Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 105 of 235
Found at i:36183843 original size:235 final size:232
Alignment explanation
Indices: 36183377--36183908 Score: 630
Period size: 235 Copynumber: 2.3 Consensus size: 232
36183367 CTACTTTTTC
* * * * *
36183377 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
** * *
36183442 GTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
66 GTGTTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
* * *
36183507 AATTTTCGTTTTTTTAATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
131 AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGC
* *
36183572 CTCAAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
196 CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
*
36183609 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATTTA
* * *
36183673 TGT-TCATCAAAAATT-AGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGG
65 TGTGT--T-AAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGG---ACACGCTGAGG
* *** * *
36183735 TATTTTCAA-TTTC-TGGTTTTCAATTTCTGTTT-TTCAAAAATCGACTCATATTACGAGAGGTG
124 TATTTTCAATTTTCGT-GTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTG
*
36183797 AGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
188 AGTTGAGCCTC--AACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
* * * *
36183844 AAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAATT
36183908 T
63 T
36183909 CTGTTCTTCA
Statistics
Matches: 257, Mismatches: 29, Indels: 23
0.83 0.09 0.07
Matches are distributed among these distances:
231 1 0.00
232 58 0.23
233 68 0.26
234 24 0.09
235 86 0.33
236 4 0.02
237 16 0.06
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (232 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTAT
GTGTTAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
AATTTTCGTGTTTTCAATTTATGTTTCAAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGC
CTCAACACGCTGAGGTAATTTCAATTTCTGTTTGTCA
Found at i:36183871 original size:73 final size:74
Alignment explanation
Indices: 36183752--36183913 Score: 227
Period size: 73 Copynumber: 2.2 Consensus size: 74
36183742 AATTTCTGGT
* * *
36183752 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTACGAGAGGTGAGTTGAGCCTCGG-GACACG
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCCACACG
36183816 CTGAGGTAA
66 CTGAGGTAA
* ** *
36183825 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGC-CACAC
**
36183890 GCTGAGGTCT
65 GCTGAGGTAA
36183900 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
36183914 CTTCAATTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 53 0.68
75 25 0.32
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (74 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCCACACG
CTGAGGTAA
Found at i:36183920 original size:14 final size:14
Alignment explanation
Indices: 36183901--36183928 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36183891 CTGAGGTCTT
36183901 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
36183915 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
36183929 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:36184229 original size:77 final size:71
Alignment explanation
Indices: 36184039--36184233 Score: 221
Period size: 71 Copynumber: 2.7 Consensus size: 71
36184029 TAAGCCTTTT
* * *
36184039 AATTTTTGTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGACACGCTGAGG
1 AATTTCTGTTTTT-AAAAGCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGG
*
36184103 TAATTTC
65 TAATTTA
* **
36184110 GATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTAAAAGCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGG
*
36184175 TATTTTTA
65 TA-ATTTA
* **
36184183 AATTTCTGTTTTTCAAAAAAAGCCAATTCATATTGCGAGAAATGAGTTGAG
1 AATTTCTGTTTTT----AAAAGCCAACTCATATTGCGAGAGGTGAGTTGAG
36184234 TTCAGGATCA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
70 4 0.04
71 43 0.41
72 15 0.14
73 15 0.14
77 29 0.27
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (71 bp):
AATTTCTGTTTTTAAAAGCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGT
AATTTA
Found at i:36186212 original size:3 final size:3
Alignment explanation
Indices: 36186198--36186242 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
36186188 GAGTATATAC
36186198 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
36186243 GAAGAGATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:36186276 original size:15 final size:15
Alignment explanation
Indices: 36186254--36186287 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36186244 AAGAGATGGC
*
36186254 AATA-AATAATAGTA
1 AATATAATAATAGAA
36186268 AATATAATAATAGAA
1 AATATAATAATAGAA
36186283 AATAT
1 AATAT
36186288 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AATATAATAATAGAA
Found at i:36186779 original size:23 final size:23
Alignment explanation
Indices: 36186747--36186792 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
36186737 GGAGAAAAGA
36186747 AAAAAAAGG-AGAGAGGAAGAGAG
1 AAAAAAAGGAAG-GAGGAAGAGAG
* *
36186770 AAAAAGAGGAAGGAGGGAGAGAG
1 AAAAAAAGGAAGGAGGAAGAGAG
36186793 GAGGGACTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (23 bp):
AAAAAAAGGAAGGAGGAAGAGAG
Found at i:36189379 original size:17 final size:16
Alignment explanation
Indices: 36189337--36189375 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
36189327 ATATATAACT
36189337 GTAATATTAA-TTAAA
1 GTAATATTAATTTAAA
36189352 -TAATACTTAATTTAAA
1 GTAATA-TTAATTTAAA
36189368 GTAATATT
1 GTAATATT
36189376 TAATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 4 0.19
16 7 0.33
17 5 0.24
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (16 bp):
GTAATATTAATTTAAA
Found at i:36189956 original size:19 final size:19
Alignment explanation
Indices: 36189908--36189962 Score: 103
Period size: 18 Copynumber: 2.9 Consensus size: 19
36189898 ATAATCTTCA
36189908 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36189927 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36189945 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
36189963 AGATATGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:36190277 original size:18 final size:17
Alignment explanation
Indices: 36190254--36190287 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36190244 TTTCCCAGAT
*
36190254 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
36190272 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
36190288 GTATCATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:36194338 original size:30 final size:30
Alignment explanation
Indices: 36194297--36194357 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
36194287 CCTAGAGGAA
*
36194297 GGGAAATAGGTGAAAATTGGCACGCATATT
1 GGGAAAGAGGTGAAAATTGGCACGCATATT
36194327 GGGAAAGAGGTGAAAATTGGCACGCATATT
1 GGGAAAGAGGTGAAAATTGGCACGCATATT
36194357 G
1 G
36194358 CTGATGATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (30 bp):
GGGAAAGAGGTGAAAATTGGCACGCATATT
Found at i:36198948 original size:78 final size:78
Alignment explanation
Indices: 36198841--36199056 Score: 281
Period size: 78 Copynumber: 2.8 Consensus size: 78
36198831 GAAGAAACAG
* ** * * * **
36198841 ATTTGACATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACTTTCATTGATT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACATTCATTGAAG
36198906 CAGATCCAAGATA
66 CAGATCCAAGATA
* * *
36198919 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTGAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACATTCATTGAA
* *
36198983 GCAGATCTAAGATG
65 GCAGATCCAAGATA
* *
36198997 ATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATGGCAGATCTGACATTCAT
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACATTCAT
36199057 GTGTTTACAT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.01
78 117 0.98
79 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (78 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACATTCATTGAAG
CAGATCCAAGATA
Found at i:36199149 original size:45 final size:45
Alignment explanation
Indices: 36198996--36199314 Score: 270
Period size: 45 Copynumber: 7.1 Consensus size: 45
36198986 GATCTAAGAT
* **
36198996 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATGGCA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAG--ATAACA
* * * * * * * * *
36199043 GATCTGACAT-TCATGTGTT-TACATCGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTATTAGACA-GGGAGCAAATCGAAGATAACA
* * *
36199088 GATTTGGCATCTCTGTATTAGTCAGTGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
*
36199133 GATTTGGCATCTCTGTATTAGAC-GGGAAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGG-AGCAAATCGAAGATAACA
* * *
36199178 GATTTGGCATCTCTGTATTAGA-TGTGGAGCAAATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACAG-GGAGCAAATCGAAGATAACA
* * * * * * *
36199222 AATTTGACGTCTCTATATTAGACGGGGTGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
* * * * *
36199267 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
36199312 GAT
1 GAT
36199315 ATCACCTTTC
Statistics
Matches: 223, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
44 35 0.16
45 152 0.68
46 11 0.05
47 25 0.11
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
