Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 115 of 131
Found at i:20609953 original size:2 final size:2
Alignment explanation
Indices: 20609946--20609984 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
20609936 GTTGAATAAT
* *
20609946 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20609985 GCCCTTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:20612039 original size:2 final size:2
Alignment explanation
Indices: 20612032--20612074 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
20612022 TTGGCTTGTC
20612032 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
20612074 T
1 T
20612075 GAAAGAGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20614170 original size:16 final size:16
Alignment explanation
Indices: 20614135--20614171 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20614125 ATCTTATGTC
*
20614135 ATAAT-TTAAAATTAA
1 ATAATATTAAAAATAA
20614150 A-AATATTAAAAATAA
1 ATAATATTAAAAATAA
20614165 ATAATAT
1 ATAATAT
20614172 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATATTAAAAATAA
Found at i:20616685 original size:90 final size:90
Alignment explanation
Indices: 20616591--20616756 Score: 217
Period size: 90 Copynumber: 1.8 Consensus size: 90
20616581 AAATCATTGT
* * ** ** *
20616591 AAATAAAATAAGTTTTCGCAATAATAATTTTTTATTGCTATGAATATGATAAAAA-TTTAAGTAA
1 AAATAAAATAAGTTTTCACAACAATAATTTTTTATCACTACAAATAGGATAAAAACTTT-AGTAA
20616655 CAATTTTTTCGTTGAGAAATGGTTGC
65 CAATTTTTTCGTTGAGAAATGGTTGC
* * * *
20616681 AAATAAAATAAGTTTTTACAGCAATAATTTTTTATCATTACAAATAGGATAAAAACTTTTGTAAC
1 AAATAAAATAAGTTTTCACAACAATAATTTTTTATCACTACAAATAGGATAAAAACTTTAGTAAC
20616746 AATTTTTTCGT
66 AATTTTTTCGT
20616757 CCTTGTATAA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 61 0.95
91 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (90 bp):
AAATAAAATAAGTTTTCACAACAATAATTTTTTATCACTACAAATAGGATAAAAACTTTAGTAAC
AATTTTTTCGTTGAGAAATGGTTGC
Found at i:20616814 original size:131 final size:131
Alignment explanation
Indices: 20616677--20617231 Score: 720
Period size: 131 Copynumber: 4.2 Consensus size: 131
20616667 TGAGAAATGG
* ** * *
20616677 TTGCAAATAAAATAAGTTTTTACAGCAATAATTTTTTATCATTACAAATAGGATAAAAACTTTTG
1 TTGCAAATAAAATAAGTTTTTACAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTTA
* * * *
20616742 TAACAATTTTTTCGTCCTTGTATAAAATATTAAAAAAATAAATTAGGCAACGACATTGAAAAATC
66 TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATC
20616807 A
131 A
* *
20616808 TTGCAAATAAAATAAGTTTTGATAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTTA
1 TTGCAAATAAAATAAGTTTTTACAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTTA
*
20616873 TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAGGCAACGACATTGAAAAATC
66 TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATC
20616938 A
131 A
* * *
20616939 TTGCAAATAAAATAAGTTTTCATAACAATAATTTTTTATCATTACAAATATAATAAAAATTTTTA
1 TTGCAAATAAAATAAGTTTTTACAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTTA
* *
20617004 TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTAAAAAATT
66 TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATC
20617069 A
131 A
** * * * * * * *
20617070 TTTTAAATAAGACAAATTTTTGCAACAATAAATTTTTATCGTTACAAATATAAT-AAAAGTTTTC
1 TTGCAAATAAAATAAGTTTTTACAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTT-
* ** * *
20617134 ATAATAA-TAATTTTTGTCATTGTATAAAATATT-AAAAAATAACTTAAGCAACGACTTTGAAAA
65 ATAACAACT--TTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAA
* *
20617197 GTCG
128 ATCA
* *
20617201 TTGTAAATAAAAAATAAAGTTTTCACAACAA
1 TTGCAAAT--AAAAT-AAGTTTTTACAACAA
20617232 CTTTTTATTG
Statistics
Matches: 377, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
130 9 0.02
131 332 0.88
132 21 0.06
133 3 0.01
134 12 0.03
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (131 bp):
TTGCAAATAAAATAAGTTTTTACAACAATAATTTTTTATCATTACAAATATAATAAAAAATTTTA
TAACAACTTTTTCATCATTGTATAAAATATTAAAAAAATAAATTAAGCAACGACATTGAAAAATC
A
Found at i:20636178 original size:21 final size:22
Alignment explanation
Indices: 20636153--20636206 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
20636143 GGATTTCATT
*
20636153 AATAAATTTTTTTTAATT-TAA
1 AATAAAATTTTTTTAATTATAA
*
20636174 AATAAAATTTTTTTATTTGATAA
1 AATAAAATTTTTTTAATT-ATAA
20636197 AATAAAATTT
1 AATAAAATTT
20636207 AGAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 16 0.55
23 13 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATAAAATTTTTTTAATTATAA
Found at i:20638825 original size:28 final size:28
Alignment explanation
Indices: 20638758--20638826 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
20638748 TTTTATTAAA
20638758 TTTT-TTTTTAATCATAGCTACAATTTT
1 TTTTATTTTTAATCATAGCTACAATTTT
* * *
20638785 TTTTAATTGTAATTATAG-TA-AATTTT
1 TTTTATTTTTAATCATAGCTACAATTTT
20638811 ATTATTATTTTTAATC
1 -TT-TTATTTTTAATC
20638827 TCACTATCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
26 6 0.18
27 8 0.24
28 19 0.58
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTTATTTTTAATCATAGCTACAATTTT
Found at i:20652890 original size:23 final size:24
Alignment explanation
Indices: 20652864--20652929 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
20652854 AGAAAAAGAG
*
20652864 AGAAGAAAGGAAAG-AAAAAATAA
1 AGAAGAAAAGAAAGAAAAAAATAA
*
20652887 AGAAGAAAAGAAGGAAAAAAATAA
1 AGAAGAAAAGAAAGAAAAAAATAA
*
20652911 AGTAGGGAAAA-AAAGAAAA
1 AG-A-AGAAAAGAAAGAAAA
20652930 CAAGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.33
24 11 0.31
25 8 0.22
26 5 0.14
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (24 bp):
AGAAGAAAAGAAAGAAAAAAATAA
Found at i:20652895 original size:12 final size:12
Alignment explanation
Indices: 20652857--20652912 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
20652847 TAAAAAAAGA
*
20652857 AAAAGAGAGAAG
1 AAAAGAAAGAAG
*
20652869 AAAGGAAAGAA-
1 AAAAGAAAGAAG
*
20652880 AAAATAAAGAAG
1 AAAAGAAAGAAG
* *
20652892 AAAAGAAGGAAA
1 AAAAGAAAGAAG
*
20652904 AAAATAAAG
1 AAAAGAAAG
20652913 TAGGGAAAAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.04
Consensus pattern (12 bp):
AAAAGAAAGAAG
Found at i:20652896 original size:24 final size:23
Alignment explanation
Indices: 20652864--20652912 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
20652854 AGAAAAAGAG
20652864 AGAAGAAAGGAAAG-AAAAAATAA
1 AGAAGAAA-GAAAGAAAAAAATAA
*
20652887 AGAAGAAAAGAAGGAAAAAAATAA
1 AGAAG-AAAGAAAGAAAAAAATAA
20652911 AG
1 AG
20652913 TAGGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (23 bp):
AGAAGAAAGAAAGAAAAAAATAA
Found at i:20652929 original size:24 final size:23
Alignment explanation
Indices: 20652848--20652929 Score: 71
Period size: 23 Copynumber: 3.6 Consensus size: 23
20652838 TTATTTATTT
* *
20652848 AAAA-AAAG-AAAAAGAGAGAAG
1 AAAAGAAAGAAAAAATAAAGAAG
*
20652869 AAAGGAAAGAAAAAATAAAGAAG
1 AAAAGAAAGAAAAAATAAAGAAG
* *
20652892 AAAAGAAGGAAAAAAATAAAGTAGGG
1 AAAAGAAAG-AAAAAATAAAG-A-AG
20652918 AAAA-AAAGAAAA
1 AAAAGAAAGAAAA
20652930 CAAGAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.06
22 4 0.08
23 18 0.37
24 15 0.31
25 4 0.08
26 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (23 bp):
AAAAGAAAGAAAAAATAAAGAAG
Found at i:20653788 original size:21 final size:21
Alignment explanation
Indices: 20653764--20653808 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20653754 ATTAATTCCA
*
20653764 TATTCTTTC-GTTTTAACATTT
1 TATTATTTCTGTTTTAAC-TTT
*
20653785 TATTATTTCTTTTTTAACTTT
1 TATTATTTCTGTTTTAACTTT
20653806 TAT
1 TAT
20653809 CAATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTATTTCTGTTTTAACTTT
Found at i:20654749 original size:2 final size:2
Alignment explanation
Indices: 20654737--20654768 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20654727 TAAAATTAGG
*
20654737 TA TA AA 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 TA TA
20654769 AGAGTTGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:20655383 original size:30 final size:30
Alignment explanation
Indices: 20655349--20655409 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
20655339 GTAAATAATC
*
20655349 CTTATAATCATATAAAATTTGAAATTTAGT
1 CTTATAATCACATAAAATTTGAAATTTAGT
*
20655379 CTTATAGTCACATAAAATTTGAAATTTAGT
1 CTTATAATCACATAAAATTTGAAATTTAGT
20655409 C
1 C
20655410 CCTGTATTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (30 bp):
CTTATAATCACATAAAATTTGAAATTTAGT
Found at i:20656644 original size:31 final size:31
Alignment explanation
Indices: 20656590--20656662 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
20656580 GAAGAATTGT
* * *
20656590 ATTTCAAATTTTGTGCAAGTATAAAAATTAAA
1 ATTT-AAATTTCGTACAAATATAAAAATTAAA
*
20656622 ATTTAAATTTCGTACAAATATAAATATTAAA
1 ATTTAAATTTCGTACAAATATAAAAATTAAA
*
20656653 TTTTAAATTT
1 ATTTAAATTT
20656663 AATATGAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTTAAATTTCGTACAAATATAAAAATTAAA
Found at i:20656673 original size:31 final size:31
Alignment explanation
Indices: 20656609--20656678 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
20656599 TTTGTGCAAG
**
20656609 TATAAAAATTAAAATTTAAATTTCGTACAAA
1 TATAAAAATTAAAATTTAAATTTAATACAAA
* * **
20656640 TATAAATATTAAATTTTAAATTTAATATGAA
1 TATAAAAATTAAAATTTAAATTTAATACAAA
20656671 TATAAAAA
1 TATAAAAA
20656679 CCATTAGCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (31 bp):
TATAAAAATTAAAATTTAAATTTAATACAAA
Found at i:20657521 original size:6 final size:7
Alignment explanation
Indices: 20657494--20657522 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
20657484 GTGAAAACCG
20657494 ATTTTGA
1 ATTTTGA
20657501 ATTTTGA
1 ATTTTGA
20657508 ATTTTGA
1 ATTTTGA
20657515 A-TTTGA
1 ATTTTGA
20657521 AT
1 AT
