Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 108 of 203
Found at i:34270272 original size:17 final size:17
Alignment explanation
Indices: 34270250--34270299 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
34270240 ATAGAAAGTA
34270250 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
34270267 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
34270284 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
34270300 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:34274794 original size:17 final size:17
Alignment explanation
Indices: 34274772--34274821 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
34274762 ATAGAAAGTC
34274772 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
34274789 AAAGATATAGGTATCAG
1 AAAGATATGGGTATCAG
34274806 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
34274822 AAATCTGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.44, C:0.06, G:0.26, T:0.24
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:34277254 original size:21 final size:21
Alignment explanation
Indices: 34277230--34277288 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
34277220 GGTTCACATG
34277230 TATAGGGTTCGTATACTAACA
1 TATAGGGTTCGTATACTAACA
* *
34277251 TATAAAGGGTTTGTATAATTAACA
1 TAT--AGGGTTCGTAT-ACTAACA
*
34277275 AAT-GGGTTCGTATA
1 TATAGGGTTCGTATA
34277289 AAACTTCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 1 0.03
21 12 0.39
23 10 0.32
24 8 0.26
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (21 bp):
TATAGGGTTCGTATACTAACA
Found at i:34277509 original size:21 final size:21
Alignment explanation
Indices: 34277450--34277509 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
34277440 GCATGTCACA
*
34277450 AACATATAGGGTTCACATAAAT
1 AACATAT-GGGTTCGCATAAAT
* *
34277472 AATATATTGGTTCGCATAAAT
1 AACATATGGGTTCGCATAAAT
*
34277493 AACATATGGGTTTGCAT
1 AACATATGGGTTCGCAT
34277510 GTAATATTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 26 0.81
22 6 0.19
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (21 bp):
AACATATGGGTTCGCATAAAT
Found at i:34283352 original size:25 final size:25
Alignment explanation
Indices: 34283318--34283368 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
34283308 TGATATTATT
*
34283318 ATCGTTGTGTTTTTAAAAAGGTTAA
1 ATCGTTGTGTTTCTAAAAAGGTTAA
34283343 ATCGTTGTGTTTCTAAAAAGGTTAA
1 ATCGTTGTGTTTCTAAAAAGGTTAA
34283368 A
1 A
34283369 GTTTTCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (25 bp):
ATCGTTGTGTTTCTAAAAAGGTTAA
Found at i:34285857 original size:17 final size:17
Alignment explanation
Indices: 34285828--34285871 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
34285818 ACCTAATATT
34285828 TTAAATT-TTAAAAATA
1 TTAAATTATTAAAAATA
34285844 TTAAATTATTAAAAATA
1 TTAAATTATTAAAAATA
34285861 --AAA-TATTAAAA
1 TTAAATTATTAAAA
34285872 TGTGAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.30
15 3 0.11
16 7 0.26
17 9 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATTATTAAAAATA
Found at i:34285867 original size:14 final size:15
Alignment explanation
Indices: 34285829--34285906 Score: 61
Period size: 15 Copynumber: 5.1 Consensus size: 15
34285819 CCTAATATTT
*
34285829 TAAATTTTAAAAATA
1 TAAATATTAAAAATA
34285844 TTAAATTATTAAAAATA
1 -TAAA-TATTAAAAATA
*
34285861 -AAATATT-AAAATG
1 TAAATATTAAAAATA
*
34285874 TGAAATATTATTAAATA
1 T-AAATATTA-AAAATA
* *
34285891 TAAATAATATAAATA
1 TAAATATTAAAAATA
34285906 T
1 T
34285907 TCATAGCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
13 5 0.10
14 4 0.08
15 17 0.33
16 11 0.21
17 15 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAAATATTAAAAATA
Found at i:34288409 original size:43 final size:44
Alignment explanation
Indices: 34288320--34288442 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 44
34288310 ACATAGGATT
* * * * *
34288320 TCGATATGTGTTTTCGTGTAAGACCAC-GTCTAAGAC-GTTGGTA
1 TCGATATGTGATTACATGTAAGACC-CTGTCTAGGACAGTTGGCA
*
34288363 TCGACT-TGTGGTTACATGTAAGACCCTGTCTAGGACAG-TGGCA
1 TCGA-TATGTGATTACATGTAAGACCCTGTCTAGGACAGTTGGCA
* *
34288406 TCGATATGTGATTACATGTAAGACCATGTCTGGGACA
1 TCGATATGTGATTACATGTAAGACCCTGTCTAGGACA
34288443 TTGACATTGT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 2 0.03
43 64 0.94
44 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (44 bp):
TCGATATGTGATTACATGTAAGACCCTGTCTAGGACAGTTGGCA
Found at i:34288719 original size:36 final size:37
Alignment explanation
Indices: 34288652--34288734 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 37
34288642 AAATTGAGCA
* * * * * *
34288652 TATAAGTGATTTGGTATATTGGTGTATTTGTAATA-T
1 TATAAGTGATTCGGCATAATGATATAGTTGTAATATT
34288688 TATAAGTGATTCGGCATAATGATATAGTTGTAATATT
1 TATAAGTGATTCGGCATAATGATATAGTTGTAATATT
*
34288725 TAAAAGTGAT
1 TATAAGTGAT
34288735 AATTATATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 29 0.74
37 10 0.26
ACGTcount: A:0.34, C:0.02, G:0.20, T:0.43
Consensus pattern (37 bp):
TATAAGTGATTCGGCATAATGATATAGTTGTAATATT
Found at i:34295964 original size:11 final size:11
Alignment explanation
Indices: 34295948--34295976 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
34295938 GAATACCCAT
34295948 AAAATTCATAG
1 AAAATTCATAG
34295959 AAAATTCATAG
1 AAAATTCATAG
34295970 AAAATTC
1 AAAATTC
34295977 TTTGAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (11 bp):
AAAATTCATAG
Found at i:34298378 original size:21 final size:21
Alignment explanation
Indices: 34298354--34298399 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
34298344 AAGATGTCAT
34298354 CTTAAGAGCCACATTCATATA
1 CTTAAGAGCCACATTCATATA
*
34298375 CTTAGGAGCCACATTCATATA
1 CTTAAGAGCCACATTCATATA
34298396 CTTA
1 CTTA
34298400 CTCAAGCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (21 bp):
CTTAAGAGCCACATTCATATA
Found at i:34302604 original size:51 final size:50
Alignment explanation
Indices: 34302499--34302645 Score: 134
Period size: 52 Copynumber: 2.8 Consensus size: 50
34302489 TTGATTTTTT
* * * **
34302499 TTTTAAA-GAAAGTTTAGATTTTTTTAAAAAATATATATGTTTTTTCTAGTTA
1 TTTTAAAGGAAAGTTTA-AATTTTTAAAAAAAT-TATAT-TTTTTTCCAACTA
*
34302551 TTTTAAAGGAAAGTTTAAATTTTTAAAACAAATTTTATTTTTTTCCAACTA
1 TTTTAAAGGAAAGTTTAAATTTTTAAAA-AAATTATATTTTTTTCCAACTA
* * * * *
34302602 TTTCAAAGTAAAAGTTTTAATCTTTAAGAAAAATAATATTTTTT
1 TTTTAAAG-GAAAGTTTAAATTTTTAA-AAAAATTATATTTTTT
34302646 AAAAAAAAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
51 17 0.22
52 47 0.59
53 15 0.19
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (50 bp):
TTTTAAAGGAAAGTTTAAATTTTTAAAAAAATTATATTTTTTTCCAACTA
Found at i:34302709 original size:150 final size:149
Alignment explanation
Indices: 34302505--34303041 Score: 784
Period size: 149 Copynumber: 3.6 Consensus size: 149
34302495 TTTTTTTTAA
* * * * *
34302505 AGAAAGTTTAGATTTTTTTAAAAA-ATATATATGTTTTTTCTAGTTATTTTAAAGGAAAGTTTAA
1 AGAAAGTTTAGA--TTTTGAAAAATAAAAATATGTTTTTT-AAGTCATTTTAAAGGAAAGTTTAA
* * * *
34302569 ATTTTTAAAACAAA-TTTT-ATTTTTTTCCAACTA-TTTCAAAGTAAAAGTTTTAATCTTTAAGA
63 AATTTTAAAATAAAGTTTTGATTTTTTT-CAACTACTTT-AAAATAAAAGCTTTAATCTTTAAGA
* * **
34302631 AAAATAATATTTTTTAAAAAAAAGG
126 AAAATAGTTTTTTTTTTAAAAAA-G
* * *
34302656 AGAAAATTTAAATTTTGAAAAATAAAAATCTAT-TTTTTTTAGTCATTTTAAAGGAAAGTTTAAA
1 AGAAAGTTTAGATTTTGAAAAATAAAAA--TATGTTTTTTAAGTCATTTTAAAGGAAAGTTTAAA
34302720 ATTTTAAAATAAAGTTTTGATTTTTTTCAACTACTTTAAAATAAAAGCTTTAATCTTTAAGAAAA
64 ATTTTAAAATAAAGTTTTGATTTTTTTCAACTACTTTAAAATAAAAGCTTTAATCTTTAAGAAAA
34302785 ATAGTTTTTTTTTTAAAAAAG
129 ATAGTTTTTTTTTTAAAAAAG
34302806 AGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAAT
1 AGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAAT
34302871 TTTAAAATAAAGTTTTGATTTTTTTCAACTACTTTAAAATAAAAGCTTTAATCTTTAAGAAAAAT
66 TTTAAAATAAAGTTTTGATTTTTTTCAACTACTTTAAAATAAAAGCTTTAATCTTTAAGAAAAAT
34302936 AGTTTTTTTTTTAAAAAAG
131 AGTTTTTTTTTTAAAAAAG
*
34302955 AGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAATTTAAAAT
1 AGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAAT
*
34303020 TTTAAAA-AAA--ATTGATTTTTTT
66 TTTAAAATAAAGTTTTGATTTTTTT
34303042 AATTATTTCG
Statistics
Matches: 360, Mismatches: 19, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
146 11 0.03
148 6 0.02
149 196 0.54
150 65 0.18
151 68 0.19
152 14 0.04
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (149 bp):
AGAAAGTTTAGATTTTGAAAAATAAAAATATGTTTTTTAAGTCATTTTAAAGGAAAGTTTAAAAT
TTTAAAATAAAGTTTTGATTTTTTTCAACTACTTTAAAATAAAAGCTTTAATCTTTAAGAAAAAT
AGTTTTTTTTTTAAAAAAG
Found at i:34303671 original size:10 final size:9
Alignment explanation
Indices: 34303648--34303686 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
34303638 CAAACTTGTA
*
34303648 TATTTTTTT
1 TATTTATTT
34303657 TATTTATTCT
1 TATTTATT-T
34303667 TATTTAATTT
1 TATTT-ATTT
34303677 TATTTATTT
1 TATTTATTT
34303686 T
1 T
34303687 CATGTCTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 12 0.44
10 12 0.44
11 3 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TATTTATTT
Found at i:34307195 original size:36 final size:37
Alignment explanation
Indices: 34307155--34307233 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
34307145 AGCAACCAAG
* * *
34307155 AATGAACAAT-GAGATTCCCTGTAGAGTAAAGACAAA
1 AATGAACAATAGAGATTCCCTGCAGAGCAAAAACAAA
*
34307191 AATGAACAATAGTGATTCCCTGCAGAGCAAAAACAAA
1 AATGAACAATAGAGATTCCCTGCAGAGCAAAAACAAA
34307228 AATGAA
1 AATGAA
34307234 TAGGAGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
36 10 0.26
37 28 0.74
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (37 bp):
AATGAACAATAGAGATTCCCTGCAGAGCAAAAACAAA
Found at i:34307246 original size:37 final size:37
Alignment explanation
Indices: 34307155--34307248 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
34307145 AGCAACCAAG
* * *
34307155 AATGAACAATGA--GATTCCCTGTAGAGTAAAGACAAA
1 AATGAACAA-GAGTGATTCCCTGCAGAGCAAAAACAAA
*
34307191 AATGAACAATAGTGATTCCCTGCAGAGCAAAAACAAA
1 AATGAACAAGAGTGATTCCCTGCAGAGCAAAAACAAA
* * *
34307228 AATGAATAGGAGTTATTCCCT
1 AATGAACAAGAGTGATTCCCT
34307249 ACCAAGAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
35 1 0.02
36 9 0.19
37 38 0.79
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (37 bp):
AATGAACAAGAGTGATTCCCTGCAGAGCAAAAACAAA
Found at i:34307693 original size:17 final size:17
Alignment explanation
Indices: 34307648--34307696 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
34307638 TTAAATATAA
34307648 ATAATTATATAAATATGT
1 ATAATTATAT-AATATGT
*
34307666 ATACTTA-ATAATATG-
1 ATAATTATATAATATGT
34307681 ATAAATTATATAATAT
1 AT-AATTATATAATAT
34307697 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 10 0.37
17 9 0.33
18 6 0.22
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAATTATATAATATGT
Found at i:34307722 original size:13 final size:14
Alignment explanation
Indices: 34307705--34307742 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
34307695 ATTAAAATTT
34307705 TATTTTAATAATAA
1 TATTTTAATAATAA
*
34307719 -ATTTTAAAAATAA
1 TATTTTAATAATAA
34307732 TATTCTTAATA
1 TATT-TTAATA
34307743 TATTATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.60
14 3 0.15
