Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 258 of 352
Found at i:85129069 original size:143 final size:143
Alignment explanation
Indices: 85128788--85129072 Score: 441
Period size: 143 Copynumber: 2.0 Consensus size: 143
85128778 ATGATAGTAA
* *
85128788 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTG
* * * *
85128853 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
66 ATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
85128918 ATATATGTGATAG
131 ATATATGTGATAG
85128931 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTG
1 GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTG
* * *
85128996 ATGAATGTGGAAGTGTATATATATG-TAACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 ATGAATGTGAAAGTGTATATATATGAT-A-A-GGCCGAATGGCCAACGTGATGAATGTGAAAGTG
85129060 TATA-A-ATGTGATA
128 TATATATATGTGATA
85129073 AGTCCCTAAG
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
142 1 0.01
143 95 0.73
144 2 0.02
145 32 0.25
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (143 bp):
GGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAACGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
ATATATGTGATAG
Found at i:85129249 original size:37 final size:37
Alignment explanation
Indices: 85129193--85129271 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
85129183 CCGAGCTCTA
* * *
85129193 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
85129230 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
85129267 AAGAC
1 AAGAC
85129272 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:85131103 original size:47 final size:47
Alignment explanation
Indices: 85131014--85131105 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 47
85131004 GGTAAGGTGC
* * *
85131014 CGATGCCATGTCCTAGACATGGTATTACGCTAGCTCATATCTCATGT
1 CGATGCCATGTCCCAGACATGGTATTACACTAACTCATATCTCATGT
* * *
85131061 CGATTCCATGTCCCAGACTTGGTCTTACACTAACT-ATCATCTCAT
1 CGATGCCATGTCCCAGACATGGTATTACACTAACTCAT-ATCTCAT
85131106 AACCGGTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 2 0.05
47 36 0.95
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTATTACACTAACTCATATCTCATGT
Found at i:85131164 original size:46 final size:47
Alignment explanation
Indices: 85131114--85131231 Score: 134
Period size: 46 Copynumber: 2.5 Consensus size: 47
85131104 ATAACCGGTA
* * *
85131114 CATGTCCCAGGCATGTCTTACACTTGCTTAC-C-TCTCAAGGCTAATG-
1 CATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAGGCCAATGC
* *
85131160 CATGTCTCAGACATGTCTTACACTAGCACTCGTCTCAATGCCAATGC
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCAATGC
*
85131207 CATGTCCTAGACATGGTCTTACACT
1 CATGTCCCAGACAT-GTCTTACACT
85131232 GGCTCTCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
46 36 0.59
47 12 0.20
48 10 0.16
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCAATGC
Found at i:85133030 original size:42 final size:42
Alignment explanation
Indices: 85132935--85133032 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 42
85132925 GCTCGTCACT
*
85132935 CACACGCCCATGTTTCGTCACACGGCCTACCACACAAGCGAC
1 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
*
85132977 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAGGCGAC
1 CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
*
85133019 CACACGTCCGTGTT
1 CACACGCCCGTGTT
85133033 GTGTCGACAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.22, C:0.42, G:0.19, T:0.16
Consensus pattern (42 bp):
CACACGCCCGTGTTTCGTCACACGGCCTACCACACAAGCGAC
Found at i:85136597 original size:99 final size:95
Alignment explanation
Indices: 85136475--85136757 Score: 326
Period size: 101 Copynumber: 3.0 Consensus size: 95
85136465 CTGGTACGCA
*
85136475 TAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGATACACATAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGGTACACATAGTAGCCTGCACTTA
85136540 GTACTACACACGTAACCTAACCATTTGATACACG
66 GTACTACACA--TAA-CTAACCATTTGATA-ACG
* * * * * *
85136574 TAGTAGCCTGCACTTACTGCTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGCGATC-AA-TTATCCGGTACACATAGTAGCCTGCACT
* * ** * *
85136639 TAGTACTACACATGACAAATTATCTGGT-ACG
64 TAGTACTACACATAACTAACCATTTGATAACG
* *
85136670 TAGTAGCCTGCACTTAGTACTACACATGCGACCACA--ATCCGGTACACGTAGTAGCCT-CACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGATCA-ATTATCCGGTACACATAGTAGCCTGCACTT
85136732 A-TACTACACATAA-TAACCATTTGATA
65 AGTACTACACATAACTAACCATTTGATA
85136758 GGCAGCCACA
Statistics
Matches: 153, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
90 7 0.05
91 11 0.07
92 6 0.04
93 18 0.12
95 1 0.01
96 32 0.21
98 8 0.05
99 31 0.20
100 2 0.01
101 37 0.24
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (95 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGATCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATAACTAACCATTTGATAACG
Found at i:85137313 original size:30 final size:29
Alignment explanation
Indices: 85137268--85137326 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
85137258 CCTTTAATAC
85137268 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTT-CCCCTA
* *
85137298 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTCCCCTA
85137327 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 19 0.73
31 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTCCCCTA
Found at i:85139395 original size:15 final size:15
Alignment explanation
Indices: 85139369--85139407 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
85139359 AACAGAAAAG
85139369 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
85139385 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
85139400 CCATGATA
1 CCAAGATA
85139408 CGAGAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:85142252 original size:50 final size:50
Alignment explanation
Indices: 85142139--85142432 Score: 335
Period size: 50 Copynumber: 5.9 Consensus size: 50
85142129 CTAGTACGCA
* * ** **
85142139 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
85142188 TAGTAGCCTGCACTTAGTACTACGA-ACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTAC-ACACGTGACCTAACCATTTGATACACG
*
85142238 TAGTAGCCTGCACTTAGTACAACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
* * * ** * * * *
85142288 TAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATTAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATTTGATACACG
* * * * * * *
85142339 TA-TAGCTTGCACTTAGTACTACACATGCGACC-AACAATCTGGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
85142387 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATA
85142433 GGCAGCCACA
Statistics
Matches: 203, Mismatches: 36, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
48 9 0.04
49 59 0.29
50 125 0.62
51 10 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
Found at i:85142984 original size:30 final size:30
Alignment explanation
Indices: 85142950--85143010 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
85142940 CCTTTAATAC
85142950 AAAC-TTTGACAAAATTAC-CATTTTGCCCCT
1 AAACTTTTG-CAAAATTACAC-TTTTGCCCCT
*
85142980 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
85143010 A
1 A
85143011 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:85145031 original size:46 final size:46
Alignment explanation
Indices: 85144963--85145122 Score: 221
Period size: 46 Copynumber: 3.5 Consensus size: 46
85144953 TATATATACA
* * * * * *
85144963 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
85145009 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
* * *
85145055 TATCTCATACGCATTTCGCATTAGCCATTCGGATTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
*
85145101 TATCTCATACACATTTCGCATT
1 CATCTCATACACATTTCGCATT
85145123 CATCACATTG
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.25, C:0.29, G:0.09, T:0.38
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTATCTCATATC
Found at i:85145174 original size:47 final size:47
Alignment explanation
Indices: 85145106--85145225 Score: 206
Period size: 47 Copynumber: 2.6 Consensus size: 47
85145096 ATATCTATCT
* * *
85145106 CATACACAT-TTCGCATTCATCACATTGGCCATTCGGCCTTATCGCA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
85145152 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
85145199 CATACGCATGTTCACATTCATCACATT
1 CATACGCATGTTCACATTCATCACATT
85145226 AAAATCCTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 8 0.11
47 62 0.89
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.31
Consensus pattern (47 bp):
CATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA
Found at i:85163587 original size:143 final size:143
Alignment explanation
Indices: 85163418--85163705 Score: 567
Period size: 143 Copynumber: 2.0 Consensus size: 143
85163408 GGACATCGAT
85163418 TGTTATTTTTTAATTAAGTATTATTAAGTCTTTATTGGTTTTGGCTTGTAATTTTTAATTATTTC
1 TGTTATTTTTTAATTAAGTATTATTAAGTCTTTATTGGTTTTGGCTTGTAATTTTTAATTATTTC
85163483 TGGTTTGTGGCTCGGTAGCTTTTCTTTTGGGGATTTTTGTGTGCATGAATTACACAAGCATAATA
66 TGGTTTGTGGCTCGGTAGCTTTTCTTTTGGGGATTTTTGTGTGCATGAATTACACAAGCATAATA
85163548 ACCGAATGATGCA
131 ACCGAATGATGCA
85163561 TGTTATTTTTTAATTAAGTATTATTAAGTCTTTATTGGTTTTGGCTTGTAATTTTTAATTATTTC
1 TGTTATTTTTTAATTAAGTATTATTAAGTCTTTATTGGTTTTGGCTTGTAATTTTTAATTATTTC
*
85163626 TGGTTTTTGGCTCGGTAGCTTTTCTTTTGGGGATTTTTGTGTGCATGAATTACACAAGCATAATA
