Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, whole genome shotgun sequence
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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 32 of 64
Found at i:5021153 original size:25 final size:25
Alignment explanation
Indices: 5021119--5021172 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
5021109 ATTGGTTTGC
** *
5021119 TGAATGGTTTGTTGAATGATGTTTT
1 TGAATGGTTTCCTGAATGATATTTT
*
5021144 TGAATGGTTTCCTGAATGGTATTTT
1 TGAATGGTTTCCTGAATGATATTTT
5021169 TGAA
1 TGAA
5021173 GATATTACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.48
Consensus pattern (25 bp):
TGAATGGTTTCCTGAATGATATTTT
Found at i:5021161 original size:37 final size:37
Alignment explanation
Indices: 5021111--5021200 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
5021101 TGTATGATAT
* **
5021111 TGGTTTGCTGAATGGT-TTGTTGAATGATGTTTTTGAA
1 TGGTTTGCTGAATGGTATTGTTGAA-GATATTACTGAA
* * *
5021148 TGGTTTCCTGAATGGTATTTTTGAAGATATTACTGAT
1 TGGTTTGCTGAATGGTATTGTTGAAGATATTACTGAA
5021185 TGGTTTGCTGAATGGT
1 TGGTTTGCTGAATGGT
5021201 GTTTCTATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 38 0.84
38 7 0.16
ACGTcount: A:0.20, C:0.06, G:0.28, T:0.47
Consensus pattern (37 bp):
TGGTTTGCTGAATGGTATTGTTGAAGATATTACTGAA
Found at i:5024730 original size:125 final size:125
Alignment explanation
Indices: 5024504--5024771 Score: 312
Period size: 125 Copynumber: 2.1 Consensus size: 125
5024494 TAATAAAATG
* *
5024504 TTATTGAAGGCGTTTTTTACCAAAACCACCTTTAATAATTCTTCATAAAAATTTATTGTGTGGAT
1 TTATTGAAGGCGTTTTTTACCAAAACCACCTTCAATAATTCTTCATAAAAATTTATTATGTGGAT
** * * *
5024569 TATTAAAGACGTTTTGGACCAAAAATGCCTTCAGAATCCGTTTCAACTTTTTTGTATGGA
66 TATTAAAGACGTTTCAGACCAAAAATGCCTTCAGAATCCATTCCAAATTTTTTGTATGGA
* ** *
5024629 TTATTGAAGGTGTTTTTTACCAAAACTGCCTTCAATAATCTCTT-ATGAAAA-TTATTAAT-TGG
1 TTATTGAAGGCGTTTTTTACCAAAACCACCTTCAATAAT-TCTTCATAAAAATTTATT-ATGTGG
* * * *
5024691 ATTATTGAAGGCAC-TTTCAG-CTAAAAATGTCTTCAAGAATCCATTCCAAATTTTTTTTATGGA
64 ATTATT-AAAG-ACGTTTCAGACCAAAAATGCCTTC-AGAATCCATTCCAAATTTTTTGTATGGA
*
5024754 TTATTGAAGGCATTTTTT
1 TTATTGAAGGCGTTTTTT
5024772 CTATCGAAAA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
124 26 0.21
125 89 0.74
126 6 0.05
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (125 bp):
TTATTGAAGGCGTTTTTTACCAAAACCACCTTCAATAATTCTTCATAAAAATTTATTATGTGGAT
TATTAAAGACGTTTCAGACCAAAAATGCCTTCAGAATCCATTCCAAATTTTTTGTATGGA
Found at i:5025078 original size:61 final size:61
Alignment explanation
Indices: 5024965--5025080 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
5024955 GATAGAATAT
* * *
5024965 TTATTGAAAGCATTTTTTACTAAAAGCATCTTCAATAATCCTTTGTAATTTTTTAATGGAA
1 TTATTGAAAGCATTTTTTACTAAAAACATCTTCAATAATCCTCTATAATTTTTTAATGGAA
* *
5025026 TTATTGAAAGCATTTTTTACTAAAAACGTCTTCAATAATCAC-CTATATTTTTTTA
1 TTATTGAAAGCATTTTTTACTAAAAACATCTTCAATAATC-CTCTATAATTTTTTA
5025081 TCAAGGGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
61 48 0.98
62 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (61 bp):
TTATTGAAAGCATTTTTTACTAAAAACATCTTCAATAATCCTCTATAATTTTTTAATGGAA
Found at i:5025922 original size:127 final size:126
Alignment explanation
Indices: 5025765--5026056 Score: 365
Period size: 127 Copynumber: 2.3 Consensus size: 126
5025755 TAATAAAATG
*
5025765 TTATTGAAGGCG-TTTTTTACCAAAATCACCTTTAATAAT-CCTTCATAAAAATTTATT-GTGTG
1 TTATTGAAGGCGTTTTTTTACCAAAA-CACCTTTAATAATCCCTT-ATAAAAATTTATTAAT-TG
** * *
5025827 GATTATTAAAGACGTTTTGAACTAAAAATGCCTTCAAAAATCCATTCCAACTTTTTTGTATGGA
63 GATTATTAAAGACACTTTCAACTAAAAATGCCTTCAAAAATCCATTCCAAATTTTTTGTATGGA
* * *
5025891 TTATTGAAGGTGTTTTTTTACCAAAACCACCTTCAATAATCCCTTATGAAAATTTATTAATTGGA
1 TTATTGAAGGCGTTTTTTTACCAAAA-CACCTTTAATAATCCCTTATAAAAATTTATTAATTGGA
* * * * * * *
5025956 TTATTGAAGGCACTTTCAGCTAAAAATGTCTTCAAGAATCCATTTCAAATTTTTTTTATGGA
65 TTATTAAAGACACTTTCAACTAAAAATGCCTTCAAAAATCCATTCCAAATTTTTTGTATGGA
*
5026018 TTATTGAAGGCATTTTTTCTACCGAAAACACCTTTAATA
1 TTATTGAAGGCGTTTTTT-TACC-AAAACACCTTTAATA
5026057 TTCTTTCTTC
Statistics
Matches: 142, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
126 11 0.08
127 108 0.76
128 19 0.13
129 4 0.03
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (126 bp):
TTATTGAAGGCGTTTTTTTACCAAAACACCTTTAATAATCCCTTATAAAAATTTATTAATTGGAT
TATTAAAGACACTTTCAACTAAAAATGCCTTCAAAAATCCATTCCAAATTTTTTGTATGGA
Found at i:5026342 original size:61 final size:61
Alignment explanation
Indices: 5026229--5026344 Score: 139
Period size: 61 Copynumber: 1.9 Consensus size: 61
5026219 GATAAAATAT
* * * *
5026229 TTATTGAAAGCATTTTTGACCAAAAACGTCTTCAATAATCCTTTGTAATTTTTTAATGGAA
1 TTATTAAAAGCATTTTTGACCAAAAACGCCTTCAATAATCCTCTATAATTTTTTAATGGAA
*
5026290 TTATTAAAAGCATTTCTT-A-CATAAAACGCCTTCAATAATCAC-CTATATTTTTTTA
1 TTATTAAAAGCATTT-TTGACCA-AAAACGCCTTCAATAATC-CTCTATAATTTTTTA
5026345 TGAAGGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
60 2 0.04
61 42 0.89
62 3 0.06
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (61 bp):
TTATTAAAAGCATTTTTGACCAAAAACGCCTTCAATAATCCTCTATAATTTTTTAATGGAA
Found at i:5028879 original size:38 final size:38
Alignment explanation
Indices: 5028828--5028902 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
5028818 CTCAGTACTT
*
5028828 ATGGTAGAAACCTTATATCCTAGCACTATTCCTTTTCA
1 ATGGTAGAAACCTTATATCCTAGCACTATTCATTTTCA
*
5028866 ATGGTAGAAACCTTATGTCCTAGCACTATTCATTTTC
1 ATGGTAGAAACCTTATATCCTAGCACTATTCATTTTC
5028903 TAACCATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (38 bp):
ATGGTAGAAACCTTATATCCTAGCACTATTCATTTTCA
Found at i:5040508 original size:144 final size:142
Alignment explanation
Indices: 5040321--5040829 Score: 493
Period size: 144 Copynumber: 3.5 Consensus size: 142
5040311 ATTGACCTAA
* ** * *
5040321 AAAAAGTCAAATTACAAAAATATCTCTAAAGGGTATTTTGATAATTTCACTCATTTTAAGGTGCA
1 AAAATGTCAAATTATGAAAATA-CCCTAAAGGGCATTTTGATAATTTCACTC-TTTTAAGGTGCA
*
5040386 ATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTAAAATATGATCTGGAGCTTTTTATA
64 ATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTAAAACATGATCTGGAGCTTTTTATA
*
5040451 AAAAAAAAACCTTG
129 AAAAATAAACCTTG
* * *
5040465 AAAATGTCAAATTATGAAAAAACCCTTAAAGGGCATTTTGATAATTTC-TTCCTTTTTGAGGTGC
1 AAAATGTCAAATTATGAAAATACCC-TAAAGGGCATTTTGATAATTTCACT-C-TTTTAAGGTGC
* * ** * * * * * **
5040529 AATCAAGGTTTTCATTATATTAAAATGCATGGAATAGTATTAAAACATGATTTGGAGCTTTTCGT
63 AATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTAAAACATGATCTGGAGCTTTTTAT
* ** *
5040594 AAAAACTTGATCTTG
128 AAAAAATAAACCTTG
* * *
5040609 AGAAA-CTCAAATTATGAAAATACCACTAAAGGGCATTTTGGTAATTTAAAC-CTTTCTAAGGTG
1 A-AAATGTCAAATTATGAAAATACC-CTAAAGGGCATTTTGATAATTT-CACTCTTT-TAAGGTG
* * * * ** * *
5040672 TAATCAAGTTTTTCAATGCATCAAAATTCATGTAATAATACCAAAACATTATCTGGAGTTTTTTT
62 CAATCAAGATTTTCAATGCATAAAAATTCATGAAATAATATTAAAACATGATCTGGAG--CTTTT
* *
5040737 TATGAAAAATCAACCTTG
125 TATAAAAAATAAACCTTG
* * * * * *
5040755 AAAATGTCAAATTATGAAAATACCCCTAAAAGGCATTTAGGTAATTTCATTCTTATAAGGTGTAA
1 AAAATGTCAAATTATGAAAATA-CCCTAAAGGGCATTTTGATAATTTCACTCTTTTAAGGTGCAA
5040820 TCAAGATTTT
65 TCAAGATTTT
5040830 TAAGAATCTA
Statistics
Matches: 293, Mismatches: 60, Indels: 23
0.78 0.16 0.06
Matches are distributed among these distances:
143 6 0.02
144 203 0.69
145 27 0.09
146 55 0.19
147 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (142 bp):
AAAATGTCAAATTATGAAAATACCCTAAAGGGCATTTTGATAATTTCACTCTTTTAAGGTGCAAT
CAAGATTTTCAATGCATAAAAATTCATGAAATAATATTAAAACATGATCTGGAGCTTTTTATAAA
AAATAAACCTTG
Found at i:5041476 original size:35 final size:35
Alignment explanation
Indices: 5041437--5041504 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
5041427 AAATATCACT
* * *
5041437 AGGATTGAACCACTAGTCAAGAAATAAAAATGAAC
1 AGGATTGAACCACTAATAAAAAAATAAAAATGAAC
**
5041472 AGGATTGAATGACTAATAAAAAAATAAAAATGA
1 AGGATTGAACCACTAATAAAAAAATAAAAATGA
5041505 TCGAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (35 bp):
AGGATTGAACCACTAATAAAAAAATAAAAATGAAC
Found at i:5041567 original size:35 final size:33
Alignment explanation
Indices: 5041528--5041712 Score: 113
Period size: 35 Copynumber: 5.3 Consensus size: 33
5041518 ATAAGCCAGG
*
5041528 AAATAAAAATGACTGGGATTAAAATTCAAGTTAGA
1 AAATAAAAATGA-TGGGATT-AAATTCAAGTCAGA
* *
5041563 AAATAAAGATGATTGGGACTAAACTAT-AAGTCAGA
1 AAATAAAAATGA-TGGGATTAAA-T-TCAAGTCAGA
* * * * * *
5041598 AAAT-AAAATCGATCGAGATTTAATAGCAAATTAAA
1 AAATAAAAAT-GAT-GGGATTAAAT-TCAAGTCAGA
* * * *
5041633 AAATAAAGATGACTAGGATTAAATTGTAAGTCAAA
1 AAATAAAAATGA-TGGGATTAAATT-CAAGTCAGA
* *
5041668 AAATAAAGATGATAAGGATTAAATTGCAAGTCAGA
1 AAATAAAAATGAT-GGGATTAAATT-CAAGTCAGA
5041703 AAATAAAAAT
1 AAATAAAAAT
5041713 AACCAAGACT
Statistics
Matches: 118, Mismatches: 23, Indels: 18
0.74 0.14 0.11
Matches are distributed among these distances:
34 11 0.09
35 101 0.86
36 6 0.05
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.24
Consensus pattern (33 bp):
AAATAAAAATGATGGGATTAAATTCAAGTCAGA
Found at i:5041706 original size:70 final size:69
Alignment explanation
Indices: 5041528--5041750 Score: 198
Period size: 70 Copynumber: 3.2 Consensus size: 69
5041518 ATAAGCCAGG
* * * * *
5041528 AAATAAAAATGACTGGGATTAAAATT-CAAGTTAGAAAATAAAGATGATTGGGACTAAACTATAA
1 AAATAAAGATGA-TAGGATT-AAATTGCAAGTTAGAAAATAAAGATGACTAGGACTAAATTATAA
*
5041592 GTCAGA
64 GTCAAA
* * * * * * *
5041598 AAATAAA-ATCGATCGAGATTTAATAGCAAATTAAAAAATAAAGATGACTAGGATTAAATTGTAA
1 AAATAAAGAT-GATAG-GATTAAATTGCAAGTTAGAAAATAAAGATGACTAGGACTAAATTATAA
5041662 GTCAAA
64 GTCAAA
* * * * * * *
5041668 AAATAAAGATGATAAGGATTAAATTGCAAGTCAGAAAATAAAAATAACCAAGACTGAATTACAAG
1 AAATAAAGATGAT-AGGATTAAATTGCAAGTTAGAAAATAAAGATGACTAGGACTAAATTATAAG
5041733 TCAAA
65 TCAAA
*
5041738 AAGTAAAGATGAT
1 AAATAAAGATGAT
5041751 CGAAACTAAA
Statistics
Matches: 122, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
69 7 0.06
70 112 0.92
71 3 0.02
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.23
Consensus pattern (69 bp):
AAATAAAGATGATAGGATTAAATTGCAAGTTAGAAAATAAAGATGACTAGGACTAAATTATAAGT
CAAA
Found at i:5041956 original size:35 final size:35
Alignment explanation
Indices: 5041694--5041971 Score: 127
Period size: 35 Copynumber: 7.9 Consensus size: 35