20657523 GTGTACAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (7 bp):
ATTTTGA
Found at i:20661117 original size:89 final size:89
Alignment explanation
Indices: 20660966--20661141 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
20660956 TGGAGTGCAC
* * * * *
20660966 TATAGGCATGATGGAATAGTTTTGTGATTTACCTGTATTGCTGCTTGCATGCTTGAATTGTTTGT
1 TATAGGCACGATAGAATAGTTTTGTGATTTACCTGCATTGCTGCCTACATGCTTGAATTGTTTGT
20661031 TGAGTTTGTTTTTTGGATTTTGTT
66 TGAGTTTGTTTTTTGGATTTTGTT
* *
20661055 TATAGGCACGATAGAATATTTTTGTGGTTTACCTGCATTGCTGCCTACATGCTTGAATTGTTTGT
1 TATAGGCACGATAGAATAGTTTTGTGATTTACCTGCATTGCTGCCTACATGCTTGAATTGTTTGT
20661120 TGAGTTTGTTTTTTGGATTTTG
66 TGAGTTTGTTTTTTGGATTTTG
20661142 CTTACATGCT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.49
Consensus pattern (89 bp):
TATAGGCACGATAGAATAGTTTTGTGATTTACCTGCATTGCTGCCTACATGCTTGAATTGTTTGT
TGAGTTTGTTTTTTGGATTTTGTT
Found at i:20662929 original size:28 final size:29
Alignment explanation
Indices: 20662897--20662955 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
20662887 GGATTATAGT
*
20662897 AAAATATTTAATATAATA-TTAAATTTTA
1 AAAATATTTAATATAATATTTAAATTATA
* *
20662925 AAAATATTTAGTTTAATATTTAAATTATA
1 AAAATATTTAATATAATATTTAAATTATA
20662954 AA
1 AA
20662956 TTTGTTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAATATTTAATATAATATTTAAATTATA
Found at i:20663076 original size:28 final size:28
Alignment explanation
Indices: 20663039--20663107 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
20663029 TTTAAATATC
*
20663039 ATATTA-ATTAATAAATTTGT-AACTTAA
1 ATATTATATTAAAAAATTT-TAAACTTAA
*
20663066 ATATTATATTAAAAAATTTTAAAATTTAA
1 ATATTATATTAAAAAATTTT-AAACTTAA
*
20663095 GTATTATATTAAA
1 ATATTATATTAAA
20663108 TGTTTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 7 0.19
28 11 0.31
29 18 0.50
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
ATATTATATTAAAAAATTTTAAACTTAA
Found at i:20664734 original size:29 final size:29
Alignment explanation
Indices: 20664681--20664744 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
20664671 AAATAATACG
* * * *
20664681 AATATACATGAATAGATATTACTAATATA
1 AATATACATGAATAGACATGACTAAAACA
*
20664710 AATATACATGAATAGACATGCCTAAAACA
1 AATATACATGAATAGACATGACTAAAACA
20664739 AATATA
1 AATATA
20664745 TACAAGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (29 bp):
AATATACATGAATAGACATGACTAAAACA
Found at i:20665273 original size:295 final size:296
Alignment explanation
Indices: 20664732--20665327 Score: 1185
Period size: 295 Copynumber: 2.0 Consensus size: 296
20664722 TAGACATGCC
20664732 TAAAACAAATATATACAAGAACACGACTAAAGTAATAAATAATTATAAACTACAATTATTTACAA
1 TAAAACAAATATATACAAGAACACGACTAAAGTAATAAATAATTATAAACTACAATTATTTACAA
20664797 TTTAATAAATTTAACATATTAATAATATTAAAAAGTACTTACATATTAAAAAAATAAAAAAATTT
66 TTTAATAAATTTAACATATTAATAATATTAAAAAGTACTTACATATTAAAAAAATAAAAAAATTT
20664862 AATACTCATTTAATATGTATTTAATATATATATTTAAATTTTAATTTACATAACAAAATTATATT
131 AATACTCATTTAATATGTATTTAATATATATATTTAAATTTTAATTTACATAACAAAATTATATT
20664927 AATTTTTAATATCAAATTTAAAATTATAAACTATTAAAGATTAAAGAATAAAATAATAATGTACA
196 AATTTTTAATATCAAATTTAAAATTATAAACTATTAAAGATTAAAGAATAAAATAATAATGTACA
20664992 TGACTAATATTAATATTTATATTGTATTTGTATTAT
261 TGACTAATATTAATATTTATATTGTATTTGTATTAT
20665028 TAAAACAAATATATACAAGAACACGACTAAAGTAATAAATAATTATAAACTACAATTATTTACAA
1 TAAAACAAATATATACAAGAACACGACTAAAGTAATAAATAATTATAAACTACAATTATTTACAA
20665093 TTTAATAAATTTAACATATTAATAATATTAAAAAGTACTTACATATTAAAAAAAT-AAAAAATTT
66 TTTAATAAATTTAACATATTAATAATATTAAAAAGTACTTACATATTAAAAAAATAAAAAAATTT
20665157 AATACTCATTTAATATGTATTTAATATATATATTTAAATTTTAATTTACATAACAAAATTATATT
131 AATACTCATTTAATATGTATTTAATATATATATTTAAATTTTAATTTACATAACAAAATTATATT
20665222 AATTTTTAATATCAAATTTAAAATTATAAACTATTAAAGATTAAAGAATAAAATAATAATGTACA
196 AATTTTTAATATCAAATTTAAAATTATAAACTATTAAAGATTAAAGAATAAAATAATAATGTACA
20665287 TGACTAATATTAATATTTATATTGTATTTGTATTAT
261 TGACTAATATTAATATTTATATTGTATTTGTATTAT
20665323 TAAAA
1 TAAAA
20665328 ATTTTATAAT
Statistics
Matches: 300, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
295 180 0.60
296 120 0.40
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (296 bp):
TAAAACAAATATATACAAGAACACGACTAAAGTAATAAATAATTATAAACTACAATTATTTACAA
TTTAATAAATTTAACATATTAATAATATTAAAAAGTACTTACATATTAAAAAAATAAAAAAATTT
AATACTCATTTAATATGTATTTAATATATATATTTAAATTTTAATTTACATAACAAAATTATATT
AATTTTTAATATCAAATTTAAAATTATAAACTATTAAAGATTAAAGAATAAAATAATAATGTACA
TGACTAATATTAATATTTATATTGTATTTGTATTAT
Found at i:20666428 original size:133 final size:133
Alignment explanation
Indices: 20666268--20666574 Score: 368
Period size: 133 Copynumber: 2.3 Consensus size: 133
20666258 ATTATTTGCT
* * * **
20666268 TTTTTATGAAAAAAACGTCATTTCTTTGGTGACATTTGTAACTGAAAACGTCACTACTTTGGAGG
1 TTTTTATGAAAAAAAAGCCATTGCTTTGGTGACATTTGTAACTGAAAACGTCACTACTTTAAAGG
* * * * * *
20666333 CGTTTGTATCTAAAAATGC-CTT-TATATTAGTG-GTGTTGTATCTTTGAGATGCCGTTAATTTA
66 CGTTTATATATAAAAA--CACTTCTATATTAGCGAGT-TTGTATATTTGAGAGGCCGCTAATTTA
20666395 ATGGCA
128 ATGGCA
* * *
20666401 TTTTTATGAAAAAAAAACCATTGCTTTGGTGGCATTTGTAACTGAAAACGTCGCTACTTTAAAGG
1 TTTTTATGAAAAAAAAGCCATTGCTTTGGTGACATTTGTAACTGAAAACGTCACTACTTTAAAGG
* *
20666466 TGTTTATATATGAAAACACTTCTATATTAGCGACGTTTGTATATTTGAGAGGCCGCTAATTTAAT
66 CGTTTATATATAAAAACACTTCTATATTAGCGA-GTTTGTATATTTGAGAGGCCGCTAATTTAAT
20666531 GGCA
130 GGCA
* * * * *
20666535 TTTTTATGAGAAAAATGCCGTTGCTTTGGTGCCGTTTGTA
1 TTTTTATGAAAAAAAAGCCATTGCTTTGGTGACATTTGTA
20666575 TAAAAAATGT
Statistics
Matches: 148, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.01
132 3 0.02
133 78 0.53
134 64 0.43
135 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (133 bp):
TTTTTATGAAAAAAAAGCCATTGCTTTGGTGACATTTGTAACTGAAAACGTCACTACTTTAAAGG
CGTTTATATATAAAAACACTTCTATATTAGCGAGTTTGTATATTTGAGAGGCCGCTAATTTAATG
GCA
Found at i:20667957 original size:19 final size:19
Alignment explanation
Indices: 20667929--20667973 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
20667919 AATATAATGG
20667929 ATTG-AAGCCATTCAATAT
1 ATTGAAAGCCATTCAATAT
20667947 ATTGAAAGCCATTCAATAT
1 ATTGAAAGCCATTCAATAT
*
20667966 GTTGAAAG
1 ATTGAAAG
20667974 GCATCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (19 bp):
ATTGAAAGCCATTCAATAT
Found at i:20676145 original size:651 final size:642
Alignment explanation
Indices: 20674845--20676033 Score: 1399
Period size: 651 Copynumber: 1.8 Consensus size: 642
20674835 TAATTCCATT
* * * * *
20674845 TAAATTATCTACATAAATATTGAAGGTGTTTTTTGATAATAAACACCTTCTAAAATTTGTAGGGA
1 TAAATTATCTACATAAATATTAAAGGCGTTTCTTGATAATAAACACCTTCTAAAATTTATAGAGA
* * *
20674910 TTATTAAAGACATCTTTTACTATAAAATGCCTTCAATATATAGCTACACAAATTTTAACATGGTA
66 TTATTAAAGACATCTTTTACTATAAAAGGCCTTCAATATACAGCAACACAAATTTTAACATGGTA
* * * *
20674975 ATTAAAGGCATATATTCAAGAAAACACCTTTAATAGTTCCTTTTAAATTTTGTAGATAATTATTG
131 ATTAAAGGCATAAATTCAAGAAAACACCTTTAATAATTCATTTTAAATTTTGTAGATAATTAGTG
** * ** *
20675040 AAGGTTTTTTTAAATAACAACTGTTGTCAATAATTTCCTTTTAAAAAATTTTTAGGATTATTAAA
196 AAGGCGTTTTCAAATAACAACTGCCGTCAATAAGTT-CTTTTAAAAAATTTTTAGGATTATTAAA
* **
20675105 GGCGTCTTCTACTGAAAAACGCCTTCAATATACCACTATAGTTATAAAAGGCATTTATTTTAGAA
260 GGCGTCTTCTACTGAAAAACGCCTTCAATATACCACTATAGTTAGAAAAGGCATTTATTCAAGAA
* *
20675170 AAATACCTTTAATAATTCATTTAAACTTAGTACATAATTACTGAAAGCATTTGTTAATAATACAT
325 AAATACCTTTAATAATTCATTTAAACTTAGTACATAATTACTGAAAGCATTTGTTAATAAGACAC
*
20675235 GCCTTCAATAATTTTTCTCTAAAAAAAATTTGAAATTATTAAATGCGTCTTCTACTGACAAACGC
390 GCCTTCAATAATTTTTCTCTAAAAAAAATTTGAAATTATTAAAGGCGTCTTCTACTGACAAACGC
* * * * ** * **
20675300 CTTCAATAAATAAATTTTAAATTATGTTCATAAAAATTGAAGGCATTTCTTTATAATAAATGCTT
455 CTTCAACAAATAAATTATAAATTAAGTCCATAAAAATTGAAGGCATTTCTACATAAT-AACGCCA
* * * * * *
20675365 TCAATAATTTTTTTCTAAAATTTGTTGGGATTATTAAAGATGTTTTCTACTGTAAAATACCTTCA
519 TCAATAATTTCTTGC-AAAATTTATTGGGATTAGTAAAGATATTTTCTACTGCAAAATACCTTCA
* * *
20675430 ATATAACACCGCACAAGTATTAACACGGTTAATAAAAGCATATATTCAAGAAAATGTCTTTTGTT
583 ATATAACA-CG--CAAGTATGAACACGGTTAATAAAAGCATAAATCCAAGAAAA--T-TTTTGTT
20675495 A
642 A
* * *
20675496 TAAATTATTTACATAAATATTAAAGGCGTTTCTTGATAATAAATC-CCTTCTAAATTTTATTGAG
1 TAAATTATCTACATAAATATTAAAGGCGTTTCTTGATAATAAA-CACCTTCTAAAATTTATAGAG
* *
20675560 ATTATTAAAGGCGTCTTTTACTATAAAAGGCCTTCAATATACAGCAACACAAATTTTAACATGGT
65 ATTATTAAAGACATCTTTTACTATAAAAGGCCTTCAATATACAGCAACACAAATTTTAACATGGT
* * **
20675625 AATTGAAGGCGTAAATTCAAGAACAATGCCTTTAATAATTCATTTTAAATTTT-TAGATAATTAG
130 AATTAAAGGCATAAATTCAAGAA-AACACCTTTAATAATTCATTTTAAATTTTGTAGATAATTAG
* *
20675689 TGAAGGCGTTTTCATATAACAA-TCGCCGTCAATAAGTT-TTTTAAAAAATTTTTTGAGATTATT
194 TGAAGGCGTTTTCAAATAACAACT-GCCGTCAATAAGTTCTTTTAAAAAATTTTTAG-GATTATT
* * * * *
20675752 AAAGGTGTCTTTTA-TTAGAAAAGGCCTTCAATATACCACTATGGTTAG-AAAGAGCATTTATTC
257 AAAGGCGTCTTCTACTGA-AAAACGCCTTCAATATACCACTATAGTTAGAAAAG-GCATTTATTC
* * * * *
20675815 AAGGAAAATACCTTTAATAATTCTTTTAAACTTAGTACATAATTACTGAAGGCGTTTGTTGATAA
320 AAGAAAAATACCTTTAATAATTCATTTAAACTTAGTACATAATTACTGAAAGCATTTGTTAATAA
* * *** * *
20675880 GACACGCCTTTAATAA-TTTTCATCTAAAAAAACTTTTTGGGGTTATTAAAGGCGTCTTTTA-TT
385 GACACGCCTTCAATAATTTTTC-TCTAAAAAAA--ATTTGAAATTATTAAAGGCGTCTTCTACTG
* * * * ** **
20675943 ATAAACGTCTTTAACAATTTGA-TATAAACTTTTGAAGTCCATAATTATTGAAGGCATTTTCTAC
447 ACAAACGCCTTCAACAAATAAATTATAAA---TT-AAGTCCATAAAAATTGAAGGCA-TTTCTAC
20676007 ATAAT-ACGCCATCAATAATTTCTTGCA
507 ATAATAACGCCATCAATAATTTCTTGCA
20676034 TTTTTATCAT
Statistics
Matches: 453, Mismatches: 71, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
649 27 0.06
650 143 0.32
651 189 0.42
652 48 0.11
653 18 0.04
654 18 0.04
655 10 0.02
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (642 bp):
TAAATTATCTACATAAATATTAAAGGCGTTTCTTGATAATAAACACCTTCTAAAATTTATAGAGA