15 5 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTTAATAATAA
Found at i:34307756 original size:14 final size:14
Alignment explanation
Indices: 34307739--34307798 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
34307729 TAATATTCTT
34307739 AATATATTAT-TTAA
1 AATAT-TTATATTAA
34307753 AATATTTATATTAA
1 AATATTTATATTAA
* * *
34307767 TAT-TTTAAAAATAA
1 AATATTT-ATATTAA
34307781 ATATATTTATATTAA
1 A-ATATTTATATTAA
34307796 AAT
1 AAT
34307799 TTACAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 7 0.19
14 18 0.50
15 8 0.22
16 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTATATTAA
Found at i:34307777 original size:23 final size:24
Alignment explanation
Indices: 34307742--34307794 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
34307732 TATTCTTAAT
* **
34307742 ATATTATTTAAAATATTTATATTA
1 ATATTATTAAAAATAAATATATTA
*
34307766 ATATT-TTAAAAATAAATATATTT
1 ATATTATTAAAAATAAATATATTA
34307789 ATATTA
1 ATATTA
34307795 AAATTTACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTATTAAAAATAAATATATTA
Found at i:34307816 original size:29 final size:29
Alignment explanation
Indices: 34307750--34307807 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
34307740 ATATATTATT
*
34307750 TAAA-ATATTTATATTAATATTTTAAAAA
1 TAAATATATTTATATTAATAATTTAAAAA
*
34307778 TAAATATATTTATATTAA-AATTTACAAA
1 TAAATATATTTATATTAATAATTTAAAAA
34307806 TA
1 TA
34307808 TTTCATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAATATATTTATATTAATAATTTAAAAA
Found at i:34307857 original size:13 final size:13
Alignment explanation
Indices: 34307839--34307865 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34307829 AGTAATGTTC
34307839 AAATATTTTAATT
1 AAATATTTTAATT
34307852 AAATATTTTAATT
1 AAATATTTTAATT
34307865 A
1 A
34307866 TATAAATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATATTTTAATT
Found at i:34309199 original size:88 final size:88
Alignment explanation
Indices: 34309050--34309226 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 88
34309040 AAATCTGGAC
*
34309050 ATGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTATGAAACATATGACATGTAC
1 ATGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTAAGAAACATATGACATGTAC
34309115 TCAATCTCATCATCTGATTGTGG
66 TCAATCTCATCATCTGATTGTGG
* * * *
34309138 ATGAACAAACCATGGCATATATGAGAGATCCTACTGCACTAGAGTACAG-AACATGTGACATGTA
1 ATGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTA-AGAAACATATGACATGTA
34309202 CTCAATCTCATCATCTGATTGTGG
65 CTCAATCTCATCATCTGATTGTGG
34309226 A
1 A
34309227 GACAAAGCTG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 82 0.99
89 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (88 bp):
ATGAACAAACCATAGCATACATGAGAGATCCCACTGCACTAGAGTAAGAAACATATGACATGTAC
TCAATCTCATCATCTGATTGTGG
Found at i:34313909 original size:38 final size:38
Alignment explanation
Indices: 34313820--34313910 Score: 137
Period size: 38 Copynumber: 2.4 Consensus size: 38
34313810 AAGTAGACAA
*
34313820 TAACATGTACTCAATTCATCACTAACAGTAGACATGTT
1 TAACATGTACTCAATTCATCACTAACAGTAGACATGCT
* *
34313858 TAAGATGTACTCAATTCATCATTAACAGTAGACATGCT
1 TAACATGTACTCAATTCATCACTAACAGTAGACATGCT
* *
34313896 TATCATGTTCTCAAT
1 TAACATGTACTCAAT
34313911 AGGGTAGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (38 bp):
TAACATGTACTCAATTCATCACTAACAGTAGACATGCT
Found at i:34321813 original size:78 final size:77
Alignment explanation
Indices: 34321706--34321911 Score: 243
Period size: 78 Copynumber: 2.6 Consensus size: 77
34321696 TAGGAGTTAC
* * *
34321706 TTAATTTGTTT-AAAGCTCTTTAATATTTTAAGTAACATTTAAGAAATTAATTGATTTTTCTATG
1 TTAATTT-TTTAAAAG-TCTTTAATATTTTAAGTAACGTTTAAAAAATTAATAGATTTTTCTATG
34321770 ATTTTCGAACTCTT
64 ATTTTCGAACTCTT
* * * *
34321784 TTAATTTTTTAAAAGTCGTTTAATGTTTTAAGTGAGGTATAAAAAATTAATAGATTTTTCTATGA
1 TTAATTTTTTAAAAGTC-TTTAATATTTTAAGTAACGTTTAAAAAATTAATAGATTTTTCTATGA
* *
34321849 TTTTCTAATTCTT
65 TTTTCGAACTCTT
* * * * *
34321862 TAAAATTTTTAAAATCTCTTTAACATTTTAAGTAACGCTTAAAAAATTAA
1 TTAATTTTTTAAAA-GTCTTTAATATTTTAAGTAACGTTTAAAAAATTAA
34321912 CTTACCCTAG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
77 5 0.05
78 100 0.93
79 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.48
Consensus pattern (77 bp):
TTAATTTTTTAAAAGTCTTTAATATTTTAAGTAACGTTTAAAAAATTAATAGATTTTTCTATGAT
TTTCGAACTCTT
Found at i:34322504 original size:75 final size:76
Alignment explanation
Indices: 34322374--34322536 Score: 177
Period size: 75 Copynumber: 2.1 Consensus size: 76
34322364 ATTCTTAATT
* * *
34322374 ACACTTTTAAGGTTTTAAGTAACATTTAAGAAATTAAATAATTTCCCTTGATTTAGGAGTAACAT
1 ACAC-TTTAAGGATTTAAGTAACATTTAAGAAATTAAATAATTTCCCTTGATTTAGAAATAACAT
34322439 AATTTATTAAAG
65 AATTTATTAAAG
* * * * * * * *
34322451 ACCCTTTAAGGATTTACGTAACCTTTAA-AAATTAAGTACTTT-CCTGTGGTTTAGAAATTACTT
1 ACACTTTAAGGATTTAAGTAACATTTAAGAAATTAAATAATTTCCCT-TGATTTAGAAATAACAT
* *
34322514 AATTTCTTAAAT
65 AATTTATTAAAG
34322526 ACACTTTAAGG
1 ACACTTTAAGG
34322537 GGTTCTTTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
74 3 0.04
75 44 0.62
76 21 0.30
77 3 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (76 bp):
ACACTTTAAGGATTTAAGTAACATTTAAGAAATTAAATAATTTCCCTTGATTTAGAAATAACATA
ATTTATTAAAG
Found at i:34327347 original size:4 final size:4
Alignment explanation
Indices: 34327338--34327381 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
34327328 TNAGAGGTAA
34327338 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
34327382 CAACTATAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:34337860 original size:45 final size:45
Alignment explanation
Indices: 34337811--34337897 Score: 122
Period size: 45 Copynumber: 1.9 Consensus size: 45
34337801 TCCTTAATCA
*
34337811 AATTTAAATAATTAACAATAAA-TACTATGTAATTTAGTTAAAATT
1 AATTTAAATAATTAACAATAAATTAC-ATGCAATTTAGTTAAAATT
* * *
34337856 AATTTAAATAATTTATAATAAATTGCATGCAATTTAGTTAAA
1 AATTTAAATAATTAACAATAAATTACATGCAATTTAGTTAAA
34337898 TATTTAGTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 35 0.95
46 2 0.05
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (45 bp):
AATTTAAATAATTAACAATAAATTACATGCAATTTAGTTAAAATT
Found at i:34338916 original size:30 final size:30
Alignment explanation
Indices: 34338880--34338941 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
34338870 ACTTATTTTA
* *
34338880 TTGTTAATTTTATTATTGTTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
34338910 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
34338940 TT
1 TT
34338942 ACTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:34339550 original size:19 final size:19
Alignment explanation
Indices: 34339507--34339552 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
34339497 AAATTTACAA
34339507 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
**
34339526 TTAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
34339545 AAAAATTC
1 AAAAATTC
34339553 TAATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:34342578 original size:11 final size:11
Alignment explanation
Indices: 34342562--34342606 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
34342552 TCCTCTCTTA
34342562 AATTTCCTCTC
1 AATTTCCTCTC
34342573 AATTTCCTCTC
1 AATTTCCTCTC
*
34342584 AATTTGCTCTC
1 AATTTCCTCTC
*
34342595 AAATTCCT-TC
1 AATTTCCTCTC
34342605 AA
1 AA
34342607 AATTTCTCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.42
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:34342615 original size:22 final size:23
Alignment explanation
Indices: 34342556--34342616 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
34342546 AACTAATCCT
* *
34342556 CTCTTAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAAATTC
*
34342579 CTCTC-AATTTGCTCTCAAATTC
1 CTCTCAAATTTCCTCTCAAATTC
34342601 CT-TCAAAATTT-CTCTC
1 CTCTC-AAATTTCCTCTC
34342617 CAATCCATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 22 0.67
23 9 0.27
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.44
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAAATTC
Found at i:34344520 original size:18 final size:18
Alignment explanation
Indices: 34344497--34344536 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34344487 CAGGTGCGTT
* *
34344497 TCCTAACCGTTATATGTG
1 TCCTAACCCTTATATGTA
34344515 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
34344533 TCCT
1 TCCT
34344537 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:34346289 original size:260 final size:260
Alignment explanation
Indices: 34345828--34346347 Score: 1040
Period size: 260 Copynumber: 2.0 Consensus size: 260
34345818 CGAAAATATG
34345828 CCTCTCGCACAATCGATGTTATCGGTAGATGGCGTGTTCCTTTAAGAACATAATTTATGCATTCA
1 CCTCTCGCACAATCGATGTTATCGGTAGATGGCGTGTTCCTTTAAGAACATAATTTATGCATTCA
34345893 ACTAGGTTCGACGTCATATGGCCATATCGTAGGCCGCTGTCGTATGCTTGTGCCCACTGTTCGAA
66 ACTAGGTTCGACGTCATATGGCCATATCGTAGGCCGCTGTCGTATGCTTGTGCCCACTGTTCGAA
34345958 ACGTATGTTACAAAGGTAGTCCGCCCCTTCTCCGTTAATTGAACGTAAAATTTCCAACATCTCGT
131 ACGTATGTTACAAAGGTAGTCCGCCCCTTCTCCGTTAATTGAACGTAAAATTTCCAACATCTCGT
34346023 GAAAACGGTATTTATTTATTTCATACCCTGCCAATATAAGATCATAGTGAATAATTTATACCACT
196 GAAAACGGTATTTATTTATTTCATACCCTGCCAATATAAGATCATAGTGAATAATTTATACCACT
34346088 CCTCTCGCACAATCGATGTTATCGGTAGATGGCGTGTTCCTTTAAGAACATAATTTATGCATTCA
1 CCTCTCGCACAATCGATGTTATCGGTAGATGGCGTGTTCCTTTAAGAACATAATTTATGCATTCA
34346153 ACTAGGTTCGACGTCATATGGCCATATCGTAGGCCGCTGTCGTATGCTTGTGCCCACTGTTCGAA
66 ACTAGGTTCGACGTCATATGGCCATATCGTAGGCCGCTGTCGTATGCTTGTGCCCACTGTTCGAA
34346218 ACGTATGTTACAAAGGTAGTCCGCCCCTTCTCCGTTAATTGAACGTAAAATTTCCAACATCTCGT
131 ACGTATGTTACAAAGGTAGTCCGCCCCTTCTCCGTTAATTGAACGTAAAATTTCCAACATCTCGT
34346283 GAAAACGGTATTTATTTATTTCATACCCTGCCAATATAAGATCATAGTGAATAATTTATACCACT
196 GAAAACGGTATTTATTTATTTCATACCCTGCCAATATAAGATCATAGTGAATAATTTATACCACT
34346348 TCTACCAATA
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
260 260 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (260 bp):
CCTCTCGCACAATCGATGTTATCGGTAGATGGCGTGTTCCTTTAAGAACATAATTTATGCATTCA
ACTAGGTTCGACGTCATATGGCCATATCGTAGGCCGCTGTCGTATGCTTGTGCCCACTGTTCGAA
ACGTATGTTACAAAGGTAGTCCGCCCCTTCTCCGTTAATTGAACGTAAAATTTCCAACATCTCGT
GAAAACGGTATTTATTTATTTCATACCCTGCCAATATAAGATCATAGTGAATAATTTATACCACT
Found at i:34357892 original size:18 final size:18
Alignment explanation
Indices: 34357869--34357908 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34357859 TATAATTATA
*
34357869 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
34357887 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
34357905 AAAA
1 AAAA
34357909 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:34358025 original size:30 final size:30
Alignment explanation
Indices: 34357991--34358053 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34357981 ATTTAAAAAG
* *
34357991 CAAATGCCTTTGAAATAATAACAAAATTAA
1 CAAATGCATTTAAAATAATAACAAAATTAA
*
34358021 CAAATGTATTTAAAATAATAACAAAATTAA
1 CAAATGCATTTAAAATAATAACAAAATTAA
34358051 CAA
1 CAA
34358054 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCATTTAAAATAATAACAAAATTAA
Found at i:34380293 original size:62 final size:62