66 TGGTTTGTGGCTCGGTAGCTTTTCTTTTGGGGATTTTTGTGTGCATGAATTACACAAGCATAATA
85163691 ACCGAATGATGCA
131 ACCGAATGATGCA
85163704 TG
1 TG
85163706 GTATCGAGCT
Statistics
Matches: 144, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (143 bp):
TGTTATTTTTTAATTAAGTATTATTAAGTCTTTATTGGTTTTGGCTTGTAATTTTTAATTATTTC
TGGTTTGTGGCTCGGTAGCTTTTCTTTTGGGGATTTTTGTGTGCATGAATTACACAAGCATAATA
ACCGAATGATGCA
Found at i:85170926 original size:42 final size:43
Alignment explanation
Indices: 85170879--85170968 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
85170869 AGATCATTTT
*
85170879 TGGGACA-TCGACATCG-TATTTGATTTCATGTAAGACC-CTGTC
1 TGGGACAGT-GACATCGATATTTGATTACATGTAAGACCAC-GTC
*
85170921 TGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACGTC
1 TGGGACAGTGACATCGATATTTGATTACATGTAAGACCACGTC
85170964 TGGGA
1 TGGGA
85170969 TGTTGGATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
42 13 0.30
43 29 0.67
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TGGGACAGTGACATCGATATTTGATTACATGTAAGACCACGTC
Found at i:85172933 original size:27 final size:27
Alignment explanation
Indices: 85172898--85172952 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
85172888 TGAGAGATAC
85172898 AGCGTATTATTGGTGGAAGACGTTGAT
1 AGCGTATTATTGGTGGAAGACGTTGAT
85172925 AGCGTATTATTGGTGGAAGACGTTGAT
1 AGCGTATTATTGGTGGAAGACGTTGAT
85172952 A
1 A
85172953 TCAGTGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.33, T:0.33
Consensus pattern (27 bp):
AGCGTATTATTGGTGGAAGACGTTGAT
Found at i:85176010 original size:46 final size:46
Alignment explanation
Indices: 85175957--85176046 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
85175947 ACAACTCAAC
*
85175957 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGGACGGCTAAA
1 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTAAA
*
85176003 GGCCGTAAATATTACAGCAACGCTGCCAGTTGACAGAACGGCTA
1 GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTA
85176047 TAAGCCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (46 bp):
GGCCGTAAATATTACAGCAACGCTGCCAGTTAACAGAACGGCTAAA
Found at i:85176303 original size:27 final size:27
Alignment explanation
Indices: 85176255--85176307 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
85176245 CATTCTACCA
* *
85176255 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAGTCATTTTACAC
* *
85176282 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
85176308 AACTGAGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAC
Found at i:85180788 original size:43 final size:42
Alignment explanation
Indices: 85180706--85180814 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
85180696 GATTAGAGAT
* * * *
85180706 TTACGTGTAAGACCATTTCTGGGACATTGGCATCATATTTGA
1 TTACATGTAAGACCATATCTGGGAAAGTGGCATCATATTTGA
* *
85180748 TTTCATGTAAGACCCTATCTGGGAAAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATATCTGGGAAAGTGGCATC-ATATTTGA
* **
85180791 TTACATGTAATACCACGTCTGGGA
1 TTACATGTAAGACCATATCTGGGA
85180815 CGTTGGCATT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 28 0.51
43 27 0.49
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATATCTGGGAAAGTGGCATCATATTTGA
Found at i:85180822 original size:43 final size:43
Alignment explanation
Indices: 85180667--85180823 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
85180657 TGTGATTTCG
** *
85180667 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TAGAGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-TTGA-TTACA
** * *
85180711 TGTAAGACCATTTCTGGGACATTGGCATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
85180753 TGTAAGACC-CTATCTGGGAAAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGG-ACGTTGGCATCGATATTTGATTACA
*
85180796 TGTAATACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
85180824 TCTACGAGCT
Statistics
Matches: 92, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.29
43 37 0.40
44 28 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:85182997 original size:31 final size:31
Alignment explanation
Indices: 85182959--85183019 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
85182949 GCGACCATAT
*
85182959 TCGCCTTTCCCTGGTGGTAGTCAATCACTAG
1 TCGCCTTTCCCCGGTGGTAGTCAATCACTAG
*
85182990 TCGCCTTTCCCCGGTTGTAGTCAATCACTA
1 TCGCCTTTCCCCGGTGGTAGTCAATCACTA
85183020 ACTCGTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (31 bp):
TCGCCTTTCCCCGGTGGTAGTCAATCACTAG
Found at i:85188836 original size:19 final size:20
Alignment explanation
Indices: 85188812--85188849 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
85188802 GGTACCACCA
85188812 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
85188831 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
85188850 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:85189189 original size:93 final size:93
Alignment explanation
Indices: 85189079--85189249 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
85189069 GCCCCTATGT
*
85189079 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
85189144 CGACTTCGGATGCCTAGTTACAACTCAC
66 CGACTTCGGATGCCTAGTTACAACTCAC
* * * *
85189172 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
85189237 CGAGTTCGGATGC
66 CGACTTCGGATGC
85189250 TCATCCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGACTTCGGATGCCTAGTTACAACTCAC
Found at i:85189246 original size:46 final size:46
Alignment explanation
Indices: 85189077--85189246 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
85189067 CCGCCCCTAT
* * *
85189077 GTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
* * * * * * *
85189123 ATGAACTCAGACTCAACTCAACGACTTCGGATGCCTAGTTACA-AC-TCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCATAA
*
85189171 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
85189216 GTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGA
85189247 TGCTCATCCA
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 55 0.56
47 27 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAA
Found at i:85189265 original size:46 final size:46
Alignment explanation
Indices: 85189077--85189265 Score: 149
Period size: 46 Copynumber: 4.1 Consensus size: 46
85189067 CCGCCCCTAT
* * * *
85189077 GTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTC-GGCATGCTCATCCATCTA
* * * * *
85189123 ATGAACTCAGACTCAACTCAACGACTTCGG-ATGC-CTAGTTACAACTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTC-A--TCCATCT-A
* * *
85189171 -CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG-CATGCT-CATCCATCTA
85189216 GTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCATCCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTCATCCAT-CTA
85189262 GTGA
1 GTGA
85189266 CATGTCATTT
Statistics
Matches: 112, Mismatches: 18, Indels: 26
0.72 0.12 0.17
Matches are distributed among these distances:
43 1 0.01
44 13 0.12
45 4 0.04
46 60 0.54
47 29 0.26
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGCATGCTCATCCATCTA
Found at i:85189703 original size:31 final size:30
Alignment explanation
Indices: 85189668--85189728 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
85189658 ATTTAATACG
85189668 AACTTTAAAAAAAATTACACTTTTGCCCCTA
1 AACTTT-AAAAAAATTACACTTTTGCCCCTA
*** *
85189699 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
85189729 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:85191651 original size:6 final size:6
Alignment explanation
Indices: 85191640--85191898 Score: 234
Period size: 6 Copynumber: 42.8 Consensus size: 6
85191630 AACCAAAATG
* *
85191640 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATT AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
85191688 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
85191737 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGA-ATC
* * *
85191785 AGTAA-C AGAATC AGAATC AGAATC AGAATT AGGTGAT- AGAATA AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* *
85191834 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
85191882 AGAA-C TAGAATC AGAAT
1 AGAATC -AGAATC AGAAT
85191899 TAGGTGATAG
Statistics
Matches: 211, Mismatches: 18, Indels: 48
0.76 0.06 0.17
Matches are distributed among these distances:
5 18 0.09
6 174 0.82
7 14 0.07
8 5 0.02
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:85191655 original size:30 final size:29
Alignment explanation
Indices: 85191619--85191923 Score: 255
Period size: 30 Copynumber: 10.1 Consensus size: 29
85191609 AAGAAACATT
* * *
85191619 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
* *
85191649 ATCAGAATCAGTAACAGAATCAGAATTAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
85191679 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
*
85191709 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
*
85191740 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
85191770 ATCAGAATCAATATTAGTAACAGAATCAGAATCAGA
1 ATCAG-----A-ATT-GTAACAGAATCAGAATCAGA
* * *
85191806 ATCAGAATTAGGTGATAGAATAAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
85191837 ATC---A--GTAACAGAATCAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
85191861 ATCAGTATTAGTAACAGAATCAGAA-CTAGA
1 ATCAGAATT-GTAACAGAATCAGAATC-AGA
* * *
85191891 ATCAGAATTAGGTGATAGAATCAAAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
85191922 AT
1 AT
85191924 GTGAATGCAA
Statistics
Matches: 228, Mismatches: 24, Indels: 45
0.77 0.08 0.15