Found at i:36199269 original size:89 final size:90
Alignment explanation
Indices: 36199068--36199308 Score: 281
Period size: 89 Copynumber: 2.7 Consensus size: 90
36199058 TGTTTACATC
* * *
36199068 GAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAG-TCAGT-GAGCAAATCGGAGATAA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGAT--GTGGAGCAAATCGAAGATAA
* * *
36199131 CAGATTTGGCATCTCTGTATTAGACGG
64 CAAATTTGACATCTCTATATTAGACGG
* * * *
36199158 GAAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATTGAAGA-AGCA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATAACA
*
36199222 AATTTGACGTCTCTATATTAGACGG
66 AATTTGACATCTCTATATTAGACGG
** * * * * *
36199247 GGTGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATA
36199309 GCAGATATCA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 76 0.60
90 50 0.39
91 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
GAAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGATGTGGAGCAAATCGAAGATAACA
AATTTGACATCTCTATATTAGACGG
Found at i:36199677 original size:17 final size:19
Alignment explanation
Indices: 36199655--36199732 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
36199645 ATGGAAATAT
36199655 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
36199672 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
36199691 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
36199708 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
36199726 AATCTTA
1 AATCTTA
36199733 GAAGATATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 25 0.45
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:36199687 original size:19 final size:19
Alignment explanation
Indices: 36199663--36199734 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
36199653 ATAATCTTCA
36199663 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36199682 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36199701 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
36199718 ATGAT-TGCAATCTTAGA
1 ATGATATGCAATCTTAGA
36199735 AGATATGATT
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.31
18 10 0.20
19 25 0.49
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:36199757 original size:23 final size:21
Alignment explanation
Indices: 36199663--36199744 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 21
36199653 ATAATCTTCA
36199663 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
36199682 ATGATATGCAATCTT---AGAT
1 ATGAT-TGCAATCTTAGAAGAT
*
36199701 ATGA-TACAATCTTAG---AT
1 ATGATTGCAATCTTAGAAGAT
36199718 ATGATTGCAATCTTAGAAGAT
1 ATGATTGCAATCTTAGAAGAT
36199739 ATGATT
1 ATGATT
36199745 TTGTAATCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
17 14 0.25
18 10 0.18
19 23 0.42
21 8 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (21 bp):
ATGATTGCAATCTTAGAAGAT
Found at i:36203128 original size:26 final size:26
Alignment explanation
Indices: 36203099--36203203 Score: 158
Period size: 26 Copynumber: 4.0 Consensus size: 26
36203089 TGATACAAAT
*
36203099 TGATAATTGG-TTACGTAAATGTTCCA
1 TGATAA-TGGATTAGGTAAATGTTCCA
*
36203125 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
36203151 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
36203177 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
36203203 T
1 T
36203204 AATGGGCATT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
25 3 0.04
26 70 0.96
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:36203156 original size:52 final size:52
Alignment explanation
Indices: 36203099--36203203 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
36203089 TGATACAAAT
*
36203099 TGATAATTGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * *
36203151 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
36203203 T
1 T
36203204 AATGGGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTACGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:36207511 original size:126 final size:126
Alignment explanation
Indices: 36207286--36207918 Score: 1248
Period size: 126 Copynumber: 5.0 Consensus size: 126
36207276 TTTAGGTACC
36207286 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
36207351 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
36207412 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
36207477 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
36207538 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
36207603 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
36207664 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
36207729 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
*
36207790 TTAGAGATACCTAATCTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
1 TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
*
36207855 AGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
66 GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
36207916 TTA
1 TTA
36207919 TGCAACATGC
Statistics
Matches: 505, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 505 1.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (126 bp):
TTAGAGATACCTAATTTAGGTATTTGGTATCCTAGAGACTCATCCTTTAGCTTACATGCATTCTT
GGATGCAGATTTTGAAGGAAGCAAATTAGATAGGAAAAGCACCTCCAGTACTTATCAATTT
Found at i:36212369 original size:19 final size:21
Alignment explanation
Indices: 36212330--36212369 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
36212320 AAGACTTTCA
*
36212330 AATATCTTATAAAATATTTTG
1 AATATCTTAGAAAATATTTTG
36212351 AATA-CTTAGAAAA-ATTTTG
1 AATATCTTAGAAAATATTTTG
36212370 GACAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
AATATCTTAGAAAATATTTTG
Found at i:36213722 original size:34 final size:34
Alignment explanation
Indices: 36213684--36213751 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
36213674 AGCCTTATTC
*
36213684 CTGCTGAGTAGGCTTAT-CTTATATTGTTTGTAAA
1 CTGCTGAGTAGGCTTATGCGT-TATTGTTTGTAAA
* *
36213718 CTGCTGAGTATGCTTATGGGTTATTGTTTGTAAA
1 CTGCTGAGTAGGCTTATGCGTTATTGTTTGTAAA
36213752 TTCATAACAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (34 bp):
CTGCTGAGTAGGCTTATGCGTTATTGTTTGTAAA
Found at i:36215908 original size:33 final size:32
Alignment explanation
Indices: 36215849--36215911 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
36215839 CACACGCCCA
*
36215849 AAAATGGCCTAGCCCAGTAGCCCACACAACCC
1 AAAATGGCCTAGCCCAGTAGCACACACAACCC
** *
36215881 AAAATGGCCTAGCTCTTGTGGCACACACAAC
1 AAAATGGCCTAGC-CCAGTAGCACACACAAC
36215912 ATATCACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.33, C:0.35, G:0.17, T:0.14
Consensus pattern (32 bp):
AAAATGGCCTAGCCCAGTAGCACACACAACCC
Found at i:36221512 original size:19 final size:19
Alignment explanation
Indices: 36221476--36221512 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
36221466 TAATTGGGTT
* *
36221476 TTAATTAGGTGAATTTAGC
1 TTAATTAGGAGAAATTAGC
36221495 TTAATTAGGAGAAATTAG
1 TTAATTAGGAGAAATTAG
36221513 AAAAACGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (19 bp):
TTAATTAGGAGAAATTAGC
Found at i:36223336 original size:21 final size:21
Alignment explanation
Indices: 36223310--36223374 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
36223300 AGCTTTGCCA
36223310 ATTAGGCACTATATGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* **
36223331 ATTAGGCACCACGTGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* * *
36223352 -TTCAGGTACTTTATGTATCGT
1 ATT-AGGCACTATATGTGTCGT
36223373 AT
1 AT
36223375 ACTGCTTCTA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.06
21 30 0.91
22 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (21 bp):
ATTAGGCACTATATGTGTCGT
Found at i:36228144 original size:19 final size:20
Alignment explanation
Indices: 36228115--36228155 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
36228105 TTTAAATAAG
*
36228115 AATATATTTAATAAATTATT
1 AATATATTTAATAAATAATT
*
36228135 AATATA-TTAATGAATAATT
1 AATATATTTAATAAATAATT
36228154 AA
1 AA
36228156 AAAGAATGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATATTTAATAAATAATT
Found at i:36238862 original size:25 final size:27
Alignment explanation
Indices: 36238825--36238878 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
36238815 TCAAACATGC
36238825 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
36238851 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
36238877 AT
1 AT
36238879 AACAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:36240404 original size:26 final size:26
Alignment explanation
Indices: 36240365--36240446 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
36240355 TGAAATTCCA
*
36240365 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
36240391 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
36240417 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36240443 ATCA
1 ATCA
36240447 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36246469 original size:50 final size:50
Alignment explanation
Indices: 36246414--36246514 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
36246404 TAAGTGTTAA
36246414 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
36246464 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
1 TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
36246514 T
