
39233131 CCCATGCTC
1 CCCATGCTC
39233140 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:39240957 original size:30 final size:30
Alignment explanation
Indices: 39240923--39240988 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
39240913 ATGTGGCCTT
*
39240923 CCCATGGGCCTCACACGGGCGCGTGGTTTA
1 CCCATGGGCCTCACACGGGCGAGTGGTTTA
**
39240953 CCCATTTGCCTCACACGGGCGAGTGGTTTA
1 CCCATGGGCCTCACACGGGCGAGTGGTTTA
39240983 CCCATG
1 CCCATG
39240989 TGGAAGTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.29, T:0.23
Consensus pattern (30 bp):
CCCATGGGCCTCACACGGGCGAGTGGTTTA
Found at i:39249378 original size:27 final size:27
Alignment explanation
Indices: 39249348--39249400 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
39249338 TTCTTTGACT
39249348 CTTAACTGGTAGTAGCCTGATCTTAAA
1 CTTAACTGGTAGTAGCCTGATCTTAAA
39249375 CTTAACTGGTAGTAGCCTGATCTTAA
1 CTTAACTGGTAGTAGCCTGATCTTAA
39249401 GTCTATCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
CTTAACTGGTAGTAGCCTGATCTTAAA
Found at i:39253746 original size:66 final size:67
Alignment explanation
Indices: 39253617--39253746 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
39253607 GGGATGTATC
*
39253617 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
39253682 AGGACA
62 AGGACA
* *
39253688 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
39253747 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:39268916 original size:19 final size:19
Alignment explanation
Indices: 39268891--39269014 Score: 179
Period size: 19 Copynumber: 6.8 Consensus size: 19
39268881 ATAATCTTCA
39268891 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39268910 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39268929 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
39268946 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39268964 ATGATA--CAATCTTATAT
1 ATGATATGCAATCTTAGAT
39268981 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
39268999 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
39269015 AAAGATATGA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 32 0.34
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:39268931 original size:14 final size:15
Alignment explanation
Indices: 39268912--39269002 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 15
39268902 TCTTAGATGT
39268912 GATATG-CAATCTTA
1 GATATGACAATCTTA
39268926 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
39268943 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
39268961 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
*
39268978 TATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
39268996 GATATGA
1 GATATGA
39269003 TATACAATCT
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 6 0.09
15 2 0.03
17 27 0.42
18 28 0.44
20 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:39268961 original size:35 final size:35
Alignment explanation
Indices: 39268899--39269014 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
39268889 CAATGATATG
*
39268899 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
39268935 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
39268970 CAATCTTATATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
39269007 CAATCTTA
1 CAATCTTA
39269015 AAAGATATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
35 50 0.66
36 15 0.20
37 11 0.14
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:39274433 original size:40 final size:40
Alignment explanation
Indices: 39274377--39274456 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
39274367 ATGAGTTTAT
*
39274377 GAATCAAGATTTTTCCTCCAAGCTTTGAT-GATGTCAAGAA
1 GAATCAAGATTGTTCCTCCAAGCTTTGATGGA-GTCAAGAA
39274417 GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
1 GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
39274457 TTGAATACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (40 bp):
GAATCAAGATTGTTCCTCCAAGCTTTGATGGAGTCAAGAA
Found at i:39274826 original size:8 final size:8
Alignment explanation
Indices: 39274798--39274866 Score: 65
Period size: 8 Copynumber: 8.6 Consensus size: 8
39274788 CTTTTATTTC
39274798 AAAAAAA-
1 AAAAAAAG
39274805 AAAAGTAAAG
1 AAAA--AAAG
*
39274815 AAAAAGAG
1 AAAAAAAG
39274823 AAAAAAAG
1 AAAAAAAG
39274831 --AAAAAG
1 AAAAAAAG
39274837 AAAAAACTAG
1 AAAAAA--AG
39274847 -AAAAAAG
1 AAAAAAAG
39274854 AAAAAAAG
1 AAAAAAAG
39274862 AAAAA
1 AAAAA
39274867 TGGAGAGGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
6 6 0.12
7 6 0.12
8 26 0.50
9 8 0.15
10 6 0.12
ACGTcount: A:0.83, C:0.01, G:0.13, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:39274830 original size:16 final size:16
Alignment explanation
Indices: 39274811--39274866 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
39274801 AAAAAAAAGT
39274811 AAAGAAAAAGAGAAAA
1 AAAGAAAAAGAGAAAA
39274827 AAAGAAAAAGA-AAAA
1 AAAGAAAAAGAGAAAA
*
39274842 ACTAGAAAAA-AGAAAA
1 A-AAGAAAAAGAGAAAA
39274858 AAAGAAAAA
1 AAAGAAAAA
39274867 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAGAAAA
Found at i:39275874 original size:44 final size:44
Alignment explanation
Indices: 39275824--39275965 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
39275814 TGCCTTAATC
*
39275824 CCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
* * ** *** * * *
39275868 CCCTAAGCAGTAGTGG-AGCAGATCGAA-GACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAATTTGCAGATCTTATTCT
*
39275909 CCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
39275953 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
39275966 TGGAGCAGAT
Statistics
Matches: 71, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
40 2 0.03
41 19 0.27
42 8 0.11
43 8 0.11
44 32 0.45
45 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCT
Found at i:39275921 original size:41 final size:41
Alignment explanation
Indices: 39275868--39276006 Score: 113
Period size: 41 Copynumber: 3.3 Consensus size: 41
39275858 ATCTTATTCT
* *
39275868 CCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAAACCAGCCTTAATC
* * ** * *
39275909 CCCTAAGCAGTAG-GGTAAG-AGGT-TAAATTTGCAGATCTTATTC
1 CCCTAAGCAGTAGTGG--AGCAGATCGAAA--ACCAG-CCTTAATC
**
39275952 TCCCTAAGCAGTAGTGGAGCAGATCGAAAACTTGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAAACCAGCCTTAATC
39275994 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
39276007 GGTAACAGGT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
40 4 0.05
41 29 0.40
42 10 0.14
43 9 0.12
44 16 0.22
45 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAAACCAGCCTTAATC
Found at i:39275958 original size:85 final size:85
Alignment explanation
Indices: 39275815--39276179 Score: 521
Period size: 85 Copynumber: 4.3 Consensus size: 85
39275805 AAAATTCAGT
*
39275815 GCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
*
39275880 GTGGAGCAGATCGAAGACCC
66 GTGGAGCAGATCGAAGACTC
*
39275900 GCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
* *