5041684 GATTAAATTG
* * * **
5041694 CAAGTCAGAAAATAAAAATAACCAAGACTGAATTA
1 CAAGTCAGAAAATAAAAATGACTAAGACTAAACCA
* *
5041729 CAAGTCA-AAAAGTAAAGATGATCGAA-ACTAAACCA
1 CAAGTCAGAAAA-TAAAAATGA-CTAAGACTAAACCA
* * * * * *
5041764 CAAATCAAAAAATGAAAATGACTAAGAATAAATCG
1 CAAGTCAGAAAATAAAAATGACTAAGACTAAACCA
* * * * * *
5041799 CAAGTTACAAAATAAATATGACTTAGGCTAAATCA
1 CAAGTCAGAAAATAAAAATGACTAAGACTAAACCA
* * **
5041834 CAAGTTA-AAAACTAAAAATTA-TCAAGACTAAACTG
1 CAAGTCAGAAAA-TAAAAATGACT-AAGACTAAACCA
* * * ** * * ***
5041869 TAAGTTAGAAAATAAAAATGATTGGGATTGAATTG
1 CAAGTCAGAAAATAAAAATGACTAAGACTAAACCA
* *
5041904 CATA-TTAGAAAACAAAAATGACTAAGACTAAACCA
1 CA-AGTCAGAAAATAAAAATGACTAAGACTAAACCA
* *
5041939 CAAGTCA-AAAACTAAAAATGATTAGGACTAAAC
1 CAAGTCAGAAAA-TAAAAATGACTAAGACTAAAC
5041972 AGTAAGTCAT
Statistics
Matches: 182, Mismatches: 50, Indels: 22
0.72 0.20 0.09
Matches are distributed among these distances:
34 17 0.09
35 152 0.84
36 13 0.07
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.21
Consensus pattern (35 bp):
CAAGTCAGAAAATAAAAATGACTAAGACTAAACCA
Found at i:5042005 original size:105 final size:105
Alignment explanation
Indices: 5041658--5042005 Score: 251
Period size: 105 Copynumber: 3.3 Consensus size: 105
5041648 GGATTAAATT
* * * * * * * *
5041658 GTAAGTCAAAAAATAAAGATGATAAGGATTAAATTGCA-AGTCAGAAAATAAAAATAACCAAGAC
1 GTAAGTCAGAAAATAAAAAAGATAAGGATTGAATTGCATA-TTAGAAAACAAAAATGACTAAGAC
* ** * *
5041722 TGAATTACAAGTCAAAAAGTAAAGATGATCGAA-ACTAAACCA
65 TAAACCACAAGTCAAAAACTAAAAATGATC-AAGACTAAA-CA
* * * * * * * * * * * * *
5041764 -CAAATCAAAAAATGAAAATGACTAA-GAATAAATCGCA-AGTTACAAAATAAATATGACTTAGG
1 GTAAGTCAGAAAATAAAAAAGA-TAAGGATTGAATTGCATA-TTAGAAAACAAAAATGACTAAGA
* * * *
5041826 CTAAATCACAAGTTAAAAACTAAAAATTATCAAGACTAAACT
64 CTAAACCACAAGTCAAAAACTAAAAATGATCAAGACTAAACA
* * **
5041868 GTAAGTTAGAAAATAAAAATGATTGGGATTGAATTGCATATTAGAAAACAAAAATGACTAAGACT
1 GTAAGTCAGAAAATAAAAAAGATAAGGATTGAATTGCATATTAGAAAACAAAAATGACTAAGACT
* *
5041933 AAACCACAAGTCAAAAACTAAAAATGATTAGGACTAAACA
66 AAACCACAAGTCAAAAACTAAAAATGATCAAGACTAAACA
*
5041973 GTAAGTCATG-AATTAAAAAAGATCAAGG-TTGAA
1 GTAAGTCA-GAAAATAAAAAAGAT-AAGGATTGAA
5042006 CCGTAAGTTA
Statistics
Matches: 189, Mismatches: 46, Indels: 15
0.76 0.18 0.06
Matches are distributed among these distances:
104 4 0.02
105 178 0.94
106 7 0.04
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.21
Consensus pattern (105 bp):
GTAAGTCAGAAAATAAAAAAGATAAGGATTGAATTGCATATTAGAAAACAAAAATGACTAAGACT
AAACCACAAGTCAAAAACTAAAAATGATCAAGACTAAACA
Found at i:5042026 original size:36 final size:36
Alignment explanation
Indices: 5041986--5042056 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
5041976 AGTCATGAAT
* * *
5041986 TAAAAAAGATC-AAGGTTGAACCGTAAGTTAAAAAAA
1 TAAAAAAGATCGAA-ATTGAACCGCAAGTCAAAAAAA
*
5042022 TAAAAATGATCGAAATTGAACCGCAAGTCAAAAAA
1 TAAAAAAGATCGAAATTGAACCGCAAGTCAAAAAA
5042057 TTAAGATGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.18
Consensus pattern (36 bp):
TAAAAAAGATCGAAATTGAACCGCAAGTCAAAAAAA
Found at i:5042057 original size:35 final size:36
Alignment explanation
Indices: 5042001--5042100 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 36
5041991 AAGATCAAGG
5042001 TTGAACCGTAAGTTAAAAAAATAAAAATGAT-CGAAA
1 TTGAACCGTAAG-TAAAAAAATAAAAATGATGCGAAA
* * * * *
5042037 TTGAACCGCAAGTCAAAAAATTAAGATG-TGCGAGA
1 TTGAACCGTAAGTAAAAAAATAAAAATGATGCGAAA
* **
5042072 TTGAACCGTAAGTTAGGAAATAAAAATGA
1 TTGAACCGTAAGTAAAAAAATAAAAATGA
5042101 CTGAGACTAA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
34 1 0.02
35 39 0.76
36 11 0.22
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (36 bp):
TTGAACCGTAAGTAAAAAAATAAAAATGATGCGAAA
Found at i:5042136 original size:35 final size:34
Alignment explanation
Indices: 5042089--5042303 Score: 110
Period size: 35 Copynumber: 6.2 Consensus size: 34
5042079 GTAAGTTAGG
*
5042089 AAATAAAAATGACT-GAGACTAAATCACAGGTAATA
1 AAATAAAAATGACTAG-GACTAAATCACAAGTAA-A
* **
5042124 AAATAAATATGACTAGGACTAAATCGTAAGTAAA
1 AAATAAAAATGACTAGGACTAAATCACAAGTAAA
** * **
5042158 AAATAAAAATGACTAAAACTGAATCTTAAGTAAAA
1 AAATAAAAATGACTAGGACTAAATCACAAGT-AAA
* * * * * **
5042193 AAATAAAGATGACCAGAATTAAACCGTAAGTCAAA
1 AAATAAAAATGACTAGGACTAAATCACAAGT-AAA
* * * * * * *
5042228 AACTAAAGATGA-TTGTGACTGAACCATAAGTTAAG
1 AAATAAAAATGACTAG-GACTAAATCACAAG-TAAA
* * * *
5042263 AGATAAAAATGACTAGGACTAAACCATAAGTTAA
1 AAATAAAAATGACTAGGACTAAATCACAAGTAAA
*
5042297 AAGTAAA
1 AAATAAA
5042304 GATTATCGTA
Statistics
Matches: 141, Mismatches: 34, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
34 35 0.25
35 102 0.72
36 4 0.03
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.21
Consensus pattern (34 bp):
AAATAAAAATGACTAGGACTAAATCACAAGTAAA
Found at i:5042170 original size:69 final size:70
Alignment explanation
Indices: 5042075--5042239 Score: 170
Period size: 69 Copynumber: 2.4 Consensus size: 70
5042065 TGCGAGATTG
* ** * * * * * *
5042075 AACCGTAAGTTAGGAAATAAAAATGACTGAGACTAAATCACAGGTAATAAAATAAATATGACTAG
1 AACCGTAAGTCAAAAAATAAAAATGACTAAAACTAAATCACAAGTAAAAAAATAAAGATGACCAG
*
5042140 GACTA
66 AACTA
* * **
5042145 AATCGTAAGT-AAAAAATAAAAATGACTAAAACTGAATCTTAAGTAAAAAAATAAAGATGACCAG
1 AACCGTAAGTCAAAAAATAAAAATGACTAAAACTAAATCACAAGTAAAAAAATAAAGATGACCAG
*
5042209 AATTA
66 AACTA
* *
5042214 AACCGTAAGTCAAAAACTAAAGATGA
1 AACCGTAAGTCAAAAAATAAAAATGA
5042240 TTGTGACTGA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
69 55 0.71
70 22 0.29
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.21
Consensus pattern (70 bp):
AACCGTAAGTCAAAAAATAAAAATGACTAAAACTAAATCACAAGTAAAAAAATAAAGATGACCAG
AACTA
Found at i:5043702 original size:17 final size:18
Alignment explanation
Indices: 5043680--5043720 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
5043670 ATGATTTATA
*
5043680 AATAAAATAATA-TTTTT
1 AATAAAATAATAGATTTT
5043697 AATAAAA-AATAGATTTT
1 AATAAAATAATAGATTTT
5043714 AA-AAAAT
1 AATAAAAT
5043721 TAAAATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AATAAAATAATAGATTTT
Found at i:5044091 original size:14 final size:13
Alignment explanation
Indices: 5044066--5044091 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5044056 ATTATTAGTA
5044066 AATAAATTTTTTT
1 AATAAATTTTTTT
5044079 AATAAATTTTTTT
1 AATAAATTTTTTT
5044092 GTTTTTAAAA
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATAAATTTTTTT
Found at i:5045017 original size:51 final size:50
Alignment explanation
Indices: 5044922--5045016 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
5044912 ATCGTCCTTT
*
5044922 TTTTTTTTCTCTTTTCCTTCTCTTTTTTTGTCTTTTATATTTTTTCTCGC
1 TTTTTTTTCTCTTTGCCTTCTCTTTTTTTGTCTTTTATATTTTTTCTCGC
* *
5044972 TTTTTTTTCTTCTTTGCCTTTTCTTTTCTT-T-TTTTATTATTTTTT
1 TTTTTTTTC-TCTTTGCCTTCTCTTTTTTTGTCTTTTA-TATTTTTT
5045017 TATTGTCACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 5 0.12
50 18 0.45
51 17 0.43
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (50 bp):
TTTTTTTTCTCTTTGCCTTCTCTTTTTTTGTCTTTTATATTTTTTCTCGC
Found at i:5045946 original size:23 final size:23
Alignment explanation
Indices: 5045903--5045948 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
5045893 CCTTTATTTC
*
5045903 TCTTCTCTTTCTCTTTGTTTGAT
1 TCTTCTCTTTCTCGTTGTTTGAT
*
5045926 TCTTCTCTTTTTTCGTT-TTTGAT
1 TCTTCTC-TTTCTCGTTGTTTGAT
5045949 CTCCTTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.04, C:0.20, G:0.09, T:0.67
Consensus pattern (23 bp):
TCTTCTCTTTCTCGTTGTTTGAT
Found at i:5050417 original size:22 final size:22
Alignment explanation
Indices: 5050391--5050476 Score: 68
Period size: 22 Copynumber: 3.9 Consensus size: 22
5050381 TTGTGATAGC
5050391 TTAATAATAAATGAATAATAAT
1 TTAATAATAAATGAATAATAAT
* *
5050413 TTAATAGT-AATTAATTAATAA-
1 TTAATAATAAATGAA-TAATAAT
* * *
5050434 TTATTTAATAAATCAGTAATAAT
1 TTA-ATAATAAATGAATAATAAT
* * *
5050457 ATAATACTAAATGCATAATA
1 TTAATAATAAATGAATAATA
5050477 CCTTAATGGT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
21 8 0.17
22 34 0.71
23 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (22 bp):
TTAATAATAAATGAATAATAAT
Found at i:5050432 original size:25 final size:25
Alignment explanation
Indices: 5050395--5050443 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
5050385 GATAGCTTAA
5050395 TAATAAATGAATAATAATTTAATAG
1 TAATAAATGAATAATAATTTAATAG
* * *
5050420 TAATTAATTAATAATTATTTAATA
1 TAATAAATGAATAATAATTTAATA
5050444 AATCAGTAAT
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:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TAATAAATGAATAATAATTTAATAG
Found at i:5050725 original size:61 final size:61
Alignment explanation
Indices: 5050619--5050735 Score: 141
Period size: 61 Copynumber: 1.9 Consensus size: 61
5050609 AAACTAATGG
** *
5050619 TAAATTAGTAATAATTTAATAATAAATCATTTTCAATTTAATAGTA-ATTAATTGATAGTAA
1 TAAATTAGTAATAATTTAATAATAAATCATGATCAAATTAATAGTATA-TAATTGATAGTAA
* *
5050680 TAAATTA-TAAATAATTTAATCATAAATCAATGAT-AAATTAGTAGTATATAATTGAT
1 TAAATTAGT-AATAATTTAATAATAAATC-ATGATCAAATTAATAGTATATAATTGAT
5050736 TATTTAGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
60 1 0.02
61 43 0.90
62 4 0.08
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (61 bp):
TAAATTAGTAATAATTTAATAATAAATCATGATCAAATTAATAGTATATAATTGATAGTAA
Found at i:5050846 original size:22 final size:21
Alignment explanation
Indices: 5050805--5050914 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 21
5050795 ATTTATAATA
* *
5050805 TAATAATTAATCAGTGATAACT
1 TAATAATAAATTA-TGATAACT
*
5050827 TAATAATAAATTATGCATAATT
1 TAATAATAAATTATG-ATAACT
* *
5050849 TAAT-ATAAATCATTAATAACT
1 TAATAATAAATTA-TGATAACT
** * *
5050870 TAGGAATGAATTATAGATAATT
1 TAATAATAAATTAT-GATAACT
* *
5050892 TAATAGTAAATCAATGATAACT
1 TAATAATAAAT-TATGATAACT
5050914 T
1 T
5050915 TGTAGTAAAT
Statistics
Matches: 65, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
21 17 0.26
22 46 0.71
23 2 0.03
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (21 bp):
TAATAATAAATTATGATAACT
Found at i:5050860 original size:43 final size:43
Alignment explanation
Indices: 5050799--5050914 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