1 T
36246515 GTTTTTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.64
Consensus pattern (50 bp):
TTAACCCCTTTCTATTTTAATTCTTGTGTTTGTTCTTTTATTTATTTGTT
Found at i:36246503 original size:21 final size:19
Alignment explanation
Indices: 36246478--36246527 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
36246468 CCCCTTTCTA
36246478 TTTTAATTCTTGTGTTTGTT
1 TTTTAATTCTT-TGTTTGTT
* *
36246498 CTTTTATTTATTTGTTTGTT
1 -TTTTAATTCTTTGTTTGTT
36246518 TTTTATATTC
1 TTTTA-ATTC
36246528 ACTATTCTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.12, C:0.06, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTTAATTCTTTGTTTGTT
Found at i:36246766 original size:3 final size:3
Alignment explanation
Indices: 36246742--36246904 Score: 88
Period size: 3 Copynumber: 53.7 Consensus size: 3
36246732 TCTATCGTCC
* * *
36246742 TTA TTA TAA TTA GTA TTA -TA TTA TTA TTA TTA CTT- TTA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
36246785 TT- TAA TGTA TTA TT- TTC TTT TCTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * ** *
36246830 TTA TTA TTA TTA TCA TCTA CATA ACA TTA TTA TTAA TGTA TTA TTT TTA
1 TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TT-A T-TA TTA TTA TTA
*
36246879 TTA TCT- TCTA TT- TTA TCA TTA TTA TT
1 TTA T-TA T-TA TTA TTA TTA TTA TTA TT
36246905 CTTACTATCT
Statistics
Matches: 125, Mismatches: 20, Indels: 30
0.71 0.11 0.17
Matches are distributed among these distances:
2 10 0.08
3 99 0.79
4 15 0.12
5 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:36249145 original size:14 final size:14
Alignment explanation
Indices: 36249122--36249151 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36249112 ATAAACCCCG
36249122 AATCCAAAATCTTA
1 AATCCAAAATCTTA
*
36249136 AATCCCAAATCTTA
1 AATCCAAAATCTTA
36249150 AA
1 AA
36249152 CCCTAAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCCAAAATCTTA
Found at i:36249293 original size:21 final size:21
Alignment explanation
Indices: 36249269--36249326 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
36249259 TAGGGTTCAA
*
36249269 GTTTG-GGATTCGAGGTTTAGG
1 GTTTGAGG-TTCGAGGTTTAAG
*
36249290 GTTTGAGGTTTGAGGTTTAAG
1 GTTTGAGGTTCGAGGTTTAAG
*
36249311 GTTT-AAGTTCG-GGTTT
1 GTTTGAGGTTCGAGGTTT
36249327 GAAGTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.16
20 5 0.16
21 20 0.62
22 2 0.06
ACGTcount: A:0.16, C:0.03, G:0.38, T:0.43
Consensus pattern (21 bp):
GTTTGAGGTTCGAGGTTTAAG
Found at i:36249951 original size:90 final size:91
Alignment explanation
Indices: 36249772--36250011 Score: 338
Period size: 90 Copynumber: 2.6 Consensus size: 91
36249762 GTACTTTTAT
* * * *
36249772 AAAATGTCCAATGTGATACTTGAACTATCAATTTATGTATTATTTGGTACTTGTACTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
* *
36249837 ATGTCTAATACGGTACCTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
36249863 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATT-TTTGGTACTTGTAGTTTCATAAA
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
** *
36249927 ATGTCCAATGTAGTACTTATACTTTG
66 ATGTCCAATACAGTACCTATACTTTG
* * * * *
36249953 AAAATGTTCAATGTGGCACATGAACTATTAATCTGTGTATTATTATGGTACTTGGAGTT
1 AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATT-TGGTACTTGTAGTT
36250012 AACACACATA
Statistics
Matches: 133, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
90 80 0.60
91 40 0.30
92 13 0.10
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (91 bp):
AAAATGTCCAATGTGGTACATGAACTATCAATTTGTGTATTATTTGGTACTTGTAGTTTCATAAA
ATGTCCAATACAGTACCTATACTTTG
Found at i:36255896 original size:2 final size:2
Alignment explanation
Indices: 36255891--36255915 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36255881 CTCTCTAAAT
36255891 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 T
36255916 TATTCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36255958 original size:21 final size:22
Alignment explanation
Indices: 36255915--36255966 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
36255905 TATATATATA
*
36255915 TTATTCTACTTTGTTTTACTTAT
1 TTATT-TATTTTGTTTTACTTAT
*
36255938 TTATTTATTTTG-TTTAGTTAT
1 TTATTTATTTTGTTTTACTTAT
36255959 TTATTTAT
1 TTATTTAT
36255967 AATTAATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 16 0.59
22 6 0.22
23 5 0.19
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (22 bp):
TTATTTATTTTGTTTTACTTAT
Found at i:36258440 original size:20 final size:20
Alignment explanation
Indices: 36258401--36258454 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
36258391 ATTTTTTTAT
*
36258401 TAAATTTAATTATAAAATATG
1 TAAATTTAA-TATAAAATATA
36258422 TAAATATTAATAT-AAATATA
1 TAAAT-TTAATATAAAATATA
*
36258442 TAATTTTTAATAT
1 TAA-ATTTAATAT
36258455 TTTATTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 16 0.55
21 9 0.31
22 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TAAATTTAATATAAAATATA
Found at i:36258442 original size:22 final size:21
Alignment explanation
Indices: 36258401--36258442 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36258391 ATTTTTTTAT
36258401 TAAATTTAATTATAAAATATG
1 TAAATTTAATTATAAAATATG
36258422 TAAATATTAA-TATAAATATAT
1 TAAAT-TTAATTATAAA-ATAT
36258443 AATTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATG
Found at i:36261123 original size:14 final size:14
Alignment explanation
Indices: 36261104--36261132 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36261094 AGGTCAACAG
36261104 AATGCTTGAAATTT
1 AATGCTTGAAATTT
36261118 AATGCTTGAAATTT
1 AATGCTTGAAATTT
36261132 A
1 A
36261133 TATTTCTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
AATGCTTGAAATTT
Found at i:36262389 original size:26 final size:26
Alignment explanation
Indices: 36262360--36262413 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
36262350 TCACCAACAT
36262360 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
36262386 TGATCAAAACTCAAAAACAACTTCCA
1 TGATCAAAACTCAAAAACAACTTCCA
36262412 TG
1 TG
36262414 CCTATAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (26 bp):
TGATCAAAACTCAAAAACAACTTCCA
Found at i:36267859 original size:22 final size:21
Alignment explanation
Indices: 36267837--36267876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36267827 CTAAATTATA
*
36267837 AATATTTTTAATATTTAAAAT
1 AATATTTTTAATAATTAAAAT
* *
36267858 AATTTTTTTTATAATTAAA
1 AATATTTTTAATAATTAAA
36267877 TGATTATGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATTTTTAATAATTAAAAT
Found at i:36268080 original size:31 final size:31
Alignment explanation
Indices: 36268045--36268103 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
36268035 TATTTGAATT
*
36268045 AATTAAGTTATTCGGATCAACTCGAATAAAA
1 AATTAAGTTATTCAGATCAACTCGAATAAAA
* * *
36268076 AATTAAGTTTTTCAGTTTAACTCGAATA
1 AATTAAGTTATTCAGATCAACTCGAATA
36268104 TGAATTACAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.36
Consensus pattern (31 bp):
AATTAAGTTATTCAGATCAACTCGAATAAAA
Found at i:36271095 original size:19 final size:19
Alignment explanation
Indices: 36271071--36271108 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36271061 GAGATTTTGA
*
36271071 TAAGAAGTACTTTGATGAC
1 TAAGAAGTACTTCGATGAC
36271090 TAAGAAGTACTTCGATGAC
1 TAAGAAGTACTTCGATGAC
36271109 ATTTCCCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (19 bp):
TAAGAAGTACTTCGATGAC
Found at i:36276627 original size:20 final size:21
Alignment explanation
Indices: 36276602--36276642 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
36276592 ATGTGTTATG
36276602 AAAA-TTTTGATGCCATGGAA
1 AAAATTTTTGATGCCATGGAA
36276622 AAAATTTTTGATGCCATGGAA
1 AAAATTTTTGATGCCATGGAA
36276643 TGGCTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (21 bp):
AAAATTTTTGATGCCATGGAA
Found at i:36281054 original size:46 final size:45
Alignment explanation
Indices: 36280987--36281106 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 45
36280977 TGTGTGCTAT
36280987 TGTAAGACATGTCT-AGGACATGCATCGACCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTGA-GACATGCATCGACCTACGAGATGT--GCCAG
* *
36281033 TGTAAGACATGTCTGAGACATGCATCG--TTACGAGATGTGTCAG
1 TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
*
36281076 TGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTAAGA-CATGTCTGAGACAT-GCATCGAC
36281107 ATAGATAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
43 11 0.17
44 14 0.22
45 14 0.22
46 25 0.38
47 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGAGACATGCATCGACCTACGAGATGTGCCAG
Found at i:36282425 original size:20 final size:21
Alignment explanation
Indices: 36282386--36282425 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
36282376 GTTATAATGA
*
36282386 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
36282407 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
36282426 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:36283120 original size:21 final size:22
Alignment explanation
Indices: 36283065--36283138 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
36283055 ATATATAAAT
* *
36283065 ATATTAT-TTAATTAGACTATA
1 ATATTATATTAATTACATTATA
* * *
36283086 TTATTAT-TTTATTACATTGTA
1 ATATTATATTAATTACATTATA
*
36283107 AT-TTATATTAATTATATTATA
1 ATATTATATTAATTACATTATA
36283128 ATATTATATTA