Matches are distributed among these distances:
24 20 0.09
27 1 0.00
28 1 0.00
29 2 0.01
30 106 0.46
31 69 0.30
32 1 0.00
35 1 0.00
36 27 0.12
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:85191740 original size:85 final size:85
Alignment explanation
Indices: 85191640--85191923 Score: 408
Period size: 91 Copynumber: 3.2 Consensus size: 85
85191630 AACCAAAATG
85191640 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
85191705 CAGAATCAGAATTAGGTGACAGAAT
66 CAGAATCAGAATTAGGT----G-AT
85191730 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAA
1 -AGAATCAGAATCAGAATCAGTAACAGAATCAGAAT-----T-AGAATCAATATTAGTAACAGAA
85191795 TCAGAATCAGAATCAGAATTAGGTGAT
59 TCAGAATCAGAATCAGAATTAGGTGAT
* * *
85191822 AGAATAAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAA-
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
85191886 CTAGAATCAGAATTAGGTGAT
66 C-AGAATCAGAATTAGGTGAT
*
85191907 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
85191924 GTGAATGCAA
Statistics
Matches: 181, Mismatches: 5, Indels: 20
0.88 0.02 0.10
Matches are distributed among these distances:
84 1 0.01
85 61 0.34
91 69 0.38
92 2 0.01
93 1 0.01
96 1 0.01
97 46 0.25
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAT
Found at i:85191793 original size:97 final size:96
Alignment explanation
Indices: 85191640--85191923 Score: 398
Period size: 97 Copynumber: 3.1 Consensus size: 96
85191630 AACCAAAATG
*
85191640 AGAATCAGAATCAG-AATCAGTAA-CAGAATCAGAATTAGAATCAATATTAGTAACAGAATCAGA
1 AGAATCAGAATCAGTAA-CAG-AATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGA
85191703 ATCAGAATCAGAATTAGGTGACAGAATCAGAATC
64 ATCAGAATCAGAATTAGGTGA-AGAATCAGAATC
85191737 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
85191802 CAGAATCAGAATTAGGT---G-AT-AGAATA
66 CAGAATCAGAATTAGGTGAAGAATCAGAATC
85191828 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAG------TATTAGTAACAGAATCAGAA-
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
85191886 CTAGAATCAGAATTAGGTGATAGAATCAAAATC
66 C-AGAATCAGAATTAGGTGA-AGAATCAGAATC
85191919 AGAAT
1 AGAAT
85191924 GTGAATGCAA
Statistics
Matches: 174, Mismatches: 4, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
84 1 0.01
85 36 0.21
89 1 0.01
90 2 0.01
91 52 0.30
92 2 0.01
93 1 0.01
96 2 0.01
97 75 0.43
98 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (96 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAAGAATCAGAATC
Found at i:85192078 original size:27 final size:26
Alignment explanation
Indices: 85192041--85192106 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
85192031 AGCATAGCTG
*
85192041 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
85192067 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
85192094 CCAGAATCAGATA
1 CCAGAA-CAGATA
85192107 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:85192111 original size:27 final size:27
Alignment explanation
Indices: 85192041--85192114 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
85192031 AGCATAGCTG
* *
85192041 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
85192067 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
85192094 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
85192115 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:85192121 original size:27 final size:27
Alignment explanation
Indices: 85192065--85192122 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
85192055 GTGACAGAGT
* * *
85192065 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
85192092 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
85192119 CACC
1 CACC
85192123 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:85192461 original size:27 final size:28
Alignment explanation
Indices: 85192428--85192506 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 28
85192418 ATCGGTCAAT
*
85192428 AGATATTGTGACAGAGTCACCA-AATAC
1 AGATATTGTGACAGAGCCACCAGAATAC
*
85192455 AGATATTGTGGCAGAGCCACCAGAAT--
1 AGATATTGTGACAGAGCCACCAGAATAC
* *
85192481 AGATATTTGTGGCATAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGAA
85192507 CGCTTCCTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
26 5 0.11
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (28 bp):
AGATATTGTGACAGAGCCACCAGAATAC
Found at i:85192833 original size:53 final size:54
Alignment explanation
Indices: 85192705--85192873 Score: 216
Period size: 54 Copynumber: 3.1 Consensus size: 54
85192695 AGGGGCAAAA
* * * *
85192705 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* *
85192759 CGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
* * * *
85192812 TGGTAATTCTATCCTATAAGGGTATTTC-AGTAATTCTACCCTATAGGGGTCTTT
1 TGGTAATTCTACCCTACAAGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTT
*
85192866 TAGTAATT
1 TGGTAATT
85192874 TCACAATCAA
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
52 1 0.01
53 46 0.46
54 53 0.53
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
Found at i:85192861 original size:27 final size:27
Alignment explanation
Indices: 85192706--85192854 Score: 201
Period size: 27 Copynumber: 5.6 Consensus size: 27
85192696 GGGGCAAAAT
* * *
85192706 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
85192733 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
85192760 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
85192787 GATAATTCTACCCTAC-AGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
85192813 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
85192840 AGTAATTCTACCCTA
1 GGTAATTCTACCCTA
85192855 TAGGGGTCTT
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 22 0.21
27 84 0.79
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:85192870 original size:27 final size:27
Alignment explanation
Indices: 85192707--85192873 Score: 158
Period size: 27 Copynumber: 6.2 Consensus size: 27
85192697 GGGCAAAATG
* * * **
85192707 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTTA
* **
85192734 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTTA
* *
85192761 GTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTCTACCCTACAAGGGTATTTTA
*
85192787 GATAATTCTACCCTAC-AGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTTA
* * *
85192814 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTTA
* * *
85192841 GTAATTCTACCCTATAGGGGTCTTTTA
1 GTAATTCTACCCTACAAGGGTATTTTA
85192868 GTAATT
1 GTAATT
85192874 TCACAATCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 21 0.18
27 98 0.82
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTTA
Found at i:85192873 original size:80 final size:80
Alignment explanation
Indices: 85192707--85192873 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
85192697 GGGCAAAATG
* * * *
85192707 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
*
85192772 CTACAAGGGTATTTC
66 CTACAAGGGTATTTA
* * * * *
85192787 GATAATTCTACCCTAC-AGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTAC
1 G-TAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC
* * *
85192851 CCTATAGGGGTCTTTTA
65 CCTACAAGGGT-ATTTA
85192868 GTAATT
1 GTAATT
85192874 TCACAATCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 56 0.78
81 16 0.22
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (80 bp):
GTAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACC
CTACAAGGGTATTTA
Found at i:85192886 original size:53 final size:53
Alignment explanation
Indices: 85192721--85192888 Score: 175
Period size: 53 Copynumber: 3.2 Consensus size: 53
85192711 TTTTACCCCA
* * **
85192721 CAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT-ATTTCTACCCT
1 CAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTTGGTAATTTCTACAAT
*
85192774 ACAAGGGTATTTCGATAATTCTACCCTACA-GGGTATTTTGGTAA-TTCTATCCTAT
1 -CAAGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTTGGTAATTTCTA--CAAT
* * *
85192829 -AAGGGTATTTCAGTAATTCTACCCTATAGGGGTCTTTTAGTAATTTC-ACAAT
1 CAAGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTTGGTAATTTCTACAAT
85192881 CAAGGGTA
1 CAAGGGTA
85192889 AAATGGTAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 17
0.80 0.07 0.14
Matches are distributed among these distances:
52 3 0.03
53 49 0.50
54 41 0.42
55 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (53 bp):
CAAGGGTATTTCGTAATTCTACCCTACAGGGGTATTTTGGTAATTTCTACAAT
Found at i:85192908 original size:27 final size:27
Alignment explanation
Indices: 85192878--85193206 Score: 439
Period size: 27 Copynumber: 12.2 Consensus size: 27
85192868 GTAATTTCAC
* *
85192878 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
85192905 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
85192932 AA-CTGAGGGTAAACCAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
85192959 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
85192986 AATCGAGGATAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
85193013 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
85193040 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
85193067 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
85193094 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
85193121 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
85193148 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