TTATTAAAGACATCTTTTACTATAAAAGGCCTTCAATATACAGCAACACAAATTTTAACATGGTA
ATTAAAGGCATAAATTCAAGAAAACACCTTTAATAATTCATTTTAAATTTTGTAGATAATTAGTG
AAGGCGTTTTCAAATAACAACTGCCGTCAATAAGTTCTTTTAAAAAATTTTTAGGATTATTAAAG
GCGTCTTCTACTGAAAAACGCCTTCAATATACCACTATAGTTAGAAAAGGCATTTATTCAAGAAA
AATACCTTTAATAATTCATTTAAACTTAGTACATAATTACTGAAAGCATTTGTTAATAAGACACG
CCTTCAATAATTTTTCTCTAAAAAAAATTTGAAATTATTAAAGGCGTCTTCTACTGACAAACGCC
TTCAACAAATAAATTATAAATTAAGTCCATAAAAATTGAAGGCATTTCTACATAATAACGCCATC
AATAATTTCTTGCAAAATTTATTGGGATTAGTAAAGATATTTTCTACTGCAAAATACCTTCAATA
TAACACGCAAGTATGAACACGGTTAATAAAAGCATAAATCCAAGAAAATTTTTGTTA
Found at i:20676780 original size:80 final size:79
Alignment explanation
Indices: 20676631--20676880 Score: 286
Period size: 80 Copynumber: 3.2 Consensus size: 79
20676621 TTAAATATTG
* * * * *
20676631 TGGTTTGCTGAACCTTGTTGTTTGAT-TTTTTTTGCTAAATGGTATTGTATAATATTGAAGGGTT
1 TGGTTTGCTGAACCTTGTTGTATGATATTGTTTTGCTAAATGGTATTGTATGATATTG-GGGGCT
**
20676695 GAATCATATGCTGAA
65 GAATCATATATTGAA
* * * ** *
20676710 TGGTTTGCTGAATCTTGTTGTATGATATTGTATTACCGAATGATATTGTATGATATTAGGGGGCT
1 TGGTTTGCTGAACCTTGTTGTATGATATTGTTTTGCTAAATGGTATTGTATGATATT-GGGGGCT
20676775 GAATCATATATTGAA
65 GAATCATATATTGAA
* * * * *
20676790 TGGTTTACTGAACCTTATTATCTGATATTGTTTTGCTAAATGGTTTTGTATGATATTGGGGGCTG
1 TGGTTTGCTGAACCTTGTTGTATGATATTGTTTTGCTAAATGGTATTGTATGATATTGGGGGCTG
*
20676855 AATCGTATATTGAA
66 AATCATATATTGAA
* *
20676869 TGATTTGTTGAA
1 TGGTTTGCTGAA
20676881 TGGTGTTTCT
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
79 54 0.38
80 86 0.61
81 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (79 bp):
TGGTTTGCTGAACCTTGTTGTATGATATTGTTTTGCTAAATGGTATTGTATGATATTGGGGGCTG
AATCATATATTGAA
Found at i:20676918 original size:25 final size:24
Alignment explanation
Indices: 20676864--20676918 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
20676854 GAATCGTATA
* * *
20676864 TTGAATGATTTGTTGAATGGTGTT
1 TTGAGTGATTTGCTGAAGGGTGTT
20676888 TCTGAGTGATTTGCTGAAGGGTGTGT
1 T-TGAGTGATTTGCTGAAGGGTGT-T
20676914 TTGAG
1 TTGAG
20676919 CACATTGCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 23 0.88
26 2 0.08
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.44
Consensus pattern (24 bp):
TTGAGTGATTTGCTGAAGGGTGTT
Found at i:20684714 original size:52 final size:52
Alignment explanation
Indices: 20684610--20684714 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
20684600 TATAACCATA
* *
20684610 CAAACTTGCCTATTAAGAATCTATTTCCTTTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCTATTTCCTCTTAGAATTCTTCTCCTGCAAGT
* **
20684662 CAAACTTGCCTATTAA-AAGT-TATTTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAA-TCTA-TTTCCTCTTAGAATTCTTCTCCTGCAAGT
20684714 C
1 C
20684715 TTATTATCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.44
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCTATTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:20684773 original size:11 final size:11
Alignment explanation
Indices: 20684742--20684788 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
20684732 ATATCTAGCC
*
20684742 AATCCTAAA-A
1 AATCCCAAACA
20684752 AATCTCC-AACA
1 AATC-CCAAACA
20684763 AATCCCAAACA
1 AATCCCAAACA
20684774 AATCCCAAACA
1 AATCCCAAACA
20684785 AATC
1 AATC
20684789 TCTTATGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (11 bp):
AATCCCAAACA
Found at i:20685039 original size:23 final size:24
Alignment explanation
Indices: 20684997--20685090 Score: 93
Period size: 25 Copynumber: 3.9 Consensus size: 24
20684987 CTAAGCTTGC
* ** *
20684997 CTCTTCTCATATCTTAAACCAT-G
1 CTCTTCTCACATCTCGAACCTTAG
20685020 CTCTTCTCACATCTCGAACCTTCAG
1 CTCTTCTCACATCTCGAACCTT-AG
20685045 CTCTT-TCCACATCTCGAACCTTCAG
1 CTCTTCT-CACATCTCGAACCTT-AG
* *
20685070 CTCTTCTCACGTCTTGAACCT
1 CTCTTCTCACATCTCGAACCT
20685091 GGCTCTAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.30
24 1 0.02
25 41 0.67
26 1 0.02
ACGTcount: A:0.20, C:0.37, G:0.07, T:0.35
Consensus pattern (24 bp):
CTCTTCTCACATCTCGAACCTTAG
Found at i:20685055 original size:25 final size:26
Alignment explanation
Indices: 20685019--20685090 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 26
20685009 CTTAAACCAT
20685019 GCTC-TTCTCACATCTCGAACCTTCA
1 GCTCTTTCTCACATCTCGAACCTTCA
20685044 GCTCTTTC-CACATCTCGAACCTTCA
1 GCTCTTTCTCACATCTCGAACCTTCA
* *
20685069 GCTC-TTCTCACGTCTTGAACCT
1 GCTCTTTCTCACATCTCGAACCT
20685091 GGCTCTAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.07
25 37 0.86
26 3 0.07
ACGTcount: A:0.18, C:0.39, G:0.10, T:0.33
Consensus pattern (26 bp):
GCTCTTTCTCACATCTCGAACCTTCA
Found at i:20690177 original size:31 final size:31
Alignment explanation
Indices: 20690129--20690204 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
20690119 AAAACCAAAG
* *
20690129 AAACCAAACCCAGATCATAATTTAGATAAAT
1 AAACAAAACCCAAATCATAATTTAGATAAAT
* *
20690160 AATCAAAACCCAAATCATAATTTGGATAAAT
1 AAACAAAACCCAAATCATAATTTAGATAAAT
*
20690191 AAACAAAAGCCAAA
1 AAACAAAACCCAAA
20690205 GCTTAGATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (31 bp):
AAACAAAACCCAAATCATAATTTAGATAAAT
Found at i:20691137 original size:27 final size:26
Alignment explanation
Indices: 20691076--20691148 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 26
20691066 CATGAACCAG
* *
20691076 TTTTATTAACAAATC-CTATAGTGCAA
1 TTTTATTAACAAATCACT-TTGTACAA
20691102 TTTTATTAACAAATCACTTTGTTACAA
1 TTTTATTAACAAATCACTTTG-TACAA
20691129 TTTTATTAACAAATCACTTT
1 TTTTATTAACAAATCACTTT
20691149 ATTGCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 17 0.40
27 26 0.60
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (26 bp):
TTTTATTAACAAATCACTTTGTACAA
Found at i:20691151 original size:16 final size:16
Alignment explanation
Indices: 20691103--20691151 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
20691093 ATAGTGCAAT
20691103 TTTATTAACAAATCAC
1 TTTATTAACAAATCAC
*
20691119 TTTGTT-AC-AAT---
1 TTTATTAACAAATCAC
20691130 TTTATTAACAAATCAC
1 TTTATTAACAAATCAC
20691146 TTTATT
1 TTTATT
20691152 GCATGACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
11 5 0.19
12 2 0.08
13 3 0.12
14 3 0.12
15 2 0.08
16 11 0.42
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (16 bp):
TTTATTAACAAATCAC
Found at i:20691298 original size:16 final size:16
Alignment explanation
Indices: 20691272--20691304 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
20691262 ATCAACATAA
20691272 ATTTTTTATTA-AATT
1 ATTTTTTATTATAATT
20691287 ATTTTTTAATTATAATT
1 ATTTTTT-ATTATAATT
20691304 A
1 A
20691305 CAGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTTATTATAATT
Found at i:20691342 original size:27 final size:26
Alignment explanation
Indices: 20691281--20691342 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
20691271 AATTTTTTAT
* * *
20691281 TAAATTATTTTTTAATTATAATTACAG
1 TAAATT-TTTTTTAATCATAACTACAA
* *
20691308 TAATTTTTTTTTCAATCATAACTATAA
1 TAAATTTTTTTT-AATCATAACTACAA
20691335 TAAATTTT
1 TAAATTTT
20691343 ATTACTGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (26 bp):
TAAATTTTTTTTAATCATAACTACAA
Found at i:20698412 original size:12 final size:12
Alignment explanation
Indices: 20698397--20698423 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20698387 TTATAATGTT
20698397 AAAAATAATATG
1 AAAAATAATATG
20698409 AAAAATAATATG
1 AAAAATAATATG
20698421 AAA
1 AAA
20698424 TGATATGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (12 bp):
AAAAATAATATG
Found at i:20698698 original size:21 final size:21
Alignment explanation
Indices: 20698672--20698715 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
20698662 AATTATGAAG
20698672 ATGAGATTAATTATTGTAATA
1 ATGAGATTAATTATTGTAATA
*
20698693 ATGAGATTTATTATTGTAATA
1 ATGAGATTAATTATTGTAATA
20698714 AT
1 AT
20698716 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
ATGAGATTAATTATTGTAATA
Found at i:20698951 original size:12 final size:12
Alignment explanation
Indices: 20698936--20698970 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
20698926 AAATTAATAA
20698936 TATTTATTTTAT
1 TATTTATTTTAT
* *
20698948 TATTTATGTAAT
1 TATTTATTTTAT
20698960 TATTTATTTTA
1 TATTTATTTTA
20698971 AAGTCTCGCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTTATTTTAT
Found at i:20699493 original size:12 final size:10
Alignment explanation
Indices: 20699457--20699503 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
20699447 GATCTTCCTC
20699457 TTATATTATA
1 TTATATTATA
*
20699467 TTATATTGTA
1 TTATATTATA
20699477 TTATA-TATA
1 TTATATTATA
20699486 TATATATATATA
1 T-TATAT-TATA
20699498 TGTATA
1 T-TATA
20699504 GAAAGATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 4 0.13
10 18 0.58
12 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (10 bp):
TTATATTATA
Found at i:20699649 original size:13 final size:13
Alignment explanation
Indices: 20699631--20699661 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20699621 AGCTCGAATC
*
20699631 TTAAATATAATAT
1 TTAAATATAACAT
20699644 TTAAATATAACAT
1 TTAAATATAACAT
20699657 TTAAA
1 TTAAA
20699662 ACTCATGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAAATATAACAT
Found at i:20702671 original size:52 final size:52
Alignment explanation
Indices: 20702591--20702695 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
20702581 TATAACCATA
* *
20702591 CAAACTTGCCCATTAAGAATCTCTTTTCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCTCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
* * *
20702643 CAAACTTACCTATTAAGAATCATC-TTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATC-TCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
20702695 C
1 C
20702696 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 45 0.96