1 ATATTATATTA
36283139 TAAAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 4 0.10
21 30 0.71
22 8 0.19
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
ATATTATATTAATTACATTATA
Found at i:36283135 original size:13 final size:13
Alignment explanation
Indices: 36283117--36283141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36283107 ATTTATATTA
36283117 ATTATATTATAAT
1 ATTATATTATAAT
36283130 ATTATATTATAA
1 ATTATATTATAA
36283142 AATAAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATTATAAT
Found at i:36284157 original size:20 final size:18
Alignment explanation
Indices: 36284132--36284170 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36284122 TTGTGACTGA
36284132 TATTAAATTGAATGAAAATG
1 TATTAAATTG--TGAAAATG
*
36284152 TATTAAGTTGTGAAAATG
1 TATTAAATTGTGAAAATG
36284170 T
1 T
36284171 GTGAATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TATTAAATTGTGAAAATG
Found at i:36284181 original size:17 final size:18
Alignment explanation
Indices: 36284144--36284182 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
36284134 TTAAATTGAA
*
36284144 TGAAAATGTATTAAGTTG
1 TGAAAATGTATGAAGTTG
*
36284162 TGAAAATGTGTGAA-TTG
1 TGAAAATGTATGAAGTTG
36284179 TGAA
1 TGAA
36284183 TTGAATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (18 bp):
TGAAAATGTATGAAGTTG
Found at i:36285512 original size:31 final size:30
Alignment explanation
Indices: 36285468--36285550 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
36285458 TCAGTCTCGA
36285468 CATAT-ACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
36285498 CATATCACTGGGCCGACGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
36285529 CATATCACTGGCTGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
36285551 ACTGTAAGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 16 0.33
31 32 0.67
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:36285790 original size:24 final size:25
Alignment explanation
Indices: 36285763--36285839 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
36285753 GCCTAGCCTC
*
36285763 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
36285787 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * *
36285812 TTTCAGTAAACTGGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
36285837 TTT
1 TTT
36285840 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:36286679 original size:27 final size:27
Alignment explanation
Indices: 36286649--36286713 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
36286639 GGGCATATTC
36286649 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
36286676 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
36286703 GTCTTTTTACC
1 GTCATTTTACC
36286714 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:36286797 original size:27 final size:27
Alignment explanation
Indices: 36286771--36286900 Score: 102
Period size: 27 Copynumber: 4.7 Consensus size: 27
36286761 ATCTACAAAC
*
36286771 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
**
36286798 CAATAGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
36286827 CAAGGGTGTTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
36286854 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
36286881 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
36286901 CACAAACTAG
Statistics
Matches: 81, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.01
27 56 0.69
28 7 0.09
29 16 0.20
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:36286872 original size:56 final size:54
Alignment explanation
Indices: 36286764--36286900 Score: 141
Period size: 56 Copynumber: 2.5 Consensus size: 54
36286754 TTGGTAAATC
* *
36286764 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATAGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCTATAA-TTT
* * * * * * *
36286819 TAGAAAGTCAAGGGTGTTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCT-ATAATTT
* *
36286874 TACAAATTAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
36286901 CACAAACTAG
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 18 0.27
55 14 0.21
56 35 0.52
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGAGTATTTCTATAATTT
Found at i:36286905 original size:27 final size:27
Alignment explanation
Indices: 36286857--36286953 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
36286847 TGTAAATCAG
*
36286857 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
36286884 GGGTATTTCGGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
36286910 GTGGTACTTTGGTAATTTTACAAACTAG
1 G-GGTATTTTGGTAATTTTACAAACTAA
36286938 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
36286954 CTACCCTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:36287006 original size:26 final size:27
Alignment explanation
Indices: 36286975--36287025 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
36286965 GGGTATTTCA
36286975 GTAATTTCAT-AATCGAGGATAAAACG
1 GTAATTTCATAAATCGAGGATAAAACG
** *
36287001 GTAATTTTGTAAATCGAGGGTAAAA
1 GTAATTTCATAAATCGAGGATAAAA
36287026 TAATAATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTTCATAAATCGAGGATAAAACG
Found at i:36287018 original size:27 final size:27
Alignment explanation
Indices: 36286985--36287072 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
36286975 GTAATTTCAT
* * *
36286985 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
36287012 AATCGAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
36287039 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
36287066 AATCGAG
1 AATCGAG
36287073 CGTACTTTGG
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:36290801 original size:12 final size:12
Alignment explanation
Indices: 36290784--36290810 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36290774 TATGCTTCTT
36290784 AGTCAACAAGAA
1 AGTCAACAAGAA
36290796 AGTCAACAAGAA
1 AGTCAACAAGAA
36290808 AGT
1 AGT
36290811 TTAGTTATAC
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:0.56, C:0.15, G:0.19, T:0.11
Consensus pattern (12 bp):
AGTCAACAAGAA
Found at i:36290863 original size:17 final size:18
Alignment explanation
Indices: 36290843--36290876 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36290833 TTGTTTAGAT
36290843 TAATT-AGAGTTTTATTA
1 TAATTGAGAGTTTTATTA
36290860 TAATTGAGAGTTTTATT
1 TAATTGAGAGTTTTATT
36290877 TGGATGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
TAATTGAGAGTTTTATTA
Found at i:36295947 original size:13 final size:13
Alignment explanation
Indices: 36295929--36295953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36295919 TTTTATTATT
36295929 TTTAAAAAATAAA
1 TTTAAAAAATAAA
36295942 TTTAAAAAATAA
1 TTTAAAAAATAA
36295954 TATATCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:36308906 original size:23 final size:23
Alignment explanation
Indices: 36308854--36308929 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
36308844 GCTGAAAATG
** *
36308854 GTAAGCTCAATTGAGCT-GAACA
1 GTAAGCTCTTTTGAGCTGGATCA
*
36308876 GTAAGCTCTTTTGAGCTGGATCG
1 GTAAGCTCTTTTGAGCTGGATCA
*
36308899 GTAAGCTCTTTTGAGCTGAATCA
1 GTAAGCTCTTTTGAGCTGGATCA
36308922 GTAAGCTC
1 GTAAGCTC
36308930 CAATGAGCTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.32
23 32 0.68
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTTTTGAGCTGGATCA
Found at i:36308936 original size:23 final size:23
Alignment explanation
Indices: 36308854--36308952 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
36308844 GCTGAAAATG
36308854 GTAAGCT-CAATTGAGCTGAA-CA
1 GTAAGCTCCAA-TGAGCTGAATCA
*** * *
36308876 GTAAGCTCTTTTGAGCTGGATCG
1 GTAAGCTCCAATGAGCTGAATCA
***
36308899 GTAAGCTCTTTTGAGCTGAATCA
1 GTAAGCTCCAATGAGCTGAATCA
36308922 GTAAGCTCCAATGAGCTGAAAT-A
1 GTAAGCTCCAATGAGCTG-AATCA
36308945 GTAAGCTC
1 GTAAGCTC
36308953 TTACGAGCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
22 15 0.23
23 46 0.72
24 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (23 bp):
GTAAGCTCCAATGAGCTGAATCA
Found at i:36308953 original size:46 final size:45
Alignment explanation
Indices: 36308826--36308954 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 45
36308816 TGAGCTGATA
* * **
36308826 AACAATAAGCTCTACTGAGCTGAAAATGGTAAGCTCAATTGAGCTG
1 AACAGTAAGCTCTAATGAGCTG-AAATGGTAAGCTCTTTTGAGCTG
** *
36308872 AACAGTAAGCTCTTTTGAGCTG-GATCGGTAAGCTCTTTTGAGCTG
1 AACAGTAAGCTCTAATGAGCTGAAAT-GGTAAGCTCTTTTGAGCTG
* *
36308917 AATCAGTAAGCTCCAATGAGCTGAAATAGTAAGCTCTT
1 AA-CAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTT
36308955 ACGAGCTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
45 19 0.28
46 46 0.67
47 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
AACAGTAAGCTCTAATGAGCTGAAATGGTAAGCTCTTTTGAGCTG
Found at i:36308961 original size:46 final size:45
Alignment explanation
Indices: 36308805--36308961 Score: 131
Period size: 46 Copynumber: 3.4 Consensus size: 45
36308795 TCATGGTCGA
* *
36308805 TAAGCTCTTACTGAGCTGATAAACAATAAGCTCTACTGAGCTGAAAATGG
1 TAAGCTCTTAC-GAGCTG---AACAGTAAGCTCTAATGAGCTG-AAATGG
** *
36308855 TAAGCTCAATT--GAGCTGAACAGTAAGCTCTTTTGAGCTG-GATCGG
1 TAAGCTC--TTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAAT-GG
** * *
36308900 TAAGCTCTTTTGAGCTGAATCAGTAAGCTCCAATGAGCTGAAATAG