39275965 GTGGAGCAGATCGAAAACTT
66 GTGGAGCAGATCGAAGACTC
*
39275985 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA----CAGATCTT-TTCTCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
** *
39276044 GCAGAGCAAATCGATGACGACTC
66 GTGGAGCAGATCGA--A-GACTC
*
39276067 GCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATT-TCCCTAAGCAGTA
1 GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
39276131 GTGGAGCAGATCGAAGACGATGC
66 GTGGAGCAGATCGAAGAC--T-C
*
39276154 ACCTTAA-CCCCTAAGCAGTAGGGTAA
1 GCCTTAATCCCCTAAGCAGTAGGGTAA
39276180 TAGACCAAGA
Statistics
Matches: 250, Mismatches: 18, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
79 27 0.11
80 8 0.03
81 1 0.00
82 35 0.14
83 1 0.00
84 4 0.02
85 114 0.46
86 19 0.08
87 39 0.16
88 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
GCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACTC
Found at i:39276101 original size:167 final size:167
Alignment explanation
Indices: 39275814--39276179 Score: 526
Period size: 167 Copynumber: 2.2 Consensus size: 167
39275804 CAAAATTCAG
*
39275814 TGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
1 TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA--T-CAGATCTTATTCTCCCTAAGCAGT
** * * *
39275879 AGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCAGTAGGGTAAGAGGTTAAATTTGCAGA
63 AGCAGAGCAAATCGAAGACCCGCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
39275944 TCTTATTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAC-T
128 TCTTATT-TCCCTAAGCAGTAGTGGAGCAGATCGAAAACGA
*
39275984 TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTT-CA-CAGATCTT-TTCTCCCTAAGCAGTAGC
1 TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATTCTCCCTAAGCAGTAGC
*
39276046 AGAGCAAATCGATGACGACTCGCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
66 AGAGCAAATCGA--A-GACCCGCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
39276111 TCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
128 TCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGA
39276151 TGCACCTTAA-CCCCTAAGCAGTAGGGTAA
1 TG--CCTTAATCCCCTAAGCAGTAGGGTAA
39276180 TAGACCAAGA
Statistics
Matches: 180, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
164 27 0.15
165 8 0.04
166 31 0.17
167 55 0.31
168 19 0.11
169 7 0.04
170 33 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (167 bp):
TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATCAGATCTTATTCTCCCTAAGCAGTAGC
AGAGCAAATCGAAGACCCGCCTTAATCACCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCT
TATTTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGA
Found at i:39276471 original size:207 final size:207
Alignment explanation
Indices: 39276186--39277102 Score: 1530
Period size: 207 Copynumber: 4.4 Consensus size: 207
39276176 GTAATAGACC
39276186 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
39276251 TATTTTATCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
39276316 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
39276381 AGGAACAAATCG
196 AGGAACAAATCG
* *
39276393 AAGACATAGCTGATTTGACTTTCACGTGTTTACGATGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
39276458 TATATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAAACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
39276523 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCTAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
39276588 AGGAACAAATCG
196 AGGAACAAATCG
* * * *
39276600 AAGACACAGCTGATTTGGCTTCCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATTTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
*
39276665 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATGTTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
39276730 GATCTAGCCTTCAGATGTTTATACTGAAACAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
39276795 AGGAACAAATCA
196 AGGAACAAATCG
39276807 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * *
39276872 TGTATTGTCAGAGAAGAAATCGAAGTTTGGCGTCTCCATATTTGACGGAGGACAGACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * * * *
39276937 GATCTAACCTTCAAATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACA
131 GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
39277001 AGGAGCAAATCG
196 AGGAACAAATCG
* * * *
39277013 AAGACATAGCTGATTTAGCTTTCGCGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
39277078 TGTATTGTCAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
39277103 AAGCAGTTTT
Statistics
Matches: 665, Mismatches: 45, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
206 126 0.19
207 539 0.81
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTAGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCG
Found at i:39277546 original size:37 final size:36
Alignment explanation
Indices: 39277498--39277604 Score: 153
Period size: 35 Copynumber: 2.9 Consensus size: 36
39277488 ATAATCTTCA
* *
39277498 ATGATATGCAATCTTAGATGTGATATGCAACCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATAT-CAATCTTAGAT
*
39277536 ATGATTGCAATATTAGATATGATA-CAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
39277571 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATGATAT-CAATCTTA
39277605 AAAGATATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
35 33 0.52
37 25 0.40
38 5 0.08
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (36 bp):
ATGATTGCAATCTTAGATATGATATCAATCTTAGAT
Found at i:39277551 original size:18 final size:18
Alignment explanation
Indices: 39277498--39277604 Score: 135
Period size: 18 Copynumber: 5.8 Consensus size: 18
39277488 ATAATCTTCA
39277498 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
* *
39277517 GTGATATGCAACCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
39277536 ATGATTGCAATATTAGAT
1 ATGATTGCAATCTTAGAT
*
39277554 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
39277571 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
39277589 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
39277605 AAAGATATGA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
17 15 0.19
18 32 0.42
19 30 0.39
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:39291341 original size:24 final size:24
Alignment explanation
Indices: 39291314--39291406 Score: 125
Period size: 24 Copynumber: 3.9 Consensus size: 24
39291304 AAGGCTGTCA
39291314 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
39291338 GGAGAGGATTTAGGGGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
39291362 GGAG-AGAATTTAGGGGCTGATAAA
1 GGAGAAG-ATTTAGGAGCTGATAAG
*
39291386 GGAGAAGATTGAGGAGCTGAT
1 GGAGAAGATTTAGGAGCTGAT
39291407 CAAAGAGCAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 58 0.95
25 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:39306780 original size:27 final size:27
Alignment explanation
Indices: 39306745--39307045 Score: 343
Period size: 27 Copynumber: 11.1 Consensus size: 27
39306735 AATTTAAGGT
* *
39306745 AAATAACCGTAATACCCTTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
39306772 AAATGACCGTAATACCCTTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
39306799 AAATGACCATAATACCTCTATAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
39306826 AAATGACCATAATACCTCTGTAAGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
*
39306853 AAATGACAGTAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
39306880 AAATTATCATAATACCCCTGTAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
39306907 AAATGACCGTAATGCCCCTATAGGG-A
1 AAATGACCGTAATACCCCTGTAGGGTA
* *
39306933 AAATTGACCGTAATGCCCCTGTAGGGCA
1 AAA-TGACCGTAATACCCCTGTAGGGTA
* **
39306961 ACATGACCGTAATACCCCTACAGGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
* * * *
39306988 AAATTACCGTAATGCCCCTATAGGGTG
1 AAATGACCGTAATACCCCTGTAGGGTA
* * *
39307015 AAATGACTGTAATACCCCTCTAAGGTA
1 AAATGACCGTAATACCCCTGTAGGGTA
39307042 AAAT
1 AAAT
39307046 AAAAATTATG
Statistics
Matches: 235, Mismatches: 37, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 4 0.02
27 228 0.97
28 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AAATGACCGTAATACCCCTGTAGGGTA
Found at i:39307219 original size:27 final size:27
Alignment explanation
Indices: 39307189--39307248 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
39307179 GGAAATACTA
* *
39307189 TACTTGTGACTATGTCACATTCACTGT
1 TACTGGTGACTATGCCACATTCACTGT
* * *
39307216 TACTGGTGGCTTTGCCACATTTACTGT
1 TACTGGTGACTATGCCACATTCACTGT
*
39307243 TTCTGG
1 TACTGG
39307249 CAGCTATGCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.42
Consensus pattern (27 bp):
TACTGGTGACTATGCCACATTCACTGT
Found at i:39307429 original size:33 final size:32
Alignment explanation
Indices: 39307392--39307487 Score: 83
Period size: 33 Copynumber: 3.1 Consensus size: 32
39307382 TAATTGCATT
* * *
39307392 ACACTGTATTGATACTGCATTGGGCTTAGGCCC
1 ACACTGTA-TGATACTGAATAGGGCTAAGGCCC
* *
39307425 ACAC--TAT--TACTGTATAGGGCTAAAGCCC
1 ACACTGTATGATACTGAATAGGGCTAAGGCCC
* *
39307453 AGACTGTACTGATACTGAATAGGGCTCAGGCCC
1 ACACTGTA-TGATACTGAATAGGGCTAAGGCCC
39307486 AC
1 AC
39307488 TGTTACCGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
28 20 0.41
30 3 0.06
31 3 0.06
33 23 0.47
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (32 bp):
ACACTGTATGATACTGAATAGGGCTAAGGCCC
Found at i:39326806 original size:7 final size:7
Alignment explanation
Indices: 39326782--39326817 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
39326772 ATACCACCAT
39326782 TATGTGA
1 TATGTGA
*
39326789 TATATGA
1 TATGTGA
39326796 TATGTGA
1 TATGTGA
39326803 TATGTGA
1 TATGTGA
*
39326810 GATGTGA
1 TATGTGA
39326817 T
1 T
39326818 GATAAAGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.42
Consensus pattern (7 bp):
TATGTGA
Found at i:39332337 original size:48 final size:48
Alignment explanation
Indices: 39332279--39332375 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
39332269 TTTTTCTATA
*
39332279 TATTTATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
1 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
*
39332327 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGTTCTTT
1 TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
39332375 T
1 T
39332376 CTCCCTCTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (48 bp):
TATTAATCTTATTTTAGTTAGTGAATTAAAAATTAAAGCACGATCTTT
Found at i:39340690 original size:37 final size:38
Alignment explanation
Indices: 39340649--39340730 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
39340639 GTGTGTAAGA
*
39340649 TGGATGAGCCTTTTAT-G-GTTCTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTT-TATGTGGTGTGCAGGG
* *
39340686 TGGATGGGCCTTTTGTAGCCTTTATGTGGTGTGCAGGG
1 TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
39340724 TGGATGA
1 TGGATGA
39340731 AGTGGTGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 14 0.36
38 23 0.59
39 2 0.05
ACGTcount: A:0.13, C:0.11, G:0.39, T:0.37
Consensus pattern (38 bp):
TGGATGAGCCTTTTATAGCCTTTATGTGGTGTGCAGGG
Found at i:39346594 original size:50 final size:51
Alignment explanation
Indices: 39346496--39346602 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 51
39346486 CTCCAAAACG
* * * *
39346496 AAAATGAAAATGGAGAAATGAAATCATTTGGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
*
39346547 AAAATGAAAAT-GAGAAATGAATTCATTTAGAAATGAATAAT-GATTTCTCA
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAAT-ATGGATTTCTCA
39346597 AAAATG
1 AAAATG
39346603 TTCATAAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 38 0.76
51 12 0.24
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
Found at i:39364799 original size:108 final size:110
Alignment explanation
Indices: 39364655--39364854 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
39364645 ATCCTTTTGA
* * * *
39364655 AACTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
* *
39364718 -TGCCATGCCTTGGCATGGTCTTACATGTGACCTTTACCTTATAGT
65 TTGCCATACCTTAGCATGGTCTTACATGTGACCTTTACCTTATAGT
* * *
39364763 AACTTATCAATGCCATGTCATGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
39364828 TGCCATACCTTAGCATGGTCTTACATG
66 TGCCATACCTTAGCATGGTCTTACATG
39364855 GTATCCTTGA
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCATGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATACCTTAGCATGGTCTTACATGTGACCTTTACCTTATAGT
Found at i:39364813 original size:55 final size:52
Alignment explanation
Indices: 39364608--39364863 Score: 204
Period size: 55 Copynumber: 4.8 Consensus size: 52
39364598 ACACGGGTAC
* * * *
39364608 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGATATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* *
39364657 CTTACCATTGCTATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * *
39364710 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGTGA-CCTTTACCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGT-ATCC-TTGCCTTAT-G-AA
* * *
39364765 CTTATCAATGCCATGTCATGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
**
39364818 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGTATCCTTG
1 -CTTACCAA-TGCCATGTCTTGA-CATGGTCTTACAT-GTATCCTTG
39364864 AACCCTAATG
Statistics
Matches: 168, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 4 0.02
53 45 0.27
54 11 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:39367439 original size:48 final size:48
Alignment explanation
Indices: 39367368--39367580 Score: 161
Period size: 48 Copynumber: 4.6 Consensus size: 48
39367358 GTTTGCATAT
* * *
39367368 CGATGACATATCCCAGATATGGTCTTATACGA-AGTCTCATATCAGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGA-TCACATATCAGTGC
* * *
39367416 CGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCA----
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
* * * * * * * *
39367460 --ATGTCATGTCCTAGACATGGTCTTATATGAAATCACTTAACATTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
* * * * * * **
39367506 CAAAGCCATATCCTAGATATGTTCTTATACGGGATCACATATTGGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
*