5050789 TAAATCATTT
* * * *
5050799 ATAATATAATAATTAATCAGTGATAACTTAATAATAAATTAT-G
1 ATAATTTAAT-ATAAATCAATGATAACTTAAGAATAAATTATAG
* * * *
5050842 CATAATTTAATATAAATCATTAATAACTTAGGAATGAATTATAG
1 -ATAATTTAATATAAATCAATGATAACTTAAGAATAAATTATAG
5050886 ATAATTTAATAGTAAATCAATGATAACTT
1 ATAATTTAATA-TAAATCAATGATAACTT
5050915 TGTAGTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
43 36 0.59
44 25 0.41
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (43 bp):
ATAATTTAATATAAATCAATGATAACTTAAGAATAAATTATAG
Found at i:5051295 original size:22 final size:22
Alignment explanation
Indices: 5051270--5051348 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
5051260 AATTAGAAAA
*
5051270 AAATTATTGATAATTTAGTAGT
1 AAATAATTGATAATTTAGTAGT
*
5051292 AAATAATTGATAACTTAGTAGT
1 AAATAATTGATAATTTAGTAGT
* *
5051314 AAATAATTGATAATTTAATTGT
1 AAATAATTGATAATTTAGTAGT
* *
5051336 CAATCATTGATAA
1 AAATAATTGATAA
5051349 ATTTTTTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (22 bp):
AAATAATTGATAATTTAGTAGT
Found at i:5051664 original size:22 final size:22
Alignment explanation
Indices: 5051637--5051698 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
5051627 AGTTAAATAT
*
5051637 TGATAACTTAATAATAAATAAA
1 TGATAACTTAATAGTAAATAAA
* *
5051659 TGATAACTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATAAA
*
5051681 TGATAATTTAATAGTAAA
1 TGATAACTTAATAGTAAA
5051699 CCAGTTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATAAA
Found at i:5051762 original size:22 final size:22
Alignment explanation
Indices: 5051707--5051787 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
5051697 AACCAGTTTC
5051707 AATTTAGTAGT-AATCAATTAACA-
1 AATTTAGTAGTAAATC-A-TAA-AT
*
5051730 AATTTAATAGTAAATCATAAAT
1 AATTTAGTAGTAAATCATAAAT
5051752 AATTTAGTAGTAAATCATAAAT
1 AATTTAGTAGTAAATCATAAAT
* *
5051774 AACTTAGTACTAAA
1 AATTTAGTAGTAAA
5051788 CCAATGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
21 1 0.02
22 36 0.69
23 11 0.21
24 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (22 bp):
AATTTAGTAGTAAATCATAAAT
Found at i:5052064 original size:66 final size:66
Alignment explanation
Indices: 5051989--5052130 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 66
5051979 TTAAAAAGTA
* *
5051989 AGTAGTAAATCAATAATAACATAATAGTAAATTTA-TAATAATATAATAGTAAATCATTAATAAT
1 AGTAGTAAATCAATAATAACATAATAGTAAA-TCACTAATAATATAATAGTAAATCAGTAATAAT
5052053 TT
65 TT
* * * * * * * * *
5052055 AGATA-TAAATTATTGATAACTTAGTAGTAAATCACTAATAATTTAGTTGTAAATCAGTGATAAT
1 AG-TAGTAAATCAATAATAACATAATAGTAAATCACTAATAATATAATAGTAAATCAGTAATAAT
5052119 TT
65 TT
5052121 AGTAGTAAAT
1 AGTAGTAAAT
5052131 TAGTTAATTA
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
65 4 0.06
66 56 0.90
67 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (66 bp):
AGTAGTAAATCAATAATAACATAATAGTAAATCACTAATAATATAATAGTAAATCAGTAATAATT
T
Found at i:5052100 original size:22 final size:22
Alignment explanation
Indices: 5051989--5052144 Score: 127
Period size: 22 Copynumber: 7.0 Consensus size: 22
5051979 TTAAAAAGTA
* **
5051989 AGTAGTAAATCAATAATAACAT
1 AGTAGTAAATCATTAATAATTT
* * *
5052011 AATAGTAAAT-TTATAATAATAT
1 AGTAGTAAATCAT-TAATAATTT
*
5052033 AATAGTAAATCATTAATAATTT
1 AGTAGTAAATCATTAATAATTT
* * *
5052055 AGATA-TAAATTATTGATAACTT
1 AG-TAGTAAATCATTAATAATTT
*
5052077 AGTAGTAAATCACTAATAATTT
1 AGTAGTAAATCATTAATAATTT
* * *
5052099 AGTTGTAAATCAGTGATAATTT
1 AGTAGTAAATCATTAATAATTT
* *
5052121 AGTAGTAAATTAGTTAATTATTT
1 AGTAGTAAATCA-TTAATAATTT
5052144 A
1 A
5052145 TAAATTTATA
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
21 2 0.02
22 94 0.88
23 11 0.10
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.39
Consensus pattern (22 bp):
AGTAGTAAATCATTAATAATTT
Found at i:5052226 original size:44 final size:44
Alignment explanation
Indices: 5052142--5052228 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
5052132 AGTTAATTAT
* * *
5052142 TTATAAATTTATAATAAATCATCGATAAATTAATAGTAAATCAG
1 TTATAAATTTATAACAAATAATCGATAAATTAATAATAAATCAG
* * *
5052186 TTATAACTTTATAACAAATAATC-AGTAACTTAGTAATAAATCA
1 TTATAAATTTATAACAAATAATCGA-TAAATTAATAATAAATCA
5052229 TCAACAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 1 0.03
44 35 0.97
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (44 bp):
TTATAAATTTATAACAAATAATCGATAAATTAATAATAAATCAG
Found at i:5052231 original size:22 final size:21
Alignment explanation
Indices: 5052150--5052231 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 21
5052140 ATTTATAAAT
*
5052150 TTATAATAAATCATC-GATAAA
1 TTATAATAAATCATCAG-TAAC
* *
5052171 TTAATAGTAAATCAGTTA-TAAC
1 TT-ATAATAAATCA-TCAGTAAC
* *
5052193 TTTATAACAAATAATCAGTAAC
1 -TTATAATAAATCATCAGTAAC
5052215 TTAGTAATAAATCATCA
1 TTA-TAATAAATCATCA
5052232 ACAATTTTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
21 7 0.15
22 36 0.78
23 3 0.07
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (21 bp):
TTATAATAAATCATCAGTAAC
Found at i:5052338 original size:22 final size:22
Alignment explanation
Indices: 5052313--5052389 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
5052303 TTAGCAATAT
*
5052313 ATCATTAATAACTTAGTAGTAA
1 ATCATTAATAACTTAATAGTAA
* *
5052335 ATCACTAATAACATAATAGTAA
1 ATCATTAATAACTTAATAGTAA
* * ** *
5052357 ATCAATGATAACTTAATTTTTA
1 ATCATTAATAACTTAATAGTAA
5052379 ATCATTAATAA
1 ATCATTAATAA
5052390 ATTTTTTATA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (22 bp):
ATCATTAATAACTTAATAGTAA
Found at i:5052712 original size:22 final size:21
Alignment explanation
Indices: 5052680--5052739 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
5052670 CCATAACGTT
5052680 AATTACTAAAATTATATCAAG
1 AATTACTAAAATTATATCAAG
* * * *
5052701 AGGTTACCAAAATTTTATCAAT
1 A-ATTACTAAAATTATATCAAG
5052723 AATTACTAAAATTATAT
1 AATTACTAAAATTATAT
5052740 TATAAGTTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTACTAAAATTATATCAAG
Found at i:5052749 original size:21 final size:21
Alignment explanation
Indices: 5052682--5052749 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
5052672 ATAACGTTAA
* *
5052682 TTACTAAAATTATATCAAGAGG
1 TTACTAAAATTATAT-AATAAG
* *
5052704 TTACCAAAATTTTATCAATAA-
1 TTACTAAAATTATAT-AATAAG
*
5052725 TTACTAAAATTATATTATAAG
1 TTACTAAAATTATATAATAAG
5052746 TTAC
1 TTAC
5052750 CAAACTAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 4 0.11
21 17 0.45
22 17 0.45
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (21 bp):
TTACTAAAATTATATAATAAG
Found at i:5055186 original size:168 final size:168
Alignment explanation
Indices: 5054902--5055240 Score: 572
Period size: 168 Copynumber: 2.0 Consensus size: 168
5054892 GCCTTTAATA
* *
5054902 TTTCACATAATATATTTTTAGATGAAATTATTGAAGGTAGTTTTGGTTAAAAATGCCTTCAATAA
1 TTTCACACAATATATTTTTAGATGAAATTATTGAAGGCAGTTTTGGTTAAAAATGCCTTCAATAA
*
5054967 CATTTTGTTATAAATGATTCAAGGCATTTTCCTACTAAAAACACCTTTATTAATCCCATCAAAAA
66 CATTTTGTTATAAATGATTCAAGGCATTTTCCTACTAAAAACACATTTATTAATCCCATCAAAAA
5055032 AACATATTTGATATTGTATATATCAAGTTAGTTATAGG
131 AACATATTTGATATTGTATATATCAAGTTAGTTATAGG
5055070 TTTCACACAATATATTTTTAGATTG-AATTATTGAAGGCAGTTTTGGTTAAAAATGCCTTCAATA
1 TTTCACACAATATATTTTTAGA-TGAAATTATTGAAGGCAGTTTTGGTTAAAAATGCCTTCAATA
* * * *
5055134 ACATTTTGTTATAGATTATTCAAGGCTTTTTCCTGCTAAAAACACATTTATTAATCCCATCAAAA
65 ACATTTTGTTATAAATGATTCAAGGCATTTTCCTACTAAAAACACATTTATTAATCCCATCAAAA
* * *
5055199 AAACATATTTGATATTGTCTATGTCAAGTTAGTTGTAGG
130 AAACATATTTGATATTGTATATATCAAGTTAGTTATAGG
5055238 TTT
1 TTT
5055241 ATGCCCAGAA
Statistics
Matches: 160, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
168 158 0.99
169 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (168 bp):
TTTCACACAATATATTTTTAGATGAAATTATTGAAGGCAGTTTTGGTTAAAAATGCCTTCAATAA
CATTTTGTTATAAATGATTCAAGGCATTTTCCTACTAAAAACACATTTATTAATCCCATCAAAAA
AACATATTTGATATTGTATATATCAAGTTAGTTATAGG
Found at i:5055277 original size:35 final size:35
Alignment explanation
Indices: 5055224--5055293 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
5055214 TGTCTATGTC
* * * *
5055224 AAGTTAGTTGTAGGTTTATGCCCAGAAAACCTTTG
1 AAGTCAGTTGTAGATTTATACCCAGAAAACATTTG
*
5055259 AAGTCAGTTGTATATTTATACCCAGAAAACATTTG
1 AAGTCAGTTGTAGATTTATACCCAGAAAACATTTG
5055294 GTTTTATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (35 bp):
AAGTCAGTTGTAGATTTATACCCAGAAAACATTTG
Found at i:5059641 original size:17 final size:17
Alignment explanation
Indices: 5059613--5059652 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5059603 TTGTATGTTC
*
5059613 TATTAATTGAAAAATTTT
1 TATTATTTG-AAAATTTT
5059631 T-TTATTTGAAAATTTT
1 TATTATTTGAAAATTTT
5059647 TATTAT
1 TATTAT
5059653 ACAAGAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 10 0.50
18 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTATTTGAAAATTTT
Found at i:5066091 original size:3 final size:3
Alignment explanation
Indices: 5066080--5066136 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
5066070 TATTATTATG
5066080 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5066126 AAT AAT AAT AA
1 AAT AAT AAT AA
5066137 AAGAAATACA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5069590 original size:15 final size:14
Alignment explanation
Indices: 5069561--5069611 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
5069551 AATATTTAAA
5069561 AAATATATTATTTT
1 AAATATATTATTTT
*
5069575 AAATATTTTGATTTT
1 AAATATATT-ATTTT
5069590 ATAA-ATA-TATTTAT
1 A-AATATATTATTT-T
5069604 AAATATAT
1 AAATATAT
5069612 AAAAACTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 6 0.20
14 14 0.47
15 8 0.27
16 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
AAATATATTATTTT
Found at i:5069604 original size:12 final size:12
Alignment explanation
Indices: 5069587--5069611 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5069577 ATATTTTGAT
5069587 TTTATAAATATA
1 TTTATAAATATA
5069599 TTTATAAATATA
1 TTTATAAATATA
5069611 T
1 T
5069612 AAAAACTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTATAAATATA
Found at i:5069646 original size:24 final size:23
Alignment explanation
Indices: 5069619--5069706 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
5069609 TATAAAAACT
* *