1 TAAGCTCTTACGAGCTGAA-CAGTAAGCTCTAATGAGCTGAAATGG
36308946 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
36308962 ATGGTGAGTC
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 17 0.19
46 51 0.57
47 2 0.02
49 6 0.07
50 7 0.08
52 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TAAGCTCTTACGAGCTGAACAGTAAGCTCTAATGAGCTGAAATGG
Found at i:36310246 original size:27 final size:27
Alignment explanation
Indices: 36310216--36310271 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
36310206 ACAACTACAA
36310216 GTTAGCCTATAAATTAGGCACAAATCT
1 GTTAGCCTATAAATTAGGCACAAATCT
*
36310243 GTTAGCTTATAAATTAGGCACAAATCT
1 GTTAGCCTATAAATTAGGCACAAATCT
36310270 GT
1 GT
36310272 GAATCCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (27 bp):
GTTAGCCTATAAATTAGGCACAAATCT
Found at i:36312822 original size:25 final size:25
Alignment explanation
Indices: 36312754--36312839 Score: 100
Period size: 25 Copynumber: 3.4 Consensus size: 25
36312744 ATACATGTAT
* *
36312754 GCTCATACGAGCTATGAATCGGTAA
1 GCTCATACGAGCTATAAATCGGGAA
* * **
36312779 GCTCATATGAGTTGCAAATCGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
36312804 GCTCATACGAGCTATAAATTGGGAA
1 GCTCATACGAGCTATAAATCGGGAA
*
36312829 GCTTATACGAG
1 GCTCATACGAG
36312840 TTGTGGTGTG
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCGGGAA
Found at i:36316492 original size:16 final size:17
Alignment explanation
Indices: 36316458--36316498 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
36316448 AAAACTTGAC
*
36316458 ATAAATAATCTATATAA
1 ATAAATAATCTATAAAA
36316475 ATAAATAAT-TATAAAA
1 ATAAATAATCTATAAAA
*
36316491 ATATATAA
1 ATAAATAA
36316499 ATTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAAATAATCTATAAAA
Found at i:36316898 original size:1 final size:1
Alignment explanation
Indices: 36316894--36316920 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
36316884 AAGAACTTAC
36316894 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
36316921 CCCACAGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:36316961 original size:38 final size:38
Alignment explanation
Indices: 36316903--36316987 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
36316893 CAAAAAAAAA
*
36316903 AAAAAAAAAAAAAAAAAACCCACAGCTCTTCTATGTAT
1 AAAACAAAAAAAAAAAAACCCACAGCTCTTCTATGTAT
*
36316941 AAAACAAAAAAAAAACAACCCACAGCTCTTCTATGTAT
1 AAAACAAAAAAAAAAAAACCCACAGCTCTTCTATGTAT
36316979 AAAACAAAA
1 AAAACAAAA
36316988 GCCGGAAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.59, C:0.20, G:0.05, T:0.16
Consensus pattern (38 bp):
AAAACAAAAAAAAAAAAACCCACAGCTCTTCTATGTAT
Found at i:36323659 original size:19 final size:19
Alignment explanation
Indices: 36323605--36323662 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
36323595 AAATTAGATA
36323605 AATAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
* *
36323624 AAT-ATTAAATTAGATAAAT
1 AATAATT-ATTTATATAAAT
**
36323643 TTTAATTATTTATATAAAT
1 AATAATTATTTATATAAAT
36323662 A
1 A
36323663 CTTTTTTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AATAATTATTTATATAAAT
Found at i:36324627 original size:26 final size:26
Alignment explanation
Indices: 36324597--36324652 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
36324587 TGTTCTATTT
*
36324597 ATTATTTATTTCATAA-AATTTTTATA
1 ATTATTTA-TTAATAATAATTTTTATA
*
36324623 ATTATTTATTAATAATGATTTTTATA
1 ATTATTTATTAATAATAATTTTTATA
36324649 ATTA
1 ATTA
36324653 ATTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTATTTATTAATAATAATTTTTATA
Found at i:36324657 original size:12 final size:12
Alignment explanation
Indices: 36324614--36324661 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
36324604 ATTTCATAAA
36324614 ATTTTTATAATT
1 ATTTTTATAATT
*
36324626 ATTTATTAATAATG
1 ATTT-TT-ATAATT
36324640 ATTTTTATAATT
1 ATTTTTATAATT
*
36324652 AATTTTATAA
1 ATTTTTATAA
36324662 AATTGAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 18 0.58
13 4 0.13
14 9 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTTTTATAATT
Found at i:36324718 original size:18 final size:17
Alignment explanation
Indices: 36324674--36324720 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
36324664 TTGAAATTAG
*
36324674 ATAAATTTAA-TATTTT
1 ATAAATTAAATTATTTT
36324690 ATAAATTTTAAATTATTTAT
1 ATAAA--TTAAATTATTT-T
36324710 ATAAATTAAAT
1 ATAAATTAAAT
36324721 ACAATGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
18 10 0.38
19 5 0.19
20 6 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATAAATTAAATTATTTT
Found at i:36328914 original size:38 final size:38
Alignment explanation
Indices: 36328863--36328939 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
36328853 CGTGATTTAA
36328863 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
36328901 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
1 TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
36328939 T
1 T
36328940 GTGGTTTGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (38 bp):
TCCCAATATTTTAGACTGGTCTGCGTGAGAGGAAGCTT
Found at i:36329628 original size:12 final size:12
Alignment explanation
Indices: 36329597--36329634 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
36329587 ATTTACTTTT
36329597 ATTTTTAA-AAA
1 ATTTTTAATAAA
*
36329608 ATCTATTAATAAA
1 AT-TTTTAATAAA
36329621 ATTTTTAATAAA
1 ATTTTTAATAAA
36329633 AT
1 AT
36329635 ACAATTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 16 0.70
13 5 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:36329648 original size:25 final size:24
Alignment explanation
Indices: 36329597--36329646 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
36329587 ATTTACTTTT
*
36329597 ATTTTTAAAAAATCTATTAATAAA
1 ATTTTTAAAAAATCAATTAATAAA
*
36329621 ATTTTTAATAAAATACAATTCATAAA
1 ATTTTTAA-AAAAT-CAATTAATAAA
36329647 TTAAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 5 0.23
26 9 0.41
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTTAAAAAATCAATTAATAAA
Found at i:36329801 original size:28 final size:30
Alignment explanation
Indices: 36329770--36329835 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
36329760 CAAAATATAT
*
36329770 AAAAAT-TAAT-GTAGTAAATTTTGATAAA
1 AAAAATATAATAGTAGTAAATTTTGAAAAA
**
36329798 AAAAATACTCCTAGTAGTAAATTTTGAAAAA
1 AAAAATA-TAATAGTAGTAAATTTTGAAAAA
36329829 AAAAATA
1 AAAAATA
36329836 CTCCTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 6 0.19
30 2 0.06
31 24 0.75
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (30 bp):
AAAAATATAATAGTAGTAAATTTTGAAAAA
Found at i:36329818 original size:31 final size:31
Alignment explanation
Indices: 36329780--36329841 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
36329770 AAAAATTAAT
*
36329780 GTAGTAAATTTTGATAAAAAAAATACTCCTA
1 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
36329811 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
1 GTAGTAAATTTTGAAAAAAAAAATACTCCTA
36329842 CTATGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (31 bp):
GTAGTAAATTTTGAAAAAAAAAATACTCCTA
Found at i:36335708 original size:45 final size:45
Alignment explanation
Indices: 36335638--36335750 Score: 165
Period size: 45 Copynumber: 2.5 Consensus size: 45
36335628 TAATCAGTAA
* *
36335638 CGGTAGCAGTAGCAGTAACAGTATTCAACACACAAAGTG-CTGAAT
1 CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-GAAT
* * *
36335683 CTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAAT
1 CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAAT
36335728 CGGTAACAGTAACAGTAACAGTA
1 CGGTAACAGTAACAGTAACAGTA
36335751 GTCGGCACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 59 0.98
46 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (45 bp):
CGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCGAAT
Found at i:36336915 original size:26 final size:26
Alignment explanation
Indices: 36336886--36336957 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
36336876 TTAATTTATT
36336886 TTTAATAATAAT-AATAATAATCATAA
1 TTTAATAATAATAAATAATAAT-ATAA
* *
36336912 TTTAATAAT-ATAAATTATAATTTAA
1 TTTAATAATAATAAATAATAATATAA
**
36336937 TAGAATAATAATAAATAATAA
1 TTTAATAATAATAAATAATAA
36336958 ATATCTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 12 0.31
26 27 0.69
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (26 bp):
TTTAATAATAATAAATAATAATATAA
Found at i:36336917 original size:20 final size:20
Alignment explanation
Indices: 36336894--36336948 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
36336884 TTTTTAATAA
36336894 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
36336914 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
36336934 TAATAGAATAATAAT
1 TAAT--AATAATAAT
36336949 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:36342337 original size:20 final size:20
Alignment explanation
Indices: 36342312--36342368 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
36342302 TTTATTTATT
36342312 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
36342332 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
36342352 TTTAATAGAATAATAAT
1 TTTAAT--AATAATAAT
36342369 AAATAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
22 6 0.19
23 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:36342767 original size:54 final size:53