Alignment explanation
Indices: 34380201--34380361 Score: 159
Period size: 61 Copynumber: 2.6 Consensus size: 62
34380191 TACTTTTATC
* * * *
34380201 CAAAATTAGCCCTCTAATATTTAC-ACATTTTATCAATTTGATCT-TAAATATAAAATATTCAA
1 CAAATTTAGCCCTC-AATATTTACAAAATTTTATCAATTTAAT-TATAAATATAAAAAATTCAA
* * * * *
34380263 CACATTTAGCCCTCAATGTTTACAAAATTTT-TCATTTTAATTATAATTTTAAAAAATTCAA
1 CAAATTTAGCCCTCAATATTTACAAAATTTTATCAATTTAATTATAAATATAAAAAATTCAA
* * * *
34380324 TAAATCTGGCCCTCAATATTTACAAAA-TCTATCAATTT
1 CAAATTTAGCCCTCAATATTTACAAAATTTTATCAATTT
34380362 TGTCCTAACT
Statistics
Matches: 80, Mismatches: 16, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
60 3 0.04
61 59 0.74
62 18 0.22
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.40
Consensus pattern (62 bp):
CAAATTTAGCCCTCAATATTTACAAAATTTTATCAATTTAATTATAAATATAAAAAATTCAA
Found at i:34380856 original size:61 final size:63
Alignment explanation
Indices: 34380791--34380921 Score: 151
Period size: 62 Copynumber: 2.1 Consensus size: 63
34380781 ATTGAGGGCC
*
34380791 AAATTTATTGA-ATTTTTTAAAATTAGAATTAAAATGAA-AAATTGTGTAAACATTA-AACGCT
1 AAATTTATTGATATTTTTTAAAATTAGAA-TAAAATGAATAAAATGTGTAAACATTAGAACGCT
* * * * * * *
34380852 AAATTTGTTGATTTTTTTTATATTTAGAATCAAATTAATAAAATGTGTAAACATTAGAAGGCT
1 AAATTTATTGATATTTTTTAAAATTAGAATAAAATGAATAAAATGTGTAAACATTAGAACGCT
*
34380915 AATTTTA
1 AAATTTA
34380922 GATAAAAGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
61 17 0.30
62 30 0.53
63 10 0.18
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (63 bp):
AAATTTATTGATATTTTTTAAAATTAGAATAAAATGAATAAAATGTGTAAACATTAGAACGCT
Found at i:34382513 original size:27 final size:28
Alignment explanation
Indices: 34382461--34382522 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
34382451 GTATATAATA
*
34382461 AAAATATAAAAAATTTATAA-TGTTTTGT
1 AAAA-ATAAAAAATTCATAATTGTTTTGT
* *
34382489 AAAAATAAAAAATTCATAGTTTTTTTGT
1 AAAAATAAAAAATTCATAATTGTTTTGT
34382517 ATAAAA
1 A-AAAA
34382523 AATTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 13 0.45
28 12 0.41
29 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (28 bp):
AAAAATAAAAAATTCATAATTGTTTTGT
Found at i:34389827 original size:42 final size:42
Alignment explanation
Indices: 34389715--34389850 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
34389705 GTTTAACTCC
* * * * *
34389715 TATGAGTTTCCGTTCAACCATAATAGGTTTCCGTTCAGCTCT
1 TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAGCTCT
* *** * * *
34389757 TTTGAGCTTTTTTTTAATCCTTTTGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAGCTCT
* * * *
34389799 TATGAGCTTCCGTTCAACCCTTACGGGTTTTTGTTTAGCACT
1 TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAGCTCT
*
34389841 TATGTGCTTC
1 TATGAGCTTC
34389851 TGTTTAGCCT
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (42 bp):
TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTCAGCTCT
Found at i:34397548 original size:21 final size:21
Alignment explanation
Indices: 34397524--34397564 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34397514 CCATTCAACC
34397524 CTTATGGGTCTT-TGTTTAGCA
1 CTTATGGG-CTTCTGTTTAGCA
*
34397545 CTTATGTGCTTCTGTTTAGC
1 CTTATGGGCTTCTGTTTAGC
34397565 CTTCAGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (21 bp):
CTTATGGGCTTCTGTTTAGCA
Found at i:34397561 original size:63 final size:63
Alignment explanation
Indices: 34397406--34397562 Score: 165
Period size: 63 Copynumber: 2.5 Consensus size: 63
34397396 TCATTTTTAC
* * * * *
34397406 TTTCCGTTTAGCACTCACGAGCTTCTTTTTAACTCCTATGAGTTTTCGTTCAACCCTAATGGG
1 TTTCCGTTTAGCACTTATGAGCTTCTGTTTAACTCCTATGAGTTTCCATTCAACCCTAATGGG
* * * * * *
34397469 TTTCCGTTCAGCTCTTTTGAGCTTTTGTTTAA-TCCTTATGGGTTTCCATTCAACCCTTATGGG
1 TTTCCGTTTAGCACTTATGAGCTTCTGTTTAACTCC-TATGAGTTTCCATTCAACCCTAATGGG
* *
34397532 TCTT-TGTTTAGCACTTATGTGCTTCTGTTTA
1 T-TTCCGTTTAGCACTTATGAGCTTCTGTTTA
34397563 GCCTTCAGGC
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
62 3 0.04
63 70 0.93
64 2 0.03
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (63 bp):
TTTCCGTTTAGCACTTATGAGCTTCTGTTTAACTCCTATGAGTTTCCATTCAACCCTAATGGG
Found at i:34398780 original size:134 final size:134
Alignment explanation
Indices: 34398600--34399133 Score: 879
Period size: 134 Copynumber: 4.0 Consensus size: 134
34398590 ACACGGTCGT
* *
34398600 GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCGGCCTTGTGAACCACA
1 GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCAGCCATGTGAACCACA
* * **
34398665 CGGCCTGGCCACACGGGCGTGTGTCCCTTAAACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
66 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
*
34398730 CTCT
131 CTCC
* * *
34398734 ATGCCTTACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCGGCCATGTGAACCACA
1 GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCAGCCATGTGAACCACA
* * * *
34398799 CGGCCTGGCCACACGGGAGTGTGTCCTTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
66 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
34398864 CTCC
131 CTCC
* * *
34398868 GTGCCTCACATCGAATGCCCACACGGCCTAAGACACGGGCGTGCCTTTTAGCCATGTGAACCACA
1 GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCAGCCATGTGAACCACA
34398933 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
66 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
34398998 CTCC
131 CTCC
* * * *
34399002 GTGCCTCACATCGAATGCCCAGACGGCCTAAGACACGGGCGTGCCTTTTAGCCATGTGAACCACA
1 GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCAGCCATGTGAACCACA
34399067 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
66 CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
34399132 CT
131 CT
34399134 TTGAGTTTTC
Statistics
Matches: 381, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 381 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (134 bp):
GTGCCTCACATCGAATGCCCACACGACCTAAGACACGGGCGTGCCTCTCAGCCATGTGAACCACA
CGGCCTGGCCACAAGGGCGTATGTCCCTTGCACCTAAGGAAAATTTTAAAATTTTGGGAAAAATT
CTCC
Found at i:34401012 original size:24 final size:25
Alignment explanation
Indices: 34400968--34401021 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
34400958 TTCAAATGAT
* *
34400968 TTTTAATTTTATAAGTTATAAAT-A
1 TTTTAATTTCATAAGTAATAAATCA
*
34400992 TTTTAATTTCA-AATGTAATAATTCA
1 TTTTAATTTCATAA-GTAATAAATCA
34401017 TTTTA
1 TTTTA
34401022 CTTTTATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 17 0.68
25 6 0.24
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTAATTTCATAAGTAATAAATCA
Found at i:34401813 original size:21 final size:21
Alignment explanation
Indices: 34401714--34401814 Score: 66
Period size: 21 Copynumber: 4.8 Consensus size: 21
34401704 TAGAATTCCA
* *
34401714 AACCCTAAACCTAAAACAT-T
1 AACCCTAAACCCATAACATGT
*
34401734 AAACCCTAAACTCA-AAC-TCGT
1 -AACCCTAAACCCATAACAT-GT
* **
34401755 AACCCTAAATCTTTAAACCATG-
1 AACCCTAAACCCAT-AA-CATGT
**
34401777 AACCCTAAACAAATAACATGT
1 AACCCTAAACCCATAACATGT
34401798 AACCCTAAACCCATAAC
1 AACCCTAAACCCATAAC
34401815 CATAGACCCT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
19 1 0.02
20 16 0.26
21 29 0.48
22 12 0.20
23 2 0.03
24 1 0.02
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.20
Consensus pattern (21 bp):
AACCCTAAACCCATAACATGT
Found at i:34401881 original size:14 final size:14
Alignment explanation
Indices: 34401862--34401900 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34401852 TAAACATCGG
34401862 GGTTCAAGATTTAA
1 GGTTCAAGATTTAA
* *
34401876 GGTTCAAGGTTCAA
1 GGTTCAAGATTTAA
34401890 -GTTCAAGATTT
1 GGTTCAAGATTT
34401901 GGGGTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (14 bp):
GGTTCAAGATTTAA
Found at i:34403455 original size:13 final size:13
Alignment explanation
Indices: 34403432--34403470 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
34403422 CTGTAATTCC
*
34403432 TGTATCTGTATTT
1 TGTACCTGTATTT
*
34403445 TTTACCTGTATTT
1 TGTACCTGTATTT
*
34403458 TGTATCTGTATTT
1 TGTACCTGTATTT
34403471 GGGATGGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.13, T:0.62
Consensus pattern (13 bp):
TGTACCTGTATTT
Found at i:34409244 original size:208 final size:208
Alignment explanation
Indices: 34408997--34409413 Score: 780
Period size: 208 Copynumber: 2.0 Consensus size: 208
34408987 AGGAAGTCCA
*
34408997 TCCCGTTAGTGAAGGTTCTGTGGCAGAATCATGGCACTGAGGGAGCCACGTGGGAACCTGAGAAC
1 TCCCGTTAGTGAAGGTTCTGTGGCAGAATCATGGCACTGAGGGAGCCACGTGGGAACCCGAGAAC
*
34409062 TCGATGCGTCAGCAGAATCCTCGTCTGTTCTGATCAGGTAAATTTTGAGGTAGAAATTTCTTTTA
66 TCGATGCGTCAGCAGAATCCTCGTCTGTTCTGATCAGGTAAATTTCGAGGTAGAAATTTCTTTTA
34409127 AGGGTAGATTTGTAACACCTTGAATAATTTATTTTTTTCTATAAATATCTAACACAAATGTATAG
131 AGGGTAGATTTGTAACACCTTGAATAATTTATTTTTTTCTATAAATATCTAACACAAATGTATAG
*
34409192 ATGCTTTAGTGGT
196 ATGCTTCAGTGGT
*
34409205 TCCCGTTAGTGAAGGTTCTGTGGCAGAATCATGGCACTGAGGGAGCCACGTGGGAACCCGAGGAC
1 TCCCGTTAGTGAAGGTTCTGTGGCAGAATCATGGCACTGAGGGAGCCACGTGGGAACCCGAGAAC
34409270 TCGATGCGTCAGCAGAATCCTCGTCTGTTCTGATCAGGTAAATTTCGAGGTAGAAATTTCTTTTA
66 TCGATGCGTCAGCAGAATCCTCGTCTGTTCTGATCAGGTAAATTTCGAGGTAGAAATTTCTTTTA
* *
34409335 AGGGTAGATTTGTAACACCTTGAATAATTTATTTTTTTCTGTAAATATCTAACACAAATGTATAT
131 AGGGTAGATTTGTAACACCTTGAATAATTTATTTTTTTCTATAAATATCTAACACAAATGTATAG
34409400 ATGCTTCAGTGGT
196 ATGCTTCAGTGGT
34409413 T
1 T
34409414 AAGTGTTCTA
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 203 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (208 bp):
TCCCGTTAGTGAAGGTTCTGTGGCAGAATCATGGCACTGAGGGAGCCACGTGGGAACCCGAGAAC
TCGATGCGTCAGCAGAATCCTCGTCTGTTCTGATCAGGTAAATTTCGAGGTAGAAATTTCTTTTA
AGGGTAGATTTGTAACACCTTGAATAATTTATTTTTTTCTATAAATATCTAACACAAATGTATAG
ATGCTTCAGTGGT
Found at i:34411900 original size:7 final size:7
Alignment explanation
Indices: 34411888--34411941 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
34411878 GTAGTAGTAC
34411888 ATTATAT
1 ATTATAT
34411895 ATTATAT
1 ATTATAT
34411902 ATTATAT
1 ATTATAT
34411909 ATTATAT
1 ATTATAT
34411916 ATTATAT
1 ATTATAT
34411923 ATTATAT
1 ATTATAT
34411930 ATTATAT
1 ATTATAT
34411937 ATTAT
1 ATTAT
34411942 TATACTACTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:34412034 original size:5 final size:5
Alignment explanation
Indices: 34412026--34412059 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
34412016 ATATAACCCT
34412026 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
34412060 ATTAATAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:34412198 original size:30 final size:29
Alignment explanation
Indices: 34412134--34412225 Score: 88
Period size: 30 Copynumber: 3.3 Consensus size: 29
34412124 TATTATAACC
34412134 TATATTATTATAATAGTTATATATGTATT
1 TATATTATTATAATAGTTATATATGTATT
* * *
34412163 AATATTTTTAGTAATAGTTATATGT-TATAT
1 TATATTATTA-TAATAGTTATATATGTAT-T
*
34412193 TATATTA-T-TAATAG-TATTTAT-TATT
1 TATATTATTATAATAGTTATATATGTATT
34412218 T-TATTATT
1 TATATTATT
34412226 TTATGTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 5 0.09
25 3 0.06
26 8 0.15
27 6 0.11
29 12 0.23
30 19 0.36
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TATATTATTATAATAGTTATATATGTATT
Found at i:34415784 original size:25 final size:28