5069619 TCTATATAATAATATTATTAATAA
1 TCTATAAAATAATATT-TTAAAAA
5069643 TCTATAAAATAATATTTTAAAAA
1 TCTATAAAATAATATTTTAAAAA
*
5069666 TC-AAATAAATAA-A-TTTAAAAA
1 TCTATA-AAATAATATTTTAAAAA
* *
5069687 TATA-AAAATATTATTATTAA
1 TCTATAAAATAATATT-TTAA
5069707 TTTATCATGA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.09
21 11 0.20
22 5 0.09
23 18 0.33
24 15 0.28
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (23 bp):
TCTATAAAATAATATTTTAAAAA
Found at i:5070872 original size:18 final size:18
Alignment explanation
Indices: 5070849--5070883 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5070839 ATTAATTTTG
*
5070849 ATAAAATTAAAAATAATA
1 ATAAAAATAAAAATAATA
*
5070867 ATAAAAATAAAATTAAT
1 ATAAAAATAAAAATAAT
5070884 TATTATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAAATAAAAATAATA
Found at i:5070912 original size:21 final size:21
Alignment explanation
Indices: 5070860--5070920 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
5070850 TAAAATTAAA
*
5070860 AATAA-TAATAAAAATAAAATT
1 AATAATTAAT-AAAATAAAATC
*
5070881 AATTATT-ATAATAATAAAATC
1 AATAATTAATAA-AATAAAATC
*
5070902 AA-AATTAATAAAAAAAAAT
1 AATAATTAATAAAATAAAAT
5070921 ATTTAAATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 12 0.36
21 20 0.61
22 1 0.03
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATTAATAAAATAAAATC
Found at i:5072186 original size:19 final size:19
Alignment explanation
Indices: 5072142--5072186 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
5072132 TAATAATATT
5072142 TAAC-AAAACAAACAAAAA
1 TAACAAAAACAAACAAAAA
*
5072160 -AATAAAAAACAAACAAAAA
1 TAA-CAAAAACAAACAAAAA
5072179 TAACAAAA
1 TAACAAAA
5072187 GAAAATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.80, C:0.13, G:0.00, T:0.07
Consensus pattern (19 bp):
TAACAAAAACAAACAAAAA
Found at i:5072429 original size:24 final size:24
Alignment explanation
Indices: 5072416--5072468 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
5072406 CGAAATCTCG
*
5072416 TTCAATCTCCCTCTAGGAATTCCC
1 TTCAATCTCCCTCTAGAAATTCCC
*
5072440 TTCAATCTCCCTC-AGAAAATCCCC
1 TTCAATCTCCCTCTAG-AAATTCCC
5072464 TTCAA
1 TTCAA
5072469 CCTCTGCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.26, C:0.38, G:0.06, T:0.30
Consensus pattern (24 bp):
TTCAATCTCCCTCTAGAAATTCCC
Found at i:5077965 original size:12 final size:12
Alignment explanation
Indices: 5077948--5077979 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
5077938 TCACTCCACC
5077948 TCAAGTTCAGGT
1 TCAAGTTCAGGT
5077960 TCAAGTTCAGGT
1 TCAAGTTCAGGT
5077972 TCAAGTTC
1 TCAAGTTC
5077980 CTCGGGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (12 bp):
TCAAGTTCAGGT
Found at i:5082269 original size:24 final size:24
Alignment explanation
Indices: 5082241--5082317 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
5082231 AAAACGTTTA
*
5082241 CATTACATTGCTATCCAAATGGTC
1 CATTATATTGCTATCCAAATGGTC
* * * * *
5082265 CATTATA-AG-AAACAAAATGTTC
1 CATTATATTGCTATCCAAATGGTC
5082287 ACATTATATTGCTATCCAAATGGTC
1 -CATTATATTGCTATCCAAATGGTC
5082312 CATTAT
1 CATTAT
5082318 TGGGAACAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 6
0.70 0.20 0.11
Matches are distributed among these distances:
22 9 0.23
23 8 0.21
24 13 0.33
25 9 0.23
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.34
Consensus pattern (24 bp):
CATTATATTGCTATCCAAATGGTC
Found at i:5082303 original size:47 final size:47
Alignment explanation
Indices: 5082208--5082360 Score: 184
Period size: 47 Copynumber: 3.3 Consensus size: 47
5082198 AACAACCAAT
* * *
5082208 TCCAAATGGTCCATTACAA-AGAA-AAAACGTTTACATTACATTGCTA
1 TCCAAATGGTCCATTATAAGA-AACAAAATGTTCACATTACATTGCTA
*
5082254 TCCAAATGGTCCATTATAAGAAACAAAATGTTCACATTATATTGCTA
1 TCCAAATGGTCCATTATAAGAAACAAAATGTTCACATTACATTGCTA
** * ***
5082301 TCCAAATGGTCCATTATTGGGAACAAAATGTTCACATTACAAAACTAA
1 TCCAAATGGTCCATTATAAGAAACAAAATGTTCACATTACATTGCT-A
5082349 TCCAAATGGTCC
1 TCCAAATGGTCC
5082361 CTCATCATAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 20 0.22
47 60 0.65
48 13 0.14
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (47 bp):
TCCAAATGGTCCATTATAAGAAACAAAATGTTCACATTACATTGCTA
Found at i:5082319 original size:22 final size:22
Alignment explanation
Indices: 5082247--5082319 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
5082237 TTTACATTAC
5082247 ATTGCTATCCAAATGGTCCATT
1 ATTGCTATCCAAATGGTCCATT
* * * * *
5082269 ATAAG-AAACAAAATGTTCACATTAT
1 AT-TGCTATCCAAATGGTC-CA-T-T
5082294 ATTGCTATCCAAATGGTCCATT
1 ATTGCTATCCAAATGGTCCATT
5082316 ATTG
1 ATTG
5082320 GGAACAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
22 16 0.44
23 4 0.11
24 4 0.11
25 12 0.33
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (22 bp):
ATTGCTATCCAAATGGTCCATT
Found at i:5086387 original size:18 final size:19
Alignment explanation
Indices: 5086353--5086388 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5086343 GCACCAATCC
5086353 ATGTAAACTTAAGACTCTT
1 ATGTAAACTTAAGACTCTT
*
5086372 ATGTAATCTT-AGACTCT
1 ATGTAAACTTAAGACTCT
5086389 AAGATAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
ATGTAAACTTAAGACTCTT
Found at i:5087647 original size:23 final size:23
Alignment explanation
Indices: 5087604--5087673 Score: 61
Period size: 23 Copynumber: 2.9 Consensus size: 23
5087594 TTTAATTAAC
* *
5087604 TTAAACGAAC-TCTTTCGTGAACA
1 TTAAACGAACAT-ATTCATGAACA
5087627 TTAAACGAACATATTCATGAACA
1 TTAAACGAACATATTCATGAACA
* *
5087650 TAGATAAATGAACACATTCATGAA
1 T---TAAACGAACATATTCATGAA
5087674 AAATAAACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 20 0.51
24 1 0.03
26 18 0.46
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (23 bp):
TTAAACGAACATATTCATGAACA
Found at i:5088159 original size:32 final size:32
Alignment explanation
Indices: 5088099--5088163 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
5088089 TGAATTGATG
***
5088099 AATTTAACCTAATCAAATTTGGGTTAAAAAAA
1 AATTTAACCTAATCAAATTTGCACTAAAAAAA
*
5088131 AATTTAACCTAATCATATTTGCACTAAAAAAA
1 AATTTAACCTAATCAAATTTGCACTAAAAAAA
5088163 A
1 A
5088164 CGAAAGTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (32 bp):
AATTTAACCTAATCAAATTTGCACTAAAAAAA
Found at i:5088432 original size:72 final size:73
Alignment explanation
Indices: 5088295--5088432 Score: 172
Period size: 72 Copynumber: 1.9 Consensus size: 73
5088285 TTATTTAATC
* * * * **
5088295 CAAATCTTTTATATTTTAATTTTAAAATAGAGATTTTTTATTTCCAAATTTAATTAAACTGTTAT
1 CAAATCTTTTATATTTTAATTTTAAAATAGAAAATTTTCATTTCCAAATTTAATCAAACAATTAT
5088360 TTATGTAA
66 TTATGTAA
* * *
5088368 CAAATCTTTTATCTTTTAA-TTTAAAATTA-AAAATTTTCATTTCTAAATTTAATCAATCAATTA
1 CAAATCTTTTATATTTTAATTTTAAAA-TAGAAAATTTTCATTTCCAAATTTAATCAAACAATTA
5088431 TT
65 TT
5088433 CATATTCTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
72 35 0.64
73 20 0.36
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (73 bp):
CAAATCTTTTATATTTTAATTTTAAAATAGAAAATTTTCATTTCCAAATTTAATCAAACAATTAT
TTATGTAA
Found at i:5090217 original size:21 final size:20
Alignment explanation
Indices: 5090187--5090226 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5090177 ACTTTTATTT
*
5090187 TTCATTTTTTCCATTTTCTC
1 TTCATTTTTTCCATCTTCTC
*
5090207 TTCATTATTTTGCATCTTCT
1 TTCATT-TTTTCCATCTTCT
5090227 TTTTTAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.23, G:0.03, T:0.62
Consensus pattern (20 bp):
TTCATTTTTTCCATCTTCTC
Found at i:5096026 original size:54 final size:54
Alignment explanation
Indices: 5095944--5096065 Score: 217
Period size: 54 Copynumber: 2.3 Consensus size: 54
5095934 TCTGGCTTAT
*
5095944 CACCAACTGTGGCTGGTTCATTCATATTTTCAAGTTCTGTTTCTTACTCATTTC
1 CACCATCTGTGGCTGGTTCATTCATATTTTCAAGTTCTGTTTCTTACTCATTTC
* *
5095998 CACCATCTGTGGCTGGTTCATTCATATTTTTAAGTTCTGTTTCTTGCTCATTTC
1 CACCATCTGTGGCTGGTTCATTCATATTTTCAAGTTCTGTTTCTTACTCATTTC
5096052 CACCATCTGTGGCT
1 CACCATCTGTGGCT
5096066 CTTTCCTATG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.44
Consensus pattern (54 bp):
CACCATCTGTGGCTGGTTCATTCATATTTTCAAGTTCTGTTTCTTACTCATTTC
Found at i:5099786 original size:7 final size:7
Alignment explanation
Indices: 5099770--5099798 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5099760 CACCAATTTG
5099770 GTAA-TT
1 GTAAGTT
5099776 GTAAGTT
1 GTAAGTT
5099783 GTAAGTT
1 GTAAGTT
5099790 GTAAGTT
1 GTAAGTT
5099797 GT
1 GT
5099799 TCAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (7 bp):
GTAAGTT
Found at i:5100272 original size:16 final size:16
Alignment explanation
Indices: 5100253--5100301 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
5100243 AAATGAAAAT
5100253 AAAATAAAATATTAAA
1 AAAATAAAATATTAAA
5100269 AAAAT-AAA-ATTAAA
1 AAAATAAAATATTAAA
* *
5100283 AATAATATAATAATAAA
1 AA-AATAAAATATTAAA
5100300 AA
1 AA
5100302 CATATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 7 0.25
17 7 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATAAAATATTAAA
Found at i:5100284 original size:23 final size:21
Alignment explanation
Indices: 5100248--5100300 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
5100238 CCATTAAATG
*
5100248 AAAATAAAATAAAATATTAAA
1 AAAATAAAATAAAATAATAAA
*
5100269 AAAATAAAATTAAAAATAATATA
1 AAAATAAAA-T-AAAATAATAAA
*
5100292 ATAATAAAA
1 AAAATAAAA
5100301 ACATATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 1 0.04
23 17 0.63
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAAATAAAATAATAAA
Found at i:5101788 original size:15 final size:15
Alignment explanation
Indices: 5101770--5101798 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5101760 ATAATAATAA
5101770 TAATAGTAGTAGTAG
1 TAATAGTAGTAGTAG
5101785 TAATAGTAGTAGTA
1 TAATAGTAGTAGTA
5101799 CTACTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (15 bp):
TAATAGTAGTAGTAG
Found at i:5101986 original size:16 final size:16
Alignment explanation
Indices: 5101965--5101995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5101955 GGGATTATTA
5101965 AATAATAAAAAATAAT
1 AATAATAAAAAATAAT
*
5101981 AATAATAAAAGATAA
1 AATAATAAAAAATAA
5101996 ATAAACAATA
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:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AATAATAAAAAATAAT