Alignment explanation
Indices: 36342685--36342789 Score: 192
Period size: 54 Copynumber: 2.0 Consensus size: 53
36342675 TCACTAAGAT
36342685 GGAGGCCCGATAACACACTTTTCCGGTGCCCACGGATTTTGGGTCGTTACATTC
1 GGAGGCCCGATAACACACTTTTCCGGTGCCCACGGATTTT-GGTCGTTACATTC
*
36342739 GGAGGCCTGATAACACACTTTTCCGGTGCCCACGGATTTTGGTCGTTACAT
1 GGAGGCCCGATAACACACTTTTCCGGTGCCCACGGATTTTGGTCGTTACAT
36342790 CTTTCAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 11 0.22
54 39 0.78
ACGTcount: A:0.19, C:0.27, G:0.26, T:0.29
Consensus pattern (53 bp):
GGAGGCCCGATAACACACTTTTCCGGTGCCCACGGATTTTGGTCGTTACATTC
Found at i:36349910 original size:27 final size:29
Alignment explanation
Indices: 36349859--36349922 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
36349849 GCTAATACCT
36349859 ATATATGCGTCGATTTTGTTATATATATA
1 ATATATGCGTCGATTTTGTTATATATATA
* *
36349888 ATATATGTGTGGATTTTGTTATATATATA
1 ATATATGCGTCGATTTTGTTATATATATA
*
36349917 AAATAT
1 ATATAT
36349923 ATACATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (29 bp):
ATATATGCGTCGATTTTGTTATATATATA
Found at i:36350622 original size:23 final size:23
Alignment explanation
Indices: 36350578--36350622 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36350568 TACAATGATT
* *
36350578 TATGTGAACTATGTCATGAATGA
1 TATGTAAACTATGTCATAAATGA
*
36350601 TATGTAAACTATGTTATAAATG
1 TATGTAAACTATGTCATAAATG
36350623 CAATTTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
TATGTAAACTATGTCATAAATGA
Found at i:36351183 original size:17 final size:17
Alignment explanation
Indices: 36351150--36351199 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
36351140 TATGATGTGC
* *
36351150 TATGAATGAATTATTA-
1 TATGAATGAACTGTTAT
36351166 TATTGAATGAACTGTTAT
1 TA-TGAATGAACTGTTAT
*
36351184 TATGCATGAACTGTTA
1 TATGAATGAACTGTTA
36351200 CTTTATACGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 25 0.86
18 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (17 bp):
TATGAATGAACTGTTAT
Found at i:36351211 original size:17 final size:17
Alignment explanation
Indices: 36351191--36351226 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
36351181 TATTATGCAT
36351191 GAACTGTTACTTTATAC
1 GAACTGTTACTTTATAC
*
36351208 GAACTGTTATTTTATAC
1 GAACTGTTACTTTATAC
36351225 GA
1 GA
36351227 TCTGCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (17 bp):
GAACTGTTACTTTATAC
Found at i:36351241 original size:18 final size:17
Alignment explanation
Indices: 36351191--36351246 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
36351181 TATTATGCAT
36351191 GAACTGTTACTT-TATAC
1 GAACTGTTA-TTCTATAC
*
36351208 GAACTGTTATTTTATAC
1 GAACTGTTATTCTATAC
* *
36351225 GATCTGCTTATTCTATAT
1 GAACTG-TTATTCTATAC
36351243 GAAC
1 GAAC
36351247 CATTTAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 2 0.06
17 19 0.58
18 12 0.36
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (17 bp):
GAACTGTTATTCTATAC
Found at i:36362119 original size:15 final size:12
Alignment explanation
Indices: 36362084--36362115 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
36362074 ACAAATAAAA
36362084 TAGTTGTTAAGG
1 TAGTTGTTAAGG
36362096 TAGTTGTTAAGG
1 TAGTTGTTAAGG
*
36362108 TATTTGTT
1 TAGTTGTT
36362116 GTTAGCAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (12 bp):
TAGTTGTTAAGG
Found at i:36362366 original size:2 final size:2
Alignment explanation
Indices: 36362359--36362390 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
36362349 TGAACCTACT
*
36362359 CA CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
36362391 TTCTGTGATT
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:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:36371968 original size:13 final size:13
Alignment explanation
Indices: 36371950--36371974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36371940 ATTTTCTCCA
36371950 AAATGAAAATGAT
1 AAATGAAAATGAT
36371963 AAATGAAAATGA
1 AAATGAAAATGA
36371975 CTTGGAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
AAATGAAAATGAT
Found at i:36374261 original size:37 final size:37
Alignment explanation
Indices: 36374196--36374525 Score: 358
Period size: 37 Copynumber: 9.0 Consensus size: 37
36374186 AGTACACAAG
* * * *
36374196 TAATCCAATCGA-AACACGTCGAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * *
36374232 TAATCTAACCAATAACATGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * * *
36374269 TAATCCAACCGGTAACATGCCCAATGCTCATAAGAGA
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
36374306 TAATCCAACCGATAATACGCCAAGTGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
36374343 AAATCCAACCGACAACACGCCAAATGCTCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * * ** *
36374380 TAATCCAACTGACAACATGTAAAATGATCATAAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* ** * * *
36374417 TAATTCAACTAACAACACGCCAAATGCTTATAAGAGT
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* *
36374454 TAATCTAACAGATAACACGCCAAATGCTCA-AAGAGC
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
* * *
36374490 TAATCCAACCGATAACAAGCCAAATGTTCCTAAGAG
1 TAATCCAACCGATAACACGCCAAATGCTCATAAGAG
36374526 TTATACATCC
Statistics
Matches: 244, Mismatches: 48, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
36 39 0.16
37 205 0.84
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCCAAATGCTCATAAGAGC
Found at i:36377978 original size:17 final size:17
Alignment explanation
Indices: 36377952--36377985 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36377942 TCTTTTCTTT
*
36377952 TAGGCCTTATGAATAGA
1 TAGGCATTATGAATAGA
*
36377969 TAGGCATTATGAGTAGA
1 TAGGCATTATGAATAGA
36377986 ATAACTGTGT
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:0.35, C:0.09, G:0.26, T:0.29
Consensus pattern (17 bp):
TAGGCATTATGAATAGA
Found at i:36385663 original size:26 final size:26
Alignment explanation
Indices: 36385627--36385678 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
36385617 TTCTTGGAGA
36385627 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
36385653 AAGTTCGATGTATGCTATCCAATGCT
1 AAGTTCGATGTATGCTATCCAATGCT
36385679 GGATTAGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (26 bp):
AAGTTCGATGTATGCTATCCAATGCT
Found at i:36396649 original size:93 final size:96
Alignment explanation
Indices: 36396550--36396749 Score: 284
Period size: 98 Copynumber: 2.1 Consensus size: 96
36396540 TATGTAAGCT
* *
36396550 AGTGTAAGACCTATCTAGGACATGGCATCGG-CTTGA-G-GTGT-A-TTAGTGTAAGACCTATCT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
36396610 GGGACATGGCATCGACACAGATAAGTGAGAGCC
66 GGGACATGGCATCGACACAGAT--GTGAGAGCC
* * *
36396643 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTATGTAAGTCAGTGTAAGACCTGTCT
1 AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
**
36396708 GGGACATGGCATCGACTTAGATGTGAGAGCC
66 GGGACATGGCATCGACACAGATGTGAGAGCC
36396739 AGTGTAAGACC
1 AGTGTAAGACC
36396750 ATGTTTGGAA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
93 30 0.32
94 4 0.04
95 1 0.01
96 23 0.24
97 1 0.01
98 36 0.38
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCTATCTAGGACATGGCATCGGTCTTGATGTATGTAAGTCAGTGTAAGACCTATCT
GGGACATGGCATCGACACAGATGTGAGAGCC
Found at i:36396664 original size:49 final size:49
Alignment explanation
Indices: 36396452--36396765 Score: 231
Period size: 49 Copynumber: 6.5 Consensus size: 49
36396442 TCTGTGTGCT
* *
36396452 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGAT-AGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAG-TGAGAGCC
* * ** *
36396501 AGTGTAAGACTTGTTTGGGACACAGCATCGGCCTCA-ATATA-TGTA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGG-CTCAGATA-AGTG-AGAGCC
* * * * * **
36396550 AGTGTAAGACCTATCTAGGACATGGCATCGGCT-TG--AGGTG-TA-TT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * *
36396594 AGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAAGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* * ** * *
36396643 AGTGTAAGACCTGTCTAGGACATGGCATCGGTTTTGATGTA-TGTA-AGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGAT-AAGTG-AGAGCC
* *
36396692 AGTGTAAGACCTGTCTGGGACATGGCATCGACTTAGAT--GTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
* *
36396739 AGTGTAAGACCATGTTTGGAACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
36396766 GTCAGCATCA
Statistics
Matches: 208, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
44 31 0.15
45 2 0.01
46 4 0.02
47 20 0.10
48 16 0.08
49 129 0.62
50 5 0.02
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCTCAGATAAGTGAGAGCC
Found at i:36396713 original size:142 final size:142
Alignment explanation
Indices: 36396451--36396721 Score: 375
Period size: 142 Copynumber: 1.9 Consensus size: 142
36396441 ATCTGTGTGC
* * * * *
36396451 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAAGACTTGTT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
*
36396516 TGGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
66 TAGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
36396581 CTTGAGGTGTAT
131 CTTGAGGTGTAT
36396593 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATA-AGTGAGAGCCAGTGTAAGACCTGT
1 TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGA-TGAGAGCCAGTGTAAGACCTGT