85193175 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
85193202 AATCG
1 AATCG
85193207 GGAGTACTTT
Statistics
Matches: 262, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.01
27 256 0.98
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:85194987 original size:6 final size:6
Alignment explanation
Indices: 85194976--85195079 Score: 63
Period size: 6 Copynumber: 17.3 Consensus size: 6
85194966 CTTTTCTTAG
* * * * *
85194976 TTTTAT TTTTAT TTCTCAT TTTTAT CTTTGT CTTTAAT TTTTA- TTTAAT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT
* * * *
85195025 TTTGAT TTTAAT ATTTAAT TTTGA- TTTTAT TTTT-T ATTTTA- TTTTAT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
85195072 TTTTAT TT
1 TTTTAT TT
85195080 ATTTTAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
5 14 0.18
6 49 0.64
7 14 0.18
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (6 bp):
TTTTAT
Found at i:85194998 original size:19 final size:18
Alignment explanation
Indices: 85194976--85195079 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
85194966 CTTTTCTTAG
*
85194976 TTTTATTTTTATTTCTCAT
1 TTTTATTTTTATTT-TGAT
* * *
85194995 TTTTATCTTTGTCTTTAAT
1 TTTTATTTTTAT-TTTGAT
*
85195014 TTTTA-TTTAATTTTGAT
1 TTTTATTTTTATTTTGAT
* *
85195031 TTTAATATTTAATTTTGA-
1 TTTTAT-TTTTATTTTGAT
85195049 TTTTATTTTTTATTTT-A-
1 TTTTA-TTTTTATTTTGAT
85195066 TTTTATTTTTATTT
1 TTTTATTTTTATTT
85195080 ATTTTAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
16 9 0.13
17 15 0.21
18 15 0.21
19 30 0.42
20 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTATTTTTATTTTGAT
Found at i:85195024 original size:11 final size:11
Alignment explanation
Indices: 85195008--85195084 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
85194998 TATCTTTGTC
85195008 TTTAATTTTTA
1 TTTAATTTTTA
*
85195019 TTTAATTTTGA
1 TTTAATTTTTA
*
85195030 TTTTAATATTTAA
1 -TTTAAT-TTTTA
*
85195043 TTTTGA-TTTTA
1 -TTTAATTTTTA
**
85195054 TTTTTTATTTTA
1 TTTAAT-TTTTA
*
85195066 TTTTATTTTTA
1 TTTAATTTTTA
85195077 TTT-ATTTT
1 TTTAATTTT
85195085 AATAAAGGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 8 0.15
11 22 0.40
12 16 0.29
13 9 0.16
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTAATTTTTA
Found at i:85198036 original size:14 final size:14
Alignment explanation
Indices: 85198017--85198063 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
85198007 AATCATTTAA
85198017 AATATTGATAAACT
1 AATATTGATAAACT
85198031 AATATTGATAAACT
1 AATATTGATAAACT
*
85198045 AATATTGATAAACC
1 AATATTGATAAACT
85198059 AATAT
1 AATAT
85198064 ACTAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (14 bp):
AATATTGATAAACT
Found at i:85201208 original size:40 final size:40
Alignment explanation
Indices: 85201152--85201369 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
85201142 TGGAAGATAA
* * * *
85201152 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-GT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
85201191 CTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 C-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
85201232 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
85201272 CCGGGCTAAGTCCCAAAGGCATTCGTTCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
85201312 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
85201352 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
85201370 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.89
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:85209464 original size:40 final size:40
Alignment explanation
Indices: 85209409--85209626 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 40
85209399 TGGATGATAA
* * * * *
85209409 CCGGGCTAAGTCCCGAAGGAATTTGCGCTAGTGACTAGT-C
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
85209449 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
85209489 TCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
85209529 CCGAGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
85209569 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
85209609 TC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
85209627 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.90
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:85214682 original size:18 final size:18
Alignment explanation
Indices: 85214636--85214682 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
85214626 GAAATGAAAG
**
85214636 AAAGAGAACATGCAAAATTA
1 AAAGAGAA-A-GCAAAAGAA
85214656 AAA-AGAAAGCAAAAGAA
1 AAAGAGAAAGCAAAAGAA
85214673 AAAGAGAAAG
1 AAAGAGAAAG
85214683 AAGAGAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 10 0.42
18 7 0.29
19 4 0.17
20 3 0.12
ACGTcount: A:0.68, C:0.06, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAGAGAAAGCAAAAGAA
Found at i:85217331 original size:42 final size:43
Alignment explanation
Indices: 85217273--85217384 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
85217263 ATCAATTTGA
* * * *
85217273 GATTTACGTGTAAGACCATGTCTGGGACATCGGTAT-AGTATTT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGCAGCATCAATATTT
* *
85217316 GATTTCGTGTAAGACCCTGGCTGGGACAGCAGCATCAATATTT
1 GATTTCGTGTAAGACCATGTCTGGGACAGCAGCATCAATATTT
* * *
85217359 GATTACATGTAAGACCACGTCTGGGA
1 GATTTCGTGTAAGACCATGTCTGGGA
85217385 TGTTGTCATT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGCAGCATCAATATTT
Found at i:85227535 original size:29 final size:29
Alignment explanation
Indices: 85227503--85227558 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
85227493 AACCATCTAG
*
85227503 TCAAAAATATTTCTTCAGAACCCATCCCC
1 TCAAAAATATTTCTTCAAAACCCATCCCC
* * *
85227532 TCAAAACTATTTTTTCAAAATCCATCC
1 TCAAAAATATTTCTTCAAAACCCATCC
85227559 TGTACAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (29 bp):
TCAAAAATATTTCTTCAAAACCCATCCCC
Found at i:85232846 original size:19 final size:18
Alignment explanation
Indices: 85232811--85232846 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
85232801 GAAGCAAGCA
*
85232811 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
85232829 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
85232847 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:85235671 original size:14 final size:16
Alignment explanation
Indices: 85235642--85235673 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
85235632 TTTTCTATCC
85235642 TATTTTGATAATTATT
1 TATTTTGATAATTATT
85235658 TATTTT-AT-ATTATT
1 TATTTTGATAATTATT
85235672 TA
1 TA
85235674 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TATTTTGATAATTATT
Found at i:85235678 original size:26 final size:26
Alignment explanation
Indices: 85235612--85235678 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
85235602 ACTTTAACAA
*
85235612 ATATTATTTCAATAATTAATTTTTCT
1 ATATTATTTAAATAATTAATTTTTCT
** ** *
85235638 ATCCTATTTTGATAATT-ATTTATTTT
1 ATATTATTTAAATAATTAATTT-TTCT
85235664 ATATTATTTAAATAA
1 ATATTATTTAAATAA
85235679 AAAAACTCGT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
ATATTATTTAAATAATTAATTTTTCT
Found at i:85235818 original size:46 final size:46
Alignment explanation
Indices: 85235750--85235841 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
85235740 ATAGGTGATG
*
85235750 TTGGTACTTACTAATTACGTGAACTCTTTTATCAAATTACATTAAT
1 TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
** *
85235796 TTGGTACTTGTTAATTATGTGAAATCTTTTATCAAATTACATTAAT
1 TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
85235842 ATATTAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.46
Consensus pattern (46 bp):
TTGGTACTTACTAATTACGTGAAATCTTTTATCAAATTACATTAAT
Found at i:85236459 original size:22 final size:22
Alignment explanation
Indices: 85236383--85236468 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 22
85236373 ATTTTTTTAT
85236383 ATTTTAAATAA-AAATAAAAATATA
1 ATTTT-AATAATAAATAAAAA--TA
* * *
85236407 ATTTT--TAAAAAATAAAAGTT
1 ATTTTAATAATAAATAAAAATA
* *
85236427 A-TGTAAAAATAAATAAAAATA
1 ATTTTAATAATAAATAAAAATA
85236448 ATTTTAATAATATAA-AAAAAT
1 ATTTTAATAATA-AATAAAAAT
85236469 CTTAAATTCG
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 2 0.04
20 2 0.04
21 15 0.31
22 22 0.46
23 2 0.04
24 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATTTTAATAATAAATAAAAATA
Found at i:85236473 original size:19 final size:19
Alignment explanation
Indices: 85236434--85236473 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
85236424 GTTATGTAAA
*
85236434 AATAAATAAAAATAATTTT
1 AATAAATAAAAATAATCTT
85236453 AATAATATAAAAA-AATCTT
1 AATAA-ATAAAAATAATCTT
85236472 AA
1 AA
85236474 ATTCGTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAAATAAAAATAATCTT
Found at i:85236891 original size:30 final size:29
Alignment explanation
Indices: 85236857--85236929 Score: 76
Period size: 33 Copynumber: 2.3 Consensus size: 29
85236847 GTGAGCTGAC
85236857 TTGATCTTTTATTATTTTACA-AGGACTTAA
1 TTGAT-TTTTATTATTTTA-AGAGGACTTAA
*
85236887 TTGATTTTTTTAAATTATTTTAAGAGGGCTTAA
1 TTGA--TTTTT--ATTATTTTAAGAGGACTTAA
85236920 TTGATTTTTA
1 TTGATTTTTA
85236930 AGGATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
29 1 0.03
30 4 0.11
31 9 0.24
32 2 0.05
33 21 0.57
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.53
Consensus pattern (29 bp):
TTGATTTTTATTATTTTAAGAGGACTTAA
Found at i:85236937 original size:33 final size:32
