Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 79 of 121
Found at i:13584954 original size:14 final size:14
Alignment explanation
Indices: 13584937--13584965 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13584927 ATTTATATTT
13584937 ATTTTATATTTAAC
1 ATTTTATATTTAAC
13584951 ATTTTATATTTAAC
1 ATTTTATATTTAAC
13584965 A
1 A
13584966 CTTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTATATTTAAC
Found at i:13591797 original size:11 final size:12
Alignment explanation
Indices: 13591778--13591841 Score: 62
Period size: 11 Copynumber: 5.5 Consensus size: 12
13591768 TACTAGTAAT
13591778 AATATAAAATAAC
1 AATA-AAAATAAC
*
13591791 AATAAAAATAAT
1 AATAAAAATAAC
* * *
13591803 AACAATAATATC
1 AATAAAAATAAC
13591815 -ATAAAAATAA-
1 AATAAAAATAAC
13591825 AATAAAAATAAC
1 AATAAAAATAAC
13591837 -ATAAA
1 AATAAA
13591842 GATCAATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
11 22 0.54
12 15 0.37
13 4 0.10
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (12 bp):
AATAAAAATAAC
Found at i:13591803 original size:22 final size:22
Alignment explanation
Indices: 13591775--13591853 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
13591765 TATTACTAGT
13591775 AATAATATAAAATAACAATAAA
1 AATAATATAAAATAACAATAAA
* *
13591797 AATAATA-ACAATAATATCATAAA
1 AATAATATAAAATAACA--ATAAA
*
13591820 AATAAAATAAAAATAAC-ATAAA
1 AATAATAT-AAAATAACAATAAA
*
13591842 GATCAATATAAA
1 AAT-AATATAAA
13591854 GTAAATATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 7 0.16
22 17 0.38
23 15 0.33
25 6 0.13
ACGTcount: A:0.70, C:0.06, G:0.01, T:0.23
Consensus pattern (22 bp):
AATAATATAAAATAACAATAAA
Found at i:13593109 original size:39 final size:38
Alignment explanation
Indices: 13593028--13593323 Score: 228
Period size: 39 Copynumber: 7.7 Consensus size: 38
13593018 ATGTCTCTTT
* *
13593028 TGACCAAAGGCAATGAAACTTTAAATTTAAAAGGCTCATC
1 TGACCAGAGGCAATG-AACTTTAAA-TTAAAAGGCTCCTC
13593068 TGACCAGAGGCAATGAACTTTAAATTCGAAAA-GCTCCTC
1 TGACCAGAGGCAATGAACTTTAAATT--AAAAGGCTCCTC
* ** *
13593107 TGACCAGAGGCAATAAACTTTAAA-T----GGCTTTTT
1 TGACCAGAGGCAATGAACTTTAAATTAAAAGGCTCCTC
* * * **
13593140 TAACTAAAGGCAACAAACTTTAAATGTTAAAAGGCTCCTC
1 TGACCAGAGGCAATGAACTTTAAA--TTAAAAGGCTCCTC
* * *
13593180 TGACCAGAGGCAACGAACTTTAAATTCAAAATGCTCATC
1 TGACCAGAGGCAATGAACTTTAAATT-AAAAGGCTCCTC
*
13593219 TGACCAGAGGCAATGAACTTTAAATTCAAAAGGCTTCTC
1 TGACCAGAGGCAATGAACTTTAAATT-AAAAGGCTCCTC
* * * *
13593258 TGACCAGAAGTAA-AATACTTTAAATGTTAAAAGGCTCTTC
1 TGACCAGAGGCAATGA-ACTTTAAA--TTAAAAGGCTCCTC
* * * *
13593298 TAACCAAAAGGCAACGAAGTTTAAAT
1 TGACC-AGAGGCAATGAACTTTAAAT
13593324 GGCTTCTTTA
Statistics
Matches: 206, Mismatches: 34, Indels: 33
0.75 0.12 0.12
Matches are distributed among these distances:
33 24 0.12
36 1 0.00
38 6 0.03
39 103 0.50
40 57 0.28
41 14 0.07
42 1 0.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (38 bp):
TGACCAGAGGCAATGAACTTTAAATTAAAAGGCTCCTC
Found at i:13593149 original size:112 final size:112
Alignment explanation
Indices: 13592971--13593243 Score: 388
Period size: 112 Copynumber: 2.4 Consensus size: 112
13592961 GAGACTATGA
* * * * * *
13592971 AACTATAAATTCAAAAGGCTCATTTGACTAAAGGCAATGAACTTTAAATGTCTCTTTTGACCAAA
1 AACTTTAAATTCAAAAGGCTCATCTGACCAGAGGCAATGAACTTTAAATGGCTCTTTTAACCAAA
* *
13593036 GGCAATGAAACTTTAAAT-TTAAAAGGCTCATCTGACCAGAGGCAATG