** ** ** * * *
36396657 CTAGGACATGGCATCGGTTTTGATGTATGTAAG-TCAGTGTAAGACCTGTCTGGGACATGGCATC
65 CTAGGACACAGCATCGGCCTCAATATATGTAAGCT-AGTGTAAGACCTATCTAGGACATGGCATC
36396721 G
129 G
36396722 ACTTAGATGT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
141 2 0.02
142 110 0.98
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (142 bp):
TAGTGTAAGACCTATCTGGGACATGGCATCGACACAGATAGATGAGAGCCAGTGTAAGACCTGTC
TAGGACACAGCATCGGCCTCAATATATGTAAGCTAGTGTAAGACCTATCTAGGACATGGCATCGG
CTTGAGGTGTAT
Found at i:36402899 original size:21 final size:21
Alignment explanation
Indices: 36402875--36402915 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36402865 AAACAAAGTC
*
36402875 AAAGAAAGAAGAAAA-AAATAT
1 AAAGAAA-AAAAAAAGAAATAT
36402896 AAAGAAAAAAAAAAGAAATA
1 AAAGAAAAAAAAAAGAAATA
36402916 AGAGGAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGAAATAT
Found at i:36404383 original size:24 final size:23
Alignment explanation
Indices: 36404354--36404407 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
36404344 TAATTATATA
36404354 AAAATAATAATCAAAATTTTG-TTT
1 AAAATAA-AAT-AAAATTTTGCTTT
*
36404378 AAAATAAAATAAAGTTTTGTCTTT
1 AAAATAAAATAAAATTTTG-CTTT
36404402 AAAATA
1 AAAATA
36404408 TTAAAAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 8 0.30
23 3 0.11
24 16 0.59
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
AAAATAAAATAAAATTTTGCTTT
Found at i:36406543 original size:18 final size:20
Alignment explanation
Indices: 36406501--36406537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36406491 ATATTTTATG
*
36406501 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
36406520 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
36406538 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:36408754 original size:46 final size:46
Alignment explanation
Indices: 36408702--36409020 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
36408692 AGTGTGCTCT
*
36408702 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36408748 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
36408794 CTGATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGC-AC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
36408839 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ***
36408885 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
36408931 GTGACATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** * *
36408977 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
36409021 TCATGTCAAA
Statistics
Matches: 245, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 44 0.18
46 201 0.82
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:36408956 original size:137 final size:137
Alignment explanation
Indices: 36408702--36409043 Score: 393
Period size: 137 Copynumber: 2.5 Consensus size: 137
36408692 AGTGTGCTCT
* * * * * ***
36408702 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * **
36408767 ACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAAACCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
36408832 ATGGCAC
131 ATGGCAC
*
36408839 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
* * * *
36408904 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGATCATGGTTGAAAGATACC
66 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
36408969 ATGGCAAC
131 ATGGC-AC
* * * * ** * * * *
36408977 ATGACA-GAAAATGAGTAAGACCATAATTGAAAGACACTATGGCATCATGTCA--AAGATAAATA
1 CTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATA
36409039 AGACC
64 AGACC
36409044 GTGGATGGGA
Statistics
Matches: 174, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
136 2 0.01
137 131 0.75
138 41 0.24
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (137 bp):
CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAG
ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAACGAATAAAACCATGGTTGAAAGATACC
ATGGCAC
Found at i:36410915 original size:24 final size:24
Alignment explanation
Indices: 36410894--36410947 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
36410884 AAATAAAACG
36410894 AAAAAGAAGATAGAAAAGAAAAAGA
1 AAAAAGAA-ATAGAAAAGAAAAAGA
*
36410919 AAAAAGAAATAGAAAA-AAGAAATA
1 AAAAAGAAATAGAAAAGAA-AAAGA
36410943 AAAAA
1 AAAAA
36410948 ATTTGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.07
24 17 0.63
25 8 0.30
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAAAGAAATAGAAAAGAAAAAGA
Found at i:36410916 original size:18 final size:18
Alignment explanation
Indices: 36410888--36410940 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
36410878 CAAAATAAAT
* *
36410888 AAAACGAAAAAGAAGATAG
1 AAAA-GAAAAAGAAAAAAG
36410907 AAAAGAAAAAGAAAAAAG
1 AAAAGAAAAAGAAAAAAG
36410925 AAATAGAAAAAAGAAA
1 AAA-AG-AAAAAGAAA
36410941 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 15 0.50
19 6 0.20
20 9 0.30
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAAG
Found at i:36410935 original size:25 final size:25
Alignment explanation
Indices: 36410894--36410948 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
36410884 AAATAAAACG
36410894 AAAAAGAAGATAG-AAAAGAAAAAGA
1 AAAAAGAAGATAGAAAAAGAAAAA-A
*
36410919 AAAAAGAA-ATAGAAAAAAGAAATAA
1 AAAAAGAAGATAG-AAAAAGAAAAAA
36410944 AAAAA
1 AAAAA
36410949 TTTGAAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 4 0.15
25 14 0.52
26 9 0.33
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (25 bp):
AAAAAGAAGATAGAAAAAGAAAAAA
Found at i:36410941 original size:13 final size:13
Alignment explanation
Indices: 36410894--36410948 Score: 71
Period size: 13 Copynumber: 4.4 Consensus size: 13
36410884 AAATAAAACG
36410894 AAAAAGAAGATAG-
1 AAAAAGAA-ATAGA
*
36410907 -AAAAGAAAAAGA
1 AAAAAGAAATAGA
36410919 AAAAAGAAATAGA
1 AAAAAGAAATAGA
36410932 AAAAAGAAATA-A
1 AAAAAGAAATAGA
36410944 AAAAA
1 AAAAA
36410949 TTTGAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
11 3 0.08
12 13 0.34
13 22 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAGAAATAGA
Found at i:36421769 original size:11 final size:11
Alignment explanation
Indices: 36421753--36421780 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
36421743 ACTAAATAAT
36421753 TAATAATAAAA
1 TAATAATAAAA
36421764 TAATAATAAAA
1 TAATAATAAAA
36421775 TAATAA
1 TAATAA
36421781 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:36421807 original size:20 final size:21
Alignment explanation
Indices: 36421754--36421829 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
36421744 CTAAATAATT
*
36421754 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
36421773 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
36421794 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
36421815 TAATCATAAAATATC
1 -AATAATAAAATATC
36421830 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:36428915 original size:14 final size:13
Alignment explanation
Indices: 36428895--36428926 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
36428885 AATATTTAAC
36428895 TTGTTCTTAATTA
1 TTGTTCTTAATTA
36428908 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
36428922 TTGTT
1 TTGTT
36428927 TTGATATCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:36429692 original size:29 final size:27
Alignment explanation
Indices: 36429631--36429696 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
36429621 TTTACAAGGA
*
36429631 AAGAGAGGTTGGTGGATAAAAGTTATG
1 AAGAGAGGTTGGTGGATAAAAGTGATG
*
36429658 AAGAGAGGTTGGTGGATTAGAAGTGGAT-
1 AAGAGAGGTTGGTGGA-TAAAAGT-GATG
36429686 AGAGAGAGGTT
1 A-AGAGAGGTT
36429697 TTCTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.47
28 7 0.21
29 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (27 bp):
AAGAGAGGTTGGTGGATAAAAGTGATG
Found at i:36437911 original size:28 final size:30
Alignment explanation
Indices: 36437844--36437911 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 30
36437834 TTGAATAAAT
* * *
36437844 TGTATTGTTTATTTTGGATTTGGGTTTGGC
1 TGTACTGTATATTTTGGATTTGAGTTTGGC
*
36437874 TG-ACT-AATATTTTGGATTTGAGTTTGG-
1 TGTACTGTATATTTTGGATTTGAGTTTGGC
36437901 TGTA-TGTATAT
1 TGTACTGTATAT
36437912 ATATTGTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.10
28 24 0.77
29 2 0.06
30 2 0.06
ACGTcount: A:0.18, C:0.03, G:0.26, T:0.53
Consensus pattern (30 bp):
TGTACTGTATATTTTGGATTTGAGTTTGGC
Found at i:36438722 original size:11 final size:10
Alignment explanation
Indices: 36438692--36438725 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
36438682 TTAAAATCTT
36438692 AAATTAAAAC
1 AAATTAAAAC
*
36438702 ATATTAAAAC
1 AAATTAAAAC
36438712 AAATCTAAAAC
1 AAAT-TAAAAC
36438723 AAA
1 AAA
36438726 AACGTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATTAAAAC
Found at i:36439434 original size:36 final size:35
Alignment explanation
Indices: 36439358--36439454 Score: 135
Period size: 36 Copynumber: 2.8 Consensus size: 35
36439348 TTAATACAAA
*
36439358 AGTATATAATATGA-T-AATTAAATTAAATTAATT
1 AGTATATAATGTGATTAAATTAAATTAAATTAATT
36439391 AGTATATAATGTGATTAAATTAAATTAAATTAAATT
1 AGTATATAATGTGATTAAATTAAATTAAATT-AATT
* * *
36439427 ATTATATAATGTTATTAAATTAAGTTAA
1 AGTATATAATGTGATTAAATTAAATTAA
36439455 TAATGGGTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
33 13 0.23
34 1 0.02