39367554 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATATCCCAGACATGGTCTTA
39367581 CACTAGCACA
Statistics
Matches: 125, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
42 32 0.26
48 92 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (48 bp):
CGATGCCATATCCCAGACATGGTCTTATACGAGATCACATATCAGTGC
Found at i:39367484 original size:90 final size:90
Alignment explanation
Indices: 39367324--39367539 Score: 218
Period size: 90 Copynumber: 2.4 Consensus size: 90
39367314 CAAATAGAGA
* * * * ** * *
39367324 GCCAAAGCCATGTGCCAGACATGGTCTTGTATGGG-TTTGCATATCGATGACATATCCCAGATAT
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCT-CATATCAATGACATATCCCAGACAT
* * *
39367388 GGTCTTATACGAAGTCTCATATCAGT
65 GGTCTTATACGAAATCACATAACAGT
* * * * *
39367414 GCCGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGTCATGTCCTAGACATG
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGACATATCCCAGACATG
* * *
39367479 GTCTTATATGAAATCACTTAACATT
66 GTCTTATACGAAATCACATAACAGT
* * *
39367504 GCCAAAGCCATATCCTAGATATGTTCTTATACGGGA
1 GCCAAAGCCATATCCCAGACATGGTCTTATACGGGA
39367540 TCACATATTG
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
90 100 0.99
91 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (90 bp):
GCCAAAGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCAATGACATATCCCAGACATG
GTCTTATACGAAATCACATAACAGT
Found at i:39367656 original size:48 final size:48
Alignment explanation
Indices: 39367556--39367689 Score: 146
Period size: 48 Copynumber: 2.8 Consensus size: 48
39367546 ATTGGTGCCG
* * * *
39367556 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATACCAACATCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCAACATCA
* **
39367604 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-CTC-GTATACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAC-CAACAT-CA
* * *
39367652 ATGCCCTGTCCCAGACATGGTCTTACACGGGATCTCAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
39367690 TAACCATGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 3 0.04
48 70 0.96
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACCAACATCA
Found at i:39370797 original size:26 final size:26
Alignment explanation
Indices: 39370760--39370812 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
39370750 TCTCAAAGAA
*
39370760 AAGAAATCCAGAAGAAAATGCCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
*
39370786 AAGAAATTCAGAAGAAAATACCATTC
1 AAGAAATCCAGAAGAAAATACCATTC
39370812 A
1 A
39370813 GATTCGCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (26 bp):
AAGAAATCCAGAAGAAAATACCATTC
Found at i:39377181 original size:8 final size:8
Alignment explanation
Indices: 39377168--39377219 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
39377158 GGCAAAAGCT
39377168 GAAATGCC
1 GAAATGCC
**
39377176 GAAATGTT
1 GAAATGCC
*
39377184 GAAAAGCC
1 GAAATGCC
39377192 GAAATGCC
1 GAAATGCC
* *
39377200 GAAAAGTC
1 GAAATGCC
*
39377208 GAAATGCT
1 GAAATGCC
39377216 GAAA
1 GAAA
39377220 AGTCAAAAGT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (8 bp):
GAAATGCC
Found at i:39377188 original size:24 final size:24
Alignment explanation
Indices: 39377161--39377219 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
39377151 ATGAAACGGC
* *
39377161 AAAAGCTGAAATGCCGAAATGTTG
1 AAAAGCTGAAATGCCGAAAAGTCG
*
39377185 AAAAGCCGAAATGCCGAAAAGTCG
1 AAAAGCTGAAATGCCGAAAAGTCG
*
39377209 AAATGCTGAAA
1 AAAAGCTGAAA
39377220 AGTCAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.15
Consensus pattern (24 bp):
AAAAGCTGAAATGCCGAAAAGTCG
Found at i:39377223 original size:16 final size:16
Alignment explanation
Indices: 39377165--39377221 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
39377155 AACGGCAAAA
*
39377165 GCTGAAATGCCGAAAT
1 GCTGAAAAGCCGAAAT
*
39377181 GTTGAAAAGCCGAAAT
1 GCTGAAAAGCCGAAAT
* *
39377197 GCCGAAAAGTCGAAAT
1 GCTGAAAAGCCGAAAT
39377213 GCTGAAAAG
1 GCTGAAAAG
39377222 TCAAAAGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.42, C:0.16, G:0.26, T:0.16
Consensus pattern (16 bp):
GCTGAAAAGCCGAAAT
Found at i:39377484 original size:29 final size:29
Alignment explanation
Indices: 39377451--39377562 Score: 111
Period size: 29 Copynumber: 3.9 Consensus size: 29
39377441 ATAATATGAT
39377451 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
39377480 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * *
39377509 CTGGGCC-AGATGGGGCATTTGGATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
39377537 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
39377563 ATGTAGGGGT
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
28 20 0.31
29 44 0.69
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:39377506 original size:58 final size:57
Alignment explanation
Indices: 39377443--39377555 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 57
39377433 GCATGAATAT
** *
39377443 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATGAG-ATTGGGCCTAGTGGGCCATAAG
* * *
39377501 AATATGAACTGGGCCAGATGGGGCATTTGGATGAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATA
39377556 TGCATGTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.44
58 27 0.56
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATGAGATTGGGCCTAGTGGGCCATAAG
Found at i:39384846 original size:16 final size:16
Alignment explanation
Indices: 39384825--39384867 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
39384815 ATGAAACAGC
*
39384825 AAAAGCCGAAATGTCG
1 AAAAGCCGAAAAGTCG
*
39384841 AAAAGCCGAAAAGTTG
1 AAAAGCCGAAAAGTCG
*
39384857 AAATGCCGAAA
1 AAAAGCCGAAA
39384868 GCCAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:39385130 original size:29 final size:29
Alignment explanation
Indices: 39385097--39385208 Score: 93
Period size: 29 Copynumber: 3.9 Consensus size: 29
39385087 ATAATATGAC
39385097 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * *
39385126 TTGGGCCTAGTGGGCAATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * * * *
39385155 CTCGGCC-AGATGGGGCATTTGGATGAG-A
1 TTGGGCCTA-ATGGGCCATATGAATGTGAA
* *
39385183 TTGGGCCTAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
39385209 ATGTAGGGGT
Statistics
Matches: 60, Mismatches: 21, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
28 19 0.32
29 41 0.68
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:39386180 original size:87 final size:87
Alignment explanation
Indices: 39386034--39386213 Score: 342
Period size: 87 Copynumber: 2.1 Consensus size: 87
39386024 TTGTAATAAG
*
39386034 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTTATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
39386099 TGGGATTCTTAAATTATAGTAT
66 TGGGATTCTTAAATTATAGTAT
39386121 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
1 GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
*
39386186 TGGGATTCTTAAATTATTGTAT
66 TGGGATTCTTAAATTATAGTAT
39386208 GTTTTC
1 GTTTTC
39386214 TACTTTTCCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 91 1.00