Found at i:5102010 original size:24 final size:23
Alignment explanation
Indices: 5101969--5102013 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
5101959 TTATTAAATA
*
5101969 ATAAAAAATAATAATAATAAAAG
1 ATAAAAAACAATAATAATAAAAG
5101992 ATAAATAAACAATAATAATAAA
1 ATAAA-AAACAATAATAATAAA
5102014 TTTTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAAAAACAATAATAATAAAAG
Found at i:5102411 original size:17 final size:17
Alignment explanation
Indices: 5102389--5102436 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
5102379 ATAATTTTAT
5102389 AATTAAAAAAATAATAA
1 AATTAAAAAAATAATAA
* *
5102406 AATTAAATAAAGAATAA
1 AATTAAAAAAATAATAA
* *
5102423 AAATAAAATAATAA
1 AATTAAAAAAATAA
5102437 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AATTAAAAAAATAATAA
Found at i:5102431 original size:18 final size:17
Alignment explanation
Indices: 5102392--5102433 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
5102382 ATTTTATAAT
*
5102392 TAAAA-AAATAATAAAA
1 TAAAATAAAGAATAAAA
*
5102408 TTAAATAAAGAATAAAAA
1 TAAAATAAAGAAT-AAAA
5102426 TAAAATAA
1 TAAAATAA
5102434 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 6 0.29
18 11 0.52
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
TAAAATAAAGAATAAAA
Found at i:5103381 original size:26 final size:25
Alignment explanation
Indices: 5103348--5103397 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
5103338 AAAATTTTGG
**
5103348 ATTTAATTGGTTTTATTTTACATTTA
1 ATTTAATTCCTTTTATTTTA-ATTTA
5103374 ATTTAATTCCTTTTATTTTAATTT
1 ATTTAATTCCTTTTATTTTAATTT
5103398 TTCAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (25 bp):
ATTTAATTCCTTTTATTTTAATTTA
Found at i:5106099 original size:7 final size:7
Alignment explanation
Indices: 5106083--5106153 Score: 61
Period size: 7 Copynumber: 9.7 Consensus size: 7
5106073 AGGCCCATTT
*
5106083 TATTTCG
1 TATTTTG
5106090 TATTTTG
1 TATTTTG
*
5106097 TATTTTA
1 TATTTTG
*
5106104 TATTTTA
1 TATTTTG
5106111 TATTTTG
1 TATTTTG
*
5106118 TATTTTA
1 TATTTTG
* *
5106125 TTTTATTT
1 TATT-TTG
5106133 TATTTTG
1 TATTTTG
5106140 TATCTTATG
1 TAT-TT-TG
5106149 TATTT
1 TATTT
5106154 ATTATTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
7 39 0.74
8 9 0.17
9 5 0.09
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (7 bp):
TATTTTG
Found at i:5106207 original size:27 final size:28
Alignment explanation
Indices: 5106149--5106208 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
5106139 GTATCTTATG
* * *
5106149 TATTTATTATTTATTTATTTATTATTAC
1 TATTTATTATATATATATTTATTAATAC
*
5106177 TATTTATTA-ATATATATTTATTAATAT
1 TATTTATTATATATATATTTATTAATAC
5106204 TATTT
1 TATTT
5106209 TTTTATCTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTATTATATATATATTTATTAATAC
Found at i:5106230 original size:39 final size:40
Alignment explanation
Indices: 5106156--5106300 Score: 137
Period size: 39 Copynumber: 3.8 Consensus size: 40
5106146 ATGTATTTAT
*
5106156 TATTTATTTAT-TTAT-TA-TTA-CTATT-TATTAATATA
1 TATTTATTAATATTATCTATTTATCTATTATATTAATATA
* * * *
5106191 TATTTATTAATATTATTTTTTTATCTGTTAATATTTATATA
1 TATTTATTAATATTATCTATTTATCTATT-ATATTAATATA
*
5106232 TATTTATT-AT-TTATCTATTTATCTATTATA-T-ATATG
1 TATTTATTAATATTATCTATTTATCTATTATATTAATATA
* *
5106268 TATTTATTATTATTTATCTATTTATATATTATA
1 TATTTATTAATA-TTATCTATTTATCTATTATA
5106301 ATTTATCTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
35 10 0.11
36 16 0.18
37 3 0.03
38 6 0.07
39 37 0.41
40 2 0.02
41 17 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (40 bp):
TATTTATTAATATTATCTATTTATCTATTATATTAATATA
Found at i:5106261 original size:32 final size:32
Alignment explanation
Indices: 5106225--5106311 Score: 119
Period size: 32 Copynumber: 2.8 Consensus size: 32
5106215 CTGTTAATAT
5106225 TTATATATATTTATTATTTATCTATTTATCTA
1 TTATATATATTTATTATTTATCTATTTATCTA
*
5106257 TTATATATATGTATT-TATTAT-TATTTATCTA
1 TTATATATATTTATTAT-TTATCTATTTATCTA
*
5106288 TT-TATATA-TTATAATTTATCTATT
1 TTATATATATTTATTATTTATCTATT
5106312 ATTATTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
29 7 0.14
30 11 0.22
31 13 0.27
32 18 0.37
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (32 bp):
TTATATATATTTATTATTTATCTATTTATCTA
Found at i:5106314 original size:39 final size:39
Alignment explanation
Indices: 5106149--5106328 Score: 129
Period size: 39 Copynumber: 4.6 Consensus size: 39
5106139 GTATCTTATG
* *
5106149 TATTTATTATTTATTTATTTA-TTATTACTATT-TATTAATATA
1 TATTTATTA-TTATTTATCTATTTA-TA-TATTATA-T-ATATC
* * * * * * *
5106191 TATTTATTAATA-TTATTTTTTTATCTGTTA-ATATTTA
1 TATTTATTATTATTTATCTATTTATATATTATATATATC
* * *
5106228 TATATATTTATTATTTATCTATTTATCTATTATATATATG
1 TATTTA-TTATTATTTATCTATTTATATATTATATATATC
*
5106268 TATTTATTATTATTTATCTATTTATATATTATAATTTATC
1 TATTTATTATTATTTATCTATTTATATATTAT-ATATATC
*
5106308 TA-TTATTATT-TTTATTTATTT
1 TATTTATTATTATTTATCTATTT
5106329 GTTAATATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
37 9 0.08
38 16 0.14
39 52 0.45
40 24 0.21
41 5 0.04
42 9 0.08
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (39 bp):
TATTTATTATTATTTATCTATTTATATATTATATATATC
Found at i:5106345 original size:4 final size:4
Alignment explanation
Indices: 5106121--5106328 Score: 88
Period size: 4 Copynumber: 49.8 Consensus size: 4
5106111 TATTTTGTAT
* *
5106121 TTTA TTTTA TTTTA TTT- TGTA TCTTA TGTA TTTA -TTA TTTA TTTA TTTA
1 TTTA -TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
5106170 -TTA TTACTA TTTA TTAATA TATA TTTA TTAA TATTA TTTT TTTA TCTG
1 TTTA TT--TA TTTA TT--TA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
* * *
5106218 TTAATA TTTA TATATA TTTA -TTA TTTA TCTA TTTA TCTA TTATA TATA
1 TT--TA TTTA T-T-TA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
* * * *
5106266 TGTA TTTA -TTA -TTA TTTA TCTA TTTA TATA TTATAA TTTA TCTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA
*
5106313 TTATT TTTA TTTA TTT
1 TT-TA TTTA TTTA TTT
5106329 GTTAATATTT
Statistics
Matches: 154, Mismatches: 29, Indels: 41
0.69 0.13 0.18
Matches are distributed among these distances:
3 19 0.12
4 94 0.61
5 25 0.16
6 16 0.10
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:5115199 original size:23 final size:23
Alignment explanation
Indices: 5115173--5115224 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
5115163 GGGAGCTGGT
*
5115173 CAGGGGGCTGGTCAAGAGGTTGA
1 CAGGGGGCTGGTCAAGAGGCTGA
**
5115196 CAGGGGGCTGGTCGGGAGGCTGA
1 CAGGGGGCTGGTCAAGAGGCTGA
5115219 CAGGGG
1 CAGGGG
5115225 CGGCAGCGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.15, G:0.54, T:0.13
Consensus pattern (23 bp):
CAGGGGGCTGGTCAAGAGGCTGA
Found at i:5115280 original size:12 final size:12
Alignment explanation
Indices: 5115263--5115287 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5115253 TTCTGTCTTA
5115263 TTTTTTTAAAAT
1 TTTTTTTAAAAT
5115275 TTTTTTTAAAAT
1 TTTTTTTAAAAT
5115287 T
1 T
5115288 ATAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTTAAAAT
Found at i:5115336 original size:3 final size:3
Alignment explanation
Indices: 5115326--5115362 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
5115316 ATATTTTAAA
*
5115326 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5115363 ATATACTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5115910 original size:102 final size:102
Alignment explanation
Indices: 5115783--5116298 Score: 594
Period size: 102 Copynumber: 5.1 Consensus size: 102
5115773 TAACGTTAAA
* * * * * ** *
5115783 GGATTGAATCAC-AAGTAAGAA-AATAAAAAGATCGAGATTAAACCACGAGTCAGAGGATAACAA
1 GGATTGAATCACGAA-T-CGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAA
* * *
5115846 CAATCGAGATTAAATTGTGACTTTGAATTAAAGAGATCG
64 CAATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* *
5115885 GGATTGAATCGCGAATCGAAGAATAAAAAGA-CTGGGATTAAATCACGAGTCAAAAAATAATAAC
1 GGATTGAATCACGAATCGAAGAATAAAGAGATC-GGGATTAAATCACGAGTCAAAAAATAATAAC
* *
5115949 AATCGAGATTAAACTGTAATTTTAAGTTAAAGAGATCG
65 AATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* * * * * * *
5115987 GGATTGAACCATGAATCAAAGAATAAAGAGATCGGGATTAAATTACAAGTCAAAAAATAACAATA
1 GGATTGAATCACGAATCGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAACA
* * * *
5116052 ATCAAGATTAAACTATAATTTTAAATTAAAGAGATTG
66 ATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
*
5116089 GGATTGAATCGCGAATCGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAACA
1 GGATTGAATCACGAATCGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAACA
* * ** *
5116154 ATTGAGATTAAATTACGATTTTAAATTAAAGGGATCG
66 ATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
* * * * *
5116191 AGATTGAA-CTACAAAT--AAGAATAAAGAGATCAGAATTAAACCACGAGTCAAAAAATAATAAC
1 GGATTGAATC-ACGAATCGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAAC
* *
5116253 AATCGAGATTAAACTGTGATTTTAAAATGAAGAGATCG
65 AATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
*
5116291 AGATTGAA
1 GGATTGAA
5116299 CCATAAGTCA
Statistics
Matches: 355, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
100 82 0.23
101 5 0.01
102 265 0.75
103 3 0.01
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.23
Consensus pattern (102 bp):
GGATTGAATCACGAATCGAAGAATAAAGAGATCGGGATTAAATCACGAGTCAAAAAATAATAACA
ATCGAGATTAAACTGTGATTTTAAATTAAAGAGATCG
Found at i:5116040 original size:34 final size:33
Alignment explanation
Indices: 5115976--5116148 Score: 98
Period size: 34 Copynumber: 5.1 Consensus size: 33
5115966 AATTTTAAGT
* * * *
5115976 TAAAGAGATCGGGATTGAACCATGAATCAAAGAA
1 TAAAGAGATCGGGATTAAATCA-CAATCAAAAAA
*
5116010 TAAAGAGATCGGGATTAAATTACAAGTCAAAAAA
1 TAAAGAGATCGGGATTAAATCACAA-TCAAAAAA
* ** * *** *
5116044 TAACA-ATAATCAAGATTAAA-CTATAATTTTAAAT
1 TAA-AGA-GATCGGGATTAAATC-ACAATCAAAAAA
* * * * *
5116078 TAAAGAGATTGGGATTGAATCGCGAATCGAAGAA
1 TAAAGAGATCGGGATTAAATCAC-AATCAAAAAA
*
5116112 TAAAGAGATCGGGATTAAATCACGAGTCAAAAAA
1 TAAAGAGATCGGGATTAAATCAC-AATCAAAAAA
5116146 TAA
1 TAA
5116149 TAACAATTGA
Statistics
Matches: 100, Mismatches: 32, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
33 11 0.11
34 75 0.75
35 14 0.14
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (33 bp):
TAAAGAGATCGGGATTAAATCACAATCAAAAAA