Alignment explanation
Indices: 34415747--34415803 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
34415737 GCCCAGTAAA
*
34415747 CTAAACCCTATTAA-CCTAGCC-CAAAC
1 CTAAACCCTATTAAGCCTAGCCAAAAAC
34415773 CTAAACCC-ATTAAGCCTAGCCAAAAAC
1 CTAAACCCTATTAAGCCTAGCCAAAAAC
34415800 CTAA
1 CTAA
34415804 CTTAGCCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 5 0.18
26 15 0.54
27 8 0.29
ACGTcount: A:0.42, C:0.35, G:0.05, T:0.18
Consensus pattern (28 bp):
CTAAACCCTATTAAGCCTAGCCAAAAAC
Found at i:34417215 original size:24 final size:23
Alignment explanation
Indices: 34417158--34417248 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 23
34417148 TTTCATCATG
* *
34417158 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
*
34417183 TATTGTGTATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
34417207 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
34417231 TA-TACTGTATTATTATTT
1 TATTA-TGTATTATTATTT
34417249 TTTATTTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 10 0.18
24 37 0.65
25 10 0.18
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:34423580 original size:129 final size:129
Alignment explanation
Indices: 34423350--34423607 Score: 417
Period size: 129 Copynumber: 2.0 Consensus size: 129
34423340 GTAAATATAG
* * * * *
34423350 CAGATCTTGTCTCCCTAAGTAGTAGCGGAGCGGATCGAAGACGGTGAATCTTATCTTCAAGTGTA
1 CAGATATTGTCTCCCTAAGCAGTAACAGAGCGGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* * *
34423415 AGGAAGCATATTTAAGCCATAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTCGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTCGGGAAATTA
*
34423479 CAGATATTGTCTTCCTAAGCAGTAACAGAGCGGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATATTGTCTCCCTAAGCAGTAACAGAGCGGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
* *
34423544 ATGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTCGGGAAATTA
34423608 GGTCTTATCT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 118 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (129 bp):
CAGATATTGTCTCCCTAAGCAGTAACAGAGCGGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAGCAGTAGAATAGGTCGGGAAATTA
Found at i:34423655 original size:44 final size:43
Alignment explanation
Indices: 34423610--34424253 Score: 195
Period size: 44 Copynumber: 14.8 Consensus size: 43
34423600 GGAAATTAGG
**
34423610 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAGTAAGCAGG
1 TCTTATCTCCCTAA-GTTGCAGTGGAGCAGATTGAGTAAGCAAA
* * *
34423654 TCTTATCCCCCTGAAGTTGCAGTGG-GACAGATCGAAG-ATGGCAAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAG-CAGATTG-AGTA-AGCAAA
*
34423699 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT--G-AAGCCGATAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAGTAAG-C-A-AA
* * * * *
34423743 TCCTATAT--CTGAAGTTGTAGTGGAGCAGATTAAAGTAA-TAAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATT-GAGTAAGCAAA
* * ** * * **
34423785 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGA-TCA-T-ATCAGG
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAGTAAGCAAA
* * * **
34423826 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGG
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAGTAAGCAAA
* * * * *
34423870 TCTTATCCCTCCAAAGTTACAGTGG-GACAGATCGAAG-ATGGCAAA
1 TCTTATCTC-CCTAAGTTGCAGTGGAG-CAGATTG-AGTA-AGCAAA
* *
34423915 TCTTATCTCTCTGAGGTTGCAGTGGAGCAGA-TG-G-AAGCCGATAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAGTAAG-C-A-AA
* * * * *
34423959 TCCTATCTCCCTGAAGCTGCAGTGGAGCGGATTAAAGTAA-TAAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATT-GAGTAAGCAAA
* * ** * **
34424003 TCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-T---CAGG
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTG-AGTAAGCAAA
* * * * * *
34424044 TCTTATCTCCCTGAGGTTGTAGTGGAGCAGACTGAGAAAACAAG
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTGAGTAAGCAAA
* ** * **
34424088 TCTTATCCCCCTGAAGTCACAGTGGGGCAGACCGAAG-AAGCAAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTG-AGTAAGCAAA
* * *
34424132 TCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGT-CG-ATAA
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTG-AGTAAGCA-AA
* * * * * *
34424176 TCCTATCTCCCAGAAGTTGTAGTGGAGCAGATTAAAGTAA-TAGA
1 TCTTATCTCCC-TAAGTTGCAGTGGAGCAGATT-GAGTAAGCAAA
* * * *
34424220 TCTTATCTCTCTGATGTTGCAGTAGAGTAGATTG
1 TCTTATCTCCCT-AAGTTGCAGTGGAGCAGATTG
34424254 CATCAAGTCT
Statistics
Matches: 446, Mismatches: 110, Indels: 89
0.69 0.17 0.14
Matches are distributed among these distances:
40 2 0.00
41 56 0.13
42 38 0.09
43 9 0.02
44 264 0.59
45 70 0.16
46 4 0.01
47 1 0.00
48 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTAAGTTGCAGTGGAGCAGATTGAGTAAGCAAA
Found at i:34423718 original size:45 final size:45
Alignment explanation
Indices: 34423610--34424156 Score: 201
Period size: 44 Copynumber: 12.6 Consensus size: 45
34423600 GGAAATTAGG
* * **
34423610 TCTTATCTCCCTAAGGTTGCAGT-GGAGCAGATTGAGTAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCGAGTAAGCAAA
* * *
34423654 TCTTATCCCCCTGAAGTTGCAGTGGGA-CAGATCGAAG-ATGGCAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCG-AGTA-AGCAAA
*
34423699 TCTTATCTCCCTGAGGTTGCAGT-GGAGCAGAT--TG-AAGCCGATAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCGAGTAAG-C-A-AA
* * * * ** *
34423743 TCCTATAT--CTGAAGTTGTAGT-GGAGCAGATTAAAGTAA-TAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGA-TCGAGTAAGCAAA
* * * ** * **
34423785 TCTTATCTCTCTGAAGTTGCAGT-AGAGTGGATC-A-T-ATCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCGAGTAAGCAAA
* **
34423826 TCTTATCTCCCTGAGGTTGCAG-CGGAGCAGA-CTGAGTAAGCAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATC-GAGTAAGCAAA
** * * *
34423870 TCTTATC-CCTCCAAAGTTACAGTGGGA-CAGATCGAAG-ATGGCAAA
1 TCTTATCTCC-CTGAGGTTGCAGTGGGAGCAGATCG-AGTA-AGCAAA
*
34423915 TCTTATCTCTCTGAGGTTGCAGT-GGAGCAGAT-G-G-AAGCCGATAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCGAGTAAG-C-A-AA
* * * * ** *
34423959 TCCTATCTCCCTGAAGCTGCAGT-GGAGCGGATTAAAGTAA-TAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGA-TCGAGTAAGCAAA
* * * ** **
34424003 TCTTATCTCTCTGAAGTTGCAGT-AGAGTGGATCGCA-T---CAGG
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCG-AGTAAGCAAA
* * * *
34424044 TCTTATCTCCCTGAGGTTGTAGT-GGAGCAGA-CTGAGAAAACAAG
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATC-GAGTAAGCAAA
* * ** *
34424088 TCTTATCCCCCTGAAGTCACAGTGGG-GCAGACCGAAG-AAGCAAA
1 TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCG-AGTAAGCAAA
34424132 TCTTATCTCCCTGAGGTTGCAGTGG
1 TCTTATCTCCCTGAGGTTGCAGTGG
34424157 AGTAGATTGA
Statistics
Matches: 378, Mismatches: 83, Indels: 84
0.69 0.15 0.15
Matches are distributed among these distances:
40 4 0.01
41 56 0.15
42 35 0.09
43 10 0.03
44 195 0.52
45 72 0.19
46 3 0.01
47 1 0.00
48 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTGCAGTGGGAGCAGATCGAGTAAGCAAA
Found at i:34424093 original size:218 final size:218
Alignment explanation
Indices: 34423607--34424264 Score: 1018
Period size: 218 Copynumber: 3.0 Consensus size: 218
34423597 TTGGGAAATT
* *
34423607 AGGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAGTAAGCAGGTCTTATCCCCCTGAAGTT
1 AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTT
*
34423672 GCAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGC
66 ACAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGC
*
34423737 CGATAATCCTATAT--CTGAAGTTGTAGTGGAGCAGATTAAAGTAATAAATCTTATCTCTCTGAA
131 CGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAAATCTTATCTCTCTGAA
**
34423800 GTTGCAGTAGAGTGGATCATATC
196 GTTGCAGTAGAGTGGATCGCATC
* *
34423823 AGGTCTTATCTCCCTGAGGTTGCAGCGGAGCAGACTGAGTAAGCAGGTCTTATCCCTCC-AAAGT
1 AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCC-CCTGAAGT
* *
34423887 TACAGTGGGACAGATCGAAGATGGCAAATCTTATCTCTCTGAGGTTGCAGTGGAGCAGATGGAAG
65 TACAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAG
* * *
34423952 CCGATAATCCTATCTCCCTGAAGCTGCAGTGGAGCGGATTAAAGTAATAAATCTTATCTCTCTGA
130 CCGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAAATCTTATCTCTCTGA
34424017 AGTTGCAGTAGAGTGGATCGCATC
195 AGTTGCAGTAGAGTGGATCGCATC
* * * * *
34424041 AGGTCTTATCTCCCTGAGGTTGTAGTGGAGCAGACTGAGAAAACAAGTCTTATCCCCCTGAAGTC
1 AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTT
* * * * *
34424106 ACAGTGGGGCAGACCGAAGA-AGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATTGAAGT
66 ACAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGC
* * *
34424170 CGATAATCCTATCTCCCAGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTCTCTGAT
131 CGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAAATCTTATCTCTCTGAA
* *
34424235 GTTGCAGTAGAGTAGATTGCATC
196 GTTGCAGTAGAGTGGATCGCATC
*
34424258 AAGTCTT
1 AGGTCTT
34424265 GCCGACTAGA
Statistics
Matches: 402, Mismatches: 36, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
216 133 0.33
217 129 0.32
218 140 0.35
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (218 bp):
AGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAGTAAGCAGGTCTTATCCCCCTGAAGTT
ACAGTGGGACAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGC
CGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAAATCTTATCTCTCTGAA
GTTGCAGTAGAGTGGATCGCATC
Found at i:34425189 original size:20 final size:21
Alignment explanation
Indices: 34425166--34425207 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
34425156 GGTGATTCAA
* *
34425166 TCTTTTTTTCTTC-GATTTTT
1 TCTTTCTTTCTCCAGATTTTT
34425186 TCTTTCTTTCTCCAGATTTTT
1 TCTTTCTTTCTCCAGATTTTT
34425207 T
1 T
34425208 TATTTTCTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.07, C:0.19, G:0.05, T:0.69
Consensus pattern (21 bp):
TCTTTCTTTCTCCAGATTTTT
Found at i:34426109 original size:24 final size:23
Alignment explanation
Indices: 34426052--34426142 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 23
34426042 TTTCATCATG
* *
34426052 TATTATGTATTCATATTTTTGAAAT
1 TATTATGTATT-AT-TATTTAAAAT
*
34426077 TATTGTGTATTATTATTCTAAAAT
1 TATTATGTATTATTATT-TAAAAT
*
34426101 TATTATGTATTATTACTTAAAAGT
1 TATTATGTATTATTATTTAAAA-T
34426125 TA-TACTGTATTATTATTT
1 TATTA-TGTATTATTATTT
34426143 TTTATTTGTC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
23 10 0.18
24 37 0.65
25 10 0.18
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (23 bp):
TATTATGTATTATTATTTAAAAT
Found at i:34429390 original size:33 final size:33
Alignment explanation
Indices: 34429352--34429418 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
34429342 ATGTGGTTCC
34429352 ATGGTGAGAAGATGAAGGATGTCACCATAATGG
1 ATGGTGAGAAGATGAAGGATGTCACCATAATGG
*
34429385 ATGGTGAGAAGATGAAGGATGTCACCATAGTGG
1 ATGGTGAGAAGATGAAGGATGTCACCATAATGG
34429418 A
1 A
34429419 AAATATTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.34, T:0.21
Consensus pattern (33 bp):
ATGGTGAGAAGATGAAGGATGTCACCATAATGG
Found at i:34437592 original size:116 final size:116
Alignment explanation
Indices: 34437388--34437622 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 116
34437378 CAAATTGTTC
* * *