53 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.42
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCTCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:20702734 original size:11 final size:11
Alignment explanation
Indices: 20702728--20702761 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
20702718 TGACAAATAC
20702728 CAAACAAATCT
1 CAAACAAATCT
*
20702739 CTAACAAATCT
1 CAAACAAATCT
20702750 CAAACAAATCT
1 CAAACAAATCT
20702761 C
1 C
20702762 TTATGAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
CAAACAAATCT
Found at i:20702745 original size:22 final size:22
Alignment explanation
Indices: 20702720--20702762 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20702710 GCAATATCTG
20702720 ACAAATAC-CAAACAAATCTCTA
1 ACAAAT-CTCAAACAAATCTCTA
20702742 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
20702763 TATGAGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:20703668 original size:52 final size:52
Alignment explanation
Indices: 20703588--20703692 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
20703578 TATAACCATA
* *
20703588 CAAACTTGCCCATTAAGAATCTCTTTTCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCTCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
* * *
20703640 CAAACTTACCTATTAAGAATC-CTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCTCT-TTTCTCTTAGAATTCTTCTCTTGCAAGT
20703692 C
1 C
20703693 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.42
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCTCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:20703733 original size:11 final size:11
Alignment explanation
Indices: 20703717--20703757 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
20703707 GCAATATCTG
*
20703717 ACAAATCCCAA
1 ACAAATCTCAA
*
20703728 ACAAATCTCTA
1 ACAAATCTCAA
20703739 ACAAATCTCAA
1 ACAAATCTCAA
20703750 A-AAATCTC
1 ACAAATCTC
20703758 TTATGGGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:20703756 original size:21 final size:22
Alignment explanation
Indices: 20703717--20703758 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20703707 GCAATATCTG
20703717 ACAAATCCCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
*
20703739 ACAAATCTCAAA-AAATCTCT
1 ACAAATCCCAAACAAATCTCT
20703759 TATGGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:20708687 original size:21 final size:21
Alignment explanation
Indices: 20708662--20708703 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20708652 ATAATTAAAA
*
20708662 CATTAAATTTTAAAT-TTTAAT
1 CATTAAA-ATTAAATCTTTAAT
20708683 CATTAAAATTAAATCTTTAAT
1 CATTAAAATTAAATCTTTAAT
20708704 ATTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
CATTAAAATTAAATCTTTAAT
Found at i:20708688 original size:29 final size:29
Alignment explanation
Indices: 20708641--20708714 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
20708631 ATTTTGTTTC
20708641 AATATTTTTCAATAATTAAAACATTAAAT-TTT
1 AATA-TTTT-AATAATT-AAA-ATTAAATCTTT
*
20708673 AA-ATTTTAATCATTAAAATTAAATCTTT
1 AATATTTTAATAATTAAAATTAAATCTTT
*
20708701 AATATTTTATTAAT
1 AATATTTTAATAAT
20708715 AAATTACACA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 7 0.19
28 8 0.22
29 15 0.41
30 4 0.11
31 1 0.03
32 2 0.05
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (29 bp):
AATATTTTAATAATTAAAATTAAATCTTT
Found at i:20709286 original size:201 final size:200
Alignment explanation
Indices: 20708922--20709309 Score: 550
Period size: 201 Copynumber: 1.9 Consensus size: 200
20708912 GTCGCAAATT
* * ** * *
20708922 TAAAAAAGAATATTAAATTTTATATTCAATATAAAAGGAAGATTATTGAAATATAAAAAGATTCA
1 TAAAAAAAAATATTAAATTTCATATTCAATATAAAAAAAAAATTATTGAAATATAAAAAAATTCA
* * * *
20708987 CATCATTTTTTTTATGAGACGAGTTTTGTAAAATAAAATCGTGAGAGTAAGAAGATCAGAGTGGA
66 CATAATTTTTTTTATGAGACGACTTTTGTAAAATAAAATCATGAGAGTAAGAAGATCAGAGCGGA
20709052 TAATAACTCACAAAAATATAAATTGTGATAAGTAGATTGATCTAAAATATCGAATAAATGAATGT
131 TAATAACTCACAAAAATATAAATTGTGATAAGTAGATTGATCTAAAATATCGAATAAATGAATGT
20709117 CTGAC
196 CTGAC
*
20709122 TAAAAAAAAATATTAAATTTCATA-TCGAATATAAAAAAAAAATTATTGAGATATAAAAAAATTC
1 TAAAAAAAAATATTAAATTTCATATTC-AATATAAAAAAAAAATTATTGAAATATAAAAAAATTC
* * *
20709186 ACATAATTTTTTTTTATGAGACGCCTTTTGTAAGAA-AAAATTATGAG-GTTAAGAAGGTCAGAG
65 ACATAA-TTTTTTTTATGAGACGACTTTTGTAA-AATAAAATCATGAGAG-TAAGAAGATCAGAG
* * *
20709249 CGGATAAT-ACTTCACAAAGATGTAAATTGTGATAAGTAGATTGATCTAAAATATCGGATAA
127 CGGATAATAAC-TCACAAAAATATAAATTGTGATAAGTAGATTGATCTAAAATATCGAATAA
20709310 GTGGATGCTC
Statistics
Matches: 166, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
199 2 0.01
200 62 0.37
201 100 0.60
202 2 0.01
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (200 bp):
TAAAAAAAAATATTAAATTTCATATTCAATATAAAAAAAAAATTATTGAAATATAAAAAAATTCA
CATAATTTTTTTTATGAGACGACTTTTGTAAAATAAAATCATGAGAGTAAGAAGATCAGAGCGGA
TAATAACTCACAAAAATATAAATTGTGATAAGTAGATTGATCTAAAATATCGAATAAATGAATGT
CTGAC
Found at i:20712852 original size:2 final size:2
Alignment explanation
Indices: 20712845--20712875 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20712835 TAGTCTCCAA
20712845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20712876 GTTTTCGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20712973 original size:22 final size:22
Alignment explanation
Indices: 20712943--20712994 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
20712933 TTTGTTTGAC
20712943 AAAAA-AATTAATTGATCAATA
1 AAAAATAATTAATTGATCAATA
*
20712964 AAAAATAATTTATTGATCAATA
1 AAAAATAATTAATTGATCAATA
20712986 AAAAATAAT
1 AAAAATAAT
20712995 GCAATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAATAATTAATTGATCAATA
Found at i:20713557 original size:42 final size:43
Alignment explanation
Indices: 20713465--20713569 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
20713455 TTAATATTTC
*
20713465 AATAATA-AATAGTATTATTTATTATTTTAATAATAAATAACA
1 AATAATATAATAATATTATTTATTATTTTAATAATAAATAACA
* * ***
20713507 ACAT-ATATAATAATATT-TTTATTATTTTAATCATTAATGTTA
1 A-ATAATATAATAATATTATTTATTATTTTAATAATAAATAACA
*
20713549 AATAATATAATATTATTATTT
1 AATAATATAATAATATTATTT
20713570 TCTTAGTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.04
42 37 0.71
43 13 0.25
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.49
Consensus pattern (43 bp):
AATAATATAATAATATTATTTATTATTTTAATAATAAATAACA
Found at i:20713800 original size:43 final size:42
Alignment explanation
Indices: 20713724--20713809 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 42
20713714 ATAAAATATA
* *
20713724 AATATTTTAATAATATATATTACTGTTTTAATATTAATAAAAT
1 AATATTTTAAGAATATATATTACTGTTTAAATATT-ATAAAAT
*
20713767 AATATTTTAAGAATACTAATATTA-T-TTTAAATATTTTAAAAT
1 AATATTTTAAGAATA-T-ATATTACTGTTTAAATATTATAAAAT
20713809 A
1 A
20713810 TTAATATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
42 7 0.18
43 23 0.61
44 2 0.05
45 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (42 bp):
AATATTTTAAGAATATATATTACTGTTTAAATATTATAAAAT
Found at i:20714009 original size:16 final size:16
Alignment explanation
Indices: 20713988--20714021 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20713978 TATTAATATT
*
20713988 ATTTTTTTAAAAAATA
1 ATTTTTTCAAAAAATA
*
20714004 ATTTTTTCAGAAAATA
1 ATTTTTTCAAAAAATA
20714020 AT
1 AT
20714022 CAAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTTTTCAAAAAATA
Found at i:20723997 original size:40 final size:40
Alignment explanation
Indices: 20723923--20724000 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
20723913 AGCCTGACAT
** *
20723923 AAAATATTATTAATAAAAAGTTTTATTTTGTTTTAATTAA
1 AAAATATTATTAATAAAAAGTTTTATAATATTTTAATTAA
20723963 AAAATATTATTAATAAAAAGTCTTT-TAATATTTTAATT
1 AAAATATTATTAATAAAAAGT-TTTATAATATTTTAATT
20724001 TTAAATATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
AAAATATTATTAATAAAAAGTTTTATAATATTTTAATTAA
Found at i:20728805 original size:24 final size:24
Alignment explanation
Indices: 20728768--20728813 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20728758 TATAGTTAAA
20728768 ATTTTAAATTATATTAT-TTTCAT
1 ATTTTAAATTATATTATATTTCAT
*
20728791 ATTTTATATTTATATTATATTTC
1 ATTTTA-AATTATATTATATTTC
20728814 TATGCATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 10 0.50
25 4 0.20
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTAAATTATATTATATTTCAT
Found at i:20730870 original size:2 final size:2
Alignment explanation
Indices: 20730865--20730895 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20730855 ATGTGTAGTG
20730865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20730896 TACCATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20732204 original size:2 final size:2
Alignment explanation
Indices: 20732197--20732237 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
20732187 GTTTGTTTTG
20732197 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20732237 T
1 T
20732238 TTTTTGGCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:20732919 original size:20 final size:21
Alignment explanation
Indices: 20732894--20732942 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
20732884 ATAAAAAAAA
*
20732894 TTTTTTAATTAAT-TAATTAT
1 TTTTTTAATTAATATAATGAT
* *
20732914 TTTTTTTATTTATATAATGAT
1 TTTTTTAATTAATATAATGAT
*
20732935 ATTTTTAA
1 TTTTTTAA
20732943 ATATTTATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTTAATTAATATAATGAT
Found at i:20735135 original size:2 final size:2
Alignment explanation
Indices: 20735128--20735161 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20735118 GGTTGAAGAA
20735128 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20735162 GGACAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20735697 original size:20 final size:21