Found at i:5116594 original size:147 final size:147
Alignment explanation
Indices: 5116297--5116751 Score: 607
Period size: 147 Copynumber: 3.1 Consensus size: 147
5116287 ATCGAGATTG
*
5116297 AACCATAAGTCAA-AGAATTAATGAAATGATCAGGATTAAACCGCGAGCCAAAGATTAAAGATGA
1 AACCATAAGTCAAGAGAATTAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATGA
* * *
5116361 CTGGAACTAAATCGCAAGTCGAGGGAATTAATGAAATGATCGGGATTAAATCATGAGCCAAAGAT
66 CTGGGACTAAACCGCAAGTCGA--GAATTAATGAAATGATCGGAATTAAATCATGAGCCAAAGAT
*
5116426 TAAAGATGATTGAGACT-A
129 TAAAGATGACTGAGACTGA
* * *
5116444 AACCACAAGTCAAGA-AATTGATGAAATGATCAGGATTAAACCACGAGTCAAAGATTAAAGATGA
1 AACCATAAGTCAAGAGAATTAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATGA
* * * * *
5116508 CTGGGACTGAACCACAAGTCGAGCAATTAATGAAATGATCGAAATTAAACCATGAGTCAAAGGA-
66 CTGGGACTAAACCGCAAGTCGAG-AATTAATGAAATGATCGGAATTAAATCATGAGCCAAA-GAT
5116572 TAAAGATGACTGAGACTGA
129 TAAAGATGACTGAGACTGA
* * * *
5116591 AACCGTAAGTC-AGAGAATTAATGAAATGACCGGGGTTAAACCACGAGCCAAAGATTAAAGATGA
1 AACCATAAGTCAAGAGAATTAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATGA
* ** *
5116655 CTGGGACTAAACTGCAAGTCGAAGAATTAATGAAATGATCGGAATTAAATCGCGAGCCAAACATT
66 CTGGGACTAAACCGCAAGTCG-AGAATTAATGAAATGATCGGAATTAAATCATGAGCCAAAGATT
*
5116720 AAAGATGACTGGGACTG-
130 AAAGATGACTGAGACTGA
* *
5116737 AATCGTAAGTCAAGA
1 AACCATAAGTCAAGA
5116752 TATAAGACTG
Statistics
Matches: 269, Mismatches: 31, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
145 1 0.00
146 63 0.23
147 202 0.75
148 3 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (147 bp):
AACCATAAGTCAAGAGAATTAATGAAATGATCAGGATTAAACCACGAGCCAAAGATTAAAGATGA
CTGGGACTAAACCGCAAGTCGAGAATTAATGAAATGATCGGAATTAAATCATGAGCCAAAGATTA
AAGATGACTGAGACTGA
Found at i:5116690 original size:220 final size:220
Alignment explanation
Indices: 5116295--5116738 Score: 578
Period size: 220 Copynumber: 2.0 Consensus size: 220
5116285 AGATCGAGAT
* * *
5116295 TGAACCATAAGTCAAAGAATTAATGAAATGATCAGGATTAAACCGCGAGCCAAAGATTAAAGATG
1 TGAACCACAAGTCAAAGAATTAATGAAATGATCAGAATTAAACCACGAGCCAAAGATTAAAGATG
* * * * *
5116360 ACTGGAACTAAATCGCAAGTCGAGGGAATTAATGAAATGATCGGGATTAAATCATGAGCCAAAGA
66 ACTGGAACTAAACCGCAAGTCGAGAGAATTAATGAAATGACCGGGATTAAACCACGAGCCAAAGA
* *
5116425 TTAAAGATGATTGAGACTAAACCACAAGTCAAGAAATTGATGAAATGATCAGG-ATTAAACCACG
131 TTAAAGATGACTGAGACTAAACCACAAGTCAAGAAATTAATGAAATGATC-GGAATTAAACCACG
* *
5116489 AGTCAAAGATTAAAGATGACTGGGAC
195 AGCCAAACATTAAAGATGACTGGGAC
* * *
5116515 TGAACCACAAGTC-GAGCAATTAATGAAATGATC-GAAATTAAACCATGAGTCAAAGGA-TAAAG
1 TGAACCACAAGTCAAAG-AATTAATGAAATGATCAG-AATTAAACCACGAGCCAAA-GATTAAAG
* *
5116577 ATGACT-GAGACTGAAACCGTAAGTC-AGAGAATTAATGAAATGACCGGGGTTAAACCACGAGCC
63 ATGACTGGA-ACT-AAACCGCAAGTCGAGAGAATTAATGAAATGACCGGGATTAAACCACGAGCC
* **
5116640 AAAGATTAAAGATGACTGGGACTAAACTGCAAGTCGAAG-AATTAATGAAATGATCGGAATTAAA
126 AAAGATTAAAGATGACTGAGACTAAACCACAAGTC-AAGAAATTAATGAAATGATCGGAATTAAA
* *
5116704 TCGCGAGCCAAACATTAAAGATGACTGGGAC
190 CCACGAGCCAAACATTAAAGATGACTGGGAC
5116735 TGAA
1 TGAA
5116739 TCGTAAGTCA
Statistics
Matches: 195, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
219 7 0.04
220 173 0.89
221 15 0.08
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (220 bp):
TGAACCACAAGTCAAAGAATTAATGAAATGATCAGAATTAAACCACGAGCCAAAGATTAAAGATG
ACTGGAACTAAACCGCAAGTCGAGAGAATTAATGAAATGACCGGGATTAAACCACGAGCCAAAGA
TTAAAGATGACTGAGACTAAACCACAAGTCAAGAAATTAATGAAATGATCGGAATTAAACCACGA
GCCAAACATTAAAGATGACTGGGAC
Found at i:5116747 original size:73 final size:71
Alignment explanation
Indices: 5116303--5116751 Score: 495
Period size: 73 Copynumber: 6.1 Consensus size: 71
5116293 ATTGAACCAT
* *
5116303 AAGTCAAAGAATTAATGAAATGATCAGGATTAAACCGCGAGCCAAAGATTAAAGATGACTGGAAC
1 AAGTC-AAGAATTAATGAAATGATC-GGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGAC
* *
5116368 TAAATCGC
64 TGAACCGC
* * * * *
5116376 AAGTCGAGGGAATTAATGAAATGATCGGGATTAAATCATGAGCCAAAGATTAAAGATGATTGAGA
1 AAGTC-A-AGAATTAATGAAATGATC-GGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGA
* *
5116441 CTAAACCAC
63 CTGAACCGC
* *
5116450 AAGTCAAGAAATTGATGAAATGATCAGGATTAAACCACGAGTCAAAGATTAAAGATGACTGGGAC
1 AAGTCAAG-AATTAATGAAATGATC-GGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGAC
*
5116515 TGAACCAC
64 TGAACCGC
* * * * *
5116523 AAGTCGAGCAATTAATGAAATGATCGAAATTAAACCATGAGTCAAAGGA-TAAAGATGACTGAGA
1 AAGTCAAG-AATTAATGAAATGATCG-GATTAAACCACGAGCCAAA-GATTAAAGATGACTGGGA
*
5116587 CTGAAACCGT
63 CTG-AACCGC
* *
5116597 AAGTCAGAGAATTAATGAAATGACCGGGGTTAAACCACGAGCCAAAGATTAAAGATGACTGGGAC
1 AAGTCA-AGAATTAATGAAATGATC-GGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGAC
* *
5116662 TAAACTGC
64 TGAACCGC
* * *
5116670 AAGTCGAAGAATTAATGAAATGATCGGAATTAAATCGCGAGCCAAACATTAAAGATGACTGGGAC
1 AAGTC-AAGAATTAATGAAATGATCGG-ATTAAACCACGAGCCAAAGATTAAAGATGACTGGGAC
* *
5116735 TGAATCGT
64 TGAACCGC
5116743 AAGTCAAGA
1 AAGTCAAGA
5116752 TATAAGACTG
Statistics
Matches: 319, Mismatches: 47, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
72 8 0.03
73 189 0.59
74 119 0.37
75 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (71 bp):
AAGTCAAGAATTAATGAAATGATCGGATTAAACCACGAGCCAAAGATTAAAGATGACTGGGACTG
AACCGC
Found at i:5117804 original size:9 final size:9
Alignment explanation
Indices: 5117778--5117846 Score: 86
Period size: 9 Copynumber: 7.6 Consensus size: 9
5117768 AATCACTTTC
5117778 TTTTTCATT
1 TTTTTCATT
*
5117787 TTCTT-ATT
1 TTTTTCATT
5117795 TTTTTCATT
1 TTTTTCATT
5117804 TTTTTCATT
1 TTTTTCATT
5117813 TTTTTCATT
1 TTTTTCATT
*
5117822 TTTTTGTATAT
1 TTTTT-CAT-T
*
5117833 TTTTTTATT
1 TTTTTCATT
5117842 TTTTT
1 TTTTT
5117847 TTGTTTAAGC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
8 7 0.13
9 36 0.67
10 5 0.09
11 6 0.11
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.80
Consensus pattern (9 bp):
TTTTTCATT
Found at i:5117806 original size:18 final size:17
Alignment explanation
Indices: 5117778--5117846 Score: 84
Period size: 19 Copynumber: 3.8 Consensus size: 17
5117768 AATCACTTTC
*
5117778 TTTTTCATTTTCTTATT
1 TTTTTCATTTTTTTATT
5117795 TTTTTCATTTTTTTCATT
1 TTTTTCATTTTTTT-ATT
5117813 TTTTTCATTTTTTTGTATAT
1 TTTTTCA-TTTTTT-TAT-T
*
5117833 TTTTTTATTTTTTT
1 TTTTTCATTTTTTT
5117847 TTGTTTAAGC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
17 13 0.28
18 11 0.24
19 14 0.30
20 8 0.17
ACGTcount: A:0.12, C:0.07, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTCATTTTTTTATT
Found at i:5117824 original size:17 final size:16
Alignment explanation
Indices: 5117778--5117825 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 16
5117768 AATCACTTTC
5117778 TTTTTCATTTTCTTATT
1 TTTTTCATTTT-TTATT
5117795 TTTTTCATTTTTTTCATT
1 TTTTTCA-TTTTTT-ATT
5117813 TTTTTCATTTTTT
1 TTTTTCATTTTTT
5117826 TGTATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTCATTTTTTATT
Found at i:5130587 original size:15 final size:16
Alignment explanation
Indices: 5130567--5130628 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
5130557 AAAATTTTAA
*
5130567 TTAATTTTTA-ATTTT
1 TTAATTATTATATTTT
5130582 TTAATTATTATATTTT
1 TTAATTATTATATTTT
*
5130598 TTAAATATT-TATTATT
1 TTAATTATTATATT-TT
5130614 ATT-ATTATTAATATT
1 -TTAATTATT-ATATT
5130629 AGTATTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 13 0.33
16 20 0.51
17 2 0.05
18 4 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATTATTATATTTT
Found at i:5130596 original size:23 final size:22
Alignment explanation
Indices: 5130566--5130625 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
5130556 AAAAATTTTA
*
5130566 ATTA-ATTTTTAATTTTTTAATT
1 ATTATATTTTTAATTATTT-ATT
*
5130588 ATTATATTTTTTAAATATTTATT
1 ATTATA-TTTTTAATTATTTATT
*
5130611 ATTATTATTATTAAT
1 ATTA-TATTTTTAAT
5130626 ATTAGTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 4 0.13
23 14 0.45
24 13 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTATATTTTTAATTATTTATT
Found at i:5132590 original size:20 final size:19
Alignment explanation
Indices: 5132565--5132603 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
5132555 TGTGTAGCCA
5132565 ATTTTGTATTTTATATTTAT
1 ATTTTGTATTTTAT-TTTAT
5132585 ATTTTGTATTTTATTTTAT
1 ATTTTGTATTTTATTTTAT
5132604 TTTATTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
ATTTTGTATTTTATTTTAT
Found at i:5132625 original size:22 final size:23
Alignment explanation
Indices: 5132565--5132648 Score: 69
Period size: 22 Copynumber: 4.0 Consensus size: 23
5132555 TGTGTAGCCA
5132565 ATTTTGTATTTTA---TATTTAT
1 ATTTTGTATTTTATCTTATTTAT
*
5132585 ATTTTGTATTTTATTTTATTT-T
1 ATTTTGTATTTTATCTTATTTAT
*
5132607 ATTTTGT-TTTGTATCTTATGTAT
1 ATTTTGTATTT-TATCTTATTTAT
*
5132630 -TTAT-TA-TTTAT-TTATTTAT
1 ATTTTGTATTTTATCTTATTTAT
5132649 TATTACTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.13
20 16 0.30
21 6 0.11
22 19 0.35
23 6 0.11
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.71
Consensus pattern (23 bp):
ATTTTGTATTTTATCTTATTTAT
Found at i:5132673 original size:42 final size:42
Alignment explanation
Indices: 5132627--5132846 Score: 180
Period size: 42 Copynumber: 5.5 Consensus size: 42
5132617 GTATCTTATG
*
5132627 TATTTATTATTTATTTATTTAT-TATTACTATTTAT-TAATAT
1 TATTTATTATTTATCTATTTATATATTA-TATTTATCTAATAT
* * * *
5132668 ATATTTATTATTAAT-TTTTTATCTGTTAATATTTA--T-ATA-
1 -TATTTATTATTTATCTATTTATATATT-ATATTTATCTAATAT
* *
5132707 TATTTATTATTTATCTATTTATATATTATATATATGT-AT-T
1 TATTTATTATTTATCTATTTATATATTATATTTATCTAATAT
*
5132747 TA-TTATTATTTATCTATTTATATATTATAATTTATCTATTAT
1 TATTTATTATTTATCTATTTATATATTAT-ATTTATCTAATAT
* * * *
5132789 TATTT-TTATTTATCTGTTAATAT-TTTTATTTATCTGATTAT
1 TATTTATTATTTATCTATTTATATATTATATTTATCT-AATAT
*
5132830 T-TTT-TTAATTATCTATT
1 TATTTATTATTTATCTATT
5132847 AACATTTTTT
Statistics
Matches: 151, Mismatches: 16, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
38 19 0.13
39 35 0.23
40 36 0.24
41 17 0.11
42 41 0.27
43 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (42 bp):
TATTTATTATTTATCTATTTATATATTATATTTATCTAATAT
Found at i:5132678 original size:27 final size:28
Alignment explanation
Indices: 5132627--5132797 Score: 91
Period size: 28 Copynumber: 6.4 Consensus size: 28