Alignment explanation
Indices: 85236867--85236928 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
85236857 TTGATCTTTT
85236867 ATTATTTTACAAGGACTTAATTGATTTTTTTAA
1 ATTATTTTACAAGGACTTAATTGA-TTTTTTAA
*
85236900 ATTATTTTA-AGAGGGCTTAATTGATTTTT
1 ATTATTTTACA-AGGACTTAATTGATTTTT
85236929 AAGGATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTATTTTACAAGGACTTAATTGATTTTTTAA
Found at i:85236969 original size:11 final size:9
Alignment explanation
Indices: 85236937--85237011 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
85236927 TTAAGGATTA
85236937 TATAAAATT
1 TATAAAATT
85236946 CT-TAAAAATT
1 -TAT-AAAATT
85236956 TATTAAAATAT
1 TA-TAAAAT-T
85236967 TATAAAATT
1 TATAAAATT
85236976 T-TGAAAATT
1 TAT-AAAATT
* *
85236985 ATAGAAAATG
1 -TATAAAATT
85236995 TATAAAATT
1 TATAAAATT
*
85237004 TATTAAAT
1 TATAAAAT
85237012 ATAATAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
8 1 0.02
9 24 0.45
10 24 0.45
11 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (9 bp):
TATAAAATT
Found at i:85236999 original size:28 final size:29
Alignment explanation
Indices: 85236937--85237004 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 29
85236927 TTAAGGATTA
85236937 TATAAAATTCTTAAAAATTTATTAAAATAT
1 TATAAAATT-TTAAAAATTTATTAAAATAT
*
85236967 TATAAAATTTTGAAAA-TTA-TAGAAA-AT
1 TATAAAATTTTAAAAATTTATTA-AAATAT
85236994 GTATAAAATTT
1 -TATAAAATTT
85237005 ATTAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
27 4 0.11
28 16 0.46
29 6 0.17
30 9 0.26
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.41
Consensus pattern (29 bp):
TATAAAATTTTAAAAATTTATTAAAATAT
Found at i:85237058 original size:10 final size:10
Alignment explanation
Indices: 85236937--85237063 Score: 58
Period size: 10 Copynumber: 13.3 Consensus size: 10
85236927 TTAAGGATTA
*
85236937 TATAAAATTCT
1 TATAAAA-TAT
85236948 TA-AAAAT-T
1 TATAAAATAT
85236956 TATTAAAATAT
1 TA-TAAAATAT
85236967 TATAAAAT-T
1 TATAAAATAT
*
85236976 T-TGAAA-AT
1 TATAAAATAT
85236984 TATAGAAA-AT
1 TATA-AAATAT
85236994 GTATAAAAT-T
1 -TATAAAATAT
*
85237004 TATTAAATA-
1 TATAAAATAT
*
85237013 TA-ATAATAT
1 TATAAAATAT
* *
85237022 TTTAAAAAAT
1 TATAAAATAT
* *
85237032 TAGAAAA-AC
1 TATAAAATAT
* *
85237041 TATTAAATGT
1 TATAAAATAT
85237051 TATAAAATAT
1 TATAAAATAT
85237061 TAT
1 TAT
85237064 TAATTTGTTA
Statistics
Matches: 87, Mismatches: 17, Indels: 25
0.67 0.13 0.19
Matches are distributed among these distances:
8 13 0.15
9 20 0.23
10 45 0.52
11 9 0.10
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (10 bp):
TATAAAATAT
Found at i:85237059 original size:47 final size:47
Alignment explanation
Indices: 85236950--85237060 Score: 125
Period size: 47 Copynumber: 2.3 Consensus size: 47
85236940 AAAATTCTTA
* * * **
85236950 AAAATTTATTAAAATATTATAAAATTTTGAAAATTATAGAAAATGTAT
1 AAAATTTA-TAAAATATAATAAAATTTTAAAAAATATAGAAAAACTAT
* *
85236998 AAAATTTATTAAATATAATAATATTTTAAAAAAT-TAGAAAAACTAT
1 AAAATTTATAAAATATAATAAAATTTTAAAAAATATAGAAAAACTAT
*
85237044 TAAATGTTATAAAATAT
1 AAAAT-TTATAAAATAT
85237061 TATTAATTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
46 14 0.26
47 31 0.58
48 8 0.15
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.39
Consensus pattern (47 bp):
AAAATTTATAAAATATAATAAAATTTTAAAAAATATAGAAAAACTAT
Found at i:85237111 original size:9 final size:9
Alignment explanation
Indices: 85237093--85237194 Score: 55
Period size: 10 Copynumber: 10.8 Consensus size: 9
85237083 AAAATATTAA
*
85237093 ATAAATATT
1 ATAAAAATT
85237102 ATAAAAA-T
1 ATAAAAATT
* *
85237110 -TAGAAATG
1 ATAAAAATT
85237118 ATAGAAAATTAT
1 ATA-AAAA-T-T
*
85237130 ATAAAAATA
1 ATAAAAATT
* *
85237139 ATTAAAATG
1 ATAAAAATT
85237148 ATAAAAAATCT
1 AT-AAAAAT-T
85237159 ATAAAAATT
1 ATAAAAATT
85237168 AATAAAAACTT
1 -ATAAAAA-TT
* *
85237179 ATTAAAAGT
1 ATAAAAATT
85237188 ATAAAAA
1 ATAAAAA
85237195 GTTGTAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
7 5 0.07
8 1 0.01
9 25 0.35
10 28 0.39
11 9 0.13
12 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (9 bp):
ATAAAAATT
Found at i:85237149 original size:30 final size:30
Alignment explanation
Indices: 85237107--85237175 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
85237097 ATATTATAAA
*
85237107 AATTAGAAATGATAGAAAAT-TATATAAAAAT
1 AATTA-AAATGATAAAAAATCTATA-AAAAAT
*
85237138 AATTAAAATGATAAAAAATCTATAAAAATT
1 AATTAAAATGATAAAAAATCTATAAAAAAT
*
85237168 AATAAAAA
1 AATTAAAA
85237176 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 25 0.74
31 9 0.26
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.28
Consensus pattern (30 bp):
AATTAAAATGATAAAAAATCTATAAAAAAT
Found at i:85237526 original size:20 final size:20
Alignment explanation
Indices: 85237477--85237527 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
85237467 GTAGTAATAT
85237477 TTATTAAAAAGTT--TAAAAA
1 TTATTAAAAA-TTAGTAAAAA
*
85237496 TTATTAGAAATTAGTAAAATA
1 TTATTAAAAATTAGTAAAA-A
85237517 TTA-TAAAAATT
1 TTATTAAAAATT
85237528 TATATAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 12 0.44
21 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (20 bp):
TTATTAAAAATTAGTAAAAA
Found at i:85239810 original size:14 final size:14
Alignment explanation
Indices: 85239791--85239820 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85239781 TCAATATTAC
85239791 AAAATTAAATTATA
1 AAAATTAAATTATA
*
85239805 AAAATTAAATTTTA
1 AAAATTAAATTATA
85239819 AA
1 AA
85239821 TTTCAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTAAATTATA
Found at i:85239820 original size:21 final size:22
Alignment explanation
Indices: 85239795--85239842 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
85239785 TATTACAAAA
85239795 TTAAATTATAAAAATTAA-AT-T
1 TTAAATT-TAAAAATTAACATAT
*
85239816 TTAAATTTCAAAATTAACATAT
1 TTAAATTTAAAAATTAACATAT
85239838 TTAAA
1 TTAAA
85239843 CCTGAAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 9 0.38
22 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAATTTAAAAATTAACATAT
Found at i:85241877 original size:46 final size:46
Alignment explanation
Indices: 85241827--85242000 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 46
85241817 TGGTTGAGCA
*
85241827 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85241873 TCCGAACTCGTTGAGTTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAG-TTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
85241919 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
85241967 -CTTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
85242001 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 46 0.44
47 28 0.27
48 17 0.16
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85247147 original size:93 final size:93
Alignment explanation
Indices: 85247035--85247206 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
85247025 CGCCCATAAG
* *
85247035 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85247100 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
85247128 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
85247193 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
85247207 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:85247203 original size:46 final size:46
Alignment explanation
Indices: 85247028--85247203 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
85247018 TGTAACCCGC
* * * *
85247028 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
85247074 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
85247124 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
85247167 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
85247204 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.57
47 29 0.26
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:85247222 original size:46 final size:46
Alignment explanation
Indices: 85247036--85247222 Score: 140
Period size: 46 Copynumber: 4.0 Consensus size: 46
85247026 GCCCATAAGC
* ** * *
85247036 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
85247082 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * *
85247129 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGT
85247175 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
85247221 GA
1 GA
85247223 CATGTCACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 34
0.71 0.08 0.22
Matches are distributed among these distances:
44 8 0.07
45 2 0.02
46 61 0.54
47 31 0.28
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:85252239 original size:46 final size:46
Alignment explanation
Indices: 85252189--85252361 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
85252179 TGGTTGAGCA
85252189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85252235 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
85252280 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
85252328 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
85252362 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, 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 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:85252345 original size:93 final size:93
Alignment explanation
Indices: 85252186--85252356 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
85252176 GGATGGTTGA
* *