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (87 bp):
GTTTTCATTATGCTATTATTACTTGAATTATTATTATTTTCATTGTAATTACGAGAAGTTGAACT
TGGGATTCTTAAATTATAGTAT
Found at i:39391221 original size:51 final size:51
Alignment explanation
Indices: 39391140--39391334 Score: 291
Period size: 51 Copynumber: 3.8 Consensus size: 51
39391130 ATACATAGTT
* ** * *
39391140 GCCTTCACATAGTACCACCCTTGTAACCAAAGCTATTTTATTCTCAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
*
39391191 ACCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* *
39391242 GCTTTCACATAGTACCACACCTGTGTCCAAAGCTATTATATTCACAAAGTG
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
* * *
39391293 GCCTTCACATAGTACCACACTTATGTCTAAAGCTATTTTATT
1 GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATT
39391335 TCTAAGGTTC
Statistics
Matches: 130, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 130 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTG
Found at i:39391408 original size:24 final size:24
Alignment explanation
Indices: 39391379--39391470 Score: 121
Period size: 24 Copynumber: 3.7 Consensus size: 24
39391369 CAATGCAATA
39391379 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
*
39391403 GGCTTATTTCACTTAGCACATTGCCATG
1 GACTTATTTCACTTAG---A-TGCCATG
39391431 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATGCCATG
* *
39391455 GTCTAATTTCACTTAG
1 GACTTATTTCACTTAG
39391471 CACAATGTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 36 0.60
25 1 0.02
27 1 0.02
28 22 0.37
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
GACTTATTTCACTTAGATGCCATG
Found at i:39391420 original size:52 final size:52
Alignment explanation
Indices: 39391359--39391477 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
39391349 AGAAAATTTC
* *
39391359 TCACCTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
* * * *
39391411 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTAATT
1 TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
39391463 TCACTTAGCACAATG
1 TCACTTAGCACAATG
39391478 TCATATCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCAATAGACTTATTTCACTTAGATGCCATGGGCTAATT
Found at i:39391436 original size:28 final size:27
Alignment explanation
Indices: 39391359--39391474 Score: 118
Period size: 24 Copynumber: 4.4 Consensus size: 27
39391349 AGAAAATTTC
* * *
39391359 TCACCTAGCACAATGCAATAGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
39391387 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
39391411 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
39391439 TCACTTAG---ATGCCATGGTCTAATT
1 TCACTTAGCACATGCCATGGACTTATT
39391463 TCACTTAGCACA
1 TCACTTAGCACA
39391475 ATGTCATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 42 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:39397818 original size:51 final size:50
Alignment explanation
Indices: 39397738--39397881 Score: 218
Period size: 51 Copynumber: 2.8 Consensus size: 50
39397728 TACACGGTGA
*
39397738 CCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAAGT-G
1 CCTTCACATAGTACCACACTTGT-GCCAAAGCTATTTTATTCACAAAGTGG
* *
39397788 CCATTCACATAGTACCACACTTGTGCCCAAAGCTATTATATTAACAAAGTGG
1 CC-TTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTCACAAAGTGG
39397840 CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 CCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTC
39397882 CTAAGGTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 3 0.04
51 79 0.93
52 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (50 bp):
CCTTCACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAAGTGG
Found at i:39397952 original size:24 final size:24
Alignment explanation
Indices: 39397917--39397988 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
39397907 ACTTAGCACA
39397917 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* * *
39397941 ATGCCATAGACTTATTTTACATAG
1 ATGCCATGGACTTATTTCACTTAG
* *
39397965 ATGCCACGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
39397989 CACAATGTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:39402948 original size:25 final size:25
Alignment explanation
Indices: 39402916--39402973 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
39402906 CTATTTAAAT
39402916 TTTCTTTTCAAGAATTTCTCTTAAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
39402941 TTTCTTTTCAAGAATTTCTCTTAAG
1 TTTCTTTTCAAGAATTTCTCTTAAG
39402966 TTTCTTTT
1 TTTCTTTT
39402974 AGAAGAGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.57
Consensus pattern (25 bp):
TTTCTTTTCAAGAATTTCTCTTAAG
Found at i:39405689 original size:23 final size:23
Alignment explanation
Indices: 39405659--39405704 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
39405649 ACATGCTAGA
39405659 AAGTAAGAAAAATAATGATACAT
1 AAGTAAGAAAAATAATGATACAT
39405682 AAGTAAGAAAAATAATGATACAT
1 AAGTAAGAAAAATAATGATACAT
39405705 TGGAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (23 bp):
AAGTAAGAAAAATAATGATACAT
Found at i:39409611 original size:48 final size:48
Alignment explanation
Indices: 39409538--39409852 Score: 263
Period size: 48 Copynumber: 6.6 Consensus size: 48
39409528 TAAAGTACCA
* * *
39409538 ATGCCATTTCCTC-GACATGGTCTTACATGAATCCACATATCATCGCTG
1 ATGCCATGTCC-CAGACATGGTCTTACATGAAGCCACATATCATCGCCG
* * *
39409586 ATGCCATGTCCCAAACATGGCCTTACACTG--GCACACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAAGC-CACATATCATCGCCG
* * * *
39409634 ATTCCATGTCCTAGACATGGTCTTACATAGGAA--CATATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACAT--GAAGCCACATATCATCGCCG
* * * *
39409682 ATGCCATATCCCAGACATGGTCTTACA--CAGGCACATACATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGCCACAT--ATCATCGCCG
* * * * * **
39409730 ATGCCATGTCCAAGACTTGGTCTTACA-CAGGCACAAATATCATTACCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAGC-CACATATCATCGCCG
* *
39409778 ATGCCATGTCCCAGACATGGTCTTACACAGGAA--CATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTT--ACATGAAGCCACATATCATCGCCG
39409826 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
39409853 CGGAATCTTA
Statistics
Matches: 216, Mismatches: 35, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.00
46 7 0.03
47 3 0.01
48 193 0.89
49 4 0.02
50 7 0.03
51 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAGCCACATATCATCGCCG
Found at i:39409715 original size:96 final size:95
Alignment explanation
Indices: 39409538--39409852 Score: 384
Period size: 96 Copynumber: 3.3 Consensus size: 95
39409528 TAAAGTACCA
* * * *
39409538 ATGCCATTTCCTCGACATGGTCTTACAT--GAATCCACATATCATCGCTGATGCCATGTCCCAAA
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAA--CAAATATCATCGC-GATGCCATGTCCCAGA
* * * *
39409601 CATGGCCTTACACTGGCACACATATCATTGCCG
63 CATGGTCTTACACAGGCACATATATCATCGCCG
* * *
39409634 ATTCCATGTCCTAGACATGGTCTTACATAGGAACATATATCATCGTCGATGCCATATCCCAGACA
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCATCG-CGATGCCATGTCCCAGACA
* *
39409699 TGGTCTTACACAGGCACATACATCATCGTCG
65 TGGTCTTACACAGGCACATATATCATCGCCG
* * * *
39409730 ATGCCATGTCCAAGACTTGGTCTTACACAGGCACAAATATCATTAC-CGATGCCATGTCCCAGAC
1 ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCA-T-CGCGATGCCATGTCCCAGAC
*
39409794 ATGGTCTTACACAGGAACATATATCATCGCCG
64 ATGGTCTTACACAGGCACATATATCATCGCCG
*
39409826 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
39409853 CGGAATCTTA
Statistics
Matches: 190, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
96 184 0.97
97 2 0.01
98 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCTAGACATGGTCTTACATAGGAACAAATATCATCGCGATGCCATGTCCCAGACAT
GGTCTTACACAGGCACATATATCATCGCCG
Found at i:39409798 original size:144 final size:144
Alignment explanation
Indices: 39409576--39409853 Score: 434
Period size: 144 Copynumber: 1.9 Consensus size: 144
39409566 GAATCCACAT
* * * *
39409576 ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCACACATATCATTGCCGATTCCAT
1 ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
* * *
39409641 GTCCTAGACATGGTCTTACATAGGAACATATATCATCGTCGATGCCATATCCCAGACATGGTCTT
66 GTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
39409706 ACACAGGCACATAC
131 ACACAGGCACATAC
* *
39409720 ATCATCG-TCGATGCCATGT-CCAAGACTTGGTCTTACACAGGCACAAATATCATTACCGATGCC
1 ATCATCGCT-GATGCCATGTCCCAA-ACATGGCCTTACACAGGCACAAATATCATTACCGATGCC
*
39409783 ATGTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATGTCCCAGACATGGTC
64 ATGTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTC
39409848 TTACAC
129 TTACAC
39409854 GGAATCTTAT
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
143 5 0.04
144 117 0.96
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (144 bp):
ATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACAGGCACAAATATCATTACCGATGCCAT
GTCCCAGACATGGTCTTACACAGGAACATATATCATCGCCGATGCCATATCCCAGACATGGTCTT
ACACAGGCACATAC
Found at i:39409853 original size:48 final size:48
Alignment explanation
Indices: 39409574--39409857 Score: 372
Period size: 48 Copynumber: 5.9 Consensus size: 48
39409564 ATGAATCCAC
* * * * * *
39409574 ATATCATCGCTGATGCCATGTCCCAAACATGGCCTTACACTGGCACAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * * *
39409622 ATATCATTGCCGATTCCATGTCCTAGACATGGTCTTACATAGGAACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * *
39409670 ATATCATCGTCGATGCCATATCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
* * * * * *
39409718 ACATCATCGTCGATGCCATGTCCAAGACTTGGTCTTACACAGGCACAA
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
**
39409766 ATATCATTACCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
39409814 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACAC-GGAA
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAA
39409858 TCTTATTTAA
Statistics
Matches: 204, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
47 4 0.02
48 200 0.98
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACAGGAACAT
Found at i:39412932 original size:14 final size:15
Alignment explanation
Indices: 39412895--39412936 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
39412885 AAATATGAAC
39412895 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
39412911 TATA-ATGTGATA-G
1 TATATATGTGAAATG
39412924 TATATATGTGAAA
1 TATATATGTGAAA
39412937 GTTGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:39413229 original size:15 final size:15
Alignment explanation
Indices: 39413209--39413257 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
39413199 AAAAAAATTG
39413209 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
* * *
39413224 GTGTTGAT-GTCG-C
1 GTGTTGCTAGTTGTA
39413237 GTGTTGCTAGTTGTA
1 GTGTTGCTAGTTGTA
39413252 GTGTTG
1 GTGTTG
39413258 ATGTCGCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 7 0.27
14 6 0.23
15 13 0.50
ACGTcount: A:0.10, C:0.08, G:0.37, T:0.45
Consensus pattern (15 bp):
GTGTTGCTAGTTGTA
Found at i:39413249 original size:28 final size:28
Alignment explanation
Indices: 39413209--39413264 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39413199 AAAAAAATTG
39413209 GTGTTGCTAGTTGTAGTGTTGATGTCGC
1 GTGTTGCTAGTTGTAGTGTTGATGTCGC
39413237 GTGTTGCTAGTTGTAGTGTTGATGTCGC
1 GTGTTGCTAGTTGTAGTGTTGATGTCGC
39413265 AAAAATGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.11, G:0.36, T:0.43
Consensus pattern (28 bp):
GTGTTGCTAGTTGTAGTGTTGATGTCGC
Found at i:39415597 original size:15 final size:16
Alignment explanation
Indices: 39415577--39415609 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
39415567 TATAGGGTTG
39415577 TTTTTTTAAATG-AGT
1 TTTTTTTAAATGAAGT
*
39415592 TTTTTTTATATGAAGT
1 TTTTTTTAAATGAAGT
39415608 TT
1 TT
39415610 AGTTTGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTTTTTAAATGAAGT
Found at i:39420384 original size:47 final size:47
Alignment explanation
Indices: 39420330--39420476 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
39420320 TTAGGATTTT
** *
39420330 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
39420377 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
39420424 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
39420471 ATGTGA
1 ATGTGA
39420477 AATATGTATG
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:39420505 original size:48 final size:48
Alignment explanation
Indices: 39420446--39420678 Score: 360
Period size: 48 Copynumber: 4.8 Consensus size: 48
39420436 TGAACATGCA
39420446 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
39420494 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
*
39420542 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
* * * * *
39420590 CATATGTGGTAAAGCTGAATGG-TCGATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAAATG
* *
39420640 TATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
39420679 GGCGATGTGC
Statistics
Matches: 170, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 126 0.74
49 4 0.02
50 38 0.22
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
Found at i:39420874 original size:37 final size:37
Alignment explanation
Indices: 39420824--39420932 Score: 200
Period size: 37 Copynumber: 2.9 Consensus size: 37
39420814 GGAAATATAT
39420824 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
39420861 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
39420898 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
39420933 CGTCTGAGCT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:39428102 original size:42 final size:42
Alignment explanation
Indices: 39428038--39428128 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
39428028 ATATGGCTTC
* * ** *
39428038 GGCATCGTTAAGTGATTTCGTATAAGACCATGTCTGGGACAT
1 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
39428080 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
1 GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
*
39428122 GACATCG
1 GGCATCG
39428129 GCATCAGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (42 bp):
GGCATCGATAAGAGATCACGTATAAGACCATGTCTAGGACAT
Found at i:39430348 original size:42 final size:42
Alignment explanation
Indices: 39430227--39430348 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 42
39430217 TACTGTACCA
* *
39430227 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
*
39430269 ATGCCAATAGCCCA-ACTATGGTCTTACATG-AAGTCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACATGTAA-TCTCATATCG
*
39430312 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
39430349 GTAACCCTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:39437791 original size:24 final size:24
Alignment explanation
Indices: 39437764--39437810 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39437754 ATTATTATTG
*
39437764 AAATATTCTCATCCGTTTTATCAC
1 AAATATTATCATCCGTTTTATCAC
*
39437788 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCATCCGTTTTATCA
39437811 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
AAATATTATCATCCGTTTTATCAC
Found at i:39438072 original size:15 final size:15
Alignment explanation
Indices: 39438048--39438103 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
39438038 ATTTGGATTA
*
39438048 ATTTATTTAAATATT
1 ATTTAATTAAATATT
39438063 ATTTAATTAAAATAAGTT
1 ATTTAATT-AAAT-A-TT
39438081 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
39438093 ATTTAATTAAA
1 ATTTAATTAAA
39438104 ATAAATTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
12 2 0.06
13 4 0.12
14 5 0.15
15 12 0.35
16 5 0.15
17 4 0.12
18 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:39438075 original size:16 final size:16
Alignment explanation
Indices: 39438056--39438106 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
39438046 TAATTTATTT
39438056 AAATATTATTTAATTA
1 AAATATTATTTAATTA
39438072 AAATA--AGTTT--TTA
1 AAATATTA-TTTAATTA
39438085 TAAATATTATTTAATTA
1 -AAATATTATTTAATTA
39438102 AAATA
1 AAATA
39438107 AATTTCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
13 3 0.10
14 6 0.21
15 6 0.21
16 11 0.38
17 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AAATATTATTTAATTA
Found at i:39438126 original size:30 final size:30
Alignment explanation
Indices: 39438047--39438111 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
39438037 AATTTGGATT
39438047 AATTTATT-TAAATATTATTTAATTAAAATA
1 AATTT-TTATAAATATTATTTAATTAAAATA
*
39438077 AGTTTTTATAAATATTATTTAATTAAAATA
1 AATTTTTATAAATATTATTTAATTAAAATA
39438107 AATTT
1 AATTT
39438112 CTTTCCATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 30 0.94
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTTTTATAAATATTATTTAATTAAAATA
Found at i:39438298 original size:9 final size:9
Alignment explanation
Indices: 39438284--39438581 Score: 162
Period size: 9 Copynumber: 34.0 Consensus size: 9
39438274 TACATGATAT
39438284 CATAACTTA
1 CATAACTTA
39438293 CATAACTTA
1 CATAACTTA
*
39438302 CAAAACTTA
1 CATAACTTA
39438311 CATAA--TA
1 CATAACTTA
* *
39438318 TATAAATATA
1 CATAACT-TA
* *
39438328 TATGA--TA
1 CATAACTTA
*
39438335 TCATAAATTA
1 -CATAACTTA
39438345 CATAACTTA
1 CATAACTTA
*
39438354 CAAAACTTA
1 CATAACTTA
39438363 CATAA--TA
1 CATAACTTA
*
39438370 CATAAATATA
1 CATAACT-TA
* *
39438380 TATGA--TA
1 CATAACTTA
*
39438387 TCATAAATTA
1 -CATAACTTA
39438397 CATAACTTA
1 CATAACTTA
*
39438406 CAAAACTTA
1 CATAACTTA
*
39438415 CA-AA-ATA
1 CATAACTTA
*
39438422 CATAAATATA
1 CATAACT-TA
* *
39438432 TATGA--TA
1 CATAACTTA
39438439 TCATAACTTA
1 -CATAACTTA
39438449 CATAACTTA
1 CATAACTTA
39438458 CATAA--TA
1 CATAACTTA
*
39438465 CATAA-ATA
1 CATAACTTA
* *
39438473 TATATCATATA
1 CATAAC-T-TA
39438484 -ATAACTTA
1 CATAACTTA
39438492 CATAACTTA
1 CATAACTTA
39438501 CATAACTTA
1 CATAACTTA
39438510 CATAACTTA
1 CATAACTTA
*
39438519 CATACCTTA
1 CATAACTTA
*
39438528 CATAAATT-
1 CATAACTTA
* * *
39438536 TATATCATA
1 CATAACTTA
39438545 TCATAACTTA
1 -CATAACTTA
39438555 CATAACTTA
1 CATAACTTA
*
39438564 CAAAACTTA
1 CATAACTTA
*
39438573 CTTAACTTA
1 CATAACTTA
39438582 TGTAATACAT
Statistics
Matches: 226, Mismatches: 38, Indels: 50
0.72 0.12 0.16
Matches are distributed among these distances:
7 30 0.13
8 24 0.11
9 138 0.61
10 32 0.14
11 2 0.01
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:39438338 original size:52 final size:52
Alignment explanation
Indices: 39438277--39438573 Score: 404
Period size: 52 Copynumber: 5.7 Consensus size: 52
39438267 AATTAAATAC
*
39438277 ATGATATCATAACTTACATAACTTACAAAACTTACATAATATATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
*
39438329 ATGATATCATAAATTACATAACTTACAAAACTTACATAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
* *
39438381 ATGATATCATAAATTACATAACTTACAAAACTTACAAAATACATAAATATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
* * *
39438433 ATGATATCATAACTTACATAACTTACATAA--TACATAA-ATATATATCATAT
1 ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAAT-ATAT
* * * *
39438483 AATAACT-TACATAACTTACATAACTTACATAACTTACATACCTTACATAAATTTAT
1 -ATGA-TAT-CATAACTTACATAACTTACAAAACTTACATA--ATACATAAATATAT
*
39438539 ATCATATCATAACTTACATAACTTACAAAACTTAC
1 ATGATATCATAACTTACATAACTTACAAAACTTAC
39438574 TTAACTTATG
Statistics
Matches: 220, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
49 6 0.03
50 10 0.05
51 4 0.02
52 153 0.70
54 34 0.15
55 4 0.02
56 3 0.01
57 6 0.03
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (52 bp):
ATGATATCATAACTTACATAACTTACAAAACTTACATAATACATAAATATAT
Found at i:39438404 original size:95 final size:94
Alignment explanation
Indices: 39438293--39438511 Score: 282
Period size: 95 Copynumber: 2.3 Consensus size: 94
39438283 TCATAACTTA
* * * *
39438293 CATAACTTACAAAACTTACATAA-TATATAAATATATATGATATCATAAAT-TA-CATAACTTAC
1 CATAACTTACATAACTTACATAACT-TACAAA-ATACAT-AAAT-ATAAATATATCATAACTTAC
*
39438355 AAAACTTACATAATACATAAATATATATGATAT
62 AAAACTTACATAATACATAAATATATATCATAT
* * * *
39438388 CATAAATTACATAACTTACAAAACTTACAAAATACATAAATATATATGATATCATAACTTACATA
1 CATAACTTACATAACTTACATAACTTACAAAATACATAAATATAAAT-ATATCATAACTTACAAA
39438453 ACTTACATAATACATAAATATATATCATAT
65 ACTTACATAATACATAAATATATATCATAT
*
39438483 AATAACTTACATAACTTACATAACTTACA
1 CATAACTTACATAACTTACATAACTTACA
39438512 TAACTTACAT
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
92 5 0.05
93 3 0.03
94 7 0.06
95 92 0.85
96 1 0.01
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (94 bp):
CATAACTTACATAACTTACATAACTTACAAAATACATAAATATAAATATATCATAACTTACAAAA
CTTACATAATACATAAATATATATCATAT
Found at i:39438551 original size:63 final size:61
Alignment explanation
Indices: 39438440--39438598 Score: 237
Period size: 63 Copynumber: 2.6 Consensus size: 61
39438430 TATATGATAT
39438440 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
1 CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
* * *
39438501 CATAACTTACATAACTTACATACCTTACATAAATTTATATCATATCATAACTTACATAACTTA
1 CATAACTTACATAACTTACATA--ATACATAAATATATATCATATAATAACTTACATAACTTA
* * **
39438564 CAAAACTTACTTAACTTATGTAATACATAAATATA
1 CATAACTTACATAACTTACATAATACATAAATATA
39438599 CACTTGAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
61 33 0.38
63 54 0.62
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.35
Consensus pattern (61 bp):
CATAACTTACATAACTTACATAATACATAAATATATATCATATAATAACTTACATAACTTA
Found at i:39440383 original size:12 final size:12
Alignment explanation
Indices: 39440368--39440393 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39440358 AAAATCAAGG
39440368 GATGAATCTGAT
1 GATGAATCTGAT
39440380 GATGAATCTGAT
1 GATGAATCTGAT
39440392 GA
1 GA
39440394 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:39444456 original size:43 final size:43
Alignment explanation
Indices: 39444389--39444474 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
39444379 CATTTTTTGA
* * *
39444389 GAAAAGCGCCGCTAAAAGTTATGTTCTTTAGCGGCGTTTGTAT
1 GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
** *
39444432 GAAAAGCGCCACTAACGGTCATGTTCTTAAGTGGCGTTTGTAT
1 GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
39444475 TAACCTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GAAAAGCGCCACTAAAAGTCATGTTCTTAAGCGGCGTTTGTAT
Found at i:39444578 original size:108 final size:109
Alignment explanation
Indices: 39444380--39444578 Score: 256
Period size: 108 Copynumber: 1.8 Consensus size: 109
39444370 AATTAGTCGC
*
39444380 ATTTTTTGAGAAAAGCGCCGCTAAAAGTTATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
* * ***
39444445 AACGGTCATGTTCTTAAGTGGCGTTTGTATTAACCTTTAGTGGT
66 AAAGGTCATGCTCTTAAGCAACGTTTGTATTAACCTTTAGTGGT
* ** * ** * *
39444489 ATTTTTT-TGAAAAGCGTTGCTAAAGGTGATGTTCTTTAGCGTTGTTTGTATTAAAAGCGCCGCT
1 ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
*
39444553 AAAGGTCATGCTCTTTAGCAACGTTT
66 AAAGGTCATGCTCTTAAGCAACGTTT
39444579 TTTTACATAA
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
108 68 0.91
109 7 0.09
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (109 bp):
ATTTTTTGAGAAAAGCGCCGCTAAAAGTGATGTTCTTTAGCGGCGTTTGTATGAAAAGCGCCACT
AAAGGTCATGCTCTTAAGCAACGTTTGTATTAACCTTTAGTGGT
Found at i:39445243 original size:41 final size:41
Alignment explanation
Indices: 39445214--39445516 Score: 419
Period size: 41 Copynumber: 7.4 Consensus size: 41
39445204 CATTTTACCG
* * *
39445214 AAAACGTCGCAAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
* *
39445255 AAAACGCCGCTAAAATCTAGAGCATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
*
39445296 AAAACGCCGCTAAAAGCCAGAGCATTAACGGCGCTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
*
39445337 AAAACGCCGCTAAAAGCCAGAGCATTAACGGCGCTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
39445378 -AAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTTGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGC-TTTTTGT
* * * * *
39445419 AAAACACCGCTAAAAGGCAGAGCATTAGTGGCACTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
* * * * * *
39445460 AAAAAGCCACTAAAAACCGGATCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
*
39445501 AAAACGCCACTAAAAG
1 AAAACGCCGCTAAAAG
39445517 TCATATAACC
Statistics
Matches: 235, Mismatches: 25, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 32 0.14
41 174 0.74
42 29 0.12
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTTGT
Found at i:39445258 original size:81 final size:80
Alignment explanation
Indices: 39445167--39445515 Score: 376
Period size: 82 Copynumber: 4.3 Consensus size: 80
39445157 ACCGGCGTTT
* * * * * * * * *
39445167 TTTTGTTAAAAAGCCGTTAAAAACAGAGAAATAGCGGC-ATTTTACCGAAAACGTCGCAAAAAGC
1 TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTT--TGAAAACGCCGCTAAAAGC
39445231 CAGAGCATTAGCGGCGC
64 CAGAGCATTAGCGGCGC
*
39445248 TTTTGGTAAAACGCCGCTAAAATCTAGAGCATTAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGC
1 TTTTGGTAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGCTTTTTG-AAAACGCCGCTAAAAGC
*
39445313 CAGAGCATTAACGGCGC
64 CAGAGCATTAGCGGCGC
* * * *
39445330 TTTTTGTAAAACGCCGCTAAAAGCCAGAGCATTAACGGCGCTTTTTGTAAACGCCGCTAAAAGCC
1 TTTTGGTAAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTTGAAAACGCCGCTAAAAGCC
39445395 AGAGCATTAGCGGCGC
65 AGAGCATTAGCGGCGC
* * * * * * * * *
39445411 TTTTTTGTAAAACACCGCTAAAAGGCAGAGCATTAGTGGCACTTTTGGTAAAAAGCCACTAAAAA
1 -TTTTGGTAAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTTG-AAAACGCCGCTAAAAG
* *
39445476 CCGGATCATTAGCGGCGC
63 CCAGAGCATTAGCGGCGC
*
39445494 TTTTGGTAAAACGCCACTAAAA
1 TTTTGGTAAAACGCCGCTAAAA
39445516 GTCATATAAC
Statistics
Matches: 231, Mismatches: 31, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
81 53 0.23
82 145 0.63
83 33 0.14
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (80 bp):
TTTTGGTAAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTTTGAAAACGCCGCTAAAAGCCA
GAGCATTAGCGGCGC
Found at i:39445755 original size:23 final size:24
Alignment explanation
Indices: 39445705--39445755 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
39445695 TCTATCATTT
* **
39445705 TCCCCCTTTTTCCCCATTTCTATT
1 TCCCCCTTTTTCCCCATTCCTAAA
*
39445729 TCCCCCTTTTTCCTCA-TCCTAAA
1 TCCCCCTTTTTCCCCATTCCTAAA
39445752 TCCC
1 TCCC
39445756 TAAAGTATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (24 bp):
TCCCCCTTTTTCCCCATTCCTAAA
Found at i:39446086 original size:21 final size:21
Alignment explanation
Indices: 39446062--39446122 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
39446052 GTTTAAGTGT
39446062 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
* * *
39446083 GGTTTATGTGTTAGGGGTTAG
1 GGTTTAAGGGTTAGGGGTTAA
* *
39446104 GGGTTAAGGGTTAAGGGTT
1 GGTTTAAGGGTTAGGGGTT
39446123 CATGATTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:39446114 original size:14 final size:14
Alignment explanation
Indices: 39446065--39446122 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
39446055 TAAGTGTGGT
39446065 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* * *
39446078 TTTAAGGTTTATGTG
1 -TTAAGGGTTAGGGG
*
39446093 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
39446107 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
39446121 TT
1 TT
39446123 CATGATTTAG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 32 0.94
15 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:39446303 original size:14 final size:14
Alignment explanation
Indices: 39446286--39446325 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
39446276 ATAGTTTAGA
39446286 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* **
39446300 GTTTAAGACTTATG
1 GTTTAGGGTTTATG
39446314 GTTTAGGGTTTA
1 GTTTAGGGTTTA
39446326 GTTTTTAGTG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:39446303 original size:21 final size:22
Alignment explanation
Indices: 39446273--39446326 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
39446263 GTTAATTATA
* *
39446273 TTTATAGTTTAGAG-TTTAGGG
1 TTTATGGTTTAGAGACTTAGGG
*
39446294 TTTATGGTTTA-AGACTTATGG
1 TTTATGGTTTAGAGACTTAGGG
*
39446315 TTTAGGGTTTAG
1 TTTATGGTTTAG
39446327 TTTTTAGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.22, C:0.02, G:0.28, T:0.48
Consensus pattern (22 bp):
TTTATGGTTTAGAGACTTAGGG
Done.