Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 20 of 297
Found at i:6724071 original size:65 final size:66
Alignment explanation
Indices: 6724002--6724163 Score: 175
Period size: 66 Copynumber: 2.5 Consensus size: 66
6723992 GGAAAGGTAT
* * *
6724002 ACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTAT-ATGTGTA-CACTTGAAAAGGCTATGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACT-TCATGTGTACCACTTGAAAAGGCAATGT
6724065 GC
65 GC
* ** * * * *
6724067 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCATTTGAAAAGGGAATGTG
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
6724132 C
66 C
* * * *
6724133 ACCTCGGGTGTACAACTAGAAAAGGAAAGGT
1 ACTTTGTGTGTACAACTTGAAAAGGAAAGGT
6724164 CCATCAAAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
64 1 0.01
65 36 0.47
66 40 0.52
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (66 bp):
ACTTTGTGTGTACAACTTGAAAAGGAAAGGTACACTTCATGTGTACCACTTGAAAAGGCAATGTG
C
Found at i:6724090 original size:33 final size:33
Alignment explanation
Indices: 6724041--6724157 Score: 137
Period size: 33 Copynumber: 3.6 Consensus size: 33
6724031 GTACACTATA
* *
6724041 TGTGTAC-ACTTGAAAAGGCTATGTGCACTTTG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
6724073 TGTGTACAAATTGAAAAGGGTATGTACACTTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* * * *
6724106 TGTGTACCATTTGAAAAGGGAATGTGCACCTCG
1 TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
* *
6724139 GGTGTACAACTAGAAAAGG
1 TGTGTACAACTTGAAAAGG
6724158 AAAGGTCCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 64 0.90
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (33 bp):
TGTGTACAACTTGAAAAGGGTATGTGCACTTCG
Found at i:6733515 original size:36 final size:36
Alignment explanation
Indices: 6733468--6733539 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
6733458 TACATAATAA
*
6733468 GTTTTCATATTATCATCTTTTAAATTTTTACCCTAT
1 GTTTTCATATTATCATCTTGTAAATTTTTACCCTAT
6733504 GTTTTCATATTATCATCTTGTAAATTTTTACCCTAT
1 GTTTTCATATTATCATCTTGTAAATTTTTACCCTAT
6733540 CTTGCACCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.04, T:0.54
Consensus pattern (36 bp):
GTTTTCATATTATCATCTTGTAAATTTTTACCCTAT
Found at i:6738145 original size:26 final size:26
Alignment explanation
Indices: 6738107--6738166 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
6738097 TGCAACTAAT
* *
6738107 GCCTGCTACATATACAAC-GGCACAAA
1 GCCTGCTAAATATAC-ACTGACACAAA
*
6738133 GCCTTCTAAATATACACTGACACAAA
1 GCCTGCTAAATATACACTGACACAAA
6738159 GCCTGCTA
1 GCCTGCTA
6738167 CACATTAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (26 bp):
GCCTGCTAAATATACACTGACACAAA
Found at i:6745064 original size:18 final size:17
Alignment explanation
Indices: 6745041--6745080 Score: 71
Period size: 18 Copynumber: 2.3 Consensus size: 17
6745031 TTATGTAAAG
6745041 TATATAATATGTTATTA
1 TATATAATATGTTATTA
6745058 TTATATAATATGTTATTA
1 -TATATAATATGTTATTA
6745076 TATAT
1 TATAT
6745081 CATAAAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TATATAATATGTTATTA
Found at i:6746045 original size:41 final size:41
Alignment explanation
Indices: 6745988--6746100 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 41
6745978 GCGATATTTG
*
6745988 GGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCA
1 GGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATAAAATCA
* * **
6746029 GGCTTT-ATGCCTAGCAAG-CTTATTGCCGGTTTATAAAATCA
1 GGCTTTGA-GCCTAGCAAGCCTT-GTGCTGGTGAATAAAATCA
* * *
6746070 GACTTTGAGTCTAGCAGGCCTTGTGCTGGTG
1 GGCTTTGAGCCTAGCAAGCCTTGTGCTGGTG
6746101 TGTGATACAG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
40 4 0.07
41 49 0.86
42 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (41 bp):
GGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATAAAATCA
Found at i:6762242 original size:49 final size:49
Alignment explanation
Indices: 6762189--6762362 Score: 249
Period size: 49 Copynumber: 3.5 Consensus size: 49
6762179 CTAGTACGCA
* *
6762189 TAGTAGCCTGCACATAGTACTACATATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
6762238 TAGTAGACTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
*
6762288 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
6762337 TAGTAGCATGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
6762363 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
49 65 0.60
50 43 0.40
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:6762360 original size:99 final size:99
Alignment explanation
Indices: 6762189--6762370 Score: 312
Period size: 99 Copynumber: 1.8 Consensus size: 99
6762179 CTAGTACGCA
* *
6762189 TAGTAGCCTGCACATAGTACTACATATGCGACCAATTATCCGGTACACGTAGTAGACTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGACTGCACTTA
*
6762254 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACACGTGACCTAACCATCTGATACACG
*
6762288 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAG-CATGCACTT
1 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGAC-TGCACTT
6762352 AGTACTACACACGTGACCT
65 AGTACTACACACGTGACCT
6762371 CACAATAGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGACTGCACTTA
GTACTACACACGTGACCTAACCATCTGATACACG
Found at i:6764977 original size:28 final size:28
Alignment explanation
Indices: 6764945--6764998 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
6764935 TAATTACCAT
*
6764945 GCTTGAACATTTCATATTTCGAACATAC
1 GCTTGAACATTTCATATTTCAAACATAC
6764973 GCTTGAACATTTCATATTTCAAACAT
1 GCTTGAACATTTCATATTTCAAACAT
6764999 TATTCCTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (28 bp):
GCTTGAACATTTCATATTTCAAACATAC
Found at i:6768927 original size:101 final size:100
Alignment explanation
Indices: 6768748--6769005 Score: 322
Period size: 101 Copynumber: 2.6 Consensus size: 100
6768738 AATTGATGGA
* * *
6768748 TAAGACCATGGTTGGACCATGGACATGTTTAAATGTAAGACCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGG-CATGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTAA
* *
6768813 TGAAAAGATCATAACTAGGTTATGGCACTATGAACG
65 TGAAAAGACCATAACTAGGTTATGGCACTACGAACG
* **
6768849 TAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGGTGGACTATGGCATTCTGG
1 TAAGACCATGGTTGGACCATGGCA-TGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTAA
* *
6768914 TGATAAGACCATAACTAGGTTATGGCACTACGAATG
65 TGAAAAGACCATAACTAGGTTATGGCACTACGAACG
** * * * **
6768950 TAAGACCATGGCGGGGCCATGGCAATG--CATATGTAAGACTATAATTGGACTATGGC
1 TAAGACCATGGTTGGACCATGGC-ATGTTTATATGTAAGACCATAGCTGGACTATGGC
6769006 CCAAAGAAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
99 25 0.18
100 2 0.01
101 110 0.80
102 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (100 bp):
TAAGACCATGGTTGGACCATGGCATGTTTATATGTAAGACCATAGCTGGACTATGGCATTCTAAT
GAAAAGACCATAACTAGGTTATGGCACTACGAACG
Found at i:6771717 original size:16 final size:16
Alignment explanation
Indices: 6771698--6771728 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6771688 CTTCTTCACT
6771698 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
6771714 TACTTACTTACTTAA
1 TACTCACTTACTTAA
6771729 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:6771734 original size:20 final size:20
Alignment explanation
Indices: 6771695--6771734 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6771685 AAACTTCTTC
* *
6771695 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
6771715 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
6771735 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:6772055 original size:53 final size:54
Alignment explanation
Indices: 6771947--6772180 Score: 205
Period size: 55 Copynumber: 4.4 Consensus size: 54
6771937 CATGACTTTT
* * * * * *
6771947 CATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGCCATGTCTCGA
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGTCATGCCTTGG
* * *
6771996 CATGGTCTTACATTGTATCCCTGCCTTATG-AACTCACCAATGTCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGTCATGCCTTGG
* * * * *
6772049 CATGGTCTTACATGGGA-CCTTTGCCTTATAGAAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTTACCAATGTCATGCCTTGG
* ** *
6772104 CATGGTCTTACATGATATCCTTTACTTA-GAAACCTTACCAATTTCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTTACCAATGT-CATGCCTTGG
*
6772159 CATGGACTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
6772181 AAACCTTAAT
Statistics
Matches: 147, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
49 18 0.12
50 1 0.01
52 2 0.01
53 46 0.31
54 11 0.07
55 67 0.46
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATGAAACTTACCAATGTCATGCCTTGG
Found at i:6772123 original size:108 final size:110
Alignment explanation
Indices: 6771971--6772173 Score: 279
Period size: 108 Copynumber: 1.9 Consensus size: 110
6771961 GTATCCTTTT
* *
6771971 GAAACTTACCATTGCCATGTCTCGACATGGTCTTACATTGTATCCCTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATTGTATCCCTGACTTA-GAAACCTCACC
*
6772034 AATGT-CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATGTCCATGCCTTGGCATGGACTTACATGGGACCTTTGCCTTATA
* * * * *
6772079 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACA-TGATATCCTTTACTTAGAAACCTTACC
1 GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATTG-TATCCCTGACTTAGAAACCTCACC
*
6772143 AATTTCCATGCCTTGGCATGGACTTACATGG
65 AATGTCCATGCCTTGGCATGGACTTACATGG
6772174 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 9 0.11
110 24 0.29
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATGTCTCGACATGGTCTTACATTGTATCCCTGACTTAGAAACCTCACCA
ATGTCCATGCCTTGGCATGGACTTACATGGGACCTTTGCCTTATA
Found at i:6779290 original size:5 final size:5
Alignment explanation
Indices: 6779280--6779318 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
6779270 AATCAAAGCT
*
6779280 TTTTC TTTTC TTTTC TTTTC TTTTC TTTGCC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT-TC TTTTC TTT
6779319 GGGTTTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:6788147 original size:43 final size:42
Alignment explanation
Indices: 6788059--6788163 Score: 129
Period size: 43 Copynumber: 2.5 Consensus size: 42
6788049 ACCATACCAG
* * **
6788059 TGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCAA
1 TGCCATATCCCAGATATGGTCTTACACGAAAGATCATATCAA
* * * *
6788101 TGCCAATAGCCCAGCTATGGTCTTACACGAAAGATCGTATCGA
1 TGCC-ATATCCCAGATATGGTCTTACACGAAAGATCATATCAA
6788144 TGCCATATCCCAGATATGGT
1 TGCCATATCCCAGATATGGT
6788164 GTAACACCCC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 18 0.35
43 34 0.65
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (42 bp):
TGCCATATCCCAGATATGGTCTTACACGAAAGATCATATCAA
Found at i:6789467 original size:42 final size:42
Alignment explanation