85252186 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85252251 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
85252279 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85252344 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
85252357 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:85259160 original size:6 final size:6
Alignment explanation
Indices: 85259149--85259174 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
85259139 TAAACACTTT
85259149 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
85259175 TGTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:85259411 original size:87 final size:89
Alignment explanation
Indices: 85259270--85259439 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 89
85259260 TGGTAACAGT
* * * *
85259270 GTATGGTAAGACTAGGGATCTAAATAAATATACAAAATACAAATAGATAAATATAACTAGATAAA
1 GTATGGTAAGACTAGAGATCCAAATAAATATACAAAATACAAAAAGAGAAATATAACTAGATAAA
*
85259335 AACTATACATGGTAATTGCAAATG
66 AACTATACATAGTAATTGCAAATG
* * *
85259359 GTATGGTAGGACTAGAGATCCAAAT-CA-ATACAAAATACAAACAAG-GAGATATAACTAGATAA
1 GTATGGTAAGACTAGAGATCCAAATAAATATACAAAATACAAA-AAGAGAAATATAACTAGATAA
* *
85259421 AACCTATACCTAGTAATTG
65 AAACTATACATAGTAATTG
85259440 TATATTACAC
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 45 0.64
88 3 0.04
89 22 0.31
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (89 bp):
GTATGGTAAGACTAGAGATCCAAATAAATATACAAAATACAAAAAGAGAAATATAACTAGATAAA
AACTATACATAGTAATTGCAAATG
Found at i:85262509 original size:19 final size:18
Alignment explanation
Indices: 85262485--85262532 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
85262475 TTTGATATTG
*
85262485 TTAAATTTCTATAATTAGT
1 TTAAATTT-GATAATTAGT
**
85262504 TTAAATTTGATCTTTAGT
1 TTAAATTTGATAATTAGT
85262522 TTAAATTTGAT
1 TTAAATTTGAT
85262533 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (18 bp):
TTAAATTTGATAATTAGT
Found at i:85262522 original size:18 final size:18
Alignment explanation
Indices: 85262499--85262537 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
85262489 ATTTCTATAA
85262499 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
85262517 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
85262535 TTA
1 TTA
85262538 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:85264211 original size:41 final size:43
Alignment explanation
Indices: 85264152--85264260 Score: 154
Period size: 41 Copynumber: 2.6 Consensus size: 43
85264142 TAACCTTTCT
*
85264152 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTTCCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
85264195 ACAAACG-C-CTAAAAAGCATGACCTTTAGGGGTGATTTACCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
85264236 A-TAACGCCGCTAAAGAA-CATGACCT
1 ACAAACGCCGCTAAA-AAGCATGACCT
85264261 TTAGCGGCGC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
40 4 0.07
41 33 0.55
42 14 0.23
43 9 0.15
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
Found at i:85264259 original size:42 final size:43
Alignment explanation
Indices: 85264152--85264391 Score: 221
Period size: 43 Copynumber: 5.7 Consensus size: 43
85264142 TAACCTTTCT
* * *
85264152 ACAAACGCCGCTAAA-AAGCATGACCTGTAGGGGTG-ATTT-TCCC
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGCGGCGCATTTAT--C
* *
85264195 ACAAACG-C-CTAAA-AAGCATGACCTTTAGGGGTG-ATTTA-C
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGCGGCGCATTTATC
* *
85264234 CCATAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
1 ACA-AACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATC
** *
85264278 ACAAATACCGCTAAAGAACA-GACCTTTAGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATC
* * * *
85264320 ACAAACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATC
*
85264363 ACAAACACCGCTAAAGAGA-ATGACCTTTA
1 ACAAACGCCGCTAAAGA-ACATGACCTTTA
85264392 ACGATGCTTT
Statistics
Matches: 173, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.02
40 4 0.02
41 29 0.17
42 60 0.35
43 73 0.42
44 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCATTTATC
Found at i:85264296 original size:43 final size:43
Alignment explanation
Indices: 85264242--85264391 Score: 232
Period size: 43 Copynumber: 3.5 Consensus size: 43
85264232 ACCCATAACG
*
85264242 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATA
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACA
*
85264285 CCGCTAAAGAACA-GACCTTTAGCGGCGCTTTTATCACAAACG
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACA
* * *
85264327 CCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACA
1 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACA
85264370 CCGCTAAAGAGA-ATGACCTTTA
1 CCGCTAAAGA-ACATGACCTTTA
85264392 ACGATGCTTT
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 39 0.40
43 58 0.59
44 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAACA
Found at i:85264401 original size:43 final size:43
Alignment explanation
Indices: 85264242--85264410 Score: 211
Period size: 43 Copynumber: 4.0 Consensus size: 43
85264232 ACCCATAACG
* * *
85264242 CCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATA
1 CCGCTAAAGAACATGACCTTTAACGACGCTTTTATCACAAACA
* * *
85264285 CCGCTAAAGAACA-GACCTTTAGCGGCGCTTTTATCACAAACG
1 CCGCTAAAGAACATGACCTTTAACGACGCTTTTATCACAAACA
*
85264327 CCTCTAAAGAACATGACCTTTAAC-AGCGCTTTTATCACAAACA
1 CCGCTAAAGAACATGACCTTTAACGA-CGCTTTTATCACAAACA
*
85264370 CCGCTAAAGAGA-ATGACCTTTAACGATGC-TTTATCAACAAA
1 CCGCTAAAGA-ACATGACCTTTAACGACGCTTTTATC-ACAAA
85264411 TGCTTCTATA
Statistics
Matches: 113, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
42 45 0.40
43 66 0.58
44 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGAACATGACCTTTAACGACGCTTTTATCACAAACA
Found at i:85264403 original size:85 final size:86
Alignment explanation
Indices: 85264238--85264428 Score: 244
Period size: 85 Copynumber: 2.2 Consensus size: 86
85264228 ATTTACCCAT
* * * *
85264238 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATACCGCTAAAGAACAGACCT
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
* *
85264303 TTAGCGGCGCTTTTATC-ACA
66 TTAACGACGCTTTTATCAACA
85264323 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAGA-ATGAC
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGA-ACA-GAC
*
85264387 CTTTAACGATGC-TTTATCAACA
64 CTTTAACGACGCTTTTATCAACA
* * * *
85264409 AATGCTTCTATAGAGCATGA
1 AACGCCTCTAAAGAACATGA
85264429 ATTTTAGAGG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
85 60 0.65
86 32 0.35
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (86 bp):
AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
TTAACGACGCTTTTATCAACA
Found at i:85270424 original size:22 final size:22
Alignment explanation
Indices: 85270399--85270450 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
85270389 AACCATGAAC
* *
85270399 AATACTAAGA-CCCTAACTATAA
1 AATACTAA-ACCCCAAACTACAA
*
85270421 AATAATAAACCCCAAACTACAA
1 AATACTAAACCCCAAACTACAA
85270443 AAT-CTAAA
1 AATACTAAA
85270451 TCATAAACCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (22 bp):
AATACTAAACCCCAAACTACAA
Found at i:85270459 original size:28 final size:28
Alignment explanation
Indices: 85270420--85270477 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
85270410 CCTAACTATA
85270420 AAATAATAAACCCCAAACTACAAAA-TCT
1 AAATAATAAACCCCAAACT-CAAAACTCT
* *
85270448 AAATCATAAACCCTAAACTCAAAACTCT
1 AAATAATAAACCCCAAACTCAAAACTCT
85270476 AA
1 AA
85270478 TCCCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (28 bp):
AAATAATAAACCCCAAACTCAAAACTCT
Found at i:85271717 original size:17 final size:19
Alignment explanation
Indices: 85271675--85271718 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
85271665 ACGAAATTTT
*
85271675 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
85271694 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
85271712 AA-TATTA
1 AATTATTA
85271719 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:85274000 original size:27 final size:28
Alignment explanation
Indices: 85273946--85274000 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
85273936 TGATACTGTA
* * * *
85273946 ATGGGCTATGGCCCAGATTAATATTGAT
1 ATGGGCTAAGACCCAGATTAACACTGAT
85273974 ATGGGCTAAGACCCA-ATTAACACTGAT
1 ATGGGCTAAGACCCAGATTAACACTGAT
85274001 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (28 bp):
ATGGGCTAAGACCCAGATTAACACTGAT
Found at i:85277627 original size:113 final size:115
Alignment explanation
Indices: 85277392--85277672 Score: 379
Period size: 113 Copynumber: 2.4 Consensus size: 115
85277382 TTTCAACAAA
* * ** *
85277392 TGCCGCTAATTCTCGATCTATTGCGGTGTTTTTTAAAAAGCTTCGCTAATGCCACTAAAGCTCAG
1 TGCCGCTAATGCTCGATCTATTGCGGCG-TTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAA
* **
85277457 CAACAAGACGAGGTTGTTTTGCTCAACTTTTTTGGGGCGTTTTCTGAAAAG
65 CAACAAGACGAGCTTGTTTTGCTCAACTTTTTTAAGGCGTTTTCTGAAAAG
** * * *
85277508 CACCGCTAATGCTCAATCTATTGCGGCGTTTTTAAGAAGCGCCGCTAATGCCACTAAAGCTCAAC
1 TGCCGCTAATGCTCGATCTATTGCGGCGTTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
*
85277573 AACAA-ACGA-CTTGTTTTGCTTAACTTTTTTAAGGCGTTTT-TCGAAAAG
66 AACAAGACGAGCTTGTTTTGCTCAACTTTTTTAAGGCGTTTTCT-GAAAAG
*
85277621 TGCCGCTAATGCTCGATCTATTGCGACGTTTTTCAAAAAGCACCGCTAATGC
1 TGCCGCTAATGCTCGATCTATTGCGGCGTTTTT-AAAAAGCACCGCTAATGC
85277673 TCGACCTATA
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