Alignment explanation
Indices: 20735665--20735707 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
20735655 AAATTAAAAC
*
20735665 TTTTCTTTCTTTCTTTCTCTT
1 TTTTCTTTCTTTCTTTCACTT
20735686 TTTTCTTT-TTTCTTTCACTT
1 TTTTCTTTCTTTCTTTCACTT
20735706 TT
1 TT
20735708 AAATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTCTTTCTTTCTTTCACTT
Found at i:20736897 original size:3 final size:3
Alignment explanation
Indices: 20736889--20736935 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
20736879 AAGTTTTAGT
*
20736889 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20736936 TGTAATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20738521 original size:17 final size:17
Alignment explanation
Indices: 20738501--20738534 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
20738491 TTTTCTGTCA
20738501 GGATTTTCCCTTTTTTT
1 GGATTTTCCCTTTTTTT
**
20738518 GGATTTTTTCTTTTTTT
1 GGATTTTCCCTTTTTTT
20738535 TTTTCATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (17 bp):
GGATTTTCCCTTTTTTT
Found at i:20738688 original size:33 final size:33
Alignment explanation
Indices: 20738651--20738717 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
20738641 AAACGGTGAC
*
20738651 CAATAACTGTCAAAGTTATTGATAATACGACTA
1 CAATAACTATCAAAGTTATTGATAATACGACTA
* * * * *
20738684 CAATAATTATTAGAGTTATTGATAGTACGGCTA
1 CAATAACTATCAAAGTTATTGATAATACGACTA
20738717 C
1 C
20738718 TAACGGATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (33 bp):
CAATAACTATCAAAGTTATTGATAATACGACTA
Found at i:20742191 original size:15 final size:16
Alignment explanation
Indices: 20742161--20742194 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20742151 TACTCTTAAA
*
20742161 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
20742177 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
20742192 ATT
1 ATT
20742195 TTGAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:20742378 original size:15 final size:18
Alignment explanation
Indices: 20742358--20742395 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
20742348 TTAATTTACC
20742358 TATTAA-TTAA-TA-ATT
1 TATTAATTTAATTATATT
20742373 TATTAATTTAATTATATT
1 TATTAATTTAATTATATT
20742391 TATTA
1 TATTA
20742396 TAAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 4 0.20
17 2 0.10
18 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTAATTTAATTATATT
Found at i:20748203 original size:15 final size:15
Alignment explanation
Indices: 20748155--20748212 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
20748145 TAAAAAATAC
*
20748155 ATAAAAAAGATTGAAA
1 ATAAAAAA-ATAGAAA
*
20748171 AAATAAAAAATGACGAAA
1 ATA-AAAAAAT-A-GAAA
20748189 ATAAAAAAATAGAAA
1 ATAAAAAAATAGAAA
*
20748204 ACAAAAAAA
1 ATAAAAAAA
20748213 AAAAAGCTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 12 0.34
16 5 0.14
17 12 0.34
18 6 0.17
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (15 bp):
ATAAAAAAATAGAAA
Found at i:20748838 original size:167 final size:156
Alignment explanation
Indices: 20748528--20748846 Score: 392
Period size: 167 Copynumber: 2.0 Consensus size: 156
20748518 TTAGCATCTC
* **
20748528 TTGATACATTTTGTTACAAAATTAATATAATTAAAAAATACAAAAATGTGAAATAAAAAAACTAC
1 TTGATACATTTTGTTACAAAATTAATATAATTAAAAAAAACAAAAATGTGAAATAAAAAAAAAAC
* **
20748593 AAAAGGAATGCCGCATTGACACTTCCTTTTTTTTTTCCACAAAATTAGTTTAATAAAAAAAATTA
66 AAAAAGAATGCCAAATTGACACTTCCTTTTTTTTTTCCACAAAATTAGTTTAATAAAAAAAA-TA
*
20748658 AAAAAAATGTGACATTTCCTTTATCAA
130 AAAAAAATGTGACACTTCCTTTATCAA
*
20748685 TTGATACATTTTGTTGCAAAATTAATATAATTAAAAAAAAACAAAAATGTGAAATTAAAAAAAAA
1 TTGATACATTTTGTTACAAAATTAATATAATT-AAAAAAAACAAAAATGTGAAA-T---AAAAAA
* *
20748750 AAAACAAAAAGAATGCTAAATTGAC-C-TCTCTTTTGTTTTTTCTTTTTCATAAAATTAGTTTAA
61 AAAACAAAAAGAATGCCAAATTGACACTTC-CTTTT-TTTTTTC-----CACAAAATTAGTTTAA
20748813 TAAAAAATAA-AAATAAAAATGTGACACTTCCTTT
119 TAAAAAA-AATAAA-AAAAATGTGACACTTCCTTT
20748847 TAAAAATTTA
Statistics
Matches: 138, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
157 31 0.22
158 20 0.14
159 1 0.01
160 2 0.01
161 6 0.04
162 32 0.23
166 3 0.02
167 41 0.30
168 2 0.01
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.34
Consensus pattern (156 bp):
TTGATACATTTTGTTACAAAATTAATATAATTAAAAAAAACAAAAATGTGAAATAAAAAAAAAAC
AAAAAGAATGCCAAATTGACACTTCCTTTTTTTTTTCCACAAAATTAGTTTAATAAAAAAAATAA
AAAAAATGTGACACTTCCTTTATCAA
Found at i:20749104 original size:18 final size:19
Alignment explanation
Indices: 20749081--20749117 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20749071 TTTTAAATCT
*
20749081 TTAAAAGAA-TATTAAAAA
1 TTAAAAAAATTATTAAAAA
20749099 TTAAAAAAATTATTAAAAA
1 TTAAAAAAATTATTAAAAA
20749118 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
TTAAAAAAATTATTAAAAA
Found at i:20749116 original size:11 final size:11
Alignment explanation
Indices: 20749081--20749127 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
20749071 TTTTAAATCT
20749081 TTAAAAGAA-TA
1 TTAAAA-AATTA
20749092 TT-AAAAATTA
1 TTAAAAAATTA
20749102 --AAAAAATTA
1 TTAAAAAATTA
20749111 TTAAAAAATT-
1 TTAAAAAATTA
20749121 TTAAAAA
1 TTAAAAA
20749128 TAAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
9 10 0.31
10 12 0.38
11 10 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:20749126 original size:20 final size:19
Alignment explanation
Indices: 20749064--20749128 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
20749054 GTGGGTCCTA
20749064 TTAAAAATT-TT--AAATCT
1 TTAAAAATTATTAAAAAT-T
*
20749081 TTAAAAGAATATTAAAAATT
1 TTAAAA-ATTATTAAAAATT
**
20749101 AAAAAAATTATTAAAAAATT
1 TTAAAAATTATT-AAAAATT
20749121 TTAAAAAT
1 TTAAAAAT
20749129 AAAAAATAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
17 6 0.16
18 2 0.05
19 7 0.19
20 18 0.49
21 4 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
TTAAAAATTATTAAAAATT
Found at i:20755930 original size:23 final size:23
Alignment explanation
Indices: 20755903--20755950 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
20755893 GACGCCGCCA
20755903 CCTAGTCCTATCAGACCAACCAC
1 CCTAGTCCTATCAGACCAACCAC
*
20755926 CCTAGTCCTATCAGACCAGCCAC
1 CCTAGTCCTATCAGACCAACCAC
20755949 CC
1 CC
20755951 CTACAGCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.46, G:0.10, T:0.17
Consensus pattern (23 bp):
CCTAGTCCTATCAGACCAACCAC
Found at i:20757311 original size:14 final size:16
Alignment explanation
Indices: 20757298--20757357 Score: 77
Period size: 17 Copynumber: 3.6 Consensus size: 16
20757288 AAAGATTAAT
20757298 TAATAAAA-AATAATAA
1 TAATAAAATAAT-ATAA
*
20757314 TAATATAATAATAGTAA
1 TAATAAAATAATA-TAA
20757331 TAATATAAATAATATAA
1 TAATA-AAATAATATAA
20757348 TAATAAAATA
1 TAATAAAATA
20757358 TAAAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
16 13 0.33
17 19 0.49
18 7 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
TAATAAAATAATATAA
Found at i:20757314 original size:3 final size:3
Alignment explanation
Indices: 20757298--20757357 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
20757288 AAAGATTAAT
*
20757298 TAA TAA -AA -AA TAA TAA TAA T-A TAA TAA TAG TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
20757340 TAA T-A TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TA
20757358 TAAAAAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
2 12 0.24
3 35 0.71
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:20757323 original size:8 final size:8
Alignment explanation
Indices: 20757310--20757357 Score: 69
Period size: 8 Copynumber: 5.8 Consensus size: 8
20757300 ATAAAAAATA
20757310 ATAATAAT
1 ATAATAAT
20757318 ATAATAAT
1 ATAATAAT
20757326 AGTAATAAT
1 A-TAATAAT
20757335 ATAAATAAT
1 AT-AATAAT
20757344 ATAATAAT
1 ATAATAAT
*
20757352 AAAATA
1 ATAATA
20757358 TAAAAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 21 0.57
9 16 0.43
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:20757517 original size:15 final size:15
Alignment explanation
Indices: 20757492--20757541 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
20757482 CATAAAAAAC
20757492 CCCTAAA-ATCCAAA
1 CCCTAAACATCCAAA
*
20757506 CCTTAAACATCCAAA
1 CCCTAAACATCCAAA
*
20757521 CCCTAAAC-TCAAAA
1 CCCTAAACATCCAAA
20757535 CCCTAAA
1 CCCTAAA
20757542 ATTCAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 18 0.56
15 14 0.44
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (15 bp):
CCCTAAACATCCAAA
Found at i:20757547 original size:15 final size:14
Alignment explanation
Indices: 20757487--20757548 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
20757477 TAAAACATAA
20757487 AAAACCCCTAAAATC
1 AAAA-CCCTAAAATC
* *
20757502 CAAACCTTAAACATC
1 AAAACCCTAAA-ATC
* *
20757517 CAAACCCTAAACTC
1 AAAACCCTAAAATC
20757531 AAAACCCTAAAATTC
1 AAAACCCTAAAA-TC
20757546 AAA
1 AAA
20757549 TTTTCAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 18 0.46
15 21 0.54
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAACCCTAAAATC
Found at i:20757655 original size:29 final size:29
Alignment explanation
Indices: 20757598--20757655 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
20757588 TCTAAAAACC
* *
20757598 CCTAAAATCTAAACCTCAAACCTCTAAAT
1 CCTAAAATCAAAACCTCAAACCTCAAAAT
20757627 CCTAAAATCGAAAACCT-AAATCC-CAAAAT
1 CCTAAAATC-AAAACCTCAAA-CCTCAAAAT
20757656 TTGAAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (29 bp):
CCTAAAATCAAAACCTCAAACCTCAAAAT
Found at i:20757670 original size:105 final size:103
Alignment explanation
Indices: 20757486--20757688 Score: 232
Period size: 105 Copynumber: 2.0 Consensus size: 103
20757476 CTAAAACATA
* * * *
20757486 AAAAACCCCTAAAATCCAAACCTTAAACATCCAAACCCTAAACTCAAAACCCTAAAATTCAAATT