Indices: 6789417--6789523 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 42
6789407 GATACCTCTA
* *
6789417 TCCCAGACAGGGTCTTACACGAAAT-T-AGATACAATGCC-GATG
1 TCCCAGACACGGTCTTACACGAAATCTCA-AT-CAAGGCCTG-TG
* * *
6789459 TCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACG-AAATCTCAATCAAGGCCTGTG
6789502 TCCCAGACACGGTCTTACACGA
1 TCCCAGACACGGTCTTACACGA
6789524 TGTCTCAGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
42 20 0.36
43 30 0.55
44 4 0.07
45 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGAAATCTCAATCAAGGCCTGTG
Found at i:6790415 original size:658 final size:658
Alignment explanation
Indices: 6789159--6790479 Score: 2615
Period size: 658 Copynumber: 2.0 Consensus size: 658
6789149 ACTATATAGA
6789159 TTCATAACTTAACCATGCTCCTTTGTTTACATATATGTCATGCTTCTTTTCCATACATATTTCAC
1 TTCATAACTTAACCATGCTCCTTTGTTTACATATATGTCATGCTTCTTTTCCATACATATTTCAC
6789224 AGAGAGAGTTTTTCATATTCAGGAATTTAGTACGATACAAACGTACCTGCATAGGTTATACATTT
66 AGAGAGAGTTTTTCATATTCAGGAATTTAGTACGATACAAACGTACCTGCATAGGTTATACATTT
6789289 AATATACTCAATCTCAGATTTCATACGCTATCATCAGATGGGTCAGAAACGATACAGACGCTTAT
131 AATATACTCAATCTCAGATTTCATACGCTATCATCAGATGGGTCAGAAACGATACAGACGCTTAT
6789354 AAACAAATACAATGCCGACGTCCGTGACGTGGTCTTACATGTAATTCAATATCGATACCTCTATC
196 AAACAAATACAATGCCGACGTCCGTGACGTGGTCTTACATGTAATTCAATATCGATACCTCTATC
6789419 CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTAAA
261 CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTAAA
*
6789484 TCTCAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGATGTCTCAGACAGATGTCAACTTTTC
326 TCTCAATCGAGGCCTGTGTCCCAGACACGATCTTACACGATGTCTCAGACAGATGTCAACTTTTC
6789549 TTAGAAACATACAGAGCTTTTCAGATACTAACATATTATCATACTTTACTCCAAAGATATTCATC
391 TTAGAAACATACAGAGCTTTTCAGATACTAACATATTATCATACTTTACTCCAAAGATATTCATC
6789614 AGGCACTCAAGGCCATCCAATACAGATTACAGTTTATATGTACAGAATTTATTTCAATTAACATG
456 AGGCACTCAAGGCCATCCAATACAGATTACAGTTTATATGTACAGAATTTATTTCAATTAACATG
6789679 TAATTGTAATTTGACTTACCTCGGACGAATTTTCGAATACAACGAGTCGACTATTCAACTATTTT
521 TAATTGTAATTTGACTTACCTCGGACGAATTTTCGAATACAACGAGTCGACTATTCAACTATTTT
6789744 GGACTTCCCCCGATATAAGTCCAATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCAT
586 GGACTTCCCCCGATATAAGTCCAATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCAT
6789809 TCAATCAT
651 TCAATCAT
6789817 TTCATAACTTAACCATGCTCCTTTGTTTACATATATGTCATGCTTCTTTTCCATACATATTTCAC
1 TTCATAACTTAACCATGCTCCTTTGTTTACATATATGTCATGCTTCTTTTCCATACATATTTCAC
6789882 AGAGAGAGTTTTTCATATTCAGGAATTTAGTACGATACAAACGTACCTGCATAGGTTATACATTT
66 AGAGAGAGTTTTTCATATTCAGGAATTTAGTACGATACAAACGTACCTGCATAGGTTATACATTT
6789947 AATATACTCAATCTCAGATTTCATACGCTATCATCAGATGGGTCAGAAACGATACAGACGCTTAT
131 AATATACTCAATCTCAGATTTCATACGCTATCATCAGATGGGTCAGAAACGATACAGACGCTTAT
6790012 AAACAAATACAATGCCGACGTCCGTGACGTGGTCTTACATGTAATTCAATATCGATACCTCTATC
196 AAACAAATACAATGCCGACGTCCGTGACGTGGTCTTACATGTAATTCAATATCGATACCTCTATC
6790077 CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTAAA
261 CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTAAA
6790142 TCTCAATCGAGGCCTGTGTCCCAGACACGATCTTACACGATGTCTCAGACAGATGTCAACTTTTC
326 TCTCAATCGAGGCCTGTGTCCCAGACACGATCTTACACGATGTCTCAGACAGATGTCAACTTTTC
* *
6790207 TTAGAAACATACAGAGCTTTTTAGATATTAACATATTATCATACTTTACTCCAAAGATATTCATC
391 TTAGAAACATACAGAGCTTTTCAGATACTAACATATTATCATACTTTACTCCAAAGATATTCATC
6790272 AGGCACTCAAGGCCATCCAATACAGATTACAGTTTATATGTACAGAATTTATTTCAATTAACATG
456 AGGCACTCAAGGCCATCCAATACAGATTACAGTTTATATGTACAGAATTTATTTCAATTAACATG
6790337 TAATTGTAATTTGACTTACCTCGGACGAATTTTCGAATACAACGAGTCGACTATTCAACTATTTT
521 TAATTGTAATTTGACTTACCTCGGACGAATTTTCGAATACAACGAGTCGACTATTCAACTATTTT
6790402 GGACTTCCCCCGATATAAGTCCAATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCAT
586 GGACTTCCCCCGATATAAGTCCAATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCAT
6790467 TCAATCAT
651 TCAATCAT
6790475 TTCAT
1 TTCAT
6790480 TCAAAATAAT
Statistics
Matches: 660, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
658 660 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (658 bp):
TTCATAACTTAACCATGCTCCTTTGTTTACATATATGTCATGCTTCTTTTCCATACATATTTCAC
AGAGAGAGTTTTTCATATTCAGGAATTTAGTACGATACAAACGTACCTGCATAGGTTATACATTT
AATATACTCAATCTCAGATTTCATACGCTATCATCAGATGGGTCAGAAACGATACAGACGCTTAT
AAACAAATACAATGCCGACGTCCGTGACGTGGTCTTACATGTAATTCAATATCGATACCTCTATC
CCAGACAGGGTCTTACACGAAATTAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTAAA
TCTCAATCGAGGCCTGTGTCCCAGACACGATCTTACACGATGTCTCAGACAGATGTCAACTTTTC
TTAGAAACATACAGAGCTTTTCAGATACTAACATATTATCATACTTTACTCCAAAGATATTCATC
AGGCACTCAAGGCCATCCAATACAGATTACAGTTTATATGTACAGAATTTATTTCAATTAACATG
TAATTGTAATTTGACTTACCTCGGACGAATTTTCGAATACAACGAGTCGACTATTCAACTATTTT
GGACTTCCCCCGATATAAGTCCAATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCAT
TCAATCAT
Found at i:6791725 original size:655 final size:655
Alignment explanation
Indices: 6790476--6791785 Score: 2611
Period size: 655 Copynumber: 2.0 Consensus size: 655
6790466 TTCAATCATT
6790476 TCATTCAAAATAATCCATGAACACATATTTAGGGCACTTTGACAATTTAGTCCATTTTTACAAAA
1 TCATTCAAAATAATCCATGAACACATATTTAGGGCACTTTGACAATTTAGTCCATTTTTACAAAA
6790541 TCACAAATATGCAAAATTCACCAAGACTATAGCTTGGCCGAATATACATGGCTTCCATACCAGCC
66 TCACAAATATGCAAAATTCACCAAGACTATAGCTTGGCCGAATATACATGGCTTCCATACCAGCC
6790606 CAAATAACATATTTAATTTGCAATTTAGTCCTTCAAAACCTCATTTTCACAAATTAGCCCAATTA
131 CAAATAACATATTTAATTTGCAATTTAGTCCTTCAAAACCTCATTTTCACAAATTAGCCCAATTA
6790671 ACTCTATTTCATCAAAATTCAAAGACAAAACTTATACATCATCTACCAAGCCTTCATAATTTATC
196 ACTCTATTTCATCAAAATTCAAAGACAAAACTTATACATCATCTACCAAGCCTTCATAATTTATC
6790736 CAAAAACATTTCAAAACTCATGATATCAACAATGGCATCTCATGAAATCTTTAATAGAAACAGAA
261 CAAAAACATTTCAAAACTCATGATATCAACAATGGCATCTCATGAAATCTTTAATAGAAACAGAA
6790801 ATTCAGACATGGGTTTTGAAGAACACGAAGCAACGATCACAAAAACATAGAAATTATCAAAAACT
326 ATTCAGACATGGGTTTTGAAGAACACGAAGCAACGATCACAAAAACATAGAAATTATCAAAAACT
6790866 GATCAAAAGAACATACCTAATTGATGCTTGCAAGTGTCAAAACCCTAAAGCTCTTTTTCTTTTAT
391 GATCAAAAGAACATACCTAATTGATGCTTGCAAGTGTCAAAACCCTAAAGCTCTTTTTCTTTTAT
6790931 TTTTCCTTTGATTTTCGGCAAACATCCCCCATTATGAACACATTTCATGTTTTATTTTTATTTAA
456 TTTTCCTTTGATTTTCGGCAAACATCCCCCATTATGAACACATTTCATGTTTTATTTTTATTTAA
6790996 TTATACATTATAAACCATTTTCCAATTTTGCCCTTTAATTAACAAATAAGAATTCCATCCACTAG
521 TTATACATTATAAACCATTTTCCAATTTTGCCCTTTAATTAACAAATAAGAATTCCATCCACTAG
6791061 TGTCTATACTTGTCCATGCATTAGTAAAATGGTCCAATTGACATGCAAGGACCTTTATTTTAAAA
586 TGTCTATACTTGTCCATGCATTAGTAAAATGGTCCAATTGACATGCAAGGACCTTTATTTTAAAA
6791126 GCCAA
651 GCCAA
6791131 TCATTCAAAATAATCCATGAACACATATTTAGGGCACTTTGACAATTTAGTCCATTTTTACAAAA
1 TCATTCAAAATAATCCATGAACACATATTTAGGGCACTTTGACAATTTAGTCCATTTTTACAAAA
6791196 TCACAAATATGCAAAATTCACCAAGACTATAGCTTGGCCGAATATACATGGCTTCCATACCAGCC
66 TCACAAATATGCAAAATTCACCAAGACTATAGCTTGGCCGAATATACATGGCTTCCATACCAGCC
6791261 CAAATAACATATTTAATTTGCAATTTAGTCCTTCAAAACCTCATTTTCACAAATTAGCCCAATTA
131 CAAATAACATATTTAATTTGCAATTTAGTCCTTCAAAACCTCATTTTCACAAATTAGCCCAATTA
6791326 ACTCTATTTCATCAAAATTCAAAGACAAAACTTATACATCATCTACCAAGCCTTCATAATTTATC
196 ACTCTATTTCATCAAAATTCAAAGACAAAACTTATACATCATCTACCAAGCCTTCATAATTTATC
*
6791391 CAAAAACATTTCAAAACTCGTGATATCAACAATGGCATCTCATGAAATCTTTAATAGAAACAGAA
261 CAAAAACATTTCAAAACTCATGATATCAACAATGGCATCTCATGAAATCTTTAATAGAAACAGAA
6791456 ATTCAGACATGGGTTTTGAAGAACACGAAGCAACGATCACAAAAACATAGAAATTATCAAAAACT
326 ATTCAGACATGGGTTTTGAAGAACACGAAGCAACGATCACAAAAACATAGAAATTATCAAAAACT
6791521 GATCAAAAGAACATACCTAATTGATGCTTGCAAGTGTCAAAACCCTAAAGCTCTTTTTCTTTTAT
391 GATCAAAAGAACATACCTAATTGATGCTTGCAAGTGTCAAAACCCTAAAGCTCTTTTTCTTTTAT
6791586 TTTTCCTTTGATTTTCGGCAAACATCCCCCATTATGAACACATTTCATGTTTTATTTTTATTTAA
456 TTTTCCTTTGATTTTCGGCAAACATCCCCCATTATGAACACATTTCATGTTTTATTTTTATTTAA
6791651 TTATACATTATAAACCATTTTCCAATTTTGCCCTTTAATTAACAAATAAGAATTCCATCCACTAG
521 TTATACATTATAAACCATTTTCCAATTTTGCCCTTTAATTAACAAATAAGAATTCCATCCACTAG
6791716 TGTCTATACTTGTCCATGCATTAGTAAAATGGTCCAATTGACATGCAAGGACCTTTATTTTAAAA
586 TGTCTATACTTGTCCATGCATTAGTAAAATGGTCCAATTGACATGCAAGGACCTTTATTTTAAAA
6791781 GCCAA
651 GCCAA
6791786 ACCAAATAAG
Statistics
Matches: 654, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
655 654 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (655 bp):
TCATTCAAAATAATCCATGAACACATATTTAGGGCACTTTGACAATTTAGTCCATTTTTACAAAA
TCACAAATATGCAAAATTCACCAAGACTATAGCTTGGCCGAATATACATGGCTTCCATACCAGCC
CAAATAACATATTTAATTTGCAATTTAGTCCTTCAAAACCTCATTTTCACAAATTAGCCCAATTA
ACTCTATTTCATCAAAATTCAAAGACAAAACTTATACATCATCTACCAAGCCTTCATAATTTATC
CAAAAACATTTCAAAACTCATGATATCAACAATGGCATCTCATGAAATCTTTAATAGAAACAGAA
ATTCAGACATGGGTTTTGAAGAACACGAAGCAACGATCACAAAAACATAGAAATTATCAAAAACT
GATCAAAAGAACATACCTAATTGATGCTTGCAAGTGTCAAAACCCTAAAGCTCTTTTTCTTTTAT
TTTTCCTTTGATTTTCGGCAAACATCCCCCATTATGAACACATTTCATGTTTTATTTTTATTTAA
TTATACATTATAAACCATTTTCCAATTTTGCCCTTTAATTAACAAATAAGAATTCCATCCACTAG
TGTCTATACTTGTCCATGCATTAGTAAAATGGTCCAATTGACATGCAAGGACCTTTATTTTAAAA
GCCAA
Found at i:6794037 original size:22 final size:21
Alignment explanation
Indices: 6793986--6794040 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
6793976 CCTAGACATA
6793986 TCCATTTCACTTTTTATTTTT
1 TCCATTTCACTTTTTATTTTT
* *
6794007 T-CATTTTTCTCTTTTTTTTTTCT
1 TCCA--TTTCACTTTTTATTTT-T
6794030 TCCATTTCACT
1 TCCATTTCACT
6794041 ACTTAATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.07
21 1 0.04
22 20 0.74
23 2 0.07
24 2 0.07
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (21 bp):
TCCATTTCACTTTTTATTTTT
Found at i:6802259 original size:16 final size:16
Alignment explanation
Indices: 6802225--6802259 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6802215 TTTTGTTTTT
* *
6802225 TTTATTTTATTGTTTA
1 TTTATTTTATTATTAA
6802241 TTTATTTTATTATTAA
1 TTTATTTTATTATTAA
6802257 TTT
1 TTT
6802260 TTGCTGTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTATTAA
Found at i:6804914 original size:29 final size:28
Alignment explanation
Indices: 6804881--6804935 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
6804871 AGTTATACCA
6804881 ATTTGGCTTCGGCCCATGAATATCAGTTG
1 ATTTGGCTTCGGCCCATG-ATATCAGTTG
* *
6804910 ATTTGGCTTTGGGCCATGATATCAGT
1 ATTTGGCTTCGGCCCATGATATCAGT
6804936 ACTTCGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
ATTTGGCTTCGGCCCATGATATCAGTTG
Found at i:6806520 original size:99 final size:92
Alignment explanation
Indices: 6806316--6806536 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 92
6806306 TTTGTGTGCT
* * * * *
6806316 AGTGTAAGACCATGTTTGGGACTTGGCATCCGCATTGAGACGAGTGCCAGTGTAAGACATGTCCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCCG
*
6806381 GGACATGCATCGGCTACGAGACATGTC
66 GGACATGCATCGGCTACGAGACATGCC
* * *