34437388 AATCATGTGACAGAAAAGGTCGTGATTAGCTGAGATGATGTGTTTGATGAAGAGAACACTTGGGA
1 AATCATGTGACAAAAAAGGTCGTGATTAGCTGAGACGATGTGCTTGATGAAGAGAACACTTGGGA
34437453 TTGGGATGAAGCACAACCTACTCAAGTCCTTTGTGATAATGAAGTTAAAGA
66 TTGGGATGAAGCACAACCTACTCAAGTCCTTTGTGATAATGAAGTTAAAGA
34437504 AATCATGTGACAAAAAAGGTCGTGATTAGCTGAGACGATGTGCTTGATGAAGAGAACACTTGGGA
1 AATCATGTGACAAAAAAGGTCGTGATTAGCTGAGACGATGTGCTTGATGAAGAGAACACTTGGGA
34437569 TTGGGATGAAGCACAACCTACTCAAGTCCTTTGTGATAATGAAGTTAAAGA
66 TTGGGATGAAGCACAACCTACTCAAGTCCTTTGTGATAATGAAGTTAAAGA
34437620 AAT
1 AAT
34437623 ACCTGAGAAT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (116 bp):
AATCATGTGACAAAAAAGGTCGTGATTAGCTGAGACGATGTGCTTGATGAAGAGAACACTTGGGA
TTGGGATGAAGCACAACCTACTCAAGTCCTTTGTGATAATGAAGTTAAAGA
Found at i:34441248 original size:12 final size:12
Alignment explanation
Indices: 34441231--34441260 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34441221 TGCAAACAAA
34441231 TTTTAACTATTC
1 TTTTAACTATTC
*
34441243 TTTTAACTATTT
1 TTTTAACTATTC
34441255 TTTTAA
1 TTTTAA
34441261 AAAAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTAACTATTC
Found at i:34441930 original size:55 final size:55
Alignment explanation
Indices: 34441827--34441939 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 55
34441817 TTATAAGATA
* * * * *
34441827 TATCATATTTATAAATAAAAATTTTAATTTTATTAAATAATTAGTTAAAAAAATT
1 TATCATACTTATAAATAAAAATTATAATTCTATAAAAAAATTAGTTAAAAAAATT
* * * *
34441882 TATCATACTTCTAAATAAAAATTATGATTCTATAAAAAAAATTA-TTAAATATATT
1 TATCATACTTATAAATAAAAATTATAATTCTAT-AAAAAAATTAGTTAAAAAAATT
34441937 TAT
1 TAT
34441940 ATAATGAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
55 40 0.83
56 8 0.17
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (55 bp):
TATCATACTTATAAATAAAAATTATAATTCTATAAAAAAATTAGTTAAAAAAATT
Found at i:34447017 original size:13 final size:13
Alignment explanation
Indices: 34447001--34447043 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
34446991 GCTATTTTTT
34447001 CTAAATATTATCA
1 CTAAATATTATCA
34447014 CTAAATA--ATC-
1 CTAAATATTATCA
34447024 CTAAATATTATCA
1 CTAAATATTATCA
34447037 CTAAATA
1 CTAAATA
34447044 ATTCAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:34447031 original size:23 final size:23
Alignment explanation
Indices: 34447001--34447045 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
34446991 GCTATTTTTT
34447001 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATC
34447024 CTAAATATTATCACTAAATAAT
1 CTAAATATTATCACTAAATAAT
34447046 TCAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATC
Found at i:34448995 original size:3 final size:3
Alignment explanation
Indices: 34448975--34449010 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
34448965 AAAATAAAAC
*
34448975 TAA TAAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34449011 TCAAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34449736 original size:10 final size:10
Alignment explanation
Indices: 34449702--34449735 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
34449692 TTCGAGGGGG
34449702 AAAAATAAAT
1 AAAAATAAAT
34449712 AAAAATAAAT
1 AAAAATAAAT
*
34449722 AAAAACAAA-
1 AAAAATAAAT
34449731 AAAAA
1 AAAAA
34449736 AAGATCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:34450153 original size:27 final size:28
Alignment explanation
Indices: 34450105--34450159 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
34450095 GTTTTGGGTC
*
34450105 TGTTGGGTATTTGGGCTTGGTT-TAATT
1 TGTTGGGTACTTGGGCTTGGTTGTAATT
*
34450132 TGTTGGGT-CTTGGGTTTGGGTTGTAATT
1 TGTTGGGTACTTGGGCTT-GGTTGTAATT
34450160 GGGTTTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.09, C:0.04, G:0.36, T:0.51
Consensus pattern (28 bp):
TGTTGGGTACTTGGGCTTGGTTGTAATT
Found at i:34459011 original size:31 final size:31
Alignment explanation
Indices: 34458973--34459035 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
34458963 TCGTTTTTTT
34458973 TAACCCAATATTTATATTGTAAATACACAAA
1 TAACCCAATATTTATATTGTAAATACACAAA
34459004 TAACCCAATATTTATATTGTAAATACACAAA
1 TAACCCAATATTTATATTGTAAATACACAAA
34459035 T
1 T
34459036 GACTAACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (31 bp):
TAACCCAATATTTATATTGTAAATACACAAA
Found at i:34463075 original size:14 final size:14
Alignment explanation
Indices: 34463039--34463077 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
34463029 TTTATTCTAA
*
34463039 TCTCTCATTTTTTT
1 TCTCTCAATTTTTT
*
34463053 TCT-TAAATTTTTT
1 TCTCTCAATTTTTT
34463066 TCTCTCAATTTT
1 TCTCTCAATTTT
34463078 CTATATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTCTCAATTTTTT
Found at i:34463456 original size:52 final size:53
Alignment explanation
Indices: 34463385--34463502 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 53
34463375 AATATTTTTA
* * *
34463385 TTTTA-GTTAATATCATTATTAAGTTGTTAAT-ATTATTAT-ATTTTTTAAAAT
1 TTTTATGTTTATATCATTATTAAGTTGTTAATAATAATAATAATTTTTT-AAAT
* *
34463436 TTTTATGTTTATATCCTTATTAAGTTGTTAATAATAATAATAATTTTTTAATT
1 TTTTATGTTTATATCATTATTAAGTTGTTAATAATAATAATAATTTTTTAAAT
34463489 TTTTATGTTTATAT
1 TTTTATGTTTATAT
34463503 AACTAGGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 5 0.08
52 24 0.41
53 23 0.39
54 7 0.12
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (53 bp):
TTTTATGTTTATATCATTATTAAGTTGTTAATAATAATAATAATTTTTTAAAT
Found at i:34466540 original size:24 final size:24
Alignment explanation
Indices: 34466457--34466629 Score: 134
Period size: 24 Copynumber: 7.0 Consensus size: 24
34466447 CTTATGAACG
* *
34466457 TCTCGATATATGGCTCTTCGTGAGCT
1 TCTCGTTA-ATGGCTCTCCG-GAGCT
* *** *
34466483 TCTCGATTAAAGGCTCTTTATGACCT
1 TCTCG-TTAATGGCTC-TCCGGAGCT
*
34466509 TCTCGTTAATGGCTCTCTGGAGCT
1 TCTCGTTAATGGCTCTCCGGAGCT
* *
34466533 TC-CTGTTAATGGATCTCCAGAGCT
1 TCTC-GTTAATGGCTCTCCGGAGCT
* * **
34466557 TCTCGATATTGGCTCGT-ATGAGCT
1 TCTCGTTAATGGCTC-TCCGGAGCT
34466581 TCTCGTTAATGGCTCTCCGGAGCT
1 TCTCGTTAATGGCTCTCCGGAGCT
* *
34466605 TCCCGTTAATGGCTCTCCAGAGCT
1 TCTCGTTAATGGCTCTCCGGAGCT
34466629 T
1 T
34466630 TCCGTTTATG
Statistics
Matches: 117, Mismatches: 24, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
23 2 0.02
24 80 0.68
25 11 0.09
26 20 0.17
27 4 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
TCTCGTTAATGGCTCTCCGGAGCT
Found at i:34466585 original size:72 final size:74
Alignment explanation
Indices: 34466478--34466629 Score: 227
Period size: 72 Copynumber: 2.1 Consensus size: 74
34466468 GGCTCTTCGT
* * *
34466478 GAGCTTCTCGATTAAAGGCTCTTTATGACCTTCTCGTTAATGGCTCTCTGGAGCTTCCTGTTAAT
1 GAGCTTCTCGATTAAAGGCTCTGTATGACCTTCTCGTTAATGGCTCTCCGGAGCTTCCCGTTAAT
34466543 GGATCTCCA
66 GGATCTCCA
** *
34466552 GAGCTTCTCGA-TATTGGCTC-GTATGAGCTTCTCGTTAATGGCTCTCCGGAGCTTCCCGTTAAT
1 GAGCTTCTCGATTAAAGGCTCTGTATGACCTTCTCGTTAATGGCTCTCCGGAGCTTCCCGTTAAT
*
34466615 GGCTCTCCA
66 GGATCTCCA
34466624 GAGCTT
1 GAGCTT
34466630 TCCGTTTATG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
72 53 0.75
73 7 0.10
74 11 0.15
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (74 bp):
GAGCTTCTCGATTAAAGGCTCTGTATGACCTTCTCGTTAATGGCTCTCCGGAGCTTCCCGTTAAT
GGATCTCCA
Found at i:34469763 original size:16 final size:16
Alignment explanation
Indices: 34469742--34469789 Score: 96
Period size: 16 Copynumber: 3.0 Consensus size: 16
34469732 ATTAGCTTGC
34469742 TATGGTGGTCATAACT
1 TATGGTGGTCATAACT
34469758 TATGGTGGTCATAACT
1 TATGGTGGTCATAACT
34469774 TATGGTGGTCATAACT
1 TATGGTGGTCATAACT
34469790 AATTCTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (16 bp):
TATGGTGGTCATAACT
Found at i:34476889 original size:21 final size:22
Alignment explanation
Indices: 34476865--34476916 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 22
34476855 ATATGGACAT
34476865 TTTTTTTAAAAAA-AGTATG-AA
1 TTTTTTTAAAAAATA-TATGTAA
34476886 -TTTTTTAAAAAATTATATGTAA
1 TTTTTTTAAAAAA-TATATGTAA
34476908 TTTTTTTAA
1 TTTTTTTAA
34476917 CTTTTATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 12 0.44
21 4 0.15
22 3 0.11
23 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
TTTTTTTAAAAAATATATGTAA
Found at i:34493023 original size:26 final size:26
Alignment explanation
Indices: 34492977--34493048 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
34492967 TCTTATCTCA
*
34492977 ATTTTACTCT-AGTAAAATTTTAACG
1 ATTTTACTCTCGGTAAAATTTTAACG
* *
34493002 ATTTTACTCTCGGTAAAATTTTGATG
1 ATTTTACTCTCGGTAAAATTTTAACG
* * *
34493028 ATTTTACCCCCGCTAAAATTT
1 ATTTTACTCTCGGTAAAATTT
34493049 CAAGAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTTACTCTCGGTAAAATTTTAACG
Found at i:34495583 original size:34 final size:35
Alignment explanation
Indices: 34495529--34495619 Score: 125
Period size: 34 Copynumber: 2.6 Consensus size: 35
34495519 CATATTTGCA
*
34495529 CATATATATTCATTTCAATTCAAATAATCAATATATT
1 CATATATA-T-ATATCAATTCAAATAATCAATATATT
34495566 CAT-TATATATATCAATTC--ATAATCAATATATT
1 CATATATATATATCAATTCAAATAATCAATATATT
34495598 CATAATATATATATCAATTCAA
1 CAT-ATATATATATCAATTCAA
34495620 TCCATCCAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
32 17 0.35
34 24 0.49
35 1 0.02
36 4 0.08
37 3 0.06
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (35 bp):
CATATATATATATCAATTCAAATAATCAATATATT
Found at i:34495600 original size:15 final size:15
Alignment explanation
Indices: 34495552--34495603 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
34495542 TTCAATTCAA
34495552 ATAATCAATATATTC
1 ATAATCAATATATTC
*
34495567 ATTAT-ATATATCAATTC
1 ATAATCA-ATAT--ATTC
34495584 ATAATCAATATATTC
1 ATAATCAATATATTC
34495599 ATAAT
1 ATAAT
34495604 ATATATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
17 12 0.39
18 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATCAATATATTC
Found at i:34495609 original size:15 final size:15
Alignment explanation
Indices: 34495559--34495611 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 15
34495549 CAAATAATCA
*
34495559 ATATATTCATTATAT
1 ATATATTCATAATAT
34495574 ATATCAATTCATAATCA-
1 ATAT--ATTCATAAT-AT
34495591 ATATATTCATAATAT
1 ATATATTCATAATAT
34495606 ATATAT
1 ATATAT
34495612 CAATTCAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.03
15 19 0.58
17 12 0.36
18 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATTCATAATAT
Found at i:34498147 original size:25 final size:25
Alignment explanation
Indices: 34497995--34498148 Score: 93
Period size: 24 Copynumber: 6.2 Consensus size: 25
34497985 GAGCGTCTTG
34497995 TTATACGGCTCTTTGTGAGCTTCCCGA
1 TTATA-GGCTCTTTGTGAGCTTCCC-A
* * *
34498022 TTAAAGGCTTTTTGTGAGCTTCCCG
1 TTATAGGCTCTTTGTGAGCTTCCCA
* ** *
34498047 TTAT-TGCTCGCT-TGAACTTCCCA
1 TTATAGGCTCTTTGTGAGCTTCCCA
* * * * *
34498070 TTATATGGCTATTCG-GTGCTACCCG
1 TTATA-GGCTCTTTGTGAGCTTCCCA
* * **
34498095 TTA-AGTGCTCTTCG-GAGCTACCTG
1 TTATAG-GCTCTTTGTGAGCTTCCCA
34498119 TTATAGGCTCTTTGTGAGCTTCCCA
1 TTATAGGCTCTTTGTGAGCTTCCCA
34498144 TTATA
1 TTATA
34498149 TTGCCTGGAT
Statistics
Matches: 95, Mismatches: 26, Indels: 14
0.70 0.19 0.10
Matches are distributed among these distances:
23 14 0.15
24 30 0.32
25 29 0.31
26 18 0.19
27 4 0.04
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