5132617 GTATCTTATG
* *
5132627 TATTTATTATTTATTTATTTATTATTAC
1 TATTTATTATATATATATTTATTATTAC
5132655 TATTTATTA-ATATATATTTATTATTA-
1 TATTTATTATATATATATTTATTATTAC
* * *
5132681 -ATTTTTTATCTGTTAATATTTA-TA-TA-
1 TATTTATTATAT-AT-ATATTTATTATTAC
* *
5132707 TATTTATTATTTATCTATTTATATATTA-
1 TATTTATTATATATATATTTAT-TATTAC
* *
5132735 TA--TA-TATGTATTTA-TTATTATTTATC
1 TATTTATTATATATATATTTATTA-TTA-C
*
5132761 TATTTA-TATAT-TATAATTTATCTATTAT
1 TATTTATTATATATAT-ATTTAT-TATTAC
5132789 TATTT-TTAT
1 TATTTATTAT
5132798 TTATCTGTTA
Statistics
Matches: 113, Mismatches: 14, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
23 2 0.02
24 7 0.06
25 21 0.19
26 8 0.07
27 31 0.27
28 35 0.31
29 7 0.06
30 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (28 bp):
TATTTATTATATATATATTTATTATTAC
Found at i:5132738 original size:32 final size:32
Alignment explanation
Indices: 5132622--5132786 Score: 132
Period size: 31 Copynumber: 5.3 Consensus size: 32
5132612 GTTTTGTATC
* *
5132622 TTATGTATTTAT-TATT-TATTTATTTATTA-
1 TTATCTATTTATATATTATATATATTTATTAT
* * *
5132651 TTA-CTATTTATTAATATATATTTATTATTAATTTT
1 TTATCTATTTA-T-ATAT-TATATA-TATTTATTAT
* *
5132686 TTATCTGTTAATAT-TTATATATATTTATTAT
1 TTATCTATTTATATATTATATATATTTATTAT
*
5132717 TTATCTATTTATATATTATATATATGTATT-T
1 TTATCTATTTATATATTATATATATTTATTAT
* *
5132748 ATTAT-TATTTATCTATT-TATATA-TTATAAT
1 -TTATCTATTTATATATTATATATATTTATTAT
5132778 TTATCTATT
1 TTATCTATT
5132787 ATTATTTTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
28 6 0.06
29 11 0.10
30 11 0.10
31 35 0.32
32 24 0.22
33 3 0.03
34 9 0.08
35 4 0.04
36 5 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (32 bp):
TTATCTATTTATATATTATATATATTTATTAT
Found at i:5132753 original size:39 final size:36
Alignment explanation
Indices: 5132630--5132801 Score: 141
Period size: 39 Copynumber: 4.9 Consensus size: 36
5132620 TCTTATGTAT
* *
5132630 TTATTATTTATTTATTTATTA-TTA-CTATTTAT-TA
1 TTATAATTTATCTA-TTATTATTTATCTATTTATATA
* * *
5132664 ATATATATTTAT-TATTAATTTTTTATCT-GTTA-ATA
1 TTATA-ATTTATCTATT-ATTATTTATCTATTTATATA
* *
5132699 TT-T-ATATATAT-TTATTATTTATCTATTTATATA
1 TTATAATTTATCTATTATTATTTATCTATTTATATA
*
5132732 TTATATATATGTATTTATTATTATTTATCTATTTATATA
1 TTATA-AT-T-TATCTATTATTATTTATCTATTTATATA
5132771 TTATAATTTATCTATTATTATTT-T-TATTTAT
1 TTATAATTTATCTATTATTATTTATCTATTTAT
5132802 CTGTTAATAT
Statistics
Matches: 113, Mismatches: 11, Indels: 28
0.74 0.07 0.18
Matches are distributed among these distances:
31 10 0.09
32 10 0.09
33 8 0.07
34 17 0.15
35 16 0.14
36 18 0.16
37 1 0.01
38 6 0.05
39 27 0.24
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (36 bp):
TTATAATTTATCTATTATTATTTATCTATTTATATA
Found at i:5132820 original size:4 final size:4
Alignment explanation
Indices: 5132622--5132801 Score: 79
Period size: 4 Copynumber: 44.0 Consensus size: 4
5132612 GTTTTGTATC
*
5132622 TTAT GTAT TTA- TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT
* * * *
5132668 ATAT TTA- TTAT TAAT TT-T TTAT CTGT TAATAT TTAT ATATAT TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT -T-TAT TTAT
* * * *
5132713 TTAT TTAT CTAT TTAT ATAT TATAT ATAT GTAT TTA- TTA- TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
5132760 CTAT TTAT ATAT TATAAT TTAT CTA- TTAT TATTT TTAT TTAT
1 TTAT TTAT TTAT T-T-AT TTAT TTAT TTAT T-TAT TTAT TTAT
5132802 CTGTTAATAT
Statistics
Matches: 132, Mismatches: 25, Indels: 38
0.68 0.13 0.19
Matches are distributed among these distances:
3 23 0.17
4 83 0.63
5 10 0.08
6 16 0.12
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:5132823 original size:40 final size:40
Alignment explanation
Indices: 5132707--5132855 Score: 142
Period size: 40 Copynumber: 3.7 Consensus size: 40
5132697 TATTTATATA
* * * *
5132707 TATTTATTATTTATCTATTTATATATTATATATATGTA-T-T
1 TATTT-TTATTTATCTATTAATAT-TTTTATTTATCTATTAT
* * *
5132747 TATTATTATTTATCTATTTATATATTATAATTTATCTATTAT
1 TATTTTTATTTATCTA-TTA-ATATTTTTATTTATCTATTAT
*
5132789 TATTTTTATTTATCTGTTAATATTTTTATTTATCTGATTAT
1 TATTTTTATTTATCTATTAATATTTTTATTTATCT-ATTAT
* *
5132830 T-TTTTTAATTATCTATTAACATTTTT
1 TATTTTTATTTATCTATTAATATTTTT
5132856 TTTTCTTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
39 11 0.12
40 50 0.56
41 14 0.16
42 15 0.17
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (40 bp):
TATTTTTATTTATCTATTAATATTTTTATTTATCTATTAT
Found at i:5132854 original size:20 final size:20
Alignment explanation
Indices: 5132706--5132855 Score: 126
Period size: 20 Copynumber: 7.4 Consensus size: 20
5132696 ATATTTATAT
*
5132706 ATATTTATTATTTATCTATTT
1 ATATTT-TTATTTATCTATTA
* * *
5132727 ATATATTATATATATGTATT-
1 ATAT-TTTTATTTATCTATTA
*
5132747 -TATTATTATTTATCTATTTA
1 ATATTTTTATTTATCTA-TTA
* *
5132767 TATATTATAATTTATCTATTA
1 -ATATTTTTATTTATCTATTA
* *
5132788 TTATTTTTATTTATCTGTTA
1 ATATTTTTATTTATCTATTA
5132808 ATATTTTTATTTATCTGATT-
1 ATATTTTTATTTATCT-ATTA
* *
5132828 ATTTTTTTAATTATCTATTA
1 ATATTTTTATTTATCTATTA
*
5132848 ACATTTTT
1 ATATTTTT
5132856 TTTTCTTTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.09
19 8 0.08
20 51 0.49
21 19 0.18
22 17 0.16
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
ATATTTTTATTTATCTATTA
Found at i:5133680 original size:21 final size:20
Alignment explanation
Indices: 5133656--5133719 Score: 51
Period size: 23 Copynumber: 3.0 Consensus size: 20
5133646 ATTAAAATTG
5133656 TTTAATATTTTTTATTTTATT
1 TTTAATATTTTTT-TTTTATT
*
5133677 TTTATTTAATTTTTCTTTATT-TT
1 TTTA-AT-ATTTTT-TTT-TTATT
*
5133700 TTTAA-ATTTTTTTTTAATT
1 TTTAATATTTTTTTTTTATT
5133719 T
1 T
5133720 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 6 0.17
21 4 0.11
22 1 0.03
23 14 0.40
24 3 0.09
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTAATATTTTTTTTTTATT
Found at i:5133708 original size:25 final size:25
Alignment explanation
Indices: 5133656--5133708 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
5133646 ATTAAAATTG
**
5133656 TTTAATATTTTTTATTTTATTTTTA
1 TTTAATATTTTTTATTTTATTTAAA
*
5133681 TTTAATTTTTCTTTATTTT-TTTAAA
1 TTTAATATTT-TTTATTTTATTTAAA
5133706 TTT
1 TTT
5133709 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTAATATTTTTTATTTTATTTAAA
Found at i:5133724 original size:21 final size:20
Alignment explanation
Indices: 5133664--5133727 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
5133654 TGTTTAATAT
*
5133664 TTTTTATTTTATTTTTATTTAA
1 TTTTT-TTTTATTTTT-TTAAA
*
5133686 TTTTTCTTTATTTTTTTAAA
1 TTTTTTTTTATTTTTTTAAA
*
5133706 TTTTTTTTTAATTTCTTTAAA
1 TTTTTTTTT-ATTTTTTTAAA
5133727 T
1 T
5133728 AAAATTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.32
21 20 0.54
22 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTTTTTATTTTTTTAAA
Found at i:5134459 original size:21 final size:22
Alignment explanation
Indices: 5134435--5134497 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
5134425 CACACATGTA
5134435 AATTAAAAA-AAGTAATA-TAAT
1 AATTAAAAATAA-TAATATTAAT
5134456 AATTAAAAATAATAATATTAAT
1 AATTAAAAATAATAATATTAAT
* *
5134478 AA-TAATAACAATAATGATTA
1 AATTAAAAATAATAAT-ATTA
5134498 TACCATGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (22 bp):
AATTAAAAATAATAATATTAAT
Found at i:5134475 original size:15 final size:16
Alignment explanation
Indices: 5134451--5134485 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5134441 AAAAAGTAAT
5134451 ATAATAATTAAAAATA
1 ATAATAATTAAAAATA
*
5134467 ATAAT-ATTAATAATA
1 ATAATAATTAAAAATA
5134482 ATAA
1 ATAA
5134486 CAATAATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAATTAAAAATA
Found at i:5134925 original size:39 final size:39
Alignment explanation
Indices: 5134882--5134956 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
5134872 GACCACACAA
* * * *
5134882 CCTTACACTTTTGCTA-ATCCTTCTGTTAGTCAACCTCAG
1 CCTTACAATTATGCTAGA-CCTTCTGCTAATCAACCTCAG
5134921 CCTTACAATTATGCTAGACCTTCTGCTAATCAACCT
1 CCTTACAATTATGCTAGACCTTCTGCTAATCAACCT
5134957 TAGGTACAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.97
40 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.36
Consensus pattern (39 bp):
CCTTACAATTATGCTAGACCTTCTGCTAATCAACCTCAG
Found at i:5139154 original size:32 final size:32
Alignment explanation
Indices: 5139108--5139171 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
5139098 AGATAGAAGT
*
5139108 ATATATTGATGATATGATATTAAAGTCTAGGG
1 ATATATTGATGATATGATAGTAAAGTCTAGGG
*
5139140 ATATGTTGATGATATGATAGTAAAGTCTAGGG
1 ATATATTGATGATATGATAGTAAAGTCTAGGG
5139172 GTGGAGAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (32 bp):
ATATATTGATGATATGATAGTAAAGTCTAGGG
Found at i:5142778 original size:35 final size:35
Alignment explanation
Indices: 5142739--5142931 Score: 115
Period size: 35 Copynumber: 5.5 Consensus size: 35
5142729 CTAATTACTT
*
5142739 TTATTTCCTGACTTATGATTTAATCTCGATCATTC
1 TTATTTCCTGACTTATGATTTAATCTCAATCATTC
* * * * * * *
5142774 TTATTTTCTAATTTATG-GTTCATC-CTAGTCATTT
1 TTATTTCCTGACTTATGATTTAATCTC-AATCATTC
** * * * *
5142808 TTATTTTTTGATTTAT-AGTTTAATTTCGATCATTG
1 TTATTTCCTGACTTATGA-TTTAATCTCAATCATTC
* * *
5142843 TTGTTT-CTCGACTTATGATTCAATCCCAATCATTC
1 TTATTTCCT-GACTTATGATTTAATCTCAATCATTC
* ** * *
5142878 TTTATTTCTTGACTTGCGGTTTAATCTCAATCGTTAC
1 -TTATTTCCTGACTTATGATTTAATCTCAATCATT-C
5142915 TTATTTCCTGACTTATG
1 TTATTTCCTGACTTATG
5142932 GCTTAGTCTC
Statistics
Matches: 114, Mismatches: 35, Indels: 17
0.69 0.21 0.10
Matches are distributed among these distances:
33 1 0.01
34 25 0.22
35 46 0.40
36 40 0.35
37 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.10, T:0.51
Consensus pattern (35 bp):
TTATTTCCTGACTTATGATTTAATCTCAATCATTC
Found at i:5142942 original size:36 final size:36
Alignment explanation
Indices: 5142879--5142956 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 36
5142869 CAATCATTCT
* * *
5142879 TTATTTCTTGACTTGCGGTTTAATCTCAATCGTTAC
1 TTATTTCCTGACTTACGGCTTAATCTCAATCGTTAC
* * * * *
5142915 TTATTTCCTGACTTATGGCTTAGTCTCAGTTGTTCC
1 TTATTTCCTGACTTACGGCTTAATCTCAATCGTTAC
5142951 TTATTT
1 TTATTT
5142957 TTAAACTTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (36 bp):
TTATTTCCTGACTTACGGCTTAATCTCAATCGTTAC
Found at i:5143294 original size:108 final size:107