6806408 AGTGTAAGACCATGTGTGGGACATGACATCAGCATGTAAGTACGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCAT-TAAG-ACGAGAGCCAGTGTAAGA-CATGT
* **
6806473 CTGGGACATGGCATCGGCCT-CGATGAGGGTAGCC
63 CCGGGACAT-GCATCGG-CTACGA-GA-CAT-GCC
*
6806507 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
6806537 GACAACTTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
92 31 0.29
93 3 0.03
94 16 0.15
95 13 0.12
96 10 0.09
97 4 0.04
98 1 0.01
99 29 0.27
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGACGAGAGCCAGTGTAAGACATGTCCG
GGACATGCATCGGCTACGAGACATGCC
Found at i:6807474 original size:13 final size:13
Alignment explanation
Indices: 6807456--6807481 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6807446 TGGCCGTGTG
6807456 AAAGGACACGGGC
1 AAAGGACACGGGC
6807469 AAAGGACACGGGC
1 AAAGGACACGGGC
6807482 GTGTGTCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.38, T:0.00
Consensus pattern (13 bp):
AAAGGACACGGGC
Found at i:6817534 original size:58 final size:57
Alignment explanation
Indices: 6817443--6817588 Score: 247
Period size: 58 Copynumber: 2.5 Consensus size: 57
6817433 NNNNNNNNNN
*
6817443 TTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCAAATTCC
1 TTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATT-C
* *
6817501 TTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAGTTC
1 TTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATTC
*
6817558 TTCAACCGAGCACTATGTGTGCGAGATCGGT
1 TTTAACCGAGCACTATGTGTGCGAGATCGGT
6817589 CAGTGGGCAC
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
57 31 0.37
58 53 0.63
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (57 bp):
TTTAACCGAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCAAATTC
Found at i:6817542 original size:29 final size:29
Alignment explanation
Indices: 6817452--6817606 Score: 113
Period size: 29 Copynumber: 5.4 Consensus size: 29
6817442 NTTTAACCGA
* *
6817452 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * ** *
6817481 GCACTGTGTGTGC-AAATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAACTGAG
*
6817510 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAACTGAG
* * * *
6817539 GCACTGTGTGTGCGAGTTC-TTCAACCGA-
1 GCACTATGTGTGCGAGATCGGT-AACTGAG
* *
6817567 GCACTATGTGTGCGAGATCGGTCAGTG-G
1 GCACTATGTGTGCGAGATCGGTAACTGAG
*
6817595 GCACTAAGTGTG
1 GCACTATGTGTG
6817607 TGAAATAAGA
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
28 39 0.41
29 48 0.51
30 8 0.08
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAACTGAG
Found at i:6817598 original size:28 final size:28
Alignment explanation
Indices: 6817510--6817606 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
6817500 CTTTAACCGA
* *
6817510 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
6817539 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
6817567 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
6817595 GCACTAAGTGTG
1 GCACTATGTGTG
6817607 TGAAATAAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.27
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:6825951 original size:40 final size:39
Alignment explanation
Indices: 6825761--6825944 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
6825751 CGAATGATGT
* * * *
6825761 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * *
6825801 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
6825841 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAATTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
6825879 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
6825920 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
6825945 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:6825966 original size:79 final size:79
Alignment explanation
Indices: 6825813--6825977 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
6825803 AGACTAAGAT
* ** *
6825813 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAATTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAA
*
6825878 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
6825892 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACG-AGTAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAAGTA-C
* *
6825955 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
6825971 CCGAAGG
1 CCGAAGG
6825978 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAAGTACTAA
ATCCGGGTTAAATC
Found at i:6831281 original size:46 final size:45
Alignment explanation
Indices: 6831226--6831312 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 45
6831216 TGAGATGAGT
6831226 GCCACTGTAAGACATGTCCAGGACATGCATTGGCCT-CGAGACGTAA
1 GCCACTGTAAGACATGTCCAGGACAT-CATTGG-CTACGAGACGTAA
* **
6831272 GCCAGTGTAAGACATGTCTGGGACATCATTGGCTACGAGAC
1 GCCACTGTAAGACATGTCCAGGACATCATTGGCTACGAGAC
6831313 ATGTCAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 2 0.05
45 12 0.32
46 23 0.62
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (45 bp):
GCCACTGTAAGACATGTCCAGGACATCATTGGCTACGAGACGTAA
Found at i:6842047 original size:49 final size:49
Alignment explanation
Indices: 6841975--6842073 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
6841965 AGTTTAGATA
6841975 ACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACT
1 ACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACT
6842024 ACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACT
1 ACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACT
6842073 A
1 A
6842074 GTACTCGAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.28
Consensus pattern (49 bp):
ACCAAACCTCTTAATTTTTAGGCTAGATAATAAAAAGGAAGTAAATACT
Found at i:6843923 original size:12 final size:12
Alignment explanation
Indices: 6843906--6843933 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6843896 ATTCGAGGCT
6843906 AGAGTACCAGCC
1 AGAGTACCAGCC
6843918 AGAGTACCAGCC
1 AGAGTACCAGCC
6843930 AGAG
1 AGAG
6843934 CTTACCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.29, G:0.29, T:0.07
Consensus pattern (12 bp):
AGAGTACCAGCC
Found at i:6860891 original size:47 final size:48
Alignment explanation
Indices: 6860801--6861020 Score: 161
Period size: 47 Copynumber: 4.7 Consensus size: 48
6860791 TGGGTAAAGT
* * *
6860801 GCCGATGCCATGTCCCAGACACGGTCTTACCCTGTCTCACATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCGAA
* * *
6860848 GCCGATGCCATATCCTAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCA-CATCTCGAA
* * * * * *
6860896 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCGAA
* ** * * *
6860942 GCTGATG-CATGTCTAAGACAT-GTCTTACACT-A-GCAC-TCGTCTTAGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATC-TC-GA-A
* *
6860988 GCCGATGCCATGTCCCGGACATCGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
6861021 AGCTCACGCA
Statistics
Matches: 137, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
43 2 0.01
44 3 0.02
45 1 0.01
46 52 0.38
47 62 0.45
48 17 0.12
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCGAA
Found at i:6860949 original size:46 final size:46
Alignment explanation
Indices: 6860898--6861023 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
6860888 ATCTCGTAGT
* *
6860898 CGATGCATGTCCCAGACATGTCTTACACTGGC-TTACGTCTTGAG-GC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTT-AGTGC
* **
6860944 TGATGCATGTCTAAGACATGTCTTACACTAGCACTCGTCTTAGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAGTGC
*
6860990 CGATGCCATGTCCCGGACATCGTCTTACACTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC
6861024 TCACGCAAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 40 0.60
47 12 0.18
48 13 0.19
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAGTGC
Found at i:6864923 original size:46 final size:46
Alignment explanation
Indices: 6864873--6865048 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
6864863 TGGTTGAGCA
6864873 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6864919 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
6864964 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
6865012 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6865049 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:6865029 original size:93 final size:93
Alignment explanation
Indices: 6864870--6865041 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6864860 GGATGGTTGA
* *
6864870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6864935 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
6864963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6865028 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
6865042 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:6873479 original size:25 final size:27
Alignment explanation
Indices: 6873420--6873480 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
6873410 ATATTTTCTC
*
6873420 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
6873446 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
6873470 TTAATATTTTA
1 TTAATATTTTA
6873481 TATTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Found at i:6881378 original size:25 final size:25
Alignment explanation
Indices: 6881348--6881396 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6881338 ATTTTGATTC
6881348 ACCTCTAGTTTTAAACAATTTCTAA
1 ACCTCTAGTTTTAAACAATTTCTAA
* **
6881373 ACCTCTGGTTTTAAATGATTTCTA
1 ACCTCTAGTTTTAAACAATTTCTA
6881397 CTTTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.43
Consensus pattern (25 bp):
ACCTCTAGTTTTAAACAATTTCTAA
Found at i:6881731 original size:29 final size:29
Alignment explanation
Indices: 6881670--6881756 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 29
6881660 GAAAGCATGT
* *
6881670 ATATGAATATGATTTGGG-CTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
6881698 GTATGAATGTGATTTGGGCCTAATGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
6881727 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
6881755 AT
1 AT
6881757 TTGCATGTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:6888738 original size:8 final size:8
Alignment explanation
Indices: 6888725--6888755 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
6888715 ATCGGCAAAA
6888725 GCCGAAAT
1 GCCGAAAT
6888733 GCCGAAAT
1 GCCGAAAT
*
6888741 GCCGAAAA
1 GCCGAAAT
6888749 GCCGAAA
1 GCCGAAA
6888756 GTTTGGCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.26, G:0.26, T:0.06
Consensus pattern (8 bp):
GCCGAAAT
Found at i:6889012 original size:29 final size:29
Alignment explanation
Indices: 6888970--6889054 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
6888960 GCATGTATAT
* *
6888970 GAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATATGATTTGGGCCTAATGGGCCATAA
6888999 GAATATGATTTGGGCCTAATGGGCCATAA