1 AAAAACCCCTAAAATCCAAACCTCAAACATCCAAACCCTAAAATCAAAACCCTAAAATCCAAAAT
20757551 TTCAAACACTAAAACCCCAAACCTAAAAATCTAAATTTCT
66 TTCAAACACTAAAA-CCCAAACCT-AAAATCTAAATTTCT
* * * *
20757591 AAAAACCCCTAAAATCTAAACCTCAAACCTCTAAATCCTAAAATCGAAAA-CCT-AAATCCCAAA
1 AAAAACCCCTAAAATCCAAACCTCAAACATCCAAACCCTAAAATC-AAAACCCTAAAAT-CCAAA
* * * *
20757654 ATTTGAAAC-TTGAAAACCTAACCCTAAAATCTAAA
64 ATTTCAAACACT-AAAACCCAAACCTAAAATCTAAA
20757689 ACCTAAAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
103 10 0.12
104 12 0.14
105 57 0.69
106 4 0.05
ACGTcount: A:0.50, C:0.28, G:0.01, T:0.21
Consensus pattern (103 bp):
AAAAACCCCTAAAATCCAAACCTCAAACATCCAAACCCTAAAATCAAAACCCTAAAATCCAAAAT
TTCAAACACTAAAACCCAAACCTAAAATCTAAATTTCT
Found at i:20763843 original size:13 final size:13
Alignment explanation
Indices: 20763821--20763859 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
20763811 AAGTAACTTT
20763821 CAAGATAAAATAAA
1 CAAGATAAAA-AAA
*
20763835 TAA-ATAAAAAAA
1 CAAGATAAAAAAA
20763847 CAAGATAAAAAAA
1 CAAGATAAAAAAA
20763860 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 15 0.68
14 2 0.09
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (13 bp):
CAAGATAAAAAAA
Found at i:20763854 original size:26 final size:26
Alignment explanation
Indices: 20763821--20763872 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
20763811 AAGTAACTTT
* * *
20763821 CAAGATAAAATAAATAAATAAAAAAA
1 CAAGATAAAAAAAAGAAAAAAAAAAA
20763847 CAAGATAAAAAAAAGAAAAAAAAAAA
1 CAAGATAAAAAAAAGAAAAAAAAAAA
20763873 GTTTTCTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.10
Consensus pattern (26 bp):
CAAGATAAAAAAAAGAAAAAAAAAAA
Found at i:20764456 original size:12 final size:12
Alignment explanation
Indices: 20764439--20764487 Score: 71
Period size: 12 Copynumber: 3.8 Consensus size: 12
20764429 AAGGCATCAC
20764439 AAAACAAAAAAA
1 AAAACAAAAAAA
20764451 AAAACAAAAAAAA
1 AAAAC-AAAAAAA
20764464 TAAAAGCAAAAAAA
1 -AAAA-CAAAAAAA
20764478 AAAACAAAAA
1 AAAACAAAAA
20764488 GCAAAAAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.32
13 11 0.32
14 11 0.32
15 1 0.03
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (12 bp):
AAAACAAAAAAA
Found at i:20764468 original size:15 final size:14
Alignment explanation
Indices: 20764444--20764481 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
20764434 ATCACAAAAC
20764444 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
20764458 AAAAAATAAAAGCAA
1 AAAAAA-AAAAACAA
20764473 AAAAAAAAA
1 AAAAAAAAA
20764482 CAAAAAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.89, C:0.05, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:20764505 original size:19 final size:18
Alignment explanation
Indices: 20764439--20764505 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
20764429 AAGGCATCAC
*
20764439 AAAACAAAAAAAAA--AA
1 AAAAAAAAAAAAAAGCAA
* *
20764455 CAAAAAAAATAAAAGCAA
1 AAAAAAAAAAAAAAGCAA
20764473 AAAAAAAAACAAAAAGCAA
1 AAAAAAAAA-AAAAAGCAA
* *
20764492 AAAGATAAAAAAAA
1 AAAAAAAAAAAAAA
20764506 TTAAAAAGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
16 11 0.27
18 15 0.37
19 15 0.37
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAAAAAGCAA
Found at i:20766482 original size:105 final size:106
Alignment explanation
Indices: 20766286--20766483 Score: 256
Period size: 105 Copynumber: 1.9 Consensus size: 106
20766276 AAACCATGTT
* *
20766286 TAAAAGGATTTTTAAATTTTTAAAGTTTCATTGCTTCCAATTCAGAAGACATTCAAAGATTTTAA
1 TAAAAGGATTTTTAAATTTTTAAAGTTTCATTACCTCCAATTCAGAAGACATTCAAAGATTTTAA
* * * *
20766351 AATTTCTAAGGCCTCTGGGCATAACTTTCAGGACCTCCAGG
66 AATTTCTAAGACCTCCGGGAACAACTTTCAGGACCTCCAGG
* ** * *
20766392 TAAAA-GATTTTTAAATTTTTAAAGTTTTATTACCTCTGATT-AGAGGAGCATTCAAAGATTTTG
1 TAAAAGGATTTTTAAATTTTTAAAGTTTCATTACCTCCAATTCAGAAGA-CATTCAAAGATTTTA
* *
20766455 AGATTTGTAAGACCTCCGGGAACAACTTT
65 AAATTTCTAAGACCTCCGGGAACAACTTT
20766484 TAAGACATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
104 5 0.06
105 68 0.87
106 5 0.06
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (106 bp):
TAAAAGGATTTTTAAATTTTTAAAGTTTCATTACCTCCAATTCAGAAGACATTCAAAGATTTTAA
AATTTCTAAGACCTCCGGGAACAACTTTCAGGACCTCCAGG
Found at i:20766862 original size:88 final size:88
Alignment explanation
Indices: 20766730--20766894 Score: 242
Period size: 88 Copynumber: 1.9 Consensus size: 88
20766720 AATCACGTTG
* * *
20766730 TTGTTCTAATCAATTTCTTATTTTTCGACTTGTAATGTTGTCCCAGTCGATTCTGTAAAACCTTC
1 TTGTTCTAATCAATTCCTTATTTTTCGACCTGCAATGTTGTCCCAGTCGATTCTGTAAAACC-TC
20766795 -AGGCATAATTTCGATTTTCGATA
65 AAGGCATAATTTCGATTTTCGATA
* * * *
20766818 TTGTTCTGATCGATTCCTTATTTTTTGACCTGCGATGTTGTCCCAGTCGATTCTGTAAAACCTCA
1 TTGTTCTAATCAATTCCTTATTTTTCGACCTGCAATGTTGTCCCAGTCGATTCTGTAAAACCTCA
*
20766883 AGGCATGATTTC
66 AGGCATAATTTC
20766895 TAAGTCCTCT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 2 0.03
88 66 0.97
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (88 bp):
TTGTTCTAATCAATTCCTTATTTTTCGACCTGCAATGTTGTCCCAGTCGATTCTGTAAAACCTCA
AGGCATAATTTCGATTTTCGATA
Found at i:20766961 original size:220 final size:219
Alignment explanation
Indices: 20766576--20767011 Score: 568
Period size: 220 Copynumber: 2.0 Consensus size: 219
20766566 AAGACCTTTG
* * * *
20766576 GGCATAATTTTGATTCGCGATGTTATCCTGATTGATTCTTTATTTTTTGACCTACGATGTTATCC
1 GGCATAATTTCGATTCGCGATATTATCCTGATCGATTCCTTATTTTTTGACCTACGATGTTATCC
* * * * *
20766641 CAGTAGATTCTGTAAAACCTCCAGACATGATTTTTGAGTCCTCCGAGTATAATTTTTAAGATCTC
66 CAGTAGATTCTGTAAAACCTCAAGACATGATTTCTAAGTCCTCCGAGCATAATCTTTAAGATCTC
* * * * * *
20766706 TAGGTAAAATTTTGAATCACGTTGTTGTTCTAATCAATTTCTTATTTTTCGACTTGTAATGTTGT
131 CAGGCAAAATTTTGAATCACGGTGTTGTCCTAATCAATTTCTTATTTTT-GACCTGCAATGTTGT
20766771 CCCAGTCGATTCTGTAAAACCTTCA
195 CCCAGTCGATTCTGTAAAACCTTCA
** * * * *
20766796 GGCATAATTTCGATTTTCGATATTGTTCTGATCGATTCCTTATTTTTTGACCTGCGATGTTGTCC
1 GGCATAATTTCGATTCGCGATATTATCCTGATCGATTCCTTATTTTTTGACCTACGATGTTATCC
* * *
20766861 CAGTCGATTCTGTAAAACCTCAAGGCATGATTTCTAAGTCCTCTGAGCATAATCTTTAAGA-CTT
66 CAGTAGATTCTGTAAAACCTCAAGACATGATTTCTAAGTCCTCCGAGCATAATCTTTAAGATC-T
* * * * *
20766925 CCGGGCATAATTTTGATTTACGGTGTTGTCCTAATCAATTTCTTATTTTTGACCTGCGATGTTGT
130 CCAGGCAAAATTTTGAATCACGGTGTTGTCCTAATCAATTTCTTATTTTTGACCTGCAATGTTGT
* *
20766990 CCCAGTCGATTCTTTAAGACCT
195 CCCAGTCGATTCTGTAAAACCT
20767012 CTGAGGATGA
Statistics
Matches: 184, Mismatches: 31, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
219 33 0.18
220 151 0.82
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (219 bp):
GGCATAATTTCGATTCGCGATATTATCCTGATCGATTCCTTATTTTTTGACCTACGATGTTATCC
CAGTAGATTCTGTAAAACCTCAAGACATGATTTCTAAGTCCTCCGAGCATAATCTTTAAGATCTC
CAGGCAAAATTTTGAATCACGGTGTTGTCCTAATCAATTTCTTATTTTTGACCTGCAATGTTGTC
CCAGTCGATTCTGTAAAACCTTCA
Found at i:20767116 original size:37 final size:37
Alignment explanation
Indices: 20767075--20767146 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
20767065 TTTTGATTTA
*
20767075 CGGTGTTGTCCTGATCGATTCTTTATTTTTCAACTTG
1 CGGTGTTGTCCTGATCGATTCTTTATTTCTCAACTTG
*
20767112 CGGTGTTGTCCTGGTCGATTCTTTATTTCTCAACT
1 CGGTGTTGTCCTGATCGATTCTTTATTTCTCAACT
20767147 CACGACATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (37 bp):
CGGTGTTGTCCTGATCGATTCTTTATTTCTCAACTTG
Found at i:20767120 original size:131 final size:131
Alignment explanation
Indices: 20766797--20767136 Score: 409
Period size: 131 Copynumber: 2.6 Consensus size: 131
20766787 AAACCTTCAG
* * * * * *
20766797 GCATAATTTCGATTTTCGATATTGTTCTGATCGATTCCTTATTTTTTGACCTGCGATGTTGTCCC
1 GCATAATTTTGATTTACGGTGTTGTCCTGATCGATTCTTTA-TTTTTGACCTGCGATGTTGTCCC
* * *
20766862 AGTCGATTCTGTAAAACCTCAAGGCATGATTTCTAAGTCCTCTGAGCATAATCTTTAAGACTTCC
65 AGTCGATTCTTTAAAACCTCAAGGCATGATTTCTAAGACCTCTGAGCATAATCTTTAAGACCTCC
*
20766927 GG
130 GC
* *
20766929 GCATAATTTTGATTTACGGTGTTGTCCTAATCAATT-TCTTATTTTTGACCTGCGATGTTGTCCC
1 GCATAATTTTGATTTACGGTGTTGTCCTGATCGATTCT-TTATTTTTGACCTGCGATGTTGTCCC
* * * *
20766993 AGTCGATTCTTTAAGACCTCTGAGG-ATGATTTTTAAGA-CTTTCGA-CATAATCTTTAAGACCT
65 AGTCGATTCTTTAAAACCTC-AAGGCATGATTTCTAAGACCTCT-GAGCATAATCTTTAAGACCT
*
20767055 CTGC
128 CCGC
* * * *
20767059 GCATAATTTTGATTTACGGTGTTGTCCTGATCGATTCTTTATTTTTCAACTTGCGGTGTTGTCCT
1 GCATAATTTTGATTTACGGTGTTGTCCTGATCGATTCTTTATTTTT-GACCTGCGATGTTGTCCC
*
20767124 GGTCGATTCTTTA
65 AGTCGATTCTTTA
20767137 TTTCTCAACT
Statistics
Matches: 179, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
130 63 0.35
131 81 0.45
132 35 0.20
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.41
Consensus pattern (131 bp):
GCATAATTTTGATTTACGGTGTTGTCCTGATCGATTCTTTATTTTTGACCTGCGATGTTGTCCCA
GTCGATTCTTTAAAACCTCAAGGCATGATTTCTAAGACCTCTGAGCATAATCTTTAAGACCTCCG
C
Found at i:20767459 original size:23 final size:24
Alignment explanation
Indices: 20767428--20767473 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
20767418 TATTGAAAAA
20767428 AATACAAAAAAAAGA-AAAAAATT
1 AATACAAAAAAAAGATAAAAAATT
*
20767451 AATATAAAAAAAAGATAAAAAAT
1 AATACAAAAAAAAGATAAAAAAT
20767474 AAGGGGGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (24 bp):
AATACAAAAAAAAGATAAAAAATT
Found at i:20768903 original size:3 final size:3
Alignment explanation
Indices: 20768889--20768953 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
20768879 AAATATTAAT
* *
20768889 TAA TAA -AA TAA TAA TAA TAA TATT TAA TAA TAA TAG TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
20768933 TAAA TAA T-A TAA TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA
20768954 ATATGAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 6 0.11
3 43 0.81
4 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:20769163 original size:22 final size:22
Alignment explanation