35 14 0.25
36 29 0.51
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.43
Consensus pattern (35 bp):
AGTATATAATGTGATTAAATTAAATTAAATTAATT
Found at i:36439542 original size:12 final size:11
Alignment explanation
Indices: 36439513--36439549 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
36439503 CTAACATTTT
36439513 TATATAT-A-A
1 TATATATGATA
36439522 TATATATGATA
1 TATATATGATA
36439533 TATGATATGATA
1 TAT-ATATGATA
36439545 TATAT
1 TATAT
36439550 GGTTATTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 6 0.24
12 11 0.44
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (11 bp):
TATATATGATA
Found at i:36439652 original size:3 final size:3
Alignment explanation
Indices: 36439639--36439667 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
36439629 AAGTTTAAAT
36439639 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36439668 ATGGCAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:36443288 original size:28 final size:28
Alignment explanation
Indices: 36443231--36443294 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
36443221 TGGGAAGTAG
***
36443231 TTGGGCCTGATGGGCCATATGAATTTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
* *
36443259 TTGGGCTTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
36443287 TTGGGCCT
1 TTGGGCCT
36443295 AAAGGGGCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.16, G:0.36, T:0.30
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:36443638 original size:27 final size:27
Alignment explanation
Indices: 36443616--36444453 Score: 921
Period size: 27 Copynumber: 31.4 Consensus size: 27
36443606 AGAAATTATT
36443616 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36443643 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
36443669 GAAATACCCTCAATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
36443696 GAAATACCC-CTGATTTGTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* * *
36443723 AAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
36443749 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
36443776 GAAATACCC-CTGATTTGTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* * *
36443803 AAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
*
36443829 GAAATACCCTCGATTTGTAAAATTAGC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
36443856 GAAATACACTTGA-TTGTGAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36443882 GAAATACCCCCGATTTATAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36443909 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
36443935 GAAATATCCTCTATTCGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36443962 GAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36443988 AAAATACCCTCGA-TTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36444014 GAAATACCCTCAATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444041 AAAATACCCTCGA-TTGTGAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
**
36444067 GAAATACCCTCGATTTGTAAAATTAAT
1 GAAATACCCTCGATTTGTAAAATTACC
*
36444094 GAAATACCC-CTGATTTCTAAAATTACC
1 GAAATACCCTC-GATTTGTAAAATTACC
* *
36444121 AAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444148 GAAATAACCTTGATTTGTGAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36444175 GAAACACCTTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36444202 AAAATACCCTCGA-TTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444228 GAAATACCCCCAATTTGTAAAATTA-T
1 GAAATACCCTCGATTTGTAAAATTACC
* * * *
36444254 GAAAATACCCCCGATTTTTGAAATTACT
1 G-AAATACCCTCGATTTGTAAAATTACC
*
36444282 GAAACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* *
36444309 GAGACACCCTCGATTTGTAAAATTACC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444336 GAAACACCCTTGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444363 GAAACACCCCCGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * * * *
36444390 AAAACACCTTTGATTTGTAAAATTATC
1 GAAATACCCTCGATTTGTAAAATTACC
* * *
36444417 GAAATACTCTTG-TAGTGTAAAATTACC
1 GAAATACCCTCGAT-TTGTAAAATTACC
*
36444444 AAAATACCCT
1 GAAATACCCT
36444454 TGTAGTGTAA
Statistics
Matches: 685, Mismatches: 109, Indels: 34
0.83 0.13 0.04
Matches are distributed among these distances:
26 202 0.29
27 478 0.70
28 5 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
GAAATACCCTCGATTTGTAAAATTACC
Found at i:36443687 original size:53 final size:54
Alignment explanation
Indices: 36443608--36444453 Score: 927
Period size: 53 Copynumber: 15.8 Consensus size: 54
36443598 TAATAAAAAG
* *
36443608 AAATTATTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
*
36443661 AAATTACTGAAATACCCTCAATTTGTAAAATTACCGAAATACCC-CTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-GATTTGTA
** * *
36443715 AAATTACCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
36443768 AAATTACCGAAATACCC-CTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTC-GATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * *
36443821 AAATTACTGAAATACCCTCGATTTGTAAAATTAGCGAAATACACTTGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
36443874 AAATTA-TCGAAATACCCCCGATTTATAAAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
36443927 AAATTACTGAAATATCCTCTATTCGTAAAATTATCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
36443980 AAATTACTAAAATACCCTCGA-TTGTAAAATTATCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
36444033 AAATTA-TCAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * *
36444086 AAATTAATGAAATACCC-CTGATTTCTAAAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
36444140 AAATTACTGAAATAACCTTGATTTGTGAAATTACCGAAACACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
** * * *
36444194 AAATTACCAAAATACCCTCGA-TTGTAAAATTATCGAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
36444247 AAATTA-TGAAAATACCCCCGATTTTTGAAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTG-AAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * *
36444301 AAATTACCGAGACACCCTCGATTTGTAAAATTACCGAAACACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * * * * *
36444355 AAATTA-TCGAAACACCCCCGATTTGTAAAATTATCAAAACACCTTTGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
* * * *
36444409 AAATTA-TCGAAATACTCTTG-TAGTGTAAAATTACCAAAATACCCT
1 AAATTACT-GAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
36444454 TGTAGTGTAA
Statistics
Matches: 680, Mismatches: 94, Indels: 37
0.84 0.12 0.05
Matches are distributed among these distances:
52 29 0.04
53 360 0.53
54 290 0.43
55 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTA
Found at i:36443741 original size:80 final size:80
Alignment explanation
Indices: 36443616--36444453 Score: 953
Period size: 80 Copynumber: 10.5 Consensus size: 80
36443606 AGAAATTATT
* *
36443616 GAAATA-CCCTCGATTTGTAAAATTACCGAAATACCCTCGATTGTGAAATTACTGAAATACCCTC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
*
36443680 AATTTGTAAAATTACC
65 GATTTGTAAAATTACC
*
36443696 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAATACCCTCG
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCG
36443761 ATTTGTAAAATTACC
66 ATTTGTAAAATTACC
*
36443776 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTGAAATTACTGAAATACCCTCG
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCG
*
36443841 ATTTGTAAAATTAGC
66 ATTTGTAAAATTACC
* * * * * * * *
36443856 GAAATACACTTGA-TTGTGAAATTATCGAAATACCCCCGATTTATAAAATTACCGAAATACCCTC
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTC
* *
36443920 GA-TTGTGAAATTACT
65 GATTTGTAAAATTACC
* * * * * *
36443935 GAAATATCCTCT-ATTCGTAAAATTATCGAAATACCCTCGATTGTGAAATTACTAAAATACCCTC
1 GAAATA-CCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
*
36443999 GA-TTGTAAAATTATC
65 GATTTGTAAAATTACC
* * *
36444014 GAAATA-CCCTCAATTTGTAAAATTATCAAAATACCCTCGATTGTGAAATTACTGAAATACCCTC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTC
**
36444078 GATTTGTAAAATTAAT
65 GATTTGTAAAATTACC
* * *
36444094 GAAATACCCCTGATTTCTAAAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATAACCTT
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCTC
*
36444159 GATTTGTGAAATTACC
65 GATTTGTAAAATTACC
* * *
36444175 GAAACA-CCTTCGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTA-TCGAAATACCCC
1 GAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACT-GAAATACCCT
* *
36444238 CAATTTGTAAAATTA-T
64 CGATTTGTAAAATTACC
* * * ** * * * *
36444254 GAAAATACCCCCGATTTTTGAAATTACTGAAACACCCTCGATTTGTAAAATTACCGAGACACCCT
1 G-AAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATACCCT
36444319 CGATTTGTAAAATTACC
64 CGATTTGTAAAATTACC
* * * * * * *
36444336 GAAACACCCTTGATTTGTAAAATTATCGAAACACCCCCGATTTGTAAAATTA-TCAAA-ACACCT
1 GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGA-TTGTAAAATTACTGAAATAC-CC-
* *
36444399 TTGATTTGTAAAATTATC
63 TCGATTTGTAAAATTACC
* * *
36444417 GAAATACTCTTG-TAGTGTAAAATTACCAAAATACCCT
1 GAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCT
36444454 TGTAGTGTAA
Statistics
Matches: 653, Mismatches: 86, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.00
79 132 0.20
80 321 0.49
81 196 0.30
82 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
GAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGATTGTAAAATTACTGAAATACCCTCG
ATTTGTAAAATTACC
Done.