1 GAATATGATTTGGGCCTAATGGGCCATAA
* *
6889028 G-A-ATGAAATTGGGCCTAGTGGGCCATA
1 GAATATG-ATTTGGGCCTAATGGGCCATA
6889055 TGCATGTTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 3 0.06
28 20 0.39
29 28 0.55
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
GAATATGATTTGGGCCTAATGGGCCATAA
Found at i:6895117 original size:22 final size:22
Alignment explanation
Indices: 6895081--6895124 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6895071 GAAAATAATC
*
6895081 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
**
6895103 AAAATTAATTGAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
6895125 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:6898406 original size:28 final size:28
Alignment explanation
Indices: 6898374--6898443 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
6898364 ATAGTAAGTC
6898374 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
6898402 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
6898430 CGCACACTTAGTGC
1 CGCACACTTAGTGC
6898444 AATCTCATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:6902986 original size:212 final size:211
Alignment explanation
Indices: 6902517--6903152 Score: 1157
Period size: 212 Copynumber: 3.0 Consensus size: 211
6902507 TTGAAGATAC
*
6902517 AATATTTAGTCAAATTTATCCAATTCATTCATTAATAATTAGCATTATTCAAGAATTAAGCATCG
1 AATATTTAGTCAAATTTATCCAATTCATTCATCAATAATTAGCATTATTCAAGAATTAAGCATCG
6902582 AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
66 AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
* *
6902647 CTTTTTTTT-TAATATGGGCGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGTA
131 CTTTTTTTTAAAATATGGGTGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGTA
6902711 CTGTCCCCAATCCACT
196 CTGTCCCCAATCCACT
*
6902727 AATATTTAGTCAAATTTATCCAAGTCATTCATCAATAATTAGCATTATTCAAGAATTAAGCATCG
1 AATATTTAGTCAAATTTATCCAATTCATTCATCAATAATTAGCATTATTCAAGAATTAAGCATCG
*
6902792 AATGTAACAAAAATTTTCAAACACATTTACATTAACCATAAATAAACCTTTCATGCTTTATTAAA
66 AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
*
6902857 CTTATTTTTTAAAACATGGGTGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGT
131 CTT-TTTTTTAAAATATGGGTGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGT
*
6902922 GCTGTCCCCAATCCACT
195 ACTGTCCCCAATCCACT
*
6902939 AATATTTAGTCAAATTTATCCAATTCATTCATCAATAATTAGCATTATTCGAGAATTAAGCATCG
1 AATATTTAGTCAAATTTATCCAATTCATTCATCAATAATTAGCATTATTCAAGAATTAAGCATCG
6903004 AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
66 AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
* *
6903069 CTTTTTTTTAAAAATATGGGTGTACTTCCAAACTCCATATGCATTCCCCCAAACTTAAAGTTTGT
131 CTTTTTTTT-AAAATATGGGTGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGT
6903134 ACTGTCCCCAATCCACT
195 ACTGTCCCCAATCCACT
6903151 AA
1 AA
6903153 CATTAAAATG
Statistics
Matches: 409, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
210 130 0.32
211 12 0.03
212 267 0.65
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (211 bp):
AATATTTAGTCAAATTTATCCAATTCATTCATCAATAATTAGCATTATTCAAGAATTAAGCATCG
AATGTAACAAAAATTTTCAAACACATTTGCATTAACCATAAATAAACCTTTCATGCTTTATTAAA
CTTTTTTTTAAAATATGGGTGTATTTCCAAACCCCATATGCATTCCCCCAAACTTAAAGTTTGTA
CTGTCCCCAATCCACT
Found at i:6903651 original size:15 final size:15
Alignment explanation
Indices: 6903602--6903638 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
6903592 ATTAATAATG
*
6903602 TTCTCAGCAGATTCT
1 TTCTCAGCAGCTTCT
6903617 TTCTCAGCAGCTTCT
1 TTCTCAGCAGCTTCT
6903632 TTCTCAG
1 TTCTCAG
6903639 TATTTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.41
Consensus pattern (15 bp):
TTCTCAGCAGCTTCT
Found at i:6904778 original size:23 final size:23
Alignment explanation
Indices: 6904746--6904792 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6904736 GTCATAAAGG
* *
6904746 TTAGCATAAAACTTACGTACCAA
1 TTAGCATAAAACTCACATACCAA
*
6904769 TTAGCTTAAAACTCACATACCAA
1 TTAGCATAAAACTCACATACCAA
6904792 T
1 T
6904793 AAAGGAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (23 bp):
TTAGCATAAAACTCACATACCAA
Found at i:6910125 original size:21 final size:21
Alignment explanation
Indices: 6910083--6910125 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
6910073 CTGATTCTGG
* *
6910083 TGTGGATGCATCTGGCTTTGT
1 TGTGGAAGCATCTGGCTATGT
6910104 TGTGGAAGCATCTGAG-TATGT
1 TGTGGAAGCATCTG-GCTATGT
6910125 T
1 T
6910126 TATTATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.12, G:0.33, T:0.40
Consensus pattern (21 bp):
TGTGGAAGCATCTGGCTATGT
Found at i:6923561 original size:46 final size:48
Alignment explanation
Indices: 6923441--6923569 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 48
6923431 TATTTGAGAT
*
6923441 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGTAACTA-GCA
* *
6923487 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTGATGGATGTGAA-T-GC-
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGT-AACTAGCA
*
6923534 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGATGG
6923570 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
46 33 0.46
47 26 0.36
48 5 0.07
50 6 0.08
51 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (48 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGTAACTAGCA
Found at i:6935109 original size:17 final size:18
Alignment explanation
Indices: 6935076--6935109 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6935066 ATGATGTGCC
6935076 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
6935094 AAACTATTTT-ATGCTT
1 AAACTATTTTCATGCTT
6935110 ACTATTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:6939904 original size:38 final size:38
Alignment explanation
Indices: 6939830--6939906 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
6939820 GTGGAATTTT
* * ** * *
6939830 TCTATTAGCTTTACAGAGTGACATTATGAGAGTGGTTA
1 TCTATTAGCTCTACAGAGCGACACCATGAAAATGGTTA
*
6939868 TCTATTGGCTCTACAGAGCGACACCATGAAAATGGTTA
1 TCTATTAGCTCTACAGAGCGACACCATGAAAATGGTTA
6939906 T
1 T
6939907 TGACTCATTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (38 bp):
TCTATTAGCTCTACAGAGCGACACCATGAAAATGGTTA
Found at i:6944971 original size:12 final size:12
Alignment explanation
Indices: 6944956--6945013 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
6944946 TATAACATAT
*
6944956 TTTACTGTGTAA
1 TTTACTATGTAA
6944968 TTTACTATGTAA
1 TTTACTATGTAA
6944980 TTT--TA--T-A
1 TTTACTATGTAA
*
6944987 TTTACTGTGTAA
1 TTTACTATGTAA
*
6944999 TTAACTATGTAA
1 TTTACTATGTAA
6945011 TTT
1 TTT
6945014 TGATTAGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
7 4 0.11
8 1 0.03
9 1 0.03
10 2 0.06
11 1 0.03
12 27 0.75
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.53
Consensus pattern (12 bp):
TTTACTATGTAA
Found at i:6944992 original size:31 final size:31
Alignment explanation
Indices: 6944956--6945014 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
6944946 TATAACATAT
*
6944956 TTTACTGTGTAATTTACTATGTAATTTTATA
1 TTTACTGTGTAATTAACTATGTAATTTTATA
6944987 TTTACTGTGTAATTAACTATGTAATTTT
1 TTTACTGTGTAATTAACTATGTAATTTT
6945015 GATTAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTACTGTGTAATTAACTATGTAATTTTATA
Found at i:6951594 original size:46 final size:48
Alignment explanation
Indices: 6951363--6951678 Score: 228
Period size: 46 Copynumber: 6.6 Consensus size: 48
6951353 GGTATAATAT
* * * ** *
6951363 CGATGCCATGCCCCAGACATTGTCTTACACTGAC-TATCGAAATCGAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-ATCTCGTAGC
* * * *
6951412 CCACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATACGT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCT-CGTAGC
* * * *
6951462 TGATGCCATGTCCCAGACATGGTCTTACACTGACACCTT-TAT-ACGT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG---GCTTACATCTCGTAGC
* *
6951510 CGATGCCATGTCCCAAACATGGTCTTACACTGAC--ACATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGC
* *
6951556 CGATG-CATATCCCAGACAT-GTCTTACACTGGCTTACATCTC-AAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA-GC
* * * *
6951602 CGATG-CATGTCCCAGACAT-GTATTACACTAGCTCT-CGTCTC-AATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGTA-GC
*
6951648 CAATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
6951679 AGCTCTCATA
Statistics
Matches: 220, Mismatches: 31, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
44 14 0.06
45 17 0.08
46 59 0.27
47 15 0.07
48 44 0.20
49 28 0.13
50 35 0.16
51 4 0.02
52 2 0.01
53 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTAGC
Found at i:6958226 original size:27 final size:27
Alignment explanation
Indices: 6958194--6958250 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6958184 ATTGCTTAAA
*
6958194 ATGACTAAATTGTAAAAGTTATAAAAT
1 ATGACTAAACTGTAAAAGTTATAAAAT
6958221 ATGACTAAACTGTAAAAGTTATAAAAT
1 ATGACTAAACTGTAAAAGTTATAAAAT
6958248 ATG
1 ATG
6958251 TAGTAAAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (27 bp):
ATGACTAAACTGTAAAAGTTATAAAAT
Found at i:6958841 original size:25 final size:25
Alignment explanation
Indices: 6958799--6958847 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6958789 CTTTATTATT
* *
6958799 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
6958824 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
6958848 GGTCCACTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:6962240 original size:41 final size:41
Alignment explanation
Indices: 6962192--6962294 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
6962182 AATGCCGACG
*
6962192 TCTCAGACGTGGTCTTACATC-ATCAAATATCGATGCCACTA
1 TCTCAGACGTGGTCTTACATCAATCAAATAT-GATGCCAATA
*
6962233 TCTCAGACAG-GGTCTTACA-CGAAATCAAATATGATGCCAATG
1 TCTCAGAC-GTGGTCTTACATC--AATCAAATATGATGCCAATA
*
6962275 TCCCAGACGTGGTCTTACAT
1 TCTCAGACGTGGTCTTACAT
6962295 GTAACTCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
40 1 0.02
41 18 0.34
42 25 0.47
43 9 0.17
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
TCTCAGACGTGGTCTTACATCAATCAAATATGATGCCAATA
Found at i:6962282 original size:42 final size:43
Alignment explanation
Indices: 6962195--6962340 Score: 133
Period size: 44 Copynumber: 3.4 Consensus size: 43
6962185 GCCGACGTCT
* *
6962195 CAGACGTGGTCTTACATC---ATCAAATATCGATGCCACTATCT
1 CAGACGTGGTCTTACA-CGAAATCAAATATCGATGCCAATATCC
*
6962236 CAGACAG-GGTCTTACACGAAATCAAATAT-GATGCCAATGTCC
1 CAGAC-GTGGTCTTACACGAAATCAAATATCGATGCCAATATCC
* * * **
6962278 CAGACGTGGTCTTACATGTAACTCATAA-GTCGATGCCAACGTCC
1 CAGACGTGGTCTTACACG-AAATCA-AATATCGATGCCAATATCC
*
6962322 CAGACGTGATCTTACACGA
1 CAGACGTGGTCTTACACGA
6962341 TAACACATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
40 1 0.01
41 15 0.17
42 26 0.30
43 16 0.18
44 30 0.34