Indices: 20769096--20769164 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
20769086 AAAAACCCCT
**
20769096 AAAAT-CCAAACCTCCAAATCC
1 AAAATCCCAAACCTAAAAATCC
* * *
20769117 TAAAATCCAAAATCTCAAACA-CC
1 -AAAATCCCAAACCT-AAAAATCC
20769140 AAAATCCCAAACCTAAAAATCC
1 AAAATCCCAAACCTAAAAATCC
20769162 AAA
1 AAA
20769165 TTTCTAAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
21 4 0.11
22 22 0.61
23 8 0.22
24 2 0.06
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATCCCAAACCTAAAAATCC
Found at i:20769229 original size:22 final size:23
Alignment explanation
Indices: 20769202--20769297 Score: 76
Period size: 22 Copynumber: 4.1 Consensus size: 23
20769192 TTAAACCTCC
20769202 AAACCCTAAAAT-TGAAAACCTA
1 AAACCCTAAAATCTGAAAACCTA
*
20769224 AAACCC-AAAATCTG-AAACTTGAA
1 AAACCCTAAAATCTGAAAACCT--A
* *
20769247 GACCTAACCCTAAAATC-CAAAATCTA
1 -A---AACCCTAAAATCTGAAAACCTA
20769273 AAACCCTAAAATCT-AAAACCTA
1 AAACCCTAAAATCTGAAAACCTA
20769295 AAA
1 AAA
20769298 ATCCAAAAGT
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
21 10 0.17
22 30 0.51
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 5 0.08
28 10 0.17
ACGTcount: A:0.53, C:0.25, G:0.04, T:0.18
Consensus pattern (23 bp):
AAACCCTAAAATCTGAAAACCTA
Found at i:20769298 original size:8 final size:7
Alignment explanation
Indices: 20769216--20769297 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
20769206 CCTAAAATTG
20769216 AAAACCT
1 AAAACCT
*
20769223 AAAACCC
1 AAAACCT
*
20769230 AAAATCT
1 AAAACCT
* *
20769237 GAAACTT
1 AAAACCT
*
20769244 GAAGACCT
1 -AAAACCT
*
20769252 -AACCCT
1 AAAACCT
20769258 AAAATCC-
1 AAAA-CCT
*
20769265 AAAATCT
1 AAAACCT
20769272 AAAACCCT
1 AAAA-CCT
*
20769280 AAAATCT
1 AAAACCT
20769287 AAAACCT
1 AAAACCT
20769294 AAAA
1 AAAA
20769298 ATCCAAAAGT
Statistics
Matches: 54, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
6 5 0.09
7 37 0.69
8 12 0.22
ACGTcount: A:0.54, C:0.26, G:0.04, T:0.17
Consensus pattern (7 bp):
AAAACCT
Found at i:20769305 original size:15 final size:15
Alignment explanation
Indices: 20769256--20769297 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
20769246 AGACCTAACC
*
20769256 CTAAAATCC-AAAAT
1 CTAAAACCCTAAAAT
20769270 CTAAAACCCTAAAAT
1 CTAAAACCCTAAAAT
20769285 CTAAAA-CCTAAAA
1 CTAAAACCCTAAAA
20769298 ATCCAAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.19
Consensus pattern (15 bp):
CTAAAACCCTAAAAT
Found at i:20770067 original size:15 final size:15
Alignment explanation
Indices: 20770047--20770075 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20770037 TTAAATAAAA
20770047 AATTTTGATAAAATT
1 AATTTTGATAAAATT
20770062 AATTTTGATAAAAT
1 AATTTTGATAAAAT
20770076 AAAAGAGAAT
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:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
AATTTTGATAAAATT
Found at i:20770489 original size:18 final size:19
Alignment explanation
Indices: 20770468--20770505 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
20770458 AAACCAATGC
*
20770468 ATGAAATTAA-AAACCTAA
1 ATGAAAATAATAAACCTAA
*
20770486 ATGAAAATAATAAATCTAA
1 ATGAAAATAATAAACCTAA
20770505 A
1 A
20770506 ACATAGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (19 bp):
ATGAAAATAATAAACCTAA
Found at i:20772923 original size:29 final size:25
Alignment explanation
Indices: 20772890--20772966 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 25
20772880 AACTTTGATA
20772890 TATTAATTGAAATTATTAATATTATAAT
1 TATTAATTGAAATTATTAATA--AT-AT
*
20772918 TGATTAATAT-AAATGA-TAATAATAT
1 T-ATTAAT-TGAAATTATTAATAATAT
*
20772943 TATTAATTTGATATTATTAATAAT
1 TATTAA-TTGAAATTATTAATAAT
20772967 TAATTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
24 6 0.15
25 8 0.20
26 9 0.22
28 6 0.15
29 11 0.27
30 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (25 bp):
TATTAATTGAAATTATTAATAATAT
Found at i:20773160 original size:21 final size:22
Alignment explanation
Indices: 20773114--20773161 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
20773104 TTGATTTCAA
20773114 ATTTCGTATGAATATAAAAATT
1 ATTTCGTATGAATATAAAAATT
* *
20773136 ATTT-GTAT-AATTTAACAATT
1 ATTTCGTATGAATATAAAAATT
20773156 GATTTC
1 -ATTTC
20773162 ATCAATTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (22 bp):
ATTTCGTATGAATATAAAAATT
Found at i:20774088 original size:18 final size:20
Alignment explanation
Indices: 20774052--20774089 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
20774042 TTTATATTTT
20774052 TATATTATTAATAATATCTA
1 TATATTATTAATAATATCTA
*
20774072 TATATT-TTTATAA-ATCTA
1 TATATTATTAATAATATCTA
20774090 ATGATACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 6 0.35
20 6 0.35
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TATATTATTAATAATATCTA
Found at i:20774091 original size:28 final size:26
Alignment explanation
Indices: 20774044--20774103 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
20774034 ATATGTAGTT
*
20774044 TATATTTTTATATTATTAATAATATCTA
1 TATATTTTTATATAATTAATAATA-C-A
*
20774072 TATATTTTTATA-AATCTAATGATACA
1 TATATTTTTATATAAT-TAATAATACA
20774098 TATATT
1 TATATT
20774104 GCATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.24
27 3 0.10
28 19 0.66
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
TATATTTTTATATAATTAATAATACA
Found at i:20775548 original size:17 final size:17
Alignment explanation
Indices: 20775514--20775565 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
20775504 TTAATAAATG
*
20775514 TATTTTATTTATTTAAAA
1 TATTTTA-TTAGTTAAAA
20775532 TATTTTATTAGTTAAAA
1 TATTTTATTAGTTAAAA
* *
20775549 TAATTAATTAGATTAAA
1 TATTTTATTAG-TTAAA
20775566 TTAATTTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TATTTTATTAGTTAAAA
Found at i:20775570 original size:18 final size:17
Alignment explanation
Indices: 20775526--20775571 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
20775516 TTTTATTTAT
* *
20775526 TTAAAATATTTTATTAG
1 TTAAAATAATTAATTAG
20775543 TTAAAATAATTAATTAG
1 TTAAAATAATTAATTAG
*
20775560 ATTAAATTAATT
1 -TTAAAATAATT
20775572 TTGTTTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (17 bp):
TTAAAATAATTAATTAG
Found at i:20778478 original size:13 final size:13
Alignment explanation
Indices: 20778460--20778485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20778450 TTTAGCAATT
20778460 TTAGACATAATAC
1 TTAGACATAATAC
20778473 TTAGACATAATAC
1 TTAGACATAATAC
20778486 GATTATACGA
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTAGACATAATAC
Found at i:20780388 original size:18 final size:20
Alignment explanation
Indices: 20780366--20780410 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
20780356 AATACATTTG
20780366 AAATATCTATATTA-TTTAT
1 AAATATCTATATTATTTTAT
*
20780385 -AATAT-TTTATTATTTTAT
1 AAATATCTATATTATTTTAT
20780403 AAATATCT
1 AAATATCT
20780411 TTTACACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 6 0.27
18 10 0.45
19 5 0.23
20 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATATCTATATTATTTTAT
Found at i:20782272 original size:21 final size:21
Alignment explanation
Indices: 20782240--20782288 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
20782230 AATAACACGG
20782240 ATAAAAATATTTTAA-AAAATT
1 ATAAAAATA-TTTAATAAAATT
*
20782261 ATAAATAA-ATTTAATAAAATC
1 ATAAA-AATATTTAATAAAATT
20782282 A-AAAAAT
1 ATAAAAAT
20782289 TATATTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.08
20 8 0.33
21 12 0.50
22 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAAATATTTAATAAAATT
Found at i:20784446 original size:2 final size:2
Alignment explanation
Indices: 20784439--20784472 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
20784429 ATACGTGTGC
*
20784439 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20784473 TATCTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20785044 original size:2 final size:2
Alignment explanation
Indices: 20785037--20785067 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20785027 TGATCGATTC
20785037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20785068 CCTTATGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20788584 original size:6 final size:6
Alignment explanation
Indices: 20788573--20788598 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20788563 TTGTGCTCAA
20788573 CCTGTC CCTGTC CCTGTC CCTGTC CC
1 CCTGTC CCTGTC CCTGTC CCTGTC CC
20788599 ATCCAATTTT
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:0.00, C:0.54, G:0.15, T:0.31
Consensus pattern (6 bp):
CCTGTC
Found at i:20792602 original size:13 final size:14
Alignment explanation
Indices: 20792567--20792618 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 14
20792557 AATTATTAGT
* *
20792567 TTTTAATTAAATAT
1 TTTTATTTAAATAG
20792581 TTTGATATTTAAATA-
1 TTT--TATTTAAATAG
20792596 TTTTA-TTAAATAG
1 TTTTATTTAAATAG
20792609 TTTTATTTAA
1 TTTTATTTAA
20792619 TTTGTTTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 7 0.21
13 7 0.21
14 7 0.21
15 3 0.09
16 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (14 bp):
TTTTATTTAAATAG
Found at i:20794705 original size:2 final size:2
Alignment explanation
Indices: 20794698--20794734 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
20794688 TTCAATGAGA
*
20794698 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20794735 ATGATCATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:20797398 original size:127 final size:128
Alignment explanation
Indices: 20797253--20797509 Score: 403
Period size: 128 Copynumber: 2.0 Consensus size: 128
20797243 ATAGAAAGGG
* *
20797253 AAATAGGTGAAGAAAGAAGAGAA-GTCGGGAAGGAAAAAAATTTTTTTTATCGTGTTCGGTATGA
1 AAATAGGTGAAGAAAGAAGAAAAGGTCGGGAAGGAAAAAAATTTTTTTTATCGTATTCGGTATGA
* * * *