112 1 0.01
113 62 0.43
114 20 0.14
115 38 0.26
116 23 0.16
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (115 bp):
TGCCGCTAATGCTCGATCTATTGCGGCGTTTTTAAAAAGCACCGCTAATGCCACTAAAGCTCAAC
AACAAGACGAGCTTGTTTTGCTCAACTTTTTTAAGGCGTTTTCTGAAAAG
Found at i:85277667 original size:40 final size:41
Alignment explanation
Indices: 85277607--85277709 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 41
85277597 TTTTTTAAGG
* ** * *
85277607 CGTTTTTCGAAAAGTGCCGCTAATGCTCGATCTATTGCGA-
1 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
85277647 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
1 CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
* *
85277688 CTTTGTTTCATAAA-CACCGCTA
1 CGTT-TTTCAAAAAGCACCGCTA
85277710 TAGCTCTAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 35 0.65
41 11 0.20
42 8 0.15
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (41 bp):
CGTTTTTCAAAAAGCACCGCTAATGCTCGACCTATAGCGAC
Found at i:85277862 original size:19 final size:18
Alignment explanation
Indices: 85277838--85277885 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
85277828 TCATGACTGC
85277838 AAAATAAATTAAGCAAAAT
1 AAAATAAATTAAG-AAAAT
*
85277857 AAAATAAATT-AGTAAAT
1 AAAATAAATTAAGAAAAT
*
85277874 AAAATATATTAA
1 AAAATAAATTAA
85277886 AGTTTAGCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 13 0.50
18 3 0.12
19 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAATAAATTAAGAAAAT
Found at i:85278746 original size:12 final size:14
Alignment explanation
Indices: 85278717--85278745 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85278707 ATCACTAGAT
85278717 AAATCAGAATTTAA
1 AAATCAGAATTTAA
85278731 AAATCA-AATTTAA
1 AAATCAGAATTTAA
85278744 AA
1 AA
85278746 TAATTACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (14 bp):
AAATCAGAATTTAA
Found at i:85280261 original size:19 final size:18
Alignment explanation
Indices: 85280239--85280281 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
85280229 TGTGGAAAGG
*
85280239 AAGAGTTTTAGAGAAAATA
1 AAGAGTTTTAAAG-AAATA
*
85280258 AAGATTTTTTAAAGAAATA
1 AAGA-GTTTTAAAGAAATA
85280277 AAGAG
1 AAGAG
85280282 AAAAGTGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (18 bp):
AAGAGTTTTAAAGAAATA
Found at i:85280607 original size:6 final size:7
Alignment explanation
Indices: 85280589--85280613 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
85280579 TTGTGATGCT
85280589 ATTTTTA
1 ATTTTTA
85280596 ATTTTTA
1 ATTTTTA
85280603 ATTTTTA
1 ATTTTTA
85280610 ATTT
1 ATTT
85280614 AATAACTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:85296448 original size:18 final size:19
Alignment explanation
Indices: 85296408--85296448 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
85296398 ATTATTTGGA
*
85296408 TATTATATAACTCTTGTTT
1 TATTATATAACTCTTGTTC
85296427 TATTAT-TAACT-TTGTTAC
1 TATTATATAACTCTTGTT-C
85296445 TATT
1 TATT
85296449 TTAGAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTATATAACTCTTGTTC
Found at i:85298637 original size:18 final size:20
Alignment explanation
Indices: 85298602--85298643 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
85298592 TGAAAAGAAA
*
85298602 AGAAAATAAGGTAAAAATTT
1 AGAAAATAAGGTAAAAATGT
85298622 AGAAAATAA-G-AAAAATGT
1 AGAAAATAAGGTAAAAATGT
85298640 AGAA
1 AGAA
85298644 GGATTGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 1 0.05
20 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (20 bp):
AGAAAATAAGGTAAAAATGT
Found at i:85298858 original size:3 final size:3
Alignment explanation
Indices: 85298852--85298913 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
85298842 ATTTAGTAGT
*
85298852 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TCA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
85298897 TTT TTA TTT TTA TTA TT
1 TTA TTA TTA TTA TTA TT
85298914 GGGCTGAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 48 0.94
4 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:85301775 original size:16 final size:16
Alignment explanation
Indices: 85301751--85301782 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85301741 ATTTGATTCG
*
85301751 GTCCTTACTTTTGCGA
1 GTCCATACTTTTGCGA
85301767 GTCCATACTTTTGCGA
1 GTCCATACTTTTGCGA
85301783 CTTTTTTACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (16 bp):
GTCCATACTTTTGCGA
Found at i:85306588 original size:15 final size:15
Alignment explanation
Indices: 85306565--85306678 Score: 86
Period size: 15 Copynumber: 7.5 Consensus size: 15
85306555 TTTTTTTAAT
*
85306565 TTAATATATATTATA
1 TTAAAATATATTATA
* * *
85306580 TTAAAATATCTTTTTC
1 TTAAAATAT-ATTATA
*
85306596 TTAACATATACTTATA
1 TTAAAATATA-TTATA
* *
85306612 TTATATTATATTATA
1 TTAAAATATATTATA
* *
85306627 TTATATTATATTATA
1 TTAAAATATATTATA
* *
85306642 TTATATTATATTATA
1 TTAAAATATATTATA
* *
85306657 TTATATTATATTATA
1 TTAAAATATATTATA
85306672 -TAAAATA
1 TTAAAATA
85306679 AAACAAATAA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
14 5 0.06
15 58 0.69
16 21 0.25
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAAAATATATTATA
Found at i:85306617 original size:5 final size:5
Alignment explanation
Indices: 85306602--85306672 Score: 133
Period size: 5 Copynumber: 14.0 Consensus size: 5
85306592 TTTCTTAACA
85306602 TATACT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
85306653 TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT
85306673 AAAATAAAAC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 61 0.94
6 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:85306711 original size:25 final size:24
Alignment explanation
Indices: 85306674--85306720 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
85306664 ATATTATATA
85306674 AAATAAAACAAATA-AAGAAAGAAT
1 AAATAAAACAAATAGAA-AAAGAAT
*
85306698 AAATAAATAGAAATAGAAAAAGA
1 AAATAAA-ACAAATAGAAAAAGA
85306721 GAGCCAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 11 0.55
26 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (24 bp):
AAATAAAACAAATAGAAAAAGAAT
Found at i:85306764 original size:17 final size:17
Alignment explanation
Indices: 85306752--85306787 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
85306742 AGAGAAGGAA
85306752 AGAAAGAAAAGAAAAAG
1 AGAAAGAAAAGAAAAAG
85306769 AGAAAGAAAGGAGAAAAAG
1 AGAAAGAAA--AGAAAAAG
85306788 CTAGGGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAGAAAAAG
Found at i:85306772 original size:25 final size:24
Alignment explanation
Indices: 85306706--85306785 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 24
85306696 ATAAATAAAT
* *
85306706 AGAAATAGAAAAAGAG-AGCCAAAGC
1 AGAAA-AGAAAAAGAGAAG-GAAAGA
* *
85306731 AGAAATGAAACAGAGAAGGAAAGAA
1 AGAAAAGAAAAAGAGAAGGAAAG-A
* *
85306756 AGAAAAGAAAAAGAGAAAGAAAGG
1 AGAAAAGAAAAAGAGAAGGAAAGA
85306780 AGAAAA
1 AGAAAA
85306786 AGCTAGGGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
24 18 0.40
25 27 0.60
ACGTcount: A:0.66, C:0.05, G:0.26, T:0.03
Consensus pattern (24 bp):
AGAAAAGAAAAAGAGAAGGAAAGA
Found at i:85316491 original size:61 final size:61
Alignment explanation
Indices: 85316396--85316519 Score: 203
Period size: 61 Copynumber: 2.0 Consensus size: 61
85316386 GGTTTTGAAC
* * **
85316396 ACCTCTTAGTGATCCATATGAATATTGGAGTATTGTTAGAGTGTTACAATATGTGGTTCTT
1 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
*
85316457 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGTTTCTT
1 ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
85316518 AC
1 AC
85316520 TCTACCTGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (61 bp):
ACCTCTTAGTGATCCACATGAATATCGGAGTATTGCCAGAGTGTTACAATATGTGGTTCTT
Found at i:85318090 original size:20 final size:20
Alignment explanation
Indices: 85318067--85318118 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
85318057 AAATCCTTTT
85318067 AAAATTTAAAAA-TTATTAAA
1 AAAATTTAAAAATTTA-TAAA
*
85318087 AAAA-TAAAAAATTTATAAA
1 AAAATTTAAAAATTTATAAA
*
85318106 CAAATTTATAAAA
1 AAAATTTA-AAAA
85318119 AATTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.50
20 9 0.35
21 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAATTTATAAA
Found at i:85318110 original size:12 final size:11
Alignment explanation
Indices: 85318090--85318126 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
85318080 TATTAAAAAA
85318090 ATAAAAAATTT
1 ATAAAAAATTT
85318101 ATAAACAAATTT
1 ATAAA-AAATTT
85318113 ATAAAAAA-TT
1 ATAAAAAATTT
85318123 ATAA
1 ATAA
85318127 TTATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 11 0.44
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAAAAATTT
Found at i:85331478 original size:34 final size:31
Alignment explanation
Indices: 85331411--85331478 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
85331401 TTTAGCTAAA
* * *
85331411 TGGGCTCACATGCCCATATGGTTTGCCCGTG
1 TGGGCCCACATGCCCACATGGTTAGCCCGTG
85331442 TGGGCCCACATGCCCACATTGGCCTTAGCCCGTG
1 TGGGCCCACATGCCCACA-TGG--TTAGCCCGTG
85331476 TGG
1 TGG
85331479 ATCACACGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 16 0.52
32 3 0.10
34 12 0.39
ACGTcount: A:0.13, C:0.32, G:0.29, T:0.25
Consensus pattern (31 bp):
TGGGCCCACATGCCCACATGGTTAGCCCGTG
Found at i:85332283 original size:74 final size:74
Alignment explanation
Indices: 85332162--85332307 Score: 283
Period size: 74 Copynumber: 2.0 Consensus size: 74