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
CAGACGTGGTCTTACACGAAATCAAATATCGATGCCAATATCC
Found at i:6974567 original size:14 final size:14
Alignment explanation
Indices: 6974548--6974578 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6974538 TTAGATATAT
6974548 TTATAAAATTATTA
1 TTATAAAATTATTA
*
6974562 TTATAATATTATTA
1 TTATAAAATTATTA
6974576 TTA
1 TTA
6974579 GATAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTATAAAATTATTA
Found at i:6985329 original size:25 final size:25
Alignment explanation
Indices: 6985287--6985335 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
6985277 CTTTATTATT
* *
6985287 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
6985312 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
6985336 GGTCCTCTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:6994663 original size:44 final size:43
Alignment explanation
Indices: 6994591--6994696 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 43
6994581 TATGTGTTAT
* * *
6994591 CATGTAAGACCACATCTAGGATGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCATATCTAGGAAGTTGGCATC-AATATATGA-TTA
* * *
6994635 CGTGTAAGACCATATCTGGGACAG-TGGCATCAATATTTGATTA
1 CATGTAAGACCATATCTAGGA-AGTTGGCATCAATATATGATTA
*
6994678 CATGTAAGACCATGTCTAG
1 CATGTAAGACCATATCTAG
6994697 AACGTTAGCA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
43 21 0.41
44 29 0.57
45 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCATATCTAGGAAGTTGGCATCAATATATGATTA
Found at i:6998965 original size:25 final size:25
Alignment explanation
Indices: 6998912--6998958 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6998902 CCAATATTGA
* *
6998912 TATA-GTGATGCAACAATGAGGATG
1 TATAGGTGATACAACAAGGAGGATG
6998936 TATAGGTGATACAACAAGGAGGA
1 TATAGGTGATACAACAAGGAGGA
6998959 GCTATAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (25 bp):
TATAGGTGATACAACAAGGAGGATG
Found at i:7005135 original size:10 final size:9
Alignment explanation
Indices: 7005111--7005144 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7005101 TTCAAATAAT
7005111 TATAAAAAA
1 TATAAAAAA
7005120 TATAAAAATA
1 TATAAAAA-A
*
7005130 TTTAAAAAA
1 TATAAAAAA
7005139 TATAAA
1 TATAAA
7005145 GAATTATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
TATAAAAAA
Found at i:7005152 original size:10 final size:9
Alignment explanation
Indices: 7005108--7005195 Score: 61
Period size: 10 Copynumber: 9.3 Consensus size: 9
7005098 TTTTTCAAAT
7005108 AATTATAAA
1 AATTATAAA
*
7005117 AAATATAAA
1 AATTATAAA
*
7005126 AATATTTAAA
1 AAT-TATAAA
*
7005136 AAATATAAA
1 AATTATAAA
7005145 GAATTATAAGA
1 -AATTATAA-A
*
7005156 ACTTAT-AA
1 AATTATAAA
* **
7005164 AAGTATTTA
1 AATTATAAA
7005173 AATTATTAAA
1 AATTA-TAAA
7005183 AATTCATAAA
1 AATT-ATAAA
7005193 AAT
1 AAT
7005196 AAAAATAATA
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
8 5 0.08
9 21 0.35
10 32 0.53
11 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:7005302 original size:12 final size:12
Alignment explanation
Indices: 7005285--7005313 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7005275 CCATATTGTT
7005285 AAATAATTTTAA
1 AAATAATTTTAA
7005297 AAATAATTTTAA
1 AAATAATTTTAA
7005309 AAATA
1 AAATA
7005314 TTAAGAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:7005329 original size:23 final size:23
Alignment explanation
Indices: 7005277--7005329 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
7005267 CCATCTGTCC
*
7005277 ATATTGTTAAATAATTTTAAAAAT
1 ATATT-TTAAATAATATTAAAAAT
*
7005301 A-ATTTTAAA-AATATTAAGAATT
1 ATATTTTAAATAATATTAA-AAAT
7005323 ATATTTT
1 ATATTTT
7005330 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 7 0.28
22 9 0.36
23 8 0.32
24 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATTTTAAATAATATTAAAAAT
Found at i:7008337 original size:4 final size:4
Alignment explanation
Indices: 7008324--7008357 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
7008314 AATTAAACTC
7008324 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
7008358 CTTGGTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7020436 original size:189 final size:188
Alignment explanation
Indices: 7020117--7020492 Score: 574
Period size: 189 Copynumber: 2.0 Consensus size: 188
7020107 GAATTGAGCT
* * * * *
7020117 ACCGGAGAGAAGGTTTCTTCTAAATCAACACCATATTGTTGTGCATAACCTTTCGTCACAAGTCT
1 ACCGGAGAGAAGGTTTCTTCAAAATCAACACCATATTGCTGTGCATAACCTTTCGCCACAAGACG
* *
7020182 AGCTTGTGCTTTTGGATGCTTCCATCTGCACCAAATTTTTTCTCGAACACCCACTTTAAACCAAT
66 AGCTTGTGCTTTTGGATGCTTCCATCTGCACCAAATTTTGTCTCGAACACCCACTTCAAACCAAT
* * *
7020247 TGCA-TTTTTATCTTCCAGTAAGTTAACCATCTCCCAAGTTCCATTCTTTTTTATGGAA
131 TGCATTTTTTATCTTCCAGCAAGTCAACCATCTCCCAAGTTCCATT-TTTTTGATGGAA
*
7020305 ACCGGAGAGAAGGTTTCTTCAAAATCAACACCATATTGCTGTGCATAACCTTTTGCCACAAGACG
1 ACCGGAGAGAAGGTTTCTTCAAAATCAACACCATATTGCTGTGCATAACCTTTCGCCACAAGACG
* *
7020370 AGCTTTGTGCTTTTGGATGCTTCTATCTGCACCAAATTTTGTCTTGAACACCCACTTCAAACCAA
66 AGC-TTGTGCTTTTGGATGCTTCCATCTGCACCAAATTTTGTCTCGAACACCCACTTCAAACCAA
** * *
7020435 TTGCATTTTTTATCTTCTGGCAAGTCGACCATCTCCTAAGTTCCATTTTTTTGATGGA
130 TTGCATTTTTTATCTTCCAGCAAGTCAACCATCTCCCAAGTTCCATTTTTTTGATGGA
7020493 TTCATCTCCT
Statistics
Matches: 169, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
188 62 0.37
189 72 0.43
190 35 0.21
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (188 bp):
ACCGGAGAGAAGGTTTCTTCAAAATCAACACCATATTGCTGTGCATAACCTTTCGCCACAAGACG
AGCTTGTGCTTTTGGATGCTTCCATCTGCACCAAATTTTGTCTCGAACACCCACTTCAAACCAAT
TGCATTTTTTATCTTCCAGCAAGTCAACCATCTCCCAAGTTCCATTTTTTTGATGGAA
Found at i:7029130 original size:18 final size:18
Alignment explanation
Indices: 7029092--7029130 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7029082 ATTTAATTTT
* *
7029092 ATTAATTTAATTACTCTA
1 ATTAATATAATTACTCAA
*
7029110 ATTAATATAATTATTCAA
1 ATTAATATAATTACTCAA
7029128 ATT
1 ATT
7029131 GGTCATTACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTAATATAATTACTCAA
Found at i:7035963 original size:11 final size:11
Alignment explanation
Indices: 7035947--7035974 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7035937 CTTCATCTTG
7035947 TTTGATTAATA
1 TTTGATTAATA
7035958 TTTGATTAATA
1 TTTGATTAATA
7035969 TTTGAT
1 TTTGAT
7035975 AAGATGTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (11 bp):
TTTGATTAATA
Found at i:7036371 original size:30 final size:30
Alignment explanation
Indices: 7036335--7036397 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
7036325 TATATATATG
*
7036335 AGATAATCTACAGTTGATCAATTAAAGATA
1 AGATAATCTACAGTTGAACAATTAAAGATA
7036365 AGATAATCTACAGTTGAACAATTAAAGATA
1 AGATAATCTACAGTTGAACAATTAAAGATA
7036395 AGA
1 AGA
7036398 AGTGTGGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (30 bp):
AGATAATCTACAGTTGAACAATTAAAGATA
Found at i:7042037 original size:41 final size:41
Alignment explanation
Indices: 7041985--7042068 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
7041975 TGAATGCTTG
7041985 AGTAATAAAATGTGCCATGTTGCATGCTATGATGTGAGGGC
1 AGTAATAAAATGTGCCATGTTGCATGCTATGATGTGAGGGC
*
7042026 AGTAATCAAATGTGCCATGTTGCATGCTATGATGTGAGGGC
1 AGTAATAAAATGTGCCATGTTGCATGCTATGATGTGAGGGC
7042067 AG
1 AG
7042069 GTATGTGAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (41 bp):
AGTAATAAAATGTGCCATGTTGCATGCTATGATGTGAGGGC
Found at i:7050472 original size:41 final size:41
Alignment explanation
Indices: 7050416--7050635 Score: 327
Period size: 41 Copynumber: 5.3 Consensus size: 41
7050406 ACATAAAACT
* *
7050416 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCT
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
*
7050457 TGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
7050500 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
7050541 TGCTAGGCAATAAGCCTGATTTAATACACCGGCACAAAGAC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
7050582 TGCTAGGCAATAAGCCTGGTTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
7050623 TGCTAGGCAATAA
1 TGCTAGGCAATAA
7050636 AGCCCGAATA
Statistics
Matches: 167, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
41 126 0.75
42 3 0.02
43 38 0.23
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:7050549 original size:84 final size:82
Alignment explanation
Indices: 7050416--7050635 Score: 327
Period size: 84 Copynumber: 2.7 Consensus size: 82
7050406 ACATAAAACT
* *
7050416 TGCTAGGC-ATAAAGCCT-AGTATAATACACCGGCACAGAGCTTGCTAGGCAATAAGCCTGATAT
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATAT
* *
7050479 AATACACCGGCATATAAAGCC
64 AATACACCGGC--ACAAAGAC
*
7050500 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATTTAA
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAA
7050565 TACACCGGCACAAAGAC
66 TACACCGGCACAAAGAC
* *
7050582 TGCTAGGCAATAAGCCTGGTTTAATACACCGGCACAAAGCCTGCTAGGCAATAA
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAA
7050636 AGCCCGAATA
Statistics
Matches: 127, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
82 58 0.46
84 66 0.52
85 3 0.02
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (82 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATAA
TACACCGGCACAAAGAC
Found at i:7054974 original size:12 final size:14
Alignment explanation
Indices: 7054959--7054990 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7054949 GTGAGAACAC
7054959 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
7054971 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
7054985 ATGTGT
1 ATGTGT
7054991 TTAAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:7055082 original size:50 final size:50
Alignment explanation
Indices: 7054956--7055237 Score: 280
Period size: 50 Copynumber: 5.6 Consensus size: 50
7054946 GTTGTGAGAA
* * * *** * *
7054956 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGGTTTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
*
7055008 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * * * * * * * *
7055058 CGCATGTGTAGTACTAATTTCAGGCTACTATGCGTACCCGAAAGTTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATGGTT-AGGT
* * * *
7055109 CACGTGTGTATTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * *
7055159 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
*
7055208 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
7055238 TGCATACCAG
Statistics
Matches: 188, Mismatches: 39, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
49 32 0.17
50 84 0.45
51 35 0.19
52 37 0.20
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:7055139 original size:101 final size:101
Alignment explanation
Indices: 7055007--7055237 Score: 304
Period size: 101 Copynumber: 2.3 Consensus size: 101