Alignment explanation
Indices: 5143096--5143296 Score: 239
Period size: 108 Copynumber: 1.9 Consensus size: 107
5143086 AATCTCAATT
*
5143096 ATTTTTATTTTTCAACTTGCGACTCAGTCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
1 ATTTTTATTTTTCAACTTGCGACTCAATCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
* * *
5143161 CCTGATTATCTTTATTTTTTAACTTGTGGTCCAATTTTAGTC
66 CCAGATTATCATTATTTCTTAACTTGTGGTCCAATTTTAGTC
* * * * *
5143203 ATTTTTATTTTTCGACTTGTGACTTAATCTCGAATT-TTTTATTTATTTTTTGAG-TTGTGGTTC
1 ATTTTTATTTTTCAACTTGCGACTCAATC-CCAATTATTTT-TTTA-TTTTTCAGCTTGTGGTTC
*
5143266 AATCCCAG-TTATTCATT-TTTCTTGACTTGTG
63 AAT-CCAGATTA-TCATTATTTCTTAACTTGTG
5143297 ATTCAATCCT
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
107 29 0.37
108 36 0.46
109 14 0.18
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (107 bp):
ATTTTTATTTTTCAACTTGCGACTCAATCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
CCAGATTATCATTATTTCTTAACTTGTGGTCCAATTTTAGTC
Found at i:5143312 original size:108 final size:107
Alignment explanation
Indices: 5143096--5143322 Score: 237
Period size: 108 Copynumber: 2.1 Consensus size: 107
5143086 AATCTCAATT
*
5143096 ATTTTTATTTTTCAACTTGCGACTCAGTCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
1 ATTTTTATTTTTCAACTTGCGACTCAATCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
* * * * **
5143161 CCTGATTATCTTTATTTTTTAACTTGTGGTCCAATTTTAGTC
66 CCAGATTATCATTATTTCTTAACTTGTGATCCAATCCTAGTC
* * * * *
5143203 ATTTTTATTTTTCGACTTGTGACTTAATCTCGAATT-TTTTATTTATTTTTTGAG-TTGTGGTTC
1 ATTTTTATTTTTCAACTTGCGACTCAATC-CCAATTATTTT-TTTA-TTTTTCAGCTTGTGGTTC
* * *
5143266 AATCCCAG-TTATTCATT-TTTCTTGACTTGTGATTCAATCCTGGTC
63 AAT-CCAGATTA-TCATTATTTCTTAACTTGTGATCCAATCCTAGTC
*
5143311 ATTTGTATTTTT
1 ATTTTTATTTTT
5143323 TTTTAACTTA
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
107 29 0.29
108 56 0.57
109 14 0.14
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (107 bp):
ATTTTTATTTTTCAACTTGCGACTCAATCCCAATTATTTTTTTATTTTTCAGCTTGTGGTTCAAT
CCAGATTATCATTATTTCTTAACTTGTGATCCAATCCTAGTC
Found at i:5143735 original size:12 final size:11
Alignment explanation
Indices: 5143715--5143817 Score: 57
Period size: 12 Copynumber: 8.9 Consensus size: 11
5143705 GCTATTAAAC
5143715 AAAAATAAAAT
1 AAAAATAAAAT
*
5143726 AAAAATTAAATT
1 AAAAA-TAAAAT
5143738 AAAAATAAAA-
1 AAAAATAAAAT
* *
5143748 AATAATATAAT
1 AAAAATAAAAT
* *
5143759 AGTAAATATAAT
1 A-AAAATAAAAT
*
5143771 AATAATAATAAT
1 AAAAATAA-AAT
5143783 AAATAA-ATAAAT
1 AAA-AATA-AAAT
* *
5143795 AAAAGTATATAT
1 AAAAATA-AAAT
5143807 GAAAAATAAAA
1 -AAAAATAAAA
5143818 CTTGGTCCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
10 8 0.11
11 15 0.21
12 38 0.54
13 9 0.13
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:5143765 original size:15 final size:15
Alignment explanation
Indices: 5143741--5143796 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
5143731 TTAAATTAAA
*
5143741 AATAAAAAATAATAT
1 AATAATAAATAATAT
*
5143756 AATAGTAAAT-ATAAT
1 AATAATAAATAAT-AT
5143771 AATAAT-AATAATA-
1 AATAATAAATAATAT
5143784 AATAAATAAATAA
1 AAT-AATAAATAA
5143797 AAGTATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 22 0.65
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AATAATAAATAATAT
Found at i:5144943 original size:2 final size:2
Alignment explanation
Indices: 5144936--5144963 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5144926 ACTTGTTCGC
5144936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5144964 AAGCTTAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5145192 original size:3 final size:3
Alignment explanation
Indices: 5145186--5145228 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
5145176 GATTAAAAGG
5145186 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5145229 GTTAACAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:5145385 original size:8 final size:8
Alignment explanation
Indices: 5145372--5145415 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
5145362 AAATATAGGG
5145372 AAATAATT
1 AAATAATT
5145380 AAATAATT
1 AAATAATT
5145388 AAATAA-T
1 AAATAATT
*
5145395 -AATAATA
1 AAATAATT
*
5145402 AAATAAAT
1 AAATAATT
5145410 AAATAA
1 AAATAA
5145416 ATAACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
6 5 0.16
7 1 0.03
8 25 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAATAATT
Found at i:5145400 original size:22 final size:22
Alignment explanation
Indices: 5145373--5145434 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
5145363 AATATAGGGA
* *
5145373 AATAATTAAATAATTAAATAAT
1 AATAATAAAATAAATAAATAAT
5145395 AATAATAAAATAAATAAATAAAT
1 AATAATAAAATAAATAAAT-AAT
*
5145418 AACAATAATAATAAATA
1 AATAATAA-AATAAATA
5145435 TTTATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 17 0.49
23 10 0.29
24 8 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAAAATAAATAAATAAT
Found at i:5145408 original size:26 final size:26
Alignment explanation
Indices: 5145379--5145428 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
5145369 GGGAAATAAT
* *
5145379 TAAATAATTAAATAATAATAATAAAA
1 TAAATAAATAAATAACAATAATAAAA
5145405 TAAATAAATAAATAACAATAATAA
1 TAAATAAATAAATAACAATAATAA
5145429 TAAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (26 bp):
TAAATAAATAAATAACAATAATAAAA
Found at i:5153155 original size:22 final size:21
Alignment explanation
Indices: 5153105--5153188 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
5153095 TTTTCAAATT
*
5153105 TTCTAAAAAAAATTTAAAAAG
1 TTCTAAAAAAAATTTAAAAAC
* *
5153126 TTCAAAAAAAACATTTAAAGAC
1 TTCTAAAAAAA-ATTTAAAAAC
*
5153148 TT-TTAAAAAAATTCTAAACAA-
1 TTCTAAAAAAAATT-TAAA-AAC
**
5153169 TTCTAAAAAATTTTTAAAAA
1 TTCTAAAAAAAATTTAAAAA
5153189 TTATGAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
20 5 0.10
21 26 0.52
22 19 0.38
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (21 bp):
TTCTAAAAAAAATTTAAAAAC
Found at i:5153175 original size:21 final size:20
Alignment explanation
Indices: 5153110--5153209 Score: 69
Period size: 21 Copynumber: 4.8 Consensus size: 20
5153100 AAATTTTCTA
*
5153110 AAAAAAATT-TAAAAAGTTCAA
1 AAAAAAATTCTAAAAA-TT-AT
* *
5153131 AAAAAACATT-TAAAGACTTTT
1 AAAAAA-ATTCTAAA-AATTAT
*
5153152 AAAAAAATTCTAAACAATTCT
1 AAAAAAATTCTAAA-AATTAT
* *
5153173 AAAAAATTTTTAAAAATTAT
1 AAAAAAATTCTAAAAATTAT
* *
5153193 GAATAAATTCTAAAAAT
1 AAAAAAATTCTAAAAAT
5153210 ATTTTAAAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
20 21 0.33
21 32 0.51
22 9 0.14
23 1 0.02
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAAAATTCTAAAAATTAT
Found at i:5153188 original size:11 final size:10
Alignment explanation
Indices: 5153153--5153218 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
5153143 AAGACTTTTA
5153153 AAAAAATTCT
1 AAAAAATTCT
*
5153163 AAACAATTCT
1 AAAAAATTCT
*
5153173 AAAAAATTTT
1 AAAAAATTCT
* *
5153183 TAAAAATTAT
1 AAAAAATTCT
*
5153193 GAATAAATTCT
1 -AAAAAATTCT
*
5153204 AAAAATATTTT
1 AAAAA-ATTCT
5153215 AAAA
1 AAAA
5153219 TCTATAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
10 29 0.66
11 15 0.34
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:5153595 original size:23 final size:23
Alignment explanation
Indices: 5153569--5153652 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
5153559 TGAAAATAAG
**
5153569 AAAAATTTAAAATTTAAAAACAT
1 AAAAATTTAAAACATAAAAACAT
* *
5153592 AAAATTTTGAAACATAAAAACAT
1 AAAAATTTAAAACATAAAAACAT
*
5153615 -AAAATTTAAAAACACAAAAACAT
1 AAAAATTT-AAAACATAAAAACAT
* *
5153638 AAAATTTTGAAACAT
1 AAAAATTTAAAACAT
5153653 TTTTTAAAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 6 0.12
23 37 0.76
24 6 0.12
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAATTTAAAACATAAAAACAT
Found at i:5153628 original size:15 final size:15
Alignment explanation
Indices: 5153576--5153610 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5153566 AAGAAAAATT
5153576 TAAAATTTAAAAACA
1 TAAAATTTAAAAACA
**
5153591 TAAAATTTTGAAACA
1 TAAAATTTAAAAACA
5153606 TAAAA
1 TAAAA
5153611 ACATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (15 bp):
TAAAATTTAAAAACA
Found at i:5153689 original size:16 final size:16
Alignment explanation
Indices: 5153668--5153699 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5153658 AAAATTTAGA
5153668 AAAAAAACTTAAAAAT
1 AAAAAAACTTAAAAAT
*
5153684 AAAAAACCTTAAAAAT
1 AAAAAAACTTAAAAAT
5153700 TTAATAAAAT
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:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAAAACTTAAAAAT
Found at i:5153752 original size:18 final size:19
Alignment explanation
Indices: 5153719--5153757 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
5153709 TCCCAAAATT
*
5153719 TTCAAACAAATTTTAAAAA
1 TTCAAACAAATATTAAAAA
5153738 TTCAAA-AAATATTAAAAA
1 TTCAAACAAATATTAAAAA
5153756 TT
1 TT
5153758 TGAAATTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TTCAAACAAATATTAAAAA
Found at i:5154019 original size:10 final size:9
Alignment explanation
Indices: 5153990--5154219 Score: 120
Period size: 10 Copynumber: 23.7 Consensus size: 9
5153980 TCCATAATTC
*
5153990 TTTTTGAAA
1 TTTTTAAAA
5153999 TTTTTAAAA
1 TTTTTAAAA
*
5154008 TTTTCTATAA
1 TTTT-TAAAA
*
5154018 TTTTTAGAA
1 TTTTTAAAA
*
5154027 TATTTAAAAA
1 T-TTTTAAAA
5154037 TTTTTAAGAAA
1 TTTTT-A-AAA
**
5154048 TTTTTAATT
1 TTTTTAAAA
*
5154057 TTTTTAGAA
1 TTTTTAAAA
*
5154066 TTTTT-AAT
1 TTTTTAAAA
5154074 TTTTTAAAAA
1 TTTTT-AAAA
*
5154084 TTTTAAAAA
1 TTTTTAAAA
5154093 TTTGTTTAAAAA
1 -TT-TTT-AAAA
* *
5154105 TTTTGAAAT
1 TTTTTAAAA
* *
5154114 TATTTTAGAG
1 T-TTTTAAAA
5154124 TTTTTGAAAA
1 TTTTT-AAAA
5154134 TTTTGCTAAAA
1 TTTT--TAAAA
5154145 TTTTTAAAAA
1 TTTTT-AAAA
* *
5154155 TTTGTTCAAT
1 TTT-TTAAAA
5154165 TTTTTAAAAA
1 TTTTT-AAAA
**
5154175 TTTTTATTA
1 TTTTTAAAA
5154184 TTTTTAAAAA
1 TTTTT-AAAA
* *
5154194 TTTTTGGAAC
1 TTTTT-AAAA
5154204 TTTTTAAAAA
1 TTTTT-AAAA
5154214 TTTTTA
1 TTTTTA
5154220 GAATCATTAT
Statistics
Matches: 167, Mismatches: 37, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
8 6 0.04
9 55 0.33
10 79 0.47
11 22 0.13
12 5 0.03
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (9 bp):
TTTTTAAAA
Done.