20797317 AGGATAAAAAATTA-A-AAAATGAAAGAAATTAGAGGTAAAATTGTAAATAAAATTATTAATTTA
66 AGGAT-AAAAA-TAGAGAAAATAAAAAAAATTAGAGATAAAATTATAAATAAAATTATTAATTTA
* *
20797380 AAATAGGTGAAGAAAGAAGAAAAGGTTGGGAAGGAAAAAAATTTTTTTTATTGTATTCGGTATGA
1 AAATAGGTGAAGAAAGAAGAAAAGGTCGGGAAGGAAAAAAATTTTTTTTATCGTATTCGGTATGA
20797445 AGGATAAAAATAGAGAAAATAAAAAAAATTAGAGATAAAATTATAAATAAAATTATTAATTTA
66 AGGATAAAAATAGAGAAAATAAAAAAAATTAGAGATAAAATTATAAATAAAATTATTAATTTA
20797508 AA
1 AA
20797510 TTATAAGGGT
Statistics
Matches: 119, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
126 2 0.02
127 28 0.24
128 89 0.75
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.28
Consensus pattern (128 bp):
AAATAGGTGAAGAAAGAAGAAAAGGTCGGGAAGGAAAAAAATTTTTTTTATCGTATTCGGTATGA
AGGATAAAAATAGAGAAAATAAAAAAAATTAGAGATAAAATTATAAATAAAATTATTAATTTA
Found at i:20797500 original size:12 final size:12
Alignment explanation
Indices: 20797463--20797515 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
20797453 AATAGAGAAA
*
20797463 ATAAAAAAAATT
1 ATAAATAAAATT
* *
20797475 AGAGATAAAATT
1 ATAAATAAAATT
20797487 ATAAATAAAATT
1 ATAAATAAAATT
* *
20797499 ATTAATTTAAATT
1 A-TAAATAAAATT
20797512 ATAA
1 ATAA
20797516 GGGTATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (12 bp):
ATAAATAAAATT
Found at i:20808054 original size:238 final size:234
Alignment explanation
Indices: 20807551--20808343 Score: 817
Period size: 239 Copynumber: 3.3 Consensus size: 234
20807541 TTTCTGTAGG
* * * * * *
20807551 AAATGCCTTCAATATCCCACTACT-AAATTTTAAGACGGTTATTAAAGGTGTTTATTCTTGAAAA
1 AAATGCTTTCAATATTCCACTACTAAAATTTTAAGATGGTTAGTAAAGGCGTTTATTCAT-AAAA
* * * ** * *
20807615 ACGTCTTTACTAATTCATTATAA-TTTTGAAAGAATTTATTGAAGGTATTTTTGCATTATACGCT
65 ATGCCTTCACTAATTTGTTATAATTTTTGAAAGAATTTATT-AAAGTATTTTTGCATTATACGCC
* *
20807679 TTCAATAATTTTTGTAGATAATTATTGAAAGCATTTTTTAAGAAAAAACACCTTCAATAATTTAC
129 TTCAATAATTTTTGTAAATAATTATTG-AAGCATTTTTTAAGAAAAAACACCTTCAATAATTT-T
*
20807744 TTTTAAAAATTGTTTGGGTTTATTAAAGGTGTCTTT-TAGTAAA
192 TTTTAAAAATTGTTTGGGATTATTAAAGGTGT-TTTCTAGTAAA
* * *
20807787 AAACGCCTTCAATATTCCACTACTAAAATTTTAAGATGGTTATTAAAGGCGTTTATTTCATAAAA
1 AAATGCTTTCAATATTCCACTACTAAAATTTTAAGATGGTTAGTAAAGGCGTTTA-TTCATAAAA
* *
20807852 ATGCCTTCACTAATTTGTTACAATTTTTGAAAGAATTTATTAAAGATATTTTTTGCATTATATGC
65 ATGCCTTCACTAATTTGTTATAATTTTTGAAAGAATTTATTAAAG-TA-TTTTTGCATTATACGC
* * * *
20807917 CTTCAATAATTTTTATAAATAATTATTGAAGGCGTTTCTTAAGAAAAAATACCTTCAATAATTTT
128 CTTCAATAATTTTTGTAAATAATTATTGAA-GCATTTTTTAAGAAAAAACACCTTCAATAATTTT
* ***
20807982 TTTTAAAAATTGTTTGGGATTATAAAATACGTTTTCTAGTAAA
192 TTTTAAAAATTGTTTGGGATTATTAAAGGTGTTTTCTAGTAAA
** * * * * * * *
20808025 AAATGCTTTCAATATTTTACTATTAAAATTGTAAAATGGTTAGTGAAGACGTTTATACAAAAAAA
1 AAATGCTTTCAATATTCCACTACTAAAATTTTAAGATGGTTAGTAAAGGCGTTTATTC--ATAAA
* * * ** *
20808090 AATACCTTCACTAATTTGTTTTAATTTTTG-AAGAAATTTATTTAAGGCGTTTTTGC-TAAATAC
64 AATGCCTTCACTAATTTGTTATAATTTTTGAAAG-AATTTA-TTAAAGTATTTTTGCAT-TATAC
* * * * * * *
20808153 GCC-TCTAATAATTTTCGTACAGAATTATTGATAGTATTTTTTTAGAACAAACGCCTTCAATAAT
126 GCCTTC-AATAATTTTTGTAAATAATTATTGA-AGCATTTTTTAAGAAAAAACACCTTCAATAA-
* * * * *
20808217 TTTTTTTTAAAAATTATTTGAGATTATTAAAGGTGTCTTCCAGTGAA
188 TTTTTTTTAAAAATTGTTTGGGATTATTAAAGGTGTTTTCTAGTAAA
* * * *
20808264 AAATGCTTTCAATATTCCACTACTAACATTTTAAGATCGTTAGTGAAGGTGTTTATTCCA-AAAG
1 AAATGCTTTCAATATTCCACTACTAAAATTTTAAGATGGTTAGTAAAGGCGTTTATT-CATAAA-
*
20808328 AATGCCTTCACCAATT
64 AATGCCTTCACTAATT
20808344 CGCCTTCAAT
Statistics
Matches: 463, Mismatches: 77, Indels: 32
0.81 0.13 0.06
Matches are distributed among these distances:
236 22 0.05
237 63 0.14
238 179 0.39
239 193 0.42
240 6 0.01
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (234 bp):
AAATGCTTTCAATATTCCACTACTAAAATTTTAAGATGGTTAGTAAAGGCGTTTATTCATAAAAA
TGCCTTCACTAATTTGTTATAATTTTTGAAAGAATTTATTAAAGTATTTTTGCATTATACGCCTT
CAATAATTTTTGTAAATAATTATTGAAGCATTTTTTAAGAAAAAACACCTTCAATAATTTTTTTT
AAAAATTGTTTGGGATTATTAAAGGTGTTTTCTAGTAAA
Found at i:20809219 original size:28 final size:28
Alignment explanation
Indices: 20809137--20809260 Score: 132
Period size: 28 Copynumber: 4.6 Consensus size: 28
20809127 AATATTATGG
* *
20809137 TTTGCTGAATGATATTGTGTGATATTAT
1 TTTGCTGAATGGTATTGTGTGATATTGT
*
20809165 TTTGCTAAATGGTATTGTGTGATATTGT
1 TTTGCTGAATGGTATTGTGTGATATTGT
* *
20809193 TTTGCTGAATGGTATTGTATGATATTGG
1 TTTGCTGAATGGTATTGTGTGATATTGT
* * *
20809221 TATGTTGAAT--TATATG-GTGA-A-TGG
1 TTTGCTGAATGGTAT-TGTGTGATATTGT
20809245 TTTGCTGAATGGTATT
1 TTTGCTGAATGGTATT
20809261 TCTGTATGTA
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.13
25 2 0.02
26 9 0.11
27 2 0.02
28 58 0.71
ACGTcount: A:0.23, C:0.03, G:0.26, T:0.48
Consensus pattern (28 bp):
TTTGCTGAATGGTATTGTGTGATATTGT
Found at i:20812798 original size:125 final size:124
Alignment explanation
Indices: 20812576--20812882 Score: 307
Period size: 125 Copynumber: 2.5 Consensus size: 124
20812566 TAACAAAATG
* * * * *
20812576 TTATTGAAGGCGCTTTTAACCAAAATTGCCTTCAATAATCTACAA-AAAAATTTATTGTGTGAAA
1 TTATTGAAGGCGTTTTTAACAAAAAATGCCTTCAATAATC-CCAACAAAATTTTATTGTGTGAAA
** * * * * *
20812640 TATTAAAGGTGTTTTGGGCTAAAAATGCCTTCAAGAATCCGTTCCAAGT-TTTTTGC-ATAGA
65 TATTAAAGACGCTTTCGACAAAAAATGACTTCAAGAATCCGTT-CAA-TATTTTT-CTATAGA
* * * *
20812701 TTATTGAAGGCGTTTTTGACAAAAACTGCCTTCAATAATCCCAACTAAATTTTATTGAT-TGAAT
1 TTATTGAAGGCGTTTTTAACAAAAAATGCCTTCAATAATCCCAACAAAATTTTATTG-TGTGAAA
* ** *
20812765 TATTGAAGACGCTTTCGACAAAAAATGACTTCAAGAATCCGTTTTATATTTTTCTATGGA
65 TATTAAAGACGCTTTCGACAAAAAATGACTTCAAGAATCCGTTCAATATTTTTCTATAGA
* * * *
20812825 TTATTAAAGGCATTTTTAACAAGAAAATGCCTTGAATAATCCCTAACAAAATGTTATT
1 TTATTGAAGGCGTTTTTAACAA-AAAATGCCTTCAATAATCCC-AACAAAATTTTATT
20812883 AAAGGTATTT
Statistics
Matches: 150, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
123 2 0.01
124 32 0.21
125 103 0.69
126 13 0.09
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (124 bp):
TTATTGAAGGCGTTTTTAACAAAAAATGCCTTCAATAATCCCAACAAAATTTTATTGTGTGAAAT
ATTAAAGACGCTTTCGACAAAAAATGACTTCAAGAATCCGTTCAATATTTTTCTATAGA
Found at i:20812816 original size:63 final size:61
Alignment explanation
Indices: 20812660--20812817 Score: 156
Period size: 63 Copynumber: 2.5 Consensus size: 61
20812650 GTTTTGGGCT
* * * *
20812660 AAAAATGCCTTCAAGAATCCGTTCCAAGTTTTTTGCATAGATTATTGAAGGCGTTTTTGACA
1 AAAAATGCCTTCAAGAATCCGTTCTAA-TTTTTTGCATAGATTATTGAAGACGCTTTCGACA
* * *** *
20812722 AAAACTGCCTTCAATAATCCCAACTAAATTTTATTG-ATTGAATTATTGAAGACGCTTTCGACA
1 AAAAATGCCTTCAAGAATCCGTTCT-AATTTT-TTGCATAG-ATTATTGAAGACGCTTTCGACA
* *
20812785 AAAAATGACTTCAAGAATCCGTTTTATATTTTT
1 AAAAATGCCTTCAAGAATCCGTTCTA-ATTTTT
20812818 CTATGGATTA
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
62 28 0.37
63 47 0.63
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (61 bp):
AAAAATGCCTTCAAGAATCCGTTCTAATTTTTTGCATAGATTATTGAAGACGCTTTCGACA
Found at i:20813265 original size:241 final size:239
Alignment explanation
Indices: 20812814--20813270 Score: 655
Period size: 241 Copynumber: 1.9 Consensus size: 239
20812804 CGTTTTATAT
* * *
20812814 TTTTCTATGGATTATTAAAGGCATTTTTAACAAGAAAATGCCTTGAATAATCCCTAACAAAATGT
1 TTTTCTATAGATTATTAAAGGCATTTTTAACAAGAAAATACCTTGAATAATCCCCAACAAAATGT
* * * *
20812879 TATTAAAGGTATTTTTAACCAAAGTCGCCTTTAATAGTCCCACCTAAAAATTTATTGTATGGAAT
66 TATTAAAGGTATTTTTAACCAAAATCGCCTTCAATAATCCCACCTAAAAATTTATTGTATGAAAT
* * * * * *
20812944 ATCAAAGACGTTTTGGGCCAAAAACGCCTTTAAGAATCTGTTTTAAGTTTTTTGTATGAATTATT
131 ATCAAAGACATTTTGGCCCAAAAACGCCTTCAAGAATCCGTTCTAACTTTTTTGTATGAATTATT
*
20813009 GAAGGCTTTTTTGACAAAAATTGCTTTTAATAATCCATTCCATA
196 GAAGGCATTTTTGACAAAAATTGCTTTTAATAATCCATTCCATA
* *
20813053 TTTTCTTATAGATTATTAAGGGCATTTTTAGCAAGAAAATACCTTGAATAATCCCCAACAAAATG
1 TTTTC-TATAGATTATTAAAGGCATTTTTAACAAGAAAATACCTTGAATAATCCCCAACAAAATG
* * * * *
20813118 TTATTGAA-GTCATTTTTTTACCAAAATCGCCTTCAATAATCTCATCTAAAAATTTATTGTGTGA
65 TTATTAAAGGT-A-TTTTTAACCAAAATCGCCTTCAATAATCCCACCTAAAAATTTATTGTATGA
* * *
20813182 AATATTAAAGGCATTTTGGCCCAAAAACGCCTTCAAGAATCCGTTCTAACTTTTTTGTATGGATT
128 AATATCAAAGACATTTTGGCCCAAAAACGCCTTCAAGAATCCGTTCTAACTTTTTTGTATGAATT
*
20813247 ATTGAATGCATTTTTGACAAAAAT
193 ATTGAAGGCATTTTTGACAAAAAT
20813271 CACCCTCAAT
Statistics
Matches: 190, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
239 7 0.04
240 62 0.33
241 121 0.64
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (239 bp):
TTTTCTATAGATTATTAAAGGCATTTTTAACAAGAAAATACCTTGAATAATCCCCAACAAAATGT
TATTAAAGGTATTTTTAACCAAAATCGCCTTCAATAATCCCACCTAAAAATTTATTGTATGAAAT
ATCAAAGACATTTTGGCCCAAAAACGCCTTCAAGAATCCGTTCTAACTTTTTTGTATGAATTATT
GAAGGCATTTTTGACAAAAATTGCTTTTAATAATCCATTCCATA
Found at i:20813293 original size:126 final size:126
Alignment explanation
Indices: 20813118--20813348 Score: 317
Period size: 126 Copynumber: 1.8 Consensus size: 126
20813108 CAACAAAATG
* * * * *
20813118 TTATTGAAGTCATTTTTTTACCAAAATCGCCTTCAATAATCTCATCTAAAAATTTATTG-TGTGA
1 TTATTGAAGTCATTTTTTGACAAAAATCACCCTCAATAATCTCAACTAAAAATTTATTGAT-TGA
* *
20813182 AATATTAAAGGCA-TTTTGGCCCAAAAACGCCTTCAAGAATCCGTTCTAACTTTTTTGTATGGA
65 AATATTAAAGGCACTTTT-GACC-AAAACGCCTTAAAGAATCCGTTCTAACTTTTTTGTATGGA
*
20813245 TTATTGAA-TGCA-TTTTTGACAAAAATCACCCTCAATAATCTCAACTAAAAATTTATTGATTGG
1 TTATTGAAGT-CATTTTTTGACAAAAATCACCCTCAATAATCTCAACTAAAAATTTATTGATTGA
*
20813308 ATTATTAAAGGCACTTTTGACCAAAACGCCTTAAAGAATCC
65 AATATTAAAGGCACTTTTGACCAAAACGCCTTAAAGAATCC
20813349 ATTTCATATT
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
125 18 0.20
126 59 0.64
127 15 0.16
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (126 bp):
TTATTGAAGTCATTTTTTGACAAAAATCACCCTCAATAATCTCAACTAAAAATTTATTGATTGAA
ATATTAAAGGCACTTTTGACCAAAACGCCTTAAAGAATCCGTTCTAACTTTTTTGTATGGA
Done.