66 GGCAA-CAAACTTTAAATGTTAAAAGGCTCATCTGACCAGAGGCAACG
* * * *
13593083 AACTTTAAATTCGAAAA-GCTCCTCTGACCAGAGGCAATAAACTTTAAATGGCTTTTTTAACTAA
1 AACTTTAAATTC-AAAAGGCTCATCTGACCAGAGGCAATGAACTTTAAATGGCTCTTTTAACCAA
*
13593147 AGGCAACAAACTTTAAATGTTAAAAGGCTCCTCTGACCAGAGGCAACG
65 AGGCAACAAACTTTAAATGTTAAAAGGCTCATCTGACCAGAGGCAACG
*
13593195 AACTTTAAATTCAAAATGCTCATCTGACCAGAGGCAATGAACTTTAAAT
1 AACTTTAAATTCAAAAGGCTCATCTGACCAGAGGCAATGAACTTTAAAT
13593244 TCAAAAGGCT
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
111 15 0.10
112 124 0.87
113 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (112 bp):
AACTTTAAATTCAAAAGGCTCATCTGACCAGAGGCAATGAACTTTAAATGGCTCTTTTAACCAAA
GGCAACAAACTTTAAATGTTAAAAGGCTCATCTGACCAGAGGCAACG
Found at i:13593354 original size:33 final size:34
Alignment explanation
Indices: 13593284--13593356 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
13593274 ACTTTAAATG
* * *
13593284 TTAAAAGGCTCTTCTAACCAAAAGGCAACGAAGT
1 TTAAATGGCTCTTCTAACCAAAAGGCAACAAACT
13593318 TTAAATGGCTTCTT-TAACC-AAAGGCAACAAACT
1 TTAAATGGC-TCTTCTAACCAAAAGGCAACAAACT
13593351 TTAAAT
1 TTAAAT
13593357 TAAAAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
33 18 0.51
34 13 0.37
35 4 0.11
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (34 bp):
TTAAATGGCTCTTCTAACCAAAAGGCAACAAACT
Found at i:13593531 original size:40 final size:41
Alignment explanation
Indices: 13593460--13593578 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 41
13593450 AAAAAAACTT
** *
13593460 CTCTAACTAGAGGTTATAAAACTTTAAATGTTAAAAGGCTC-
1 CTCTAACTAGAGGCAAT-GAACTTTAAATGTTAAAAGGCTCA
13593501 CTCTAACTAGAGGCAATGAACTTTAAATGTTGAAAA-GCTCA
1 CTCTAACTAGAGGCAATGAACTTTAAATGTT-AAAAGGCTCA
*
13593542 C-CTAACTAGAGGCAATGAACTTTAAAT-TCAAAAGGCT
1 CTCTAACTAGAGGCAATGAACTTTAAATGTTAAAAGGCT
13593579 GAGAGGCAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
38 4 0.06
39 4 0.06
40 43 0.61
41 20 0.28
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (41 bp):
CTCTAACTAGAGGCAATGAACTTTAAATGTTAAAAGGCTCA
Found at i:13598592 original size:13 final size:14
Alignment explanation
Indices: 13598576--13598672 Score: 58
Period size: 14 Copynumber: 6.9 Consensus size: 14
13598566 CTAATTTTAG
13598576 TTTTAATTT-TTAA
1 TTTTAATTTATTAA
13598589 TTTTAATTTATT-A
1 TTTTAATTTATTAA
*
13598602 TTATTATTTTATTAA
1 TT-TTAATTTATTAA
*
13598617 TTTATTATTTTATT-A
1 -TT-TTAATTTATTAA
* *
13598632 TTTTCACTATT-TTAT
1 TTTT-AAT-TTATTAA
* *
13598647 TTTTATTTTATTTA
1 TTTTAATTTATTAA
*
13598661 TTTTATTTTATT
1 TTTTAATTTATT
13598673 GGTTCGAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
13 16 0.23
14 33 0.47
15 8 0.11
16 13 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTATTAA
Found at i:13598611 original size:25 final size:24
Alignment explanation
Indices: 13598583--13598672 Score: 70
Period size: 22 Copynumber: 4.0 Consensus size: 24
13598573 TAGTTTTAAT
13598583 TTTTAATTTTAATTTATTATTATTA
1 TTTT-ATTTTAATTTATTATTATTA
13598608 TTTTA--TTAATTTATTATT-TTA
1 TTTTATTTTAATTTATTATTATTA
* *
13598629 --TTATTTTCACTATT-TTATTTTTA
1 TTTTATTTT-AAT-TTATTATTATTA
*
13598652 TTTTA-TTTATTTTATT-TTATT
1 TTTTATTTTAATTTATTATTATT
13598673 GGTTCGAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 19
0.71 0.04 0.25
Matches are distributed among these distances:
19 3 0.06
21 5 0.09
22 26 0.48
23 9 0.17
24 4 0.07
25 7 0.13
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATTTTAATTTATTATTATTA
Found at i:13598615 original size:8 final size:8
Alignment explanation
Indices: 13598596--13598672 Score: 75
Period size: 8 Copynumber: 9.2 Consensus size: 8
13598586 TAATTTTAAT
13598596 TTATTATTA
1 TTATT-TTA
13598605 TTATTTTA
1 TTATTTTA
*
13598613 TTAATTTA
1 TTATTTTA
13598621 TTATTTTA
1 TTATTTTA
13598629 TTATTTTCA
1 TTATTTT-A
*
13598638 CTATTTTA
1 TTATTTTA
*
13598646 TT-TTTATT
1 TTATTT-TA
*
13598654 TTATTTATT
1 TTATTT-TA
13598663 TTATTTTA
1 TTATTTTA
13598671 TT
1 TT
13598673 GGTTCGAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
7 3 0.05
8 32 0.54
9 24 0.41
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.73
Consensus pattern (8 bp):
TTATTTTA
Found at i:13598652 original size:20 final size:20
Alignment explanation
Indices: 13598583--13598669 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
13598573 TAGTTTTAAT
* *
13598583 TTTTAATTTTAATTTAT-TA
1 TTTTATTTTTATTTTATCTA
*
13598602 TTATTATTTTATTAATTTAT-TA
1 TT-TTA-TTT-TTATTTTATCTA
13598624 TTTTA---TTATTTTCA-CTA
1 TTTTATTTTTATTTT-ATCTA
*
13598641 TTTTATTTTTATTTTATTTA
1 TTTTATTTTTATTTTATCTA
13598661 TTTTATTTT
1 TTTTATTTT
13598670 ATTGGTTCGA
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
16 6 0.11
17 8 0.14
19 3 0.05
20 21 0.38
21 5 0.09
22 13 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTTTATCTA
Found at i:13598662 original size:4 final size:5
Alignment explanation
Indices: 13598639--13598672 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
13598629 TTATTTTCAC
13598639 TATTT TATTTT TATTT TA-TT TATTT TATTT TATT
1 TATTT TA-TTT TATTT TATTT TATTT TATTT TATT
13598673 GGTTCGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:13598671 original size:19 final size:18
Alignment explanation
Indices: 13598569--13598672 Score: 83
Period size: 19 Copynumber: 5.7 Consensus size: 18
13598559 TTCTGGCCTA
*
13598569 ATTTTAGTTTTAATTTT-TA
1 ATTTTA-TTTT-ATTTTATT
*
13598588 ATTTTAATTTATTATTATT
1 ATTTTATTTTATT-TTATT
*
13598607 ATTTTA--TTAATTTATT
1 ATTTTATTTTATTTTATT
*
13598623 ATTTTA--TTATTTTCACT
1 ATTTTATTTTATTTT-ATT
13598640 ATTTTATTTTTATTTTATTT
1 ATTTTA-TTTTATTTTA-TT
13598660 ATTTTATTTTATT
1 ATTTTATTTTATT
13598673 GGTTCGAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
16 17 0.24
17 15 0.21
18 5 0.07
19 21 0.29
20 14 0.19
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (18 bp):
ATTTTATTTTATTTTATT
Found at i:13599788 original size:192 final size:187
Alignment explanation
Indices: 13599475--13599825 Score: 463
Period size: 192 Copynumber: 1.9 Consensus size: 187
13599465 AAAGATAATA
* **
13599475 ATAAAAAAATAAAATTTTGGAATAAATATTAATTATCCAATGATGGAATTTATAAAAATTTCAAA
1 ATAAAAAAATAAAATTTTCGAATAAATACAAATTATCCAATGATGGAATTTATAAAAATTTCAAA
* * * * *
13599540 TGGTAAATTTTTATAAAATTCCTAGGTGAAAAATTTTATCTAAGTTTGTTCCAAATGGTGGAATA
66 TAGTAAATTTTTATAAAACTCCTAGATGAAAAATTTTATCTAAGTTTGTCCCAAATGGTAGAATA
* *
13599605 ATTTAGATGAAATTTCAATAACAATAATTAATATTTATTTTCAAACAAAAAAAAAAC
131 ATTTAGATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACAAAAAAAAAAC
* * * * *
13599662 ATAAAAAATATAAAAATTTTCTAATTAAATACAAATTATTCAATGATGAGATTTTTTAGAAATTT
1 ATAAAAAA-AT-AAAATTTTCGAA-TAAATACAAATTATCCAATGATG-GAATTTATAAAAATTT
* * *
13599727 CAAATAGTAAATTTTCTA-AGAACTCTCTAGATGAGAAATTTTATTTAAGTTTAG-CCCAAATGG
62 CAAATAGTAAATTTT-TATAAAACTC-CTAGATGAAAAATTTTATCTAAGTTT-GTCCCAAATGG
13599790 TAGAATAATTTAGATAAAATTTCAATAAAAATAATT
124 TAGAATAATTTAGATAAAATTTCAATAAAAATAATT
13599826 GTATTCTTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
187 8 0.06
188 2 0.01
189 10 0.07
190 20 0.14
191 32 0.23
192 66 0.47
193 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (187 bp):
ATAAAAAAATAAAATTTTCGAATAAATACAAATTATCCAATGATGGAATTTATAAAAATTTCAAA
TAGTAAATTTTTATAAAACTCCTAGATGAAAAATTTTATCTAAGTTTGTCCCAAATGGTAGAATA
ATTTAGATAAAATTTCAATAAAAATAATTAATATTTATTTTCAAACAAAAAAAAAAC
Found at i:13601217 original size:51 final size:51
Alignment explanation
Indices: 13601135--13601235 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
13601125 AACATGCATC
* *
13601135 CTCATGTTTTAAGCATTATCATGTTACATCATTCGATGCATCATTTTCATT
1 CTCATGTTTTAAGCATTATCATATCACATCATTCGATGCATCATTTTCATT
* * **
13601186 CTCATGTTTTAAGCATTATTATATCATATCATTTTATGCATCATTTTCAT
1 CTCATGTTTTAAGCATTATCATATCACATCATTCGATGCATCATTTTCAT
13601236 AATCATGTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.48
Consensus pattern (51 bp):
CTCATGTTTTAAGCATTATCATATCACATCATTCGATGCATCATTTTCATT
Found at i:13606999 original size:6 final size:6
Alignment explanation
Indices: 13606978--13607041 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
13606968 ATGTTTGTTA
* * *
13606978 TTTTA- TTTTA- TTTTAT TTTTAT TCTTAT TCTAATT TTTTAT TTTTGAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTT-AT
13607026 TATTTAT TTTTAT TTT
1 T-TTTAT TTTTAT TTT
13607042 AGAATAATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
5 10 0.20
6 28 0.55
7 10 0.20
8 3 0.06
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:13607949 original size:17 final size:17
Alignment explanation
Indices: 13607927--13607963 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
13607917 ATTAAATTTT
13607927 AAAAAAAT-AATAAATA
1 AAAAAAATAAATAAATA
13607943 AAAAAAATAAATAAATA
1 AAAAAAATAAATAAATA
13607960 AAAA
1 AAAA
13607964 TTTTTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAAATAAATAAATA
Found at i:13607951 original size:13 final size:13
Alignment explanation
Indices: 13607928--13607964 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
13607918 TTAAATTTTA
13607928 AAAAAATAATAAAT
1 AAAAAA-AATAAAT
13607942 AAAAAAAATAAAT
1 AAAAAAAATAAAT
13607955 AAATAAAAAT
1 AAA-AAAAAT
13607965 TTTTTTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAAAAATAAAT
Found at i:13608162 original size:10 final size:8
Alignment explanation
Indices: 13608133--13608176 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
13608123 TTCAAACACA
13608133 AAAAATAT
1 AAAAATAT
13608141 AAAAATAT
1 AAAAATAT
13608149 AAAAATTAT
1 AAAAA-TAT
13608158 GAAAAA-AT
1 -AAAAATAT
13608166 AAAAAATAT
1 -AAAAATAT
13608175 AA
1 AA
13608177 TTTGGATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 22 0.69
9 5 0.16
10 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:13608162 original size:17 final size:17
Alignment explanation
Indices: 13608132--13608176 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13608122 TTTCAAACAC
*
13608132 AAAAAATATAAAAATAT
1 AAAAAATATAAAAAAAT
* *
13608149 AAAAATTATGAAAAAAT
1 AAAAAATATAAAAAAAT
13608166 AAAAAATATAA
1 AAAAAATATAA
13608177 TTTGGATTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (17 bp):
AAAAAATATAAAAAAAT
Found at i:13608482 original size:14 final size:14
Alignment explanation
Indices: 13608463--13608489 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13608453 ATTTTCAATA
13608463 AAAAATAATTAAAT
1 AAAAATAATTAAAT
13608477 AAAAATAATTAAA
1 AAAAATAATTAAA
13608490 CATTTTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAATTAAAT
Found at i:13611875 original size:16 final size:16
Alignment explanation
Indices: 13611856--13611890 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13611846 AAAAAGTCTC
*
13611856 AAAGAGGGAAAGAAAA
1 AAAGAGGAAAAGAAAA
*
13611872 AAAGAGTAAAAGAAAA
1 AAAGAGGAAAAGAAAA
13611888 AAA
1 AAA
13611891 AAAGAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (16 bp):
AAAGAGGAAAAGAAAA
Found at i:13612284 original size:14 final size:15
Alignment explanation
Indices: 13612258--13612290 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13612248 AACAATGGAT
*
13612258 GAAAGATGAAAAAAG
1 GAAAGATGAAAAAAA
13612273 GAAAGA-GAAAAAAA
1 GAAAGATGAAAAAAA
13612287 GAAA
1 GAAA
13612291 AATGGATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
GAAAGATGAAAAAAA
Found at i:13612289 original size:8 final size:8
Alignment explanation
Indices: 13612278--13612352 Score: 53
Period size: 8 Copynumber: 8.8 Consensus size: 8
13612268 AAAAGGAAAG
13612278 AGAAAAAA
1 AGAAAAAA
13612286 AGAAAAATGGA
1 AGAAAAA---A
*
13612297 TGAAAAAA
1 AGAAAAAA
*
13612305 ATGAAAAAG
1 A-GAAAAAA
13612314 AGAAAAAA
1 AGAAAAAA
*
13612322 ATAAAAAA
1 AGAAAAAA
*
13612330 TGAAAAATGA
1 AGAAAAA--A
13612340 A-AAAAAA
1 AGAAAAAA
13612347 AGAAAA
1 AGAAAA
13612353 TGAACAAGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
7 2 0.04
8 30 0.58
9 12 0.23
10 1 0.02
11 7 0.13
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
AGAAAAAA
Found at i:13612308 original size:9 final size:9
Alignment explanation
Indices: 13612296--13612366 Score: 57
Period size: 9 Copynumber: 8.7 Consensus size: 9
13612286 AGAAAAATGG
13612296 ATGAAAAAA
1 ATGAAAAAA
*
13612305 ATGAAAAAG
1 ATGAAAAAA
13612314 A-GAAAAAA
1 ATGAAAAAA
13612322 AT--AAAAA
1 ATGAAAAAA
13612329 ATG--AAAA
1 ATGAAAAAA
13612336 ATGAAAAAA
1 ATGAAAAAA
*
13612345 A--AAGAAA
1 ATGAAAAAA
* *
13612352 ATGAACAAG
1 ATGAAAAAA
13612361 ATGAAA
1 ATGAAA
13612367 GAAGAAAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
7 20 0.40
8 7 0.14
9 23 0.46
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.10
Consensus pattern (9 bp):
ATGAAAAAA
Found at i:13612319 original size:16 final size:17
Alignment explanation
Indices: 13612259--13612376 Score: 76
Period size: 16 Copynumber: 7.2 Consensus size: 17
13612249 ACAATGGATG
*
13612259 AAAGATGAAAAAA-G-G
1 AAAGATGAAAAAATGAA
*
13612274 AAAGA-GAAAAAAAGAA
1 AAAGATGAAAAAATGAA
13612290 AAATGGATGAAAAAAATGAA
1 AAA--GATG-AAAAAATGAA
13612310 AAAGA-GAAAAAAAT-AA
1 AAAGATG-AAAAAATGAA
13612326 AAA-ATG-AAAAATGAA
1 AAAGATGAAAAAATGAA
*
13612341 AAA-A-AAAGAAAATGAA
1 AAAGATGAA-AAAATGAA
* *
13612357 CAAGATGAAAGAA-GAA
1 AAAGATGAAAAAATGAA
13612373 AAAG
1 AAAG
13612377 GAAGACTCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 23
0.74 0.06 0.20
Matches are distributed among these distances:
14 13 0.15
15 14 0.17
16 25 0.30
17 13 0.15
18 6 0.07
19 1 0.01
20 12 0.14
ACGTcount: A:0.73, C:0.01, G:0.19, T:0.08
Consensus pattern (17 bp):
AAAGATGAAAAAATGAA
Found at i:13612332 original size:24 final size:23
Alignment explanation
Indices: 13612299--13612375 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
13612289 AAAATGGATG
13612299 AAAAAAATGAAAAAGAGAAAAAA
1 AAAAAAATGAAAAAGAGAAAAAA
13612322 ATAAAAAATGAAAAATGA-AAAAAA
1 A-AAAAAATGAAAAA-GAGAAAAAA
* * *
13612346 AAGAAAATGAACAAGATGAAAGAA
1 AAAAAAATGAAAAAGA-GAAAAAA
*
13612370 GAAAAA
1 AAAAAA
13612376 GGAAGACTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 2 0.04
23 12 0.27
24 29 0.64
25 2 0.04
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAAAAATGAAAAAGAGAAAAAA
Found at i:13612335 original size:23 final size:23
Alignment explanation
Indices: 13612299--13612375 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
13612289 AAAATGGATG
13612299 AAAAAAATGAAAAAGA-GAAAAAA
1 AAAAAAATG-AAAAGATGAAAAAA
13612322 ATAAAAAATGAAAA-ATGAAAAAA
1 A-AAAAAATGAAAAGATGAAAAAA
*
13612345 AAAGAAAATGAACAAGATGAAAGAA
1 AAA-AAAATGAA-AAGATGAAAAAA
*
13612370 GAAAAA
1 AAAAAA
13612376 GGAAGACTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
22 3 0.06
23 21 0.45
24 13 0.28
25 10 0.21
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (23 bp):
AAAAAAATGAAAAGATGAAAAAA
Found at i:13613478 original size:21 final size:22
Alignment explanation
Indices: 13613423--13613910 Score: 368
Period size: 21 Copynumber: 22.0 Consensus size: 22
13613413 AAATTATGAA
*
13613423 TCTT-AAATGAGAATCTTTAAGATA
1 TCTTCAAATGAGAATCTTT--GA-G
* *
13613447 TTTTCAAATGATAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
13613469 TCTT-AAATGAAAACCTTTTAG
1 TCTTCAAATGAGAATCTTTGAG
* *
13613490 TCTT-AAATGAGAATCTTTAAAAAA
1 TCTTCAAATGAGAATCTTT---GAG
* *
13613514 TCTTCAAATGAGAACCTTTGAA
1 TCTTCAAATGAGAATCTTTGAG
* * *
13613536 TCTT-AAATAAGAATTTTTAAGACA
1 TCTTCAAATGAGAATCTTT--GA-G
* * *
13613560 TTTTCAAATAAGAACCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
13613582 T-TTTAAATGAGAATCTTTAAAAAA
1 TCTTCAAATGAGAATCTTT---GAG
13613606 TCTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
*
13613628 TTTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
13613650 TTCTT-AAATGAGAATCTTTGAG
1 -TCTTCAAATGAGAATCTTTGAG
*
13613672 TCTTTAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
13613694 T-TTTAAATGAGAATCTTTAAAAA
1 TCTTCAAATGAGAATCTTT--GAG
* *
13613717 TCTTTCAAATGAGAATTTTTTAG
1 TC-TTCAAATGAGAATCTTTGAG
* *
13613740 TCTT-AAATGAAAATCTTGGAG
1 TCTTCAAATGAGAATCTTTGAG
* * *
13613761 TTTTCAAATGACAATATTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* *
13613783 T-TTCAAATGAGAATATTTAAG
1 TCTTCAAATGAGAATCTTTGAG
* *
13613804 TTTTTAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
*
13613826 T-TTCAAACGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
*
13613847 TTTTCAAATGAGAATCTTTGAG
1 TCTTCAAATGAGAATCTTTGAG
* ** * * *
13613869 TCTGCAAACAAGAATTTTTAAA
1 TCTTCAAATGAGAATCTTTGAG
13613891 T-TTCAAATGAGAATCTTTGA
1 TCTTCAAATGAGAATCTTTGA
13613911 AATGTGAAAC
Statistics
Matches: 378, Mismatches: 64, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
21 144 0.38
22 137 0.36
23 14 0.04
24 14 0.04
25 69 0.18
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (22 bp):
TCTTCAAATGAGAATCTTTGAG
Found at i:13613602 original size:14 final size:14
Alignment explanation
Indices: 13613583--13613624 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
13613573 ACCTTTGAGT
13613583 TTTAAATGAGAATC
1 TTTAAATGAGAATC
13613597 TTTAAA--A-AATC
1 TTTAAATGAGAATC
*
13613608 TTCAAATGAGAATC
1 TTTAAATGAGAATC
13613622 TTT
1 TTT
13613625 GAGTTTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
11 9 0.39
12 1 0.04
13 1 0.04
14 12 0.52
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (14 bp):
TTTAAATGAGAATC
Found at i:13613636 original size:22 final size:22
Alignment explanation
Indices: 13613427--13613910 Score: 369
Period size: 22 Copynumber: 21.7 Consensus size: 22
13613417 TATGAATCTT
*
13613427 AAATGAGAATCTTTAAGATATTTTC
1 AAATGAGAATCTTT--GA-GTTTTC
* *
13613452 AAATGATAATCTTTGAGTCTT-
1 AAATGAGAATCTTTGAGTTTTC
* * * *
13613473 AAATGAAAACCTTTTAGTCTT-
1 AAATGAGAATCTTTGAGTTTTC
* * *
13613494 AAATGAGAATCTTTAAAAAATCTTC
1 AAATGAGAATCTTT---GAGTTTTC
* * *
13613519 AAATGAGAACCTTTGAATCTT-
1 AAATGAGAATCTTTGAGTTTTC
* * *
13613540 AAATAAGAATTTTTAAGACATTTTC
1 AAATGAGAATCTTT--GA-GTTTTC
* *
13613565 AAATAAGAACCTTTGAGTTTT-
1 AAATGAGAATCTTTGAGTTTTC
* * *
13613586 AAATGAGAATCTTTAAAAAATCTTC
1 AAATGAGAATCTTT---GAGTTTTC
13613611 AAATGAGAATCTTTGAGTTTTC
1 AAATGAGAATCTTTGAGTTTTC
13613633 AAATGAGAATCTTTGAGTTCTT-
1 AAATGAGAATCTTTGAGTT-TTC
13613655 AAATGAGAATCTTTGAGTCTTT-
1 AAATGAGAATCTTTGAGT-TTTC
13613677 AAATGAGAATCTTTGAGTTTT-
1 AAATGAGAATCTTTGAGTTTTC
* *
13613698 AAATGAGAATCTTTAAAAATCTTTC
1 AAATGAGAATCTTT--GAGT-TTTC
* * *
13613723 AAATGAGAATTTTTTAGTCTT-
1 AAATGAGAATCTTTGAGTTTTC
* *
13613744 AAATGAAAATCTTGGAGTTTTC
1 AAATGAGAATCTTTGAGTTTTC
* *
13613766 AAATGACAATATTTGAG-TTTC
1 AAATGAGAATCTTTGAGTTTTC
* * *
13613787 AAATGAGAATATTTAAGTTTTT
1 AAATGAGAATCTTTGAGTTTTC
13613809 AAATGAGAATCTTTGAG-TTTC
1 AAATGAGAATCTTTGAGTTTTC
*
13613830 AAACGAGAATCTTTGAGTTTTC
1 AAATGAGAATCTTTGAGTTTTC
* *
13613852 AAATGAGAATCTTTGAGTCTGC
1 AAATGAGAATCTTTGAGTTTTC
** * **
13613874 AAACAAGAAT-TTTTAAATTTC
1 AAATGAGAATCTTTGAGTTTTC
13613895 AAATGAGAATCTTTGA
1 AAATGAGAATCTTTGA
13613911 AATGTGAAAC
Statistics
Matches: 376, Mismatches: 61, Indels: 47
0.78 0.13 0.10
Matches are distributed among these distances:
21 138 0.37
22 144 0.38
23 13 0.03
24 16 0.04
25 65 0.17
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (22 bp):
AAATGAGAATCTTTGAGTTTTC
Found at i:13613746 original size:46 final size:44
Alignment explanation
Indices: 13613423--13613910 Score: 304
Period size: 46 Copynumber: 11.0 Consensus size: 44
13613413 AAATTATGAA
* *
13613423 TCTTAAATGAGAATCTTTAAGATATTTTCAAATGATAATCTTTGAG
1 TCTTAAATGAGAATCTTTAA-AT-CTTTCAAATGAGAATCTTTGAG
* * * * * *
13613469 TCTTAAATGAAAACCTTTTAGTC-TT-AAATGAGAATCTTTAAAAAA
1 TCTTAAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTT---GAG
* * * * *
13613514 TCTTCAAATGAGAACCTTTGAATC-TT-AAATAAGAATTTTTAAGACA
1 TCTT-AAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTT--GA-G
* * * * * * *
13613560 TTTTCAAATAAGAACCTTTGAGT-TTT-AAATGAGAATCTTTAAAAAA
1 TCTT-AAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTT---GAG
* *
13613606 TCTTCAAATGAGAATCTTTGAGT-TTTCAAATGAGAATCTTTGAG
1 TCTT-AAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
* *
13613650 TTCTTAAATGAGAATCTTTGAGTCTTT-AAATGAGAATCTTTGAG
1 -TCTTAAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
* * *
13613694 TTTTAAATGAGAATCTTTAAAAATCTTTCAAATGAGAATTTTTTAG
1 TCTTAAATGAGAATCTTT--AAATCTTTCAAATGAGAATCTTTGAG
* ** * * *
13613740 TCTTAAATGAAAATCTTGGAGT-TTTCAAATGACAATATTTGAG
1 TCTTAAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
* * *
13613783 T-TTCAAATGAGAATATTTAAGT-TTTTAAATGAGAATCTTTGAG
1 TCTT-AAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
* * *
13613826 T-TTCAAACGAGAATCTTTGAGT-TTTCAAATGAGAATCTTTGAG
1 TCTT-AAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
* ** *
13613869 TCTGCAAACAAGAATTTTTAAA--TTTCAAATGAGAATCTTTGA
1 TCT-TAAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGA
13613911 AATGTGAAAC
Statistics
Matches: 372, Mismatches: 54, Indels: 35
0.81 0.12 0.08
Matches are distributed among these distances:
42 15 0.04
43 130 0.35
44 52 0.14
45 22 0.06
46 136 0.37
47 17 0.05
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (44 bp):
TCTTAAATGAGAATCTTTAAATCTTTCAAATGAGAATCTTTGAG
Found at i:13613791 original size:43 final size:43
Alignment explanation
Indices: 13613427--13613910 Score: 370
Period size: 43 Copynumber: 10.9 Consensus size: 43
13613417 TATGAATCTT
* *
13613427 AAATGAGAATCTTTAAGATATTTTCAAATGATAATCTTTGAGTCTT-
1 AAATGAGAATCTTT--GA-GTTTTCAAATGAGAATCTTTGAGT-TTC
* * * * * *
13613473 AAATGAAAACCTTTTAGTCTT-AAATGAGAATCTTTAAAAAATCTTC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTT---GAGT-TTC
* * * * * *
13613519 AAATGAGAACCTTTGAATCTT-AAATAAGAATTTTTAAGACATTTTC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTT--G--AGTTTC
* * * *
13613565 AAATAAGAACCTTTGAGTTTT-AAATGAGAATCTTTAAAAAATCTTC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTT---GAGT-TTC
*
13613611 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTTCTT
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTT-TC
*
13613655 AAATGAGAATCTTTGAGTCTTT-AAATGAGAATCTTTGAGTTTT
1 AAATGAGAATCTTTGAGT-TTTCAAATGAGAATCTTTGAGTTTC
* * * *
13613698 AAATGAGAATCTTTAAAAATCTTTCAAATGAGAATTTTTTAGTCTT-
1 AAATGAGAATCTTT--GAGT-TTTCAAATGAGAATCTTTGAGT-TTC
* * * *
13613744 AAATGAAAATCTTGGAGTTTTCAAATGACAATATTTGAGTTTC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTTTC
* * *
13613787 AAATGAGAATATTTAAGTTTTTAAATGAGAATCTTTGAGTTTC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTTTC
* *
13613830 AAACGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTCTGC
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGT-TTC
** * **
13613874 AAACAAGAAT-TTTTAAATTTCAAATGAGAATCTTTGA
1 AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGA
13613911 AATGTGAAAC
Statistics
Matches: 367, Mismatches: 54, Indels: 37
0.80 0.12 0.08
Matches are distributed among these distances:
42 15 0.04
43 135 0.37
44 54 0.15
45 18 0.05
46 125 0.34
47 20 0.05
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (43 bp):
AAATGAGAATCTTTGAGTTTTCAAATGAGAATCTTTGAGTTTC
Found at i:13613809 original size:111 final size:112
Alignment explanation
Indices: 13613562--13613869 Score: 353
Period size: 111 Copynumber: 2.8 Consensus size: 112
13613552 TTAAGACATT
* ** *
13613562 TTCAAATAAGAACCTTTGAGTTTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATCTTTGA
1 TTCAAATGAGAATATTTAAGTTTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATCTTTGA
* * * * *
13613627 GTTTTCAAATGAGAATCTTTGAGTTCTTAAATGAGAATCTTTGAGTC
66 GTCTTCAAATGAAAATCTTGGAGTTCTTAAATGACAATATTTGAGTC