TTATAGGCTCTTTGTGAGCTTCCCA
Found at i:34503338 original size:23 final size:23
Alignment explanation
Indices: 34503309--34503370 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
34503299 TGCTTGATAA
* *
34503309 GACACATGAGGTGCCTAAAATAC
1 GACACATAAAGTGCCTAAAATAC
* * *
34503332 GACACATAAAGTGCCTGATATGC
1 GACACATAAAGTGCCTAAAATAC
34503355 GACACATAAAGTGCCT
1 GACACATAAAGTGCCT
34503371 GATCGGCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
GACACATAAAGTGCCTAAAATAC
Found at i:34504879 original size:439 final size:439
Alignment explanation
Indices: 34504061--34504940 Score: 1760
Period size: 439 Copynumber: 2.0 Consensus size: 439
34504051 ACAATTTGTT
34504061 AAACATGAATCATGTTCAAAAATCTAAAAACTTTCAACATTTTAACTTACATTCAACAAAACTTT
1 AAACATGAATCATGTTCAAAAATCTAAAAACTTTCAACATTTTAACTTACATTCAACAAAACTTT
34504126 GTTCTAAGACTTCTAAAACATCAAAATTAAAAGAAAAGGACTTGATTGACTTACCAAATTAAAGC
66 GTTCTAAGACTTCTAAAACATCAAAATTAAAAGAAAAGGACTTGATTGACTTACCAAATTAAAGC
34504191 TTAAAGCTTCAAACCCTAGTTTTTCATTTTATTTTTCTTTTTCCATTTTTCCTTTCTCCTGCTCT
131 TTAAAGCTTCAAACCCTAGTTTTTCATTTTATTTTTCTTTTTCCATTTTTCCTTTCTCCTGCTCT
34504256 ATTTCGAAATGCTCTCTGCTTCTTTCTCTTTTCTTTTTTTTTGTTTCGTTTTATTTCTTTACTTT
196 ATTTCGAAATGCTCTCTGCTTCTTTCTCTTTTCTTTTTTTTTGTTTCGTTTTATTTCTTTACTTT
34504321 ATATTATAATAATATAAGTTAAAACCACTTTTTTTAAATTTGAAAAATGGGGATCGACTTTAAAA
261 ATATTATAATAATATAAGTTAAAACCACTTTTTTTAAATTTGAAAAATGGGGATCGACTTTAAAA
34504386 ATAAAATGGGGAGTCGCCACCGATCTTTTATTAAGGTGTGATCGAGTCACCTTGAAGATAATTTT
326 ATAAAATGGGGAGTCGCCACCGATCTTTTATTAAGGTGTGATCGAGTCACCTTGAAGATAATTTT
34504451 GGTCTGCGAAATTTGAGAAAATAGGTTCGGGAGTCGGTTACGCACGAGG
391 GGTCTGCGAAATTTGAGAAAATAGGTTCGGGAGTCGGTTACGCACGAGG
34504500 AAACATGAATCATGTTCAAAAATCTAAAAACTTTCAACATTTTAACTTACATTCAACAAAACTTT
1 AAACATGAATCATGTTCAAAAATCTAAAAACTTTCAACATTTTAACTTACATTCAACAAAACTTT
34504565 GTTCTAAGACTTCTAAAACATCAAAATTAAAAGAAAAGGACTTGATTGACTTACCAAATTAAAGC
66 GTTCTAAGACTTCTAAAACATCAAAATTAAAAGAAAAGGACTTGATTGACTTACCAAATTAAAGC
34504630 TTAAAGCTTCAAACCCTAGTTTTTCATTTTATTTTTCTTTTTCCATTTTTCCTTTCTCCTGCTCT
131 TTAAAGCTTCAAACCCTAGTTTTTCATTTTATTTTTCTTTTTCCATTTTTCCTTTCTCCTGCTCT
34504695 ATTTCGAAATGCTCTCTGCTTCTTTCTCTTTTCTTTTTTTTTGTTTCGTTTTATTTCTTTACTTT
196 ATTTCGAAATGCTCTCTGCTTCTTTCTCTTTTCTTTTTTTTTGTTTCGTTTTATTTCTTTACTTT
34504760 ATATTATAATAATATAAGTTAAAACCACTTTTTTTAAATTTGAAAAATGGGGATCGACTTTAAAA
261 ATATTATAATAATATAAGTTAAAACCACTTTTTTTAAATTTGAAAAATGGGGATCGACTTTAAAA
34504825 ATAAAATGGGGAGTCGCCACCGATCTTTTATTAAGGTGTGATCGAGTCACCTTGAAGATAATTTT
326 ATAAAATGGGGAGTCGCCACCGATCTTTTATTAAGGTGTGATCGAGTCACCTTGAAGATAATTTT
34504890 GGTCTGCGAAATTTGAGAAAATAGGTTCGGGAGTCGGTTACGCACGAGG
391 GGTCTGCGAAATTTGAGAAAATAGGTTCGGGAGTCGGTTACGCACGAGG
34504939 AA
1 AA
34504941 GGATTAGCAC
Statistics
Matches: 441, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
439 441 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.39
Consensus pattern (439 bp):
AAACATGAATCATGTTCAAAAATCTAAAAACTTTCAACATTTTAACTTACATTCAACAAAACTTT
GTTCTAAGACTTCTAAAACATCAAAATTAAAAGAAAAGGACTTGATTGACTTACCAAATTAAAGC
TTAAAGCTTCAAACCCTAGTTTTTCATTTTATTTTTCTTTTTCCATTTTTCCTTTCTCCTGCTCT
ATTTCGAAATGCTCTCTGCTTCTTTCTCTTTTCTTTTTTTTTGTTTCGTTTTATTTCTTTACTTT
ATATTATAATAATATAAGTTAAAACCACTTTTTTTAAATTTGAAAAATGGGGATCGACTTTAAAA
ATAAAATGGGGAGTCGCCACCGATCTTTTATTAAGGTGTGATCGAGTCACCTTGAAGATAATTTT
GGTCTGCGAAATTTGAGAAAATAGGTTCGGGAGTCGGTTACGCACGAGG
Found at i:34508480 original size:13 final size:12
Alignment explanation
Indices: 34508430--34508485 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
34508420 TAATTTATTC
34508430 TATAATATAATAA
1 TATAA-ATAATAA
*
34508443 TAAAAATAATAA
1 TATAAATAATAA
*
34508455 TATAAACAATAA
1 TATAAATAATAA
*
34508467 TAGTAATTAATAA
1 TA-TAAATAATAA
34508480 TTATAA
1 -TATAA
34508486 CAATAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 19 0.53
13 15 0.42
14 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (12 bp):
TATAAATAATAA
Found at i:34510199 original size:30 final size:29
Alignment explanation
Indices: 34510144--34510207 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
34510134 TTTTTCAATT
* *
34510144 TCTTTTTCACTCTCAAATTTCTTTTCGTTC
1 TCTTTTTCAATCTCAAATCTCTTTTC-TTC
*
34510174 TCTTTTTCAATCTC-AATCTCATTTTCTTT
1 TCTTTTTCAATCTCAAATCTC-TTTTCTTC
34510203 TCTTT
1 TCTTT
34510208 GTTTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (29 bp):
TCTTTTTCAATCTCAAATCTCTTTTCTTC
Found at i:34510222 original size:19 final size:20
Alignment explanation
Indices: 34510198--34510238 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
34510188 AATCTCATTT
34510198 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
34510217 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
34510237 TC
1 TC
34510239 AATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:34515229 original size:3 final size:3
Alignment explanation
Indices: 34515221--34515247 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34515211 CCATAATTCA
34515221 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
34515248 GGAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34517223 original size:16 final size:16
Alignment explanation
Indices: 34517194--34517230 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
34517184 CTCGTAATAT
34517194 AATAACTCATATTACTA
1 AATAACTCATATTAC-A
34517211 AATAACT-ATATTACA
1 AATAACTCATATTACA
34517226 AATAA
1 AATAA
34517231 TTGCATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 7 0.35
17 7 0.35
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAACTCATATTACA
Found at i:34517907 original size:44 final size:44
Alignment explanation
Indices: 34517754--34517959 Score: 199
Period size: 43 Copynumber: 4.7 Consensus size: 44
34517744 ACATACAATT
* **
34517754 CCATATCCCAGATATGGTCTTACATGTTATCAC--ATATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAATCACATATATCGATG
*
34517796 CCAATATCCCA-ACTATGGTCTTACACAAAATCACATA-AT-GATG
1 CC-ATATCCCAGA-TATGGTCTTACACGAAATCACATATATCGATG
* * * *
34517839 CCAATGTCCCATACATGGTCTTACACGTAATCACATATATCGATG
1 CC-ATATCCCAGATATGGTCTTACACGAAATCACATATATCGATG
* * * *
34517884 ACATATCCTAGATATGGTTTTACAC-AAAGTCTCATATATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAA-TCACATATATCGATG
* * *
34517928 CCATAGCCCAGCTATGGTCTTATACGAAATCA
1 CCATATCCCAGATATGGTCTTACACGAAATCA
34517960 TGTAATGCCA
Statistics
Matches: 132, Mismatches: 23, Indels: 16
0.77 0.13 0.09
Matches are distributed among these distances:
42 3 0.02
43 62 0.47
44 58 0.44
45 9 0.07
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (44 bp):
CCATATCCCAGATATGGTCTTACACGAAATCACATATATCGATG
Found at i:34520690 original size:12 final size:11
Alignment explanation
Indices: 34520631--34520690 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
34520621 ATTTATTCCG
34520631 TAATATAATAA
1 TAATATAATAA
*
34520642 TAA-A-ACTAA
1 TAATATAATAA
*
34520651 TAATATAAACAA
1 TAATAT-AATAA
34520663 TAATAGTAATTAA
1 TAATA-TAA-TAA
34520676 TAATTATAATAA
1 TAA-TATAATAA
34520688 TAA
1 TAA
34520691 ATATCTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
9 7 0.18
10 2 0.05
11 3 0.08
12 16 0.41
13 9 0.23
14 2 0.05
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATATAATAA
Found at i:34522555 original size:37 final size:39
Alignment explanation
Indices: 34522506--34522605 Score: 116
Period size: 41 Copynumber: 2.6 Consensus size: 39
34522496 AAGTAATAAT
*
34522506 TTGACACCCAGTGTATCATCGATTAAAT-CG-A-AGTAAA
1 TTGACACCCAGTGTCTCATCGATT-AATCCGCAGAGTAAA
* *
34522543 TTGGCACCCAGTGCCTCATCGAATTAATCCGCAGTAGTAAA
1 TTGACACCCAGTGTCTCATCG-ATTAATCCGCAG-AGTAAA
*
34522584 TTGACACTCAGTGTCTCATCGA
1 TTGACACCCAGTGTCTCATCGA
34522606 CTCAAAGTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
37 21 0.40
38 5 0.10
39 1 0.02
40 1 0.02
41 24 0.46
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (39 bp):
TTGACACCCAGTGTCTCATCGATTAATCCGCAGAGTAAA
Found at i:34526332 original size:34 final size:35
Alignment explanation
Indices: 34526293--34526369 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
34526283 TATATTCATT
34526293 TCAATTCAAATAATCAATATATTCAT-TATATAAA
1 TCAATTCAAATAATCAATATATTCATATATATAAA
*
34526327 TCAATTC--ATAATCAATATATTCATAATATATATA
1 TCAATTCAAATAATCAATATATTCAT-ATATATAAA
34526361 TCAATTCAA
1 TCAATTCAA
34526370 TCCATTCAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
32 17 0.45
34 21 0.55
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (35 bp):
TCAATTCAAATAATCAATATATTCATATATATAAA
Found at i:34526350 original size:15 final size:15
Alignment explanation
Indices: 34526302--34526353 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
34526292 TTCAATTCAA
34526302 ATAATCAATATATTC
1 ATAATCAATATATTC
*
34526317 ATTATATAAATCA-ATTC
1 A-TA-ATCAAT-ATATTC
34526334 ATAATCAATATATTC
1 ATAATCAATATATTC
34526349 ATAAT
1 ATAAT
34526354 ATATATATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 15 0.48
16 4 0.13
17 10 0.32
18 1 0.03
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAATCAATATATTC
Found at i:34526359 original size:15 final size:15
Alignment explanation
Indices: 34526309--34526361 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
34526299 CAAATAATCA
*
34526309 ATATATTCATTATAT
1 ATATATTCATAATAT
*
34526324 AAATCAATTCATAATCA-
1 ATAT--ATTCATAAT-AT
34526341 ATATATTCATAATAT
1 ATATATTCATAATAT
34526356 ATATAT
1 ATATAT
34526362 CAATTCAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 1 0.03
15 18 0.58
17 11 0.35
18 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATTCATAATAT
Found at i:34527066 original size:16 final size:15
Alignment explanation
Indices: 34527045--34527074 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34527035 AAGCCTTGTG
34527045 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
34527061 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
34527075 CTGTTTTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:34527082 original size:20 final size:20
Alignment explanation
Indices: 34527045--34527082 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34527035 AAGCCTTGTG
*
34527045 TCTTTCTTTCTCTTTTTCTT
1 TCTTTCTTTCTCGTTTTCTT
34527065 TCTTTCCTTTCT-GTTTTC
1 TCTTT-CTTTCTCGTTTTC
34527083 ATTTAGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (20 bp):
TCTTTCTTTCTCGTTTTCTT
Found at i:34537413 original size:13 final size:13
Alignment explanation
Indices: 34537395--34537421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34537385 TCAATTTATT
34537395 AATGAATTATTAA
1 AATGAATTATTAA
34537408 AATGAATTATTAA
1 AATGAATTATTAA
34537421 A
1 A
34537422 TATAACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
AATGAATTATTAA
Found at i:34539420 original size:95 final size:95
Alignment explanation
Indices: 34539247--34539638 Score: 441
Period size: 95 Copynumber: 4.1 Consensus size: 95
34539237 AGTTTATTTG
* * * *
34539247 TCATGAAAAATCTTCTTTGAGTTAGATGATTTAATATCGCTACTCCAAATGACTCCCTGATTTAA
1 TCATGAACAATCTTCTCTGAGTTAGATGATTTAATATCGCTGCTCCAAATGACTCGCTGATTTAA
* * * * *
34539312 TATCGCAACCTAAGCTCATTTGATTTACTA
66 GATTGCAAGCTAAGTTCATTTGATTTATTA
* * * * * *
34539342 TCATGAACGATTTTCTCTGAGTTAGCTGATTTAATATCACTGCTCCAAATGACTCGCTAATTTAG
1 TCATGAACAATCTTCTCTGAGTTAGATGATTTAATATCGCTGCTCCAAATGACTCGCTGATTTAA
34539407 GATTGCAAGCTAAGTTCATTTGATTTATTA
66 GATTGCAAGCTAAGTTCATTTGATTTATTA
* * * **
34539437 TCATGAACAATCTTCTCTGAGTTAGCTGACTTAATATCGTTGCTCCAAATGGGTCGCTGATTTAA
1 TCATGAACAATCTTCTCTGAGTTAGATGATTTAATATCGCTGCTCCAAATGACTCGCTGATTTAA
34539502 GATTGC-AGCCTAAGTTCATTTGATTTATTA
66 GATTGCAAG-CTAAGTTCATTTGATTTATTA
* * * * * * *
34539532 TCATGAACAATCCTATCCGAGTTAGATGATTTAATATCGTTGCTCTAATATGTC-CGCTGATCTA
1 TCATGAACAATCTTCTCTGAGTTAGATGATTTAATATCGCTGCTCCAA-ATGACTCGCTGATTTA
* * *
34539596 ATA-T-CATAGCCTAAATTCATTTGGTTTATTA
65 AGATTGCA-AG-CTAAGTTCATTTGATTTATTA
*
34539627 TCATCAACAATC
1 TCATGAACAATC
34539639 CTATTCGAGT
Statistics
Matches: 256, Mismatches: 37, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
93 1 0.00
94 3 0.01
95 249 0.97
96 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (95 bp):
TCATGAACAATCTTCTCTGAGTTAGATGATTTAATATCGCTGCTCCAAATGACTCGCTGATTTAA
GATTGCAAGCTAAGTTCATTTGATTTATTA
Found at i:34542500 original size:26 final size:26
Alignment explanation
Indices: 34542471--34542526 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
34542461 AACACTCAAA
34542471 TTTTAAACCAAC-CTTTTCAAAAGCAC
1 TTTTAAA-CAACACTTTTCAAAAGCAC
** *
34542497 TTTTCCACAACAGTTTTCAAAAGCAC
1 TTTTAAACAACACTTTTCAAAAGCAC
34542523 TTTT
1 TTTT
34542527 CAAAGCATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (26 bp):
TTTTAAACAACACTTTTCAAAAGCAC
Found at i:34542533 original size:12 final size:13
Alignment explanation
Indices: 34542483--34542530 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
34542473 TTAAACCAAC
34542483 CTTTTCAAAAGCA
1 CTTTTCAAAAGCA
*
34542496 CTTTTCCACAA-CA
1 CTTTT-CAAAAGCA
*
34542509 GTTTTCAAAAGCA
1 CTTTTCAAAAGCA
34542522 CTTTTCAAA
1 CTTTTCAAA
34542531 GCATTGCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (13 bp):
CTTTTCAAAAGCA
Found at i:34549572 original size:43 final size:43
Alignment explanation
Indices: 34549524--34549609 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
34549514 TCATATTTCA
* *
34549524 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTTAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
* *
34549567 TTTCTCATCTCATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
34549610 CAATCACAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:34556718 original size:3 final size:3
Alignment explanation
Indices: 34556710--34556738 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34556700 GGAAAGGATT
34556710 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34556739 GGTAAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:34558899 original size:21 final size:21
Alignment explanation
Indices: 34558867--34558907 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
34558857 GAACATTTGG
34558867 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
34558888 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
34558908 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:34568822 original size:46 final size:45
Alignment explanation
Indices: 34568755--34568931 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 45
34568745 AGTGTGGAAT
* *
34568755 GTAGGTATGGTATTTTAGTAAAAAGAACCATACTGAGTTGTGAAAA
1 GTAGGTATGATATTTCAGTAAAAA-AACCATACTGAGTTGTGAAAA
* * *
34568801 GTAGGTATGGTATTTCAGTAAAGAAAACTATACTGAGTTGTGAGAA
1 GTAGGTATGATATTTCAGTAAA-AAAACCATACTGAGTTGTGAAAA
* * * * *
34568847 GTAGATATGACATTTCAGTAACGAAAACCATACTGAATTCTGAAAA
1 GTAGGTATGATATTTCAGTAA-AAAAACCATACTGAGTTGTGAAAA
* *
34568893 GTAGGTATGATATTTCAGTGAAGAAAACTATACTGAGTT
1 GTAGGTATGATATTTCAGT-AAAAAAACCATACTGAGTT
34568932 ATAGCATTGT
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
46 109 0.96
47 4 0.04
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (45 bp):
GTAGGTATGATATTTCAGTAAAAAAACCATACTGAGTTGTGAAAA
Found at i:34574984 original size:3 final size:3
Alignment explanation
Indices: 34574976--34575008 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34574966 AAAAAATTTT
34574976 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
34575009 CATACGCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34579022 original size:29 final size:29
Alignment explanation
Indices: 34578956--34579013 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
34578946 TTTGGTTTAA
* *
34578956 TGTGTAATTTTATACATGAGCTTTGATTT
1 TGTGTAATTTTATACATCAACTTTGATTT
*
34578985 TGTGTAATTTTATACATCAATTTTGATTT
1 TGTGTAATTTTATACATCAACTTTGATTT
34579014 GATTTAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.14, T:0.53
Consensus pattern (29 bp):
TGTGTAATTTTATACATCAACTTTGATTT
Found at i:34589972 original size:309 final size:309
Alignment explanation
Indices: 34589400--34590161 Score: 1181
Period size: 309 Copynumber: 2.4 Consensus size: 309
34589390 TGCAAGTTGA
* * *
34589400 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCTATTTGTTCGTA-TTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
*
34589464 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
66 TTTTAAAAAATATC---A----TAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
*
34589529 ATTATTAATTTAGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCT
124 TTTATTAATTTAGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCT
* * *
34589594 CGTATTATTTTCTCGAATTTTATTACTTTCACTAAAAATATATTATTTTCGTATTTTATTATTTT
189 CGTATTATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTTT
34589659 ATATTATTCCAGTACATTTTATTTGAAATATTTGTATTAATTATTTCTGAATTTTT
254 ATATTATTCCAGTACATTTTATTTGAAATATTTGTATTAATTATTTCTGAATTTTT
* * *
34589715 TAAAAATTTAGTAAAACGCTCTTACTCCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
*
34589780 TTTTAAAAAATATCATAA-TTTATAATTTTACTTTATTTCAGTGCATTATGTTTGAAATTTATTA
66 TTTTAAAAAATATCATAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTA
*
34589844 ATTTAATGTGTTTTTTAAATTAATTTAGTGT-AAAAAAGCCCTTATTCCTGCCCTTTGCTCGTAT
131 ATTT-A-GTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
34589908 TATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTCA-TATTTTATAT
194 TATTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTT-ATTATTTTATAT
** * *
34589972 TATTTTAGTACATTTTGTTTGAAATATTTGTCTTAATTATTTCTGAATTTTT
258 TATTCCAGTACATTTTATTTGAAATATTTGTATTAATTATTTCTGAATTTTT
*
34590024 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
34590089 TTTTAAAAAATATCATAATTTCTAATTTTATAGTTTTACATTATTTCAGTGCATTATGTTTGAAA
66 TTTTAAAAAATATCATAATTT-T-A---TA-A-TTTTACATTATTTCAGTGCATTATGTTTGAAA
34590154 TTTATTAA
124 TTTATTAA
34590162 ATATACCATT
Statistics
Matches: 413, Mismatches: 22, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
308 48 0.12
309 222 0.54
310 27 0.07
311 1 0.00
312 1 0.00
313 1 0.00
315 39 0.09
316 35 0.08
317 39 0.09
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (309 bp):
AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
TTTTAAAAAATATCATAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTA
ATTTAGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTATTA
TTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCATATTTTATTATTTTATATTAT
TCCAGTACATTTTATTTGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:34590126 original size:158 final size:153
Alignment explanation
Indices: 34589400--34590161 Score: 654
Period size: 158 Copynumber: 4.9 Consensus size: 153
34589390 TGCAAGTTGA
* *
34589400 AAAAAAGTTAGTAAAAAACTCTTACTTCGGCTATTTGTTCGTA-TTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
* *
34589464 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAAA
66 TTTTAAAAAATATCATAATTTCTAATTTTAT-ATTTTATATTATTTCAGTGCATTATGTTTGAAA
** *
34589529 -A-TTATTAA-TTTAGTGTTTTTT
130 TATTTATTAATTTTTCTGATTTTT
* * * * * * *
34589550 AAATTAATTTAGTGTAAAAAAAACCCTTA-TTCCTGCCCTTTGCTCGTATTATTTTCT-CGAATT
1 AAA-AAATTTA--GT--AAAAAACTCTTACTT-CGGCCATTTGTTCGTATTTTTTTCTCCGCATT
* * * *
34589613 TTATTACTTTCACTAAAAATAT-ATTATTTTCGT-ATTTTATTATTTTATATTATTCCAGTACAT
60 TTATTA-TTTTA--AAAAATATCA-TAATTTC-TAATTTTA-TATTTTATATTATTTCAGTGCAT
* *
34589676 TTTATTTGAAATATTTGTATTAATTATTTCTGAATTTTT
119 TATGTTTGAAATA-TT-TATTAATT-TTTCTG-ATTTTT
* ** *
34589715 TAAAAATTTAGTAAAACGCTCTTACTCCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
34589780 TTTTAAAAAATATCATAA-TT-T-A---TA-ATTTTACT-TTATTTCAGTGCATTATGTTTG-AA
66 TTTTAAAAAATATCATAATTTCTAATTTTATATTTTA-TATTATTTCAGTGCATTATGTTTGAAA
* * *
34589836 -ATTTATTAATTTAATGTGTTTTTT
130 TATTTATTAATTT-TTCTGATTTTT
* * * * * * *
34589860 AAATTAATTTAGTGTAAAAAAGCCCTTA-TTCCTGCCCTTTGCTCGTATTATTTTC-CCGAATTT
1 AAA-AAATTTA--GTAAAAAA-CTCTTACTT-CGGCCATTTGTTCGTATTTTTTTCTCCGCATTT
* * * *
34589923 TATTACTTTCAATAAAAATAT-ATTATTT-TCATATTTTCATATTTTATATTATTTTAGTACATT
61 TATTA-TTT-TA-AAAAATATCATAATTTCT-A-ATTTT-ATATTTTATATTATTTCAGTGCATT
* *
34589986 TTGTTTGAAATATTTGTCTTAATTATTTCTGAATTTTT
120 ATGTTTGAAATA-TT-TATTAATT-TTTCTG-ATTTTT
* *
34590024 AAAAAATTTAGTAAAACACTCTTACTTCGGCCATTTATTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
*
34590089 TTTTAAAAAATATCATAATTTCTAATTTTATAGTTTTACATTATTTCAGTGCATTATGTTTG-AA
66 TTTTAAAAAATATCATAATTTCTAATTTTATA-TTTTATATTATTTCAGTGCATTATGTTTGAAA
34590153 -ATTTATTAA
130 TATTTATTAA
34590162 ATATACCATT
Statistics
Matches: 482, Mismatches: 76, Indels: 104
0.73 0.11 0.16
Matches are distributed among these distances:
145 8 0.02
146 17 0.04
147 2 0.00
148 20 0.04
149 30 0.06
150 31 0.06
151 17 0.04
152 2 0.00
153 2 0.00
154 8 0.02
155 38 0.08
156 11 0.02
157 9 0.02
158 98 0.20
159 37 0.08
160 64 0.13
161 35 0.07
162 10 0.02
163 17 0.04
164 19 0.04
165 7 0.01
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.50
Consensus pattern (153 bp):
AAAAAATTTAGTAAAAAACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
TTTTAAAAAATATCATAATTTCTAATTTTATATTTTATATTATTTCAGTGCATTATGTTTGAAAT
ATTTATTAATTTTTCTGATTTTT
Found at i:34590537 original size:10 final size:10
Alignment explanation
Indices: 34590522--34590706 Score: 69
Period size: 10 Copynumber: 18.9 Consensus size: 10
34590512 CTTCCTTCCC
34590522 TCTTC-TTCT
1 TCTTCTTTCT
34590531 TCTTTCTTT-T
1 TC-TTCTTTCT
*
34590541 T-TTTTTCTCT
1 TCTTCTT-TCT
*
34590551 TCTCCTTTCT
1 TCTTCTTTCT
*
34590561 T-ATCTTTCCT
1 TCTTCTTT-CT
*
34590571 GCTT-TTTCTT
1 TCTTCTTTC-T
*
34590581 TCTTTTTTCT
1 TCTTCTTTCT
34590591 TCTTCTCCTTTCCT
1 TC-T-T-CTTT-CT
34590605 T-TTCTTTC-
1 TCTTCTTTCT
34590613 -CTTCTTT-T
1 TCTTCTTTCT
*
34590621 TCTTTCTTTCC
1 TC-TTCTTTCT
*
34590632 TCTCCTTTC-
1 TCTTCTTTCT
34590641 -CTTCTTT-T
1 TCTTCTTTCT
34590649 TCTTTCTTT-T
1 TC-TTCTTTCT
*
34590659 CTCTCCTTTCCT
1 -TCTTCTTT-CT
34590671 T-TTCTTTCT
1 TCTTCTTTCT
*
34590680 TTTTCTTTC-
1 TCTTCTTTCT
34590689 T-TTCTTTCT
1 TCTTCTTTCT
34590698 TCTTCTTTC
1 TCTTCTTTC
34590707 CCTCTCCTTC
Statistics
Matches: 135, Mismatches: 14, Indels: 53
0.67 0.07 0.26
Matches are distributed among these distances:
8 23 0.17
9 16 0.12
10 70 0.52
11 17 0.13
12 3 0.02
13 3 0.02
14 3 0.02
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:34590567 original size:32 final size:34
Alignment explanation
Indices: 34590496--34590580 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 34
34590486 AATTACCTTT
*
34590496 TCTTTCTTTCTTTTTCCTTCCTTCCCTCTTCTTCT
1 TCTTTCTTTCTTTTT-CTTCCTTCCCTCTTCTTCA
34590531 TCTTTCTTT-TTTTT-TTCTCTTCTCCT-TTCTT-A
1 TCTTTCTTTCTTTTTCTTC-CTTC-CCTCTTCTTCA
* *
34590563 TCTTTCCTGCTTTTTCTT
1 TCTTTCTTTCTTTTTCTT
34590581 TCTTTTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
32 10 0.23
33 14 0.33
34 10 0.23
35 9 0.21
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.67
Consensus pattern (34 bp):
TCTTTCTTTCTTTTTCTTCCTTCCCTCTTCTTCA
Found at i:34590580 original size:14 final size:14
Alignment explanation
Indices: 34590563--34590701 Score: 91
Period size: 14 Copynumber: 9.3 Consensus size: 14
34590553 TCCTTTCTTA
*
34590563 TCTTTCCTGCTTTT
1 TCTTTCCTTCTTTT
*
34590577 TCTTT-CTTTTTTCT
1 TCTTTCCTTCTTT-T
*
34590591 TCTTCTCCTTTCCTTT
1 TCTT-TCC-TTCTTTT
34590607 TCTTTCCTTCTTTT
1 TCTTTCCTTCTTTT
* * *
34590621 TCTTTCTTTCCTCT
1 TCTTTCCTTCTTTT
*
34590635 CCTTTCCTTCTTTT
1 TCTTTCCTTCTTTT
*
34590649 TCTTTCTTTTCTCTCCTT
1 TCTTTC-CTTCT-T--TT
*
34590667 TCCTTTTCTTTCTTTT
1 T-C-TTTCCTTCTTTT
*
34590683 TCTTTCTTTCTTTCT
1 TCTTTCCTTCTTT-T
34590698 TCTT
1 TCTT
34590702 CTTTCCCTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
13 5 0.05
14 53 0.53
15 14 0.14
16 10 0.10
17 4 0.04
18 4 0.04
19 6 0.06
20 4 0.04
ACGTcount: A:0.00, C:0.30, G:0.01, T:0.69
Consensus pattern (14 bp):
TCTTTCCTTCTTTT
Found at i:34590594 original size:28 final size:28
Alignment explanation
Indices: 34590530--34590706 Score: 85
Period size: 28 Copynumber: 5.9 Consensus size: 28
34590520 CCTCTTCTTC
* **
34590530 TTCTTTCTTT--TTTTTTTCTCTTCTCCT
1 TTCTTTCTTTCCTCTTTTTCT-TTCTTTT
34590557 TTCTTATCTTTCCTGCTTTTTCTTTCTTTT
1 TTCTT-TCTTTCCT-CTTTTTCTTTCTTTT
*
34590587 TTC-TTCTTCTCCTTTCCTTTTCTTTCCTTCTTT
1 TTCTTTCTT-TCC--TCTTTTTCTTT-C-T-TTT
* *
34590620 TTCTTTCTTTCCTCTCCTTTCCTTC-TTT
1 TTCTTTCTTTCCTCT-TTTTCTTTCTTTT
34590648 TTCTTTCTTTTCTCTCCTTTCCTTTTCTTTC-TTT
1 TTCTTTC-TTTC-CT-C--T--TTTTCTTTCTTTT
* *
34590682 TTCTTTCTTTCTTTCTTCTTCTTTC
1 TTCTTTCTTTC-CTCTTTTTCTTTC
34590707 CCTCTCCTTC
Statistics
Matches: 121, Mismatches: 11, Indels: 35
0.72 0.07 0.21
Matches are distributed among these distances:
27 5 0.04
28 27 0.22
29 8 0.07
30 21 0.17
31 13 0.11
32 8 0.07
33 16 0.13
34 23 0.19
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (28 bp):
TTCTTTCTTTCCTCTTTTTCTTTCTTTT
Found at i:34590636 original size:38 final size:39
Alignment explanation
Indices: 34590494--34590715 Score: 150
Period size: 38 Copynumber: 5.8 Consensus size: 39
34590484 AAAATTACCT
*
34590494 TTTCTTTCTTTCTT-TTTCCTTCCT-TCCCTCTT-CTTCTTC
1 TTTCTTTCTTTCTTCTTTCTTTCCTCT-CCT-TTCCTT-TTC
* *
34590533 TTTCTTT-TTT-TT-TTCTCTTCTCCT-TTCTTAT-CTTTCC
1 TTTCTTTCTTTCTTCTT-TCTT-TCCTCTCCTT-TCCTTTTC
* *
34590570 TGCTT-TTTCTTTCTTTTTTC-TTCTTCTCCTTTCCTTTTC
1 T--TTCTTTCTTTCTTCTTTCTTTCCTCTCCTTTCCTTTTC
*
34590609 TTTCCTTCTTT-TTCTTTCTTTCCTCTCCTTTCCTTCTT-
1 TTTCTTTCTTTCTTCTTTCTTTCCTCTCCTTTCCTT-TTC
* * * *
34590647 TTTCTTTC-TT-TTCTCTCCTTTCCTTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTCT-TTCTTTCCTCTCCTTTCCTTTTC
34590685 TTTCTTTCTTTCTTC-TTCTTTCCCTCTCCTT
1 TTTCTTTCTTTCTTCTTTCTTT-CCTCTCCTT
34590716 CTCTTCCCCC
Statistics
Matches: 148, Mismatches: 17, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
37 24 0.16
38 76 0.51
39 39 0.26
40 7 0.05
41 2 0.01
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (39 bp):
TTTCTTTCTTTCTTCTTTCTTTCCTCTCCTTTCCTTTTC
Found at i:34590787 original size:27 final size:27
Alignment explanation
Indices: 34590757--34590819 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
34590747 ATTATATGGG
* **
34590757 CGGTGCCGCCTGTGGGAGGGGCACCAT
1 CGGTGCCGCCTATGGGAAAGGCACCAT
* *
34590784 CGGTGCTGCCTATGGGAAAGGCACCTT
1 CGGTGCCGCCTATGGGAAAGGCACCAT
*
34590811 TGGTGCCGC
1 CGGTGCCGC
34590820 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.19
Consensus pattern (27 bp):
CGGTGCCGCCTATGGGAAAGGCACCAT
Found at i:34591957 original size:28 final size:28
Alignment explanation
Indices: 34591917--34592042 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
34591907 TGACTTTCGA
* *
34591917 CACTACGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
34591945 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
34591973 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
34592001 CACTAAGTGTGCGAGTTTGATTATTGAA-
1 CACTAAGTGTGCGAGTTTAATT-GTAAAG
34592029 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
34592043 ACTTATTAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 86 0.98
29 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:34592805 original size:23 final size:23
Alignment explanation
Indices: 34592756--34593131 Score: 267
Period size: 23 Copynumber: 16.3 Consensus size: 23
34592746 TATATGCTAC
* *
34592756 CCAATTTTGGTGA-ATAAATGCTAT
1 CCAATTTT-GT-ATATACATGCTGT
34592780 CCAATTTTGTATATACATGCTGT
1 CCAATTTTGTATATACATGCTGT
* *
34592803 CCAATTTTTTGTATA-AGTGCTGT
1 CCAATTTTGTATATACA-TGCTGT
* * * *
34592826 CCAA-ATTGCTAAATATATGCTGC
1 CCAATTTTG-TATATACATGCTGT
*
34592849 CCAATTTTGGTGA-ATAAATGCTGT
1 CCAATTTT-GT-ATATACATGCTGT
34592873 CCAATTTTGTATATACATGCTGT
1 CCAATTTTGTATATACATGCTGT
* *
34592896 CAAATTTTGTGTATA-AGTGCTGT
1 CCAATTTTGTATATACA-TGCTGT
* * * * *
34592919 CCAA-ATTGCTACATATATGTTGC
1 CCAATTTTG-TATATACATGCTGT
* *
34592942 CCAAATTTGGTGA-ATAAATGCTGT
1 CC-AATTTTGT-ATATACATGCTGT
34592966 CCAATTTTGTATATACATGCTGT
1 CCAATTTTGTATATACATGCTGT
* *
34592989 CAAATTTTGTGTATA-AGTGCTGT
1 CCAATTTTGTATATACA-TGCTGT
* * * *
34593012 CCAAATTGGTATATATATGCTGC
1 CCAATTTTGTATATACATGCTGT
*
34593035 CCAATTTTGGTGA-ATAAATGCTGT
1 CCAATTTT-GT-ATATACATGCTGT
34593059 CCAATTTTGTATATACA---TGT
1 CCAATTTTGTATATACATGCTGT
*
34593079 CCAATTTTGTGTATA-AGTGCTGT
1 CCAATTTTGTATATACA-TGCTGT
* *
34593102 CCAAATTGGTATATACATGCTG-
1 CCAATTTTGTATATACATGCTGT
34593124 CTCAATTT
1 C-CAATTT
34593132 CTGATGTATA
Statistics
Matches: 281, Mismatches: 45, Indels: 53
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.00
20 17 0.06
22 13 0.05
23 180 0.64
24 64 0.23
25 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (23 bp):
CCAATTTTGTATATACATGCTGT
Found at i:34592854 original size:93 final size:93
Alignment explanation
Indices: 34592735--34593153 Score: 648
Period size: 93 Copynumber: 4.5 Consensus size: 93
34592725 TAATGGTCAA
* *
34592735 AAATTGCTACATATATGCTACCCAATTTTGGTGAATAAATGCTATCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
* *
34592800 TGTCCAATTTTTTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
*
34592828 AAATTGCTAAATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
34592893 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* *
34592921 AAATTGCTACATATATGTTGCCCAAATTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
34592986 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* *
34593014 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACA---
1 AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
*
34593076 TGTCCAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTGCTGTCC
* * * * * *
34593104 AAATTGGTATATACATGCTGCTCAATTTCTGATGTATAAGA-GCTGTCCAA
1 AAATTGCTACATATATGCTGCCCAATTT-TGGTGAATAA-ATGCTGTCCAA
34593154 ACTGGGTAGA
Statistics
Matches: 307, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
90 53 0.17
91 17 0.06
92 1 0.00
93 236 0.77
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (93 bp):
AAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGC
TGTCAAATTTTGTGTATAAGTGCTGTCC
Found at i:34593081 original size:20 final size:20
Alignment explanation
Indices: 34593056--34593093 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
34593046 GAATAAATGC
34593056 TGTCCAATTTTGTATATACA
1 TGTCCAATTTTGTATATACA
*
34593076 TGTCCAATTTTGTGTATA
1 TGTCCAATTTTGTATATA
34593094 AGTGCTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (20 bp):
TGTCCAATTTTGTATATACA
Found at i:34599257 original size:28 final size:28
Alignment explanation
Indices: 34599225--34599322 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
34599215 TGACTTTCGA
34599225 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
34599253 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
34599281 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
34599309 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
34599323 ACTTATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:34600177 original size:93 final size:93
Alignment explanation
Indices: 34600018--34600313 Score: 558
Period size: 93 Copynumber: 3.2 Consensus size: 93
34600008 GTCTAAAATN
34600018 ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
1 ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
34600083 TTGGTGAATAAATGCTGTCCAATTTTGT
66 TTGGTGAATAAATGCTGTCCAATTTTGT
*
34600111 ATATACATGCTGTCCAATTTTTTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
1 ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
34600176 TTGGTGAATAAATGCTGTCCAATTTTGT
66 TTGGTGAATAAATGCTGTCCAATTTTGT
34600204 ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
1 ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
34600269 TTGGTGAATAAATGCTGTCCAATTTTGT
66 TTGGTGAATAAATGCTGTCCAATTTTGT
*
34600297 GTATA-AGTGCTGTCCAA
1 ATATACA-TGCTGTCCAA
34600314 ATTGCTACTT
Statistics
Matches: 199, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 1 0.01
93 198 0.99
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (93 bp):
ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACATATATGCTGCCCAATT
TTGGTGAATAAATGCTGTCCAATTTTGT
Found at i:34600294 original size:163 final size:163
Alignment explanation
Indices: 34600094--34600478 Score: 641
Period size: 163 Copynumber: 2.4 Consensus size: 163
34600084 TGGTGAATAA
* * *
34600094 ATGCTGTCCAATTTT-GT-ATATACATGCTGTCCAATTTTTTGTATAAGTGCTGTCCAAATTGCT
1 ATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCT
*
34600157 ACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAAT
65 ACATATATGCTGCCCAATTTTGGGGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAAT
*
34600222 TTTGTGTATAAGTGCTGTCCAAATTGCTACATAT
130 TTTGTGTATAACTGCTGTCCAAATTGCTACATAT
34600256 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
* *
34600321 CTTATATGCTGCCCAATTTTGGGGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCCAATT
66 CATATATGCTGCCCAATTTTGGGGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATT
34600386 TTGTGTATAACTGCTGTCCAAATTGCTACATAT
131 TTGTGTATAACTGCTGTCCAAATTGCTACATAT
* * * *
34600419 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCACTTTTGTATATAAATGTTGT-CAAATT
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATT
34600479 TTGTGTATAA
Statistics
Matches: 210, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
162 20 0.10
163 189 0.90
164 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (163 bp):
ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTA
CATATATGCTGCCCAATTTTGGGGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCCAATT
TTGTGTATAACTGCTGTCCAAATTGCTACATAT
Done.