85332152 AAACGTTAAT
85332162 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
1 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
85332227 CACTACCTC
66 CACTACCTC
*
85332236 TTCTTTTCTAAGAGGGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
1 TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
85332301 CACTACC
66 CACTACC
85332308 CCACTCTTGA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.29
Consensus pattern (74 bp):
TTCTTTTCTAAGAGAGAGAGGAAAACAAAACTAATCAGATATTCCAAAATCCTCTTAATTCTCTC
CACTACCTC
Found at i:85339117 original size:29 final size:29
Alignment explanation
Indices: 85339083--85339138 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
85339073 TTATTTTTAT
85339083 TATTTTTATTTTTAAAAATAAATTTATAA
1 TATTTTTATTTTTAAAAATAAATTTATAA
85339112 TATTTTTATTTTTAAAAATAAATTTAT
1 TATTTTTATTTTTAAAAATAAATTTAT
85339139 GTATGCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TATTTTTATTTTTAAAAATAAATTTATAA
Found at i:85339308 original size:18 final size:16
Alignment explanation
Indices: 85339285--85339319 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
85339275 TTTTAAAATT
85339285 AATATAAATATATAAAAA
1 AATATAAA-A-ATAAAAA
85339303 AATATAAAAATAAAAA
1 AATATAAAAATAAAAA
85339319 A
1 A
85339320 TAAGTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AATATAAAAATAAAAA
Found at i:85339426 original size:22 final size:24
Alignment explanation
Indices: 85339372--85339427 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
85339362 TTCTTGAAAC
* *
85339372 AATTTAATAATTATTGATAAAATGA
1 AATTAAATAATTATTAATAAAA-GA
85339397 AATGTAAATAATTATTAAT-AAA-A
1 AAT-TAAATAATTATTAATAAAAGA
85339420 AATTAAAT
1 AATTAAAT
85339428 GAGAAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.18
23 4 0.14
25 6 0.21
26 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (24 bp):
AATTAAATAATTATTAATAAAAGA
Found at i:85342956 original size:20 final size:20
Alignment explanation
Indices: 85342927--85342971 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
85342917 AGCACATGTA
* *
85342927 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
85342947 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
85342967 TTCAT
1 TTCAT
85342972 TTTAGTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:85346799 original size:17 final size:17
Alignment explanation
Indices: 85346758--85346803 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
85346748 TATATATATA
*
85346758 GATAATAAAAAAATAAT
1 GATAATAATAAAATAAT
* * *
85346775 AATGATAATAAAATGAT
1 GATAATAATAAAATAAT
85346792 GATAATAATAAA
1 GATAATAATAAA
85346804 GACACAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
GATAATAATAAAATAAT
Found at i:85346802 original size:20 final size:20
Alignment explanation
Indices: 85346759--85346802 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
85346749 ATATATATAG
*
85346759 ATAATAAAAAAATAATAATG
1 ATAATAAAAAAATAATAATA
** *
85346779 ATAATAAAATGATGATAATA
1 ATAATAAAAAAATAATAATA
85346799 ATAA
1 ATAA
85346803 AGACACAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAATAAAAAAATAATAATA
Found at i:85346847 original size:8 final size:7
Alignment explanation
Indices: 85346821--85346845 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
85346811 AAAGAAAAAG
85346821 AAAATAA
1 AAAATAA
85346828 AAAATAA
1 AAAATAA
85346835 AAAATAA
1 AAAATAA
85346842 AAAA
1 AAAA
85346846 ATGCACGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:85349937 original size:47 final size:47
Alignment explanation
Indices: 85349828--85349938 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
85349818 TCGGGATAAG
* *
85349828 CACATAGTGCTTCATCAGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
85349875 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
85349922 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
85349939 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:85357162 original size:47 final size:47
Alignment explanation
Indices: 85357053--85357163 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
85357043 TCAGGATAAG
* *
85357053 CACATAGTGCTTCATCGGAACAAATTCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
85357100 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
85357147 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
85357164 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:85360231 original size:192 final size:191
Alignment explanation
Indices: 85359890--85360291 Score: 644
Period size: 192 Copynumber: 2.1 Consensus size: 191
85359880 CAATTATTAA
*
85359890 AATTCCATGTACATGTAACATTTATACTGTATATCCTTATATCATATATATATAAACCATTTCCA
1 AATTCC-TGTACATGTAACATTTATACCGTATATCCTTATATCATATATATATAAACCATTTCCA
* * *
85359955 TGTAAGTACCTATACTAGTTCGTATTGAACTTATATAATCTCATAATAACACTATGCCCATTGAA
65 TGTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCATTGAA
*
85360020 CCACTTAGAATCACGTTAGATACATG-GGTAGTACACACGAGGTATACTGAACTGTAATCTGTC
130 CCACTTAGAATCACGTTAGAT--ATGCGGTAGTACACACAAGGTATACTGAACTGTAATCTGTC
* *
85360083 AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATCATATATATATGAACTATTTCCAT
1 AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATCATATATATATAAACCATTTCCAT
* * *
85360148 GTAAATACTTGCACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCGTTGAAC
66 GTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCATTGAAC
* * *
85360213 CACTTAGAATCTCGTTAGATATGCTGGTAGTACACACAAGGTGTATTGAACTGTAATCTGTC
131 CACTTAGAATCACGTTAGATATGC-GGTAGTACACACAAGGTATACTGAACTGTAATCTGTC
85360275 AATTCCTGTACATGTAA
1 AATTCCTGTACATGTAA
85360292 GCTCATACAA
Statistics
Matches: 194, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
190 3 0.02
192 185 0.95
193 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (191 bp):
AATTCCTGTACATGTAACATTTATACCGTATATCCTTATATCATATATATATAAACCATTTCCAT
GTAAATACCTACACTAGTTCGTATTGAACTTATACAATCTCATAATAACACTATGCCCATTGAAC
CACTTAGAATCACGTTAGATATGCGGTAGTACACACAAGGTATACTGAACTGTAATCTGTC
Found at i:85373969 original size:14 final size:14
Alignment explanation
Indices: 85373946--85373976 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85373936 TTAAGGTGAA
*
85373946 TTTTCTATTTTTAT
1 TTTTCAATTTTTAT
85373960 TTTTCAATTTTTAT
1 TTTTCAATTTTTAT
85373974 TTT
1 TTT
85373977 CGAATCTATT
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:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCAATTTTTAT
Found at i:85374676 original size:3 final size:3
Alignment explanation
Indices: 85374652--85374708 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
85374642 AATACTCTTG
* * * *
85374652 TTA TTG TTA -TA TTA TTA GTA TTA TTA TTA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85374699 TTA TTA TTA T
1 TTA TTA TTA T
85374709 GCATTAGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:85382677 original size:14 final size:14
Alignment explanation
Indices: 85382658--85382684 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85382648 AGAAAACAAT
85382658 GAAAGAAGGATCAA
1 GAAAGAAGGATCAA
85382672 GAAAGAAGGATCA
1 GAAAGAAGGATCA
85382685 CAAGAACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.30, T:0.07
Consensus pattern (14 bp):
GAAAGAAGGATCAA
Found at i:85387808 original size:88 final size:88
Alignment explanation
Indices: 85387661--85387822 Score: 236
Period size: 88 Copynumber: 1.8 Consensus size: 88
85387651 TTTTTATTTC
* * *** *
85387661 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCCCATGCCGAGGTATTTTTAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACAACGAAGTATTTTTAA
85387726 ATTCTGTTTTCAAATTATGTTTT
66 ATTCTGTTTTCAAATTATGTTTT
*
85387749 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GACTCACACAATGAAGTATTTTTA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-CTCACACAACGAAGTATTTTTA
*
85387813 ATTTCTGTTT
65 AATTCTGTTT
85387823 CTTTCAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
87 1 0.02
88 64 0.98
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (88 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACACAACGAAGTATTTTTAA
ATTCTGTTTTCAAATTATGTTTT
Found at i:85387892 original size:54 final size:54
Alignment explanation
Indices: 85387808--85388047 Score: 417
Period size: 54 Copynumber: 4.4 Consensus size: 54
85387798 AATGAAGTAT
* *
85387808 TTTTAATTTCTGTTTCTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAACC
1 TTTTAATTTCTG-TT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
85387864 TTTTAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
85387918 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
85387972 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
85388026 ATTTAATTTCTGTTTTTCAAAA
1 TTTTAATTTCTGTTTTTCAAAA
85388048 TCTACTTTTC
Statistics
Matches: 178, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
54 165 0.93
55 2 0.01
56 11 0.06
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (54 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:85389294 original size:14 final size:14
Alignment explanation
Indices: 85389275--85389305 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85389265 TTAAGGTTGA
85389275 TTTTCTATTTTTAT
1 TTTTCTATTTTTAT
85389289 TTTTCTATTTTTAT
1 TTTTCTATTTTTAT
85389303 TTT
1 TTT
85389306 CGAATCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTATTTTTAT
Done.