7054997 TGGTTTTAAG
*
7055007 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
* *
7055072 TAATTTCAGGCTACTATGCGTACCCGAAAGTTTCAA
66 TAAGTGCAGGCTACTATGCGTACCCGAAAGTTTCAA
* * * * * *
7055108 TCACGTGTGTATTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
* * ** **
7055173 TAAGTGCAGGCTACTATGTGTACCAGATTG-TT-GG
66 TAAGTGCAGGCTACTATGCGTACCCGAAAGTTTCAA
*
7055207 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
7055238 TGCATACCAG
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 27 0.24
100 2 0.02
101 82 0.74
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCGTACCCGAAAGTTTCAA
Found at i:7055470 original size:16 final size:15
Alignment explanation
Indices: 7055449--7055478 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7055439 GAATGGAGTA
7055449 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
7055465 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
7055479 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:7057488 original size:20 final size:20
Alignment explanation
Indices: 7057463--7057514 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7057453 TGGGCAGACG
*
7057463 ACACGGGTGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
7057483 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
7057503 ACACGGGCGTGT
1 ACACGGGCGTGT
7057515 GTAACCACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.35, G:0.29, T:0.13
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAACC
Found at i:7066946 original size:40 final size:39
Alignment explanation
Indices: 7066898--7067023 Score: 164
Period size: 40 Copynumber: 3.2 Consensus size: 39
7066888 GGACTAAGAT
7066898 CCGAAGGCATTTGTGCTAGTGACTATATCTAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATC-AGGCTAAGTC
* *
7066938 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTGACTATAT-CAGGCTAAGTC
* * * *
7066978 CCGAAGGCATTCGTGCGAGTTG-CTATATCCGGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCAGGCTAAGTC
7067017 CCGAAGG
1 CCGAAGG
7067024 TACTTGGGTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
39 15 0.19
40 59 0.77
41 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCAGGCTAAGTC
Found at i:7072908 original size:27 final size:27
Alignment explanation
Indices: 7072871--7072931 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
7072861 CAATACATCT
7072871 CATA-GGGCATAACAATCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
***
7072897 CATAGGGGCATAATTTTCATTTTATCA
1 CATAGGGGCATAACAATCATTTTATCA
7072924 -ATTAGGGG
1 CA-TAGGGG
7072932 TCCAAGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (27 bp):
CATAGGGGCATAACAATCATTTTATCA
Found at i:7073896 original size:130 final size:130
Alignment explanation
Indices: 7073663--7073924 Score: 488
Period size: 130 Copynumber: 2.0 Consensus size: 130
7073653 ACCAAAAGAA
*
7073663 TTAACCAACTGCAAGCAACTCGTGCTGGACAGAACCAACTGCTCAAGAGAGGAAAATCCACAGAA
1 TTAACCAACTGAAAGCAACTCGTGCTGGACAGAACCAACTGCTCAAGAGAGGAAAATCCACAGAA
*
7073728 GAGGGAGGATGGGGAAGATCAAGTATTTGGCCAATGGGACAGAGAAAAATTGAAGGCAATCCCCC
66 GAGGGAGGATGGGGAAGATCAAGTATTCGGCCAATGGGACAGAGAAAAATTGAAGGCAATCCCCC
*
7073793 TTAACCAACTGAAAGCAACTCGTGCTGGATAGAACCAACTGCTCAAGAGAGGAAAATCCACAGAA
1 TTAACCAACTGAAAGCAACTCGTGCTGGACAGAACCAACTGCTCAAGAGAGGAAAATCCACAGAA
*
7073858 GAGGGAGGATGGGGAAGATTAAGTATTCGGCCAATGGGACAGAGAAAAATTGAAGGCAATCCCCC
66 GAGGGAGGATGGGGAAGATCAAGTATTCGGCCAATGGGACAGAGAAAAATTGAAGGCAATCCCCC
7073923 TT
1 TT
7073925 TTAGAGATAA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 128 1.00
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.16
Consensus pattern (130 bp):
TTAACCAACTGAAAGCAACTCGTGCTGGACAGAACCAACTGCTCAAGAGAGGAAAATCCACAGAA
GAGGGAGGATGGGGAAGATCAAGTATTCGGCCAATGGGACAGAGAAAAATTGAAGGCAATCCCCC
Found at i:7079039 original size:45 final size:45
Alignment explanation
Indices: 7078988--7079124 Score: 256
Period size: 45 Copynumber: 3.0 Consensus size: 45
7078978 CGAAGAGGTC
7078988 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTAGTGGTA
1 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTAGTGGTA
7079033 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTAGTGGTA
1 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTAGTGGTA
7079078 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTGAGTAGGTA
1 GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCT-AGT-GGTA
7079125 TAAATTTATC
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
45 83 0.92
46 3 0.03
47 4 0.04
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (45 bp):
GAACTAGTAACTAAAATATCAAACTTGAGACATGTGCTAGTGGTA
Found at i:7093318 original size:39 final size:39
Alignment explanation
Indices: 7093064--7093307 Score: 391
Period size: 39 Copynumber: 6.3 Consensus size: 39
7093054 CGGGATTTTA
7093064 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
*
7093103 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
** *
7093142 AGCCCGGATATAGCACCAGCATGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
* * *
7093181 AGCCCCGATATAATACCAGCACGAATGCCTTCAGGA-AT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
**
7093219 AGCCCGGATATAGCACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
*
7093258 AGCCCGGATATAATACCAGCACGAATACCTTCGGGACTT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
7093297 AGCCCGGATAT
1 AGCCCGGATAT
7093308 TTTTCCAGCA
Statistics
Matches: 187, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 33 0.18
39 154 0.82
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTT
Found at i:7093318 original size:116 final size:117
Alignment explanation
Indices: 7093064--7093307 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 117
7093054 CGGGATTTTA
* *
7093064 AGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAAT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACATAGCCCGGATATAACACCAGCACGAAT
* * *
7093129 GCCTTCGGGACTTAGCCCGGATATAGCACCAGCATGAATGCCTTCGGGACTT
66 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATACCTTCGGGACTT
* *
7093181 AGCCCCGATATAATACCAGCACGAATGCCTTCAGGA-ATAGCCCGGATATAGCACCAGCACGAAT
1 AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACATAGCCCGGATATAACACCAGCACGAAT
*
7093245 GCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATACCTTCGGGACTT
66 GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATACCTTCGGGACTT
7093297 AGCCCGGATAT
1 AGCCCGGATAT
7093308 TTTTCCAGCA
Statistics
Matches: 118, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
116 84 0.71
117 34 0.29
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (117 bp):
AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACATAGCCCGGATATAACACCAGCACGAAT
GCCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATACCTTCGGGACTT
Found at i:7093343 original size:39 final size:39
Alignment explanation
Indices: 7093300--7093390 Score: 130
Period size: 39 Copynumber: 2.3 Consensus size: 39
7093290 GGGACTTAGC
* *
7093300 CCGGATATTTTTCCAGCACT-TAGCCTGCGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCTGCGGACTTCAAGT
*
7093339 CCGGATATATTTCCAGCATAAAGCCTGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
7093378 CCGGATATATTTT
1 CCGGATAT-TTTT
7093391 TCCAATACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 1 0.02
39 42 0.91
40 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCTGCGGACTTCAAGT
Found at i:7098839 original size:47 final size:47
Alignment explanation
Indices: 7098776--7099032 Score: 338
Period size: 47 Copynumber: 5.4 Consensus size: 47
7098766 CCCTTCGGGA
* * *
7098776 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
7098823 CTTATCATATATATACACTTTCACATTCATCACAGTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
7098870 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
7098917 CTTATCACACATACACA-TGTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
7098964 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
7099013 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
7099033 GTACATCAAT
Statistics
Matches: 186, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.01
47 145 0.78
49 39 0.21
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:7101177 original size:22 final size:22
Alignment explanation
Indices: 7101152--7101195 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7101142 ATCACTACCT
7101152 TAATTGCATTA-TTTAATTATTA
1 TAATT-CATTATTTTAATTATTA
7101174 TAATTCATTATTTTAATTATTA
1 TAATTCATTATTTTAATTATTA
7101196 ATTTAGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATTCATTATTTTAATTATTA
Found at i:7102888 original size:44 final size:47
Alignment explanation
Indices: 7102738--7103047 Score: 192
Period size: 47 Copynumber: 6.6 Consensus size: 47
7102728 TTGCCGCTGC
* * * *
7102738 CATGTCCCAGACATGGTTTTACGCTGGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTAACAT-CATCGAGGCCGATG
** * * * *
7102786 CCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTAACAT-CAT-CGAGGCCGATG
* *
7102836 CATGTCCCAAACATGTCTTACACTAGCATGAA-A-C-T-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-AACATCATCGAGGCCGATG
* * *
7102880 CATGTCCCAGACACGTCTTGCACTGGCTAACATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAACATCATCGAGGCCGATG
* * *
7102927 CATGTCCCAGACATGTCTTACACT-GGT-AC-TCACCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAACATCA--TCGAGGCCGATG
* ** * * * *
7102973 CCATGTCCCAGACGTGGTCTTACACGGGCTATCATGAT-GTGACCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTAACATCATCGAGGCCGATG
* *
7103021 TATGTCCCAGACACGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
7103048 CCTCGTCTCA
Statistics
Matches: 205, Mismatches: 39, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 33 0.16
45 3 0.01
46 25 0.12
47 53 0.26
48 28 0.14
49 45 0.22
50 10 0.05
51 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTAACATCATCGAGGCCGATG
Found at i:7103026 original size:94 final size:92
Alignment explanation
Indices: 7102729--7103044 Score: 273
Period size: 94 Copynumber: 3.3 Consensus size: 92
7102719 TGGGTTAAGT
* * * * *
7102729 TGCCGCTGCCATGTCCCAGACATGGTTTTACGCTGGCTATCTC-CATCGAGGCCGATGCCATGTC
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGG-TA-CTCACCTCTA-GCCGATGCCATGTC
* * *
7102793 CCAGACATGGTCTTACACTAGCTCTCGTGTATACG
61 CCAGAC-TGGTCTTACACTGGCTATCATG-AT-CG
* * * * * *
7102828 TGCTGATGCATGTCCCAAACATGTCTTACACTAGCA-TGAAACT-TAGCCGATG-CATGTCCCAG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGTACT-CACCTCTAGCCGATGCCATGTCCCAG
** * * *
7102890 ACACGTCTTGCACTGGCTAACATCATCG
65 ACTGGTCTTACACTGGCTATCATGATCG
*
7102918 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGTACTCACCTCTACGCCGATGCCATGTCCCA
1 -TGCCGATGCATGTCCCAGACATGTCTTACACTGGTACTCACCTCTA-GCCGATGCCATGTCCCA
*
7102983 GACGTGGTCTTACACGGGCTATCATGAT-G
64 GAC-TGGTCTTACACTGGCTATCATGATCG
* *
7103012 TGACCGATGTATGTCCCAGACACGTCTTACACT
1 TG-CCGATGCATGTCCCAGACATGTCTTACACT
7103045 AGCCCTCGTC
Statistics
Matches: 173, Mismatches: 35, Indels: 23
0.75 0.15 0.10
Matches are distributed among these distances:
90 2 0.01
91 36 0.21
92 17 0.10
93 20 0.12
94 49 0.28
95 19 0.11
96 2 0.01
97 9 0.05
98 13 0.08
99 6 0.03
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGTACTCACCTCTAGCCGATGCCATGTCCCAGA
CTGGTCTTACACTGGCTATCATGATCG
Found at i:7103064 original size:94 final size:92
Alignment explanation
Indices: 7102779--7103096 Score: 281
Period size: 94 Copynumber: 3.4 Consensus size: 92
7102769 CTCCATCGAG
* * * *
7102779 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-AT-CGTGCCGATGCATGTCCC
* *
7102844 AAACATGTCTTACACTAGCAT-GAAACT-TA
64 AGACATGTCTTACACTAGCCTCG--ACTCTA
* * * * *
7102873 GCCGATG-CATGTCCCAGACA-CGTCTTGCACTGGCTAACATCATCGAGGCCGATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCG-TGCCGATGCATGTCCCA
* *
7102936 GACATGTCTTACACTGGTACTC-ACCTCTA
65 GACATGTCTTACACTAG-CCTCGA-CTCTA
* * *
7102965 CGCCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTATCATGAT-GTGACCGATGTATGTCCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGTG-CCGATGCATGTCCC
* * *
7103029 AGACACGTCTTACACTAGCCCTCGTCTCAA
64 AGACATGTCTTACACTAG-CCTCGACTCTA
* * *
7103059 TGCCGATACCATG-CCCTAGACATGGTCTAATACTGGCT
1 -GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCT
7103097 CTCACATAAC
Statistics
Matches: 180, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
90 3 0.02
91 34 0.19
92 17 0.09
93 24 0.13
94 84 0.47
95 18 0.10
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGTGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCCTCGACTCTA
Found at i:7108396 original size:18 final size:18
Alignment explanation
Indices: 7108369--7108407 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7108359 GGCCGTGTGA
*
7108369 CCACACGGGTGTGTGGGC
1 CCACACGGGTGTGTGAGC
*
7108387 CCACATGGGTGTGTGAGC
1 CCACACGGGTGTGTGAGC
7108405 CCA
1 CCA
7108408 ATTTTGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.18
Consensus pattern (18 bp):
CCACACGGGTGTGTGAGC
Found at i:7115756 original size:9 final size:9
Alignment explanation
Indices: 7115730--7115768 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
7115720 TCGAATTGAG
*
7115730 TTAATCGAG
1 TTAATCGAA
7115739 TTAATCGAA
1 TTAATCGAA
7115748 TTAATCGAA
1 TTAATCGAA
*
7115757 TCAACTCGAA
1 TTAA-TCGAA
7115767 TT
1 TT
7115769 TTTTTTCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 20 0.77
10 6 0.23
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (9 bp):
TTAATCGAA
Found at i:7116184 original size:23 final size:24
Alignment explanation
Indices: 7116138--7116186 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
7116128 TGTTATTCAA
*
7116138 ACCCCCCATTCCCACGAGACCCTT
1 ACCCCCCATTCCCACGAGAACCTT
*
7116162 ACCCCCCATTTCCACGA-AACCTT
1 ACCCCCCATTCCCACGAGAACCTT
7116185 AC
1 AC
7116187 TCTGTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.24, C:0.51, G:0.06, T:0.18
Consensus pattern (24 bp):
ACCCCCCATTCCCACGAGAACCTT
Found at i:7120549 original size:5 final size:5
Alignment explanation
Indices: 7120539--7120566 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7120529 GAAAATTTTT
7120539 GATTC GATTC GATTC GATTC GATTC GAT
1 GATTC GATTC GATTC GATTC GATTC GAT
7120567 CGAATGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (5 bp):
GATTC
Found at i:7121235 original size:27 final size:28
Alignment explanation
Indices: 7121205--7121261 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
7121195 ATTTTTGATG
7121205 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
7121232 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
7121261 A
1 A
7121262 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:7121791 original size:43 final size:43
Alignment explanation
Indices: 7121720--7121802 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
7121710 AATTGATCTA
*
7121720 AGATGTCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTTG
1 AGATGTCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTG
* * * * *
7121763 AGATTTCGTTTAAGACCTTGTCTGGGACAGAGGCTTCGAT
1 AGATGTCGTGTAAGACCGTGTCTGGGACACAGGCCTCGAT
7121803 ATCGAATTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
AGATGTCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTG
Found at i:7121820 original size:43 final size:43
Alignment explanation
Indices: 7121728--7121833 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
7121718 TAAGATGTCG
* * * * *
7121728 TGTAAGACCGTGTTTGGGACACAGGCCTCGATTTGAGATTTCG
1 TGTAAGACCATGTCTGGGACACAGGCCTCGATTCGAGATTACA
* * * *
7121771 TTTAAGACCTTGTCTGGGACAGAGGCTTCGATATCGA-ATTACA
1 TGTAAGACCATGTCTGGGACACAGGCCTCGAT-TCGAGATTACA
*
7121814 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
7121834 GTTGGCATTG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 48 0.94
44 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCCTCGATTCGAGATTACA
Found at i:7124795 original size:41 final size:40
Alignment explanation
Indices: 7124742--7124839 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 40
7124732 AATATTTATG
* * *
7124742 GCTATTACTTTACCTTTTACTACATTTATGAGAAAAACGTC
1 GCTATTGCTTTACCTTTTACTACATTTATG-CAAAAACGCC
* * * *
7124783 GTTATTGCTTTACTTTTTGCTGCATTTATGCAAAAACGCC
1 GCTATTGCTTTACCTTTTACTACATTTATGCAAAAACGCC
*
7124823 GCTAATGCTTTACCTTT
1 GCTATTGCTTTACCTTT
7124840 GCTGCGTTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 22 0.47
41 25 0.53
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (40 bp):
GCTATTGCTTTACCTTTTACTACATTTATGCAAAAACGCC
Found at i:7135811 original size:18 final size:19
Alignment explanation
Indices: 7135787--7135830 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7135777 TAAATACATC
7135787 TACAATAATAACAA-AATTA
1 TACAATAA-AACAAGAATTA
*
7135806 -ACAATAAAATAAGAATTA
1 TACAATAAAACAAGAATTA
7135824 TACAATA
1 TACAATA
7135831 TCCAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 12 0.55
19 6 0.27
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (19 bp):
TACAATAAAACAAGAATTA
Found at i:7136229 original size:27 final size:27
Alignment explanation
Indices: 7136195--7136249 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
7136185 TTTTTAAAAT
7136195 TTTCATATTATTATTT-TA-ATAATTATA
1 TTTCATATT-TTATTTATATA-AATTATA
7136222 TTTCATATTTTATTTATATAAATTATA
1 TTTCATATTTTATTTATATAAATTATA
7136249 T
1 T
7136250 GTGTCAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 6 0.23
27 19 0.73
28 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTCATATTTTATTTATATAAATTATA
Found at i:7144965 original size:187 final size:187
Alignment explanation
Indices: 7144618--7144972 Score: 459
Period size: 187 Copynumber: 1.9 Consensus size: 187
7144608 ATACCCAAAT
** * *
7144618 TCTCAGACACAGTACAAGCTATATAGGAATGAGTAGACCATATATCTATCAGTGCTGTATAAGAT
1 TCTCAGACACAGTACAAGCTATATACAAATGAGTAGACCATATAACTATCAGTGCAGTATAAGAT
* * * *
7144683 ACATTATAAATAAAGTACGTACCCGTGATGACGTCTGGAGCATCTCTATCCTCTCGGTAACGTGC
66 ACATTATAAATAAAGAACGTACCCGTGATGACGTCTGGAGCATCTCCATCCTCTCGGCAACGTAC
*
7144748 AGCATAAATTAGAGCCGGCTCCCTCGCCTCAGTATGACTAACGCCTTTGCCCGATGC
131 AGCATAAACTAGAGCCGGCTCCCTCGCCTCAGTATGACTAACGCCTTTGCCCGATGC
* *
7144805 TCTCTGACACAGTACAAGCTATATACAAATGA-TCAGATCC-TATAACTATTAGTGCAGTATAA-
1 TCTCAGACACAGTACAAGCTATATACAAATGAGT-AGA-CCATATAACTATCAGTGCAGTATAAG
* * * * *
7144867 AGTATATTTTAAATAAAGAATGTACCCGTGATGACGT-TCGGAGCATCTCCGTCCTCTCGGCGAC
64 A-TACATTATAAATAAAGAACGTACCCGTGATGACGTCT-GGAGCATCTCCATCCTCTCGGCAAC
* * *
7144931 GTACATCATAAACTAGAGCTGGCTGTCC-CGCCTCAGTATGAC
127 GTACAGCATAAACTAGAGCCGGCT-CCCTCGCCTCAGTATGAC
7144973 CAGTGTCTCT
Statistics
Matches: 144, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
186 3 0.02
187 137 0.95
188 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (187 bp):
TCTCAGACACAGTACAAGCTATATACAAATGAGTAGACCATATAACTATCAGTGCAGTATAAGAT
ACATTATAAATAAAGAACGTACCCGTGATGACGTCTGGAGCATCTCCATCCTCTCGGCAACGTAC
AGCATAAACTAGAGCCGGCTCCCTCGCCTCAGTATGACTAACGCCTTTGCCCGATGC
Found at i:7147454 original size:33 final size:33
Alignment explanation
Indices: 7147414--7147534 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
7147404 TGTGTACACT
7147414 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
7147447 TGAAAAGGAAAGGTATACTTTGTGTATACTTTGTGTATACCATA
1 TGAAAAGG--A---A-A----G-GTATACTTTGTGTATACCATA
7147491 TGAAAAGGAAAGGTATACTTTGTGTATACCACT-
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA-TA
7147524 TGAAAAGGAAA
1 TGAAAAGGAAA
7147535 AGTACACTAT
Statistics
Matches: 76, Mismatches: 0, Indels: 24
0.76 0.00 0.24
Matches are distributed among these distances:
33 38 0.50
34 2 0.03
35 1 0.01
38 2 0.03
39 2 0.03
42 1 0.01
43 1 0.01
44 29 0.38
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:7147475 original size:11 final size:11
Alignment explanation
Indices: 7147459--7147486 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
7147449 AAAAGGAAAG
7147459 GTATACTTTGT
1 GTATACTTTGT
7147470 GTATACTTTGT
1 GTATACTTTGT
7147481 GTATAC
1 GTATAC
7147487 CATATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.18, T:0.50
Consensus pattern (11 bp):
GTATACTTTGT
Found at i:7147489 original size:44 final size:44
Alignment explanation
Indices: 7147426--7147519 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
7147416 AAAAGGAAAG
7147426 GTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGT
1 GTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGT
7147470 GTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGT
1 GTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGT
7147514 GTATAC
1 GTATAC
7147520 CACTTGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (44 bp):
GTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGT
Found at i:7147561 original size:32 final size:33
Alignment explanation
Indices: 7147482--7147563 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
7147472 ATACTTTGTG
* * * *
7147482 TATACCA-TATGAAAAGGAAAGGTATACTTTGTG
1 TATACCACT-TGAAAAGGAAAAGTACACTATGTA
7147515 TATACCACTTGAAAAGGAAAAGTACACTATGTA
1 TATACCACTTGAAAAGGAAAAGTACACTATGTA
*
7147548 TGTA-CACTTGAAAAGG
1 TATACCACTTGAAAAGG
7147564 TTATGTGCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.28
33 30 0.70
34 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (33 bp):
TATACCACTTGAAAAGGAAAAGTACACTATGTA
Found at i:7147595 original size:33 final size:32
Alignment explanation
Indices: 7147548--7147662 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 32
7147538 ACACTATGTA
* * *
7147548 TGTACACTTGAAAAGGTTATGTGCACTTTGTG
1 TGTACAATTGAAAAGGGTATGTGCACTTCGTG
*
7147580 TGTACAAATTGAAAAGGGTATGTACACTTCGTG
1 TGTAC-AATTGAAAAGGGTATGTGCACTTCGTG
* * * *
7147613 TGTACCACTTGAAAAGGGAATGTGCACGTCGAG
1 TGTA-CAATTGAAAAGGGTATGTGCACTTCGTG
7147646 TGTACAATTAGAAAAGG
1 TGTACAATT-GAAAAGG
7147663 AAAAGTCCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.13
33 60 0.86
34 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (32 bp):
TGTACAATTGAAAAGGGTATGTGCACTTCGTG
Found at i:7147595 original size:65 final size:65
Alignment explanation
Indices: 7147507--7147668 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 65
7147497 GGAAAGGTAT
* * **
7147507 ACTTTGTGTATACCACTTGAAAAGGAAAAGTACACTAT-GTATGTA-CACTTGAAAAGGTTATGT
1 ACTTTGTGTGTA-CAATTGAAAAGGAAAAGTACACT-TCGTATGTACCACTTGAAAAGGGAATGT
7147570 GC
64 GC
** * *
7147572 ACTTTGTGTGTACAAATTGAAAAGGGTATGTACACTTCGTGTGTACCACTTGAAAAGGGAATGTG
1 ACTTTGTGTGTAC-AATTGAAAAGGAAAAGTACACTTCGTATGTACCACTTGAAAAGGGAATGTG
7147637 C
65 C
* * *
7147638 ACGTCGAGTGTACAATTAGAAAAGGAAAAGT
1 ACTTTGTGTGTACAATT-GAAAAGGAAAAGT
7147669 CCATCAGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
64 2 0.03
65 39 0.49
66 38 0.48
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (65 bp):
ACTTTGTGTGTACAATTGAAAAGGAAAAGTACACTTCGTATGTACCACTTGAAAAGGGAATGTGC
Found at i:7150056 original size:264 final size:264
Alignment explanation
Indices: 7149578--7150112 Score: 921
Period size: 264 Copynumber: 2.0 Consensus size: 264
7149568 CTTAGCAGTT
*
7149578 ATAAA-TCCATAAAAGTAAATAATAACCCAAATTAAGTAAAAGTCCCAGAAAGTCCACAATATAC
1 ATAAACTCCATAAAAATAAATAATAACCCAAATTAAGTAAAAGTCCCAGAAAGTCCACAATATAC
7149642 ATAAAAAGTAACCCAAAGTATAATTAAAAATTAAATACCCAAAGTTAAAGTAAAAGTTTAGGTTT
66 ATAAAAAGTAACCCAAAGTATAATTAAAAATTAAATACCCAAAGTTAAAGTAAAAGTTTAGGTTT
* *
7149707 GTATGGCCACCGCCAAGTCTTCCGCTGCACCGATTCGTCAAGTCTGGGGATTACCTGCACAGATT
131 GTATGGCCACCGCCAAGTCCTCCGCTGCACCGATTCATCAAGTCTGGGGATTACCTGCACAGATT
* * * *
7149772 AAGCAAAAGGGGTGAGTTTATGTAAACTTAGTGTGTAAGTCCCTGTGCAAACAAACAAACAGTAT
196 AAGCAAAAGGGGTAAGTTTATGTAAACTCAGTGTGTAAGTCCCCGTACAAACAAACAAACAGTAT
7149837 ACAA
261 ACAA
** *
7149841 ATAAACTCCATAAAAATAAATAATAACCCAAATTAAGTAAAAGTCCCAGAAAGTCCGTAATTTAC
1 ATAAACTCCATAAAAATAAATAATAACCCAAATTAAGTAAAAGTCCCAGAAAGTCCACAATATAC
* * *
7149906 ATAAAAAGTAACCCAGAGTATACTTAAAAATTAAATACCCAAAGTTGAAGTAAAAGTTTAGGTTT
66 ATAAAAAGTAACCCAAAGTATAATTAAAAATTAAATACCCAAAGTTAAAGTAAAAGTTTAGGTTT
7149971 GTATGGCCTA-CGCCAAGTCCTCCGCTGCACCGATTCATCAAGTCTGGGGATTACCTGCACAGAT
131 GTATGGCC-ACCGCCAAGTCCTCCGCTGCACCGATTCATCAAGTCTGGGGATTACCTGCACAGAT
*
7150035 TAAGCAGAAGGGGTAAGTTTATGTAAACTCAGTGTGTAAGTCCCCGTACAAACAAACAAACAGTA
195 TAAGCAAAAGGGGTAAGTTTATGTAAACTCAGTGTGTAAGTCCCCGTACAAACAAACAAACAGTA
7150100 TACAA
260 TACAA
7150105 ATAAACTC
1 ATAAACTC
7150113 AATCTGGGCC
Statistics
Matches: 256, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
263 5 0.02
264 250 0.98
265 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (264 bp):
ATAAACTCCATAAAAATAAATAATAACCCAAATTAAGTAAAAGTCCCAGAAAGTCCACAATATAC
ATAAAAAGTAACCCAAAGTATAATTAAAAATTAAATACCCAAAGTTAAAGTAAAAGTTTAGGTTT
GTATGGCCACCGCCAAGTCCTCCGCTGCACCGATTCATCAAGTCTGGGGATTACCTGCACAGATT
AAGCAAAAGGGGTAAGTTTATGTAAACTCAGTGTGTAAGTCCCCGTACAAACAAACAAACAGTAT
ACAA
Found at i:7151571 original size:17 final size:17
Alignment explanation
Indices: 7151549--7151605 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
7151539 ACTAAATCCA
7151549 CTACTCAGAATCCCATT
1 CTACTCAGAATCCCATT
*
7151566 CTACTCACTAAAT-CCA--
1 CTACTCA--GAATCCCATT
7151582 CTACTCAGAATCCCATT
1 CTACTCAGAATCCCATT
*
7151599 TTACTCA
1 CTACTCA
7151606 AACTCTCACA
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 7 0.22
17 13 0.41
18 3 0.09
19 3 0.09
ACGTcount: A:0.32, C:0.35, G:0.04, T:0.30
Consensus pattern (17 bp):
CTACTCAGAATCCCATT
Found at i:7151579 original size:33 final size:33
Alignment explanation
Indices: 7151537--7151605 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
7151527 ATCAACCTCT
7151537 TCACTAAATCCACTACTCAGAATCCCATTCTAC
1 TCACTAAATCCACTACTCAGAATCCCATTCTAC
*
7151570 TCACTAAATCCACTACTCAGAATCCCATTTTAC
1 TCACTAAATCCACTACTCAGAATCCCATTCTAC
7151603 TCA
1 TCA
7151606 AACTCTCACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.29
Consensus pattern (33 bp):
TCACTAAATCCACTACTCAGAATCCCATTCTAC
Found at i:7151587 original size:16 final size:16
Alignment explanation
Indices: 7151537--7151588 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
7151527 ATCAACCTCT
7151537 TCACTAAATCCACTAC
1 TCACTAAATCCACTAC
*
7151553 TCA--GAATCCCATTCTAC
1 TCACTAAAT-CCA--CTAC
7151570 TCACTAAATCCACTAC
1 TCACTAAATCCACTAC
7151586 TCA
1 TCA
7151589 GAATCCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 10 0.34
17 7 0.24
18 3 0.10
19 3 0.10
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.27
Consensus pattern (16 bp):
TCACTAAATCCACTAC
Found at i:7157433 original size:19 final size:19
Alignment explanation
Indices: 7157409--7157445 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7157399 TAAGAAATGT
7157409 ATGTATTTTATTTTACCAC
1 ATGTATTTTATTTTACCAC
7157428 ATGTATTTTATTTTACCA
1 ATGTATTTTATTTTACCA
7157446 TATATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (19 bp):
ATGTATTTTATTTTACCAC
Found at i:7163502 original size:27 final size:27
Alignment explanation
Indices: 7163449--7163502 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
7163439 ATTTACTCTA
*
7163449 AAGATTTATTTATTACTAATATTAATT
1 AAGATTTATTTATTACTAATATAAATT
7163476 AAGATTTA-TTATTA-TAATCTATAAATT
1 AAGATTTATTTATTACTAA--TATAAATT
7163503 GATTTCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 6 0.25
27 15 0.62
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (27 bp):
AAGATTTATTTATTACTAATATAAATT
Found at i:7163565 original size:18 final size:18
Alignment explanation
Indices: 7163538--7163583 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
7163528 TAATATATAG
*
7163538 ATTGTAATAAAAACAAGA
1 ATTGTCATAAAAACAAGA
7163556 ATTGTCATAAAAACAAGA
1 ATTGTCATAAAAACAAGA
7163574 ATTGTCATAA
1 ATTGTCATAA
7163584 TTTATCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (18 bp):
ATTGTCATAAAAACAAGA
Found at i:7172603 original size:6 final size:6
Alignment explanation
Indices: 7172592--7172666 Score: 114
Period size: 6 Copynumber: 12.5 Consensus size: 6
7172582 AGTTTCACAT
* *
7172592 GTGAGA GTGAGA GAGAGA GTGAGA GTGAGA GTGAGA GTGAGA GCGAGA
1 GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA GTGAGA
* *
7172640 GCGAGA ATGAGA GTGAGA GTGAGA GTG
1 GTGAGA GTGAGA GTGAGA GTGAGA GTG
7172667 GGTACGAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.35, C:0.03, G:0.49, T:0.13
Consensus pattern (6 bp):
GTGAGA
Found at i:7176378 original size:2 final size:2
Alignment explanation
Indices: 7176371--7177148 Score: 1542
Period size: 2 Copynumber: 390.0 Consensus size: 2
7176361 ACACCATGCT
7176371 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176413 GA GA GA GA -A G- GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176453 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176495 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176537 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176579 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176621 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176663 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176705 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176747 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176789 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176831 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176873 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176915 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176957 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7176999 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7177041 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7177083 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7177125 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
7177149 AGGATGGAAA
Statistics
Matches: 774, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
1 2 0.00
2 772 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7181110 original size:46 final size:46
Alignment explanation
Indices: 7181058--7181183 Score: 182
Period size: 46 Copynumber: 2.7 Consensus size: 46
7181048 AGTGTGCTCT
7181058 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
*
7181104 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
* * * * *
7181150 ATGACA-GAAAATGAGTAAGACCGTAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
7181184 CACTATGGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 72 0.99
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
Found at i:7181192 original size:46 final size:46
Alignment explanation
Indices: 7181063--7181198 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
7181053 GCTCTCTGAT
* * *
7181063 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
7181109 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
7181155 A-GAAAATGAGTAAGACCGTAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7181199 TCAAAGATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:7181500 original size:16 final size:17
Alignment explanation
Indices: 7181479--7181511 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7181469 ATGATGGTGC
7181479 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
7181495 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
7181512 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:7182617 original size:46 final size:46
Alignment explanation
Indices: 7182544--7182775 Score: 376
Period size: 46 Copynumber: 5.0 Consensus size: 46
7182534 GGTCTTACTC
*
7182544 ATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTCA-TTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
*
7182590 ATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
* *
7182636 ATTCATTTCATGTCAGGTTACCATGGTATCTTTCAACCATGGTCTT
1 ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
7182682 ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
** * *
7182728 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
7182774 AT
1 AT
7182776 ATCAAGGTGC
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 169 0.98
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
ATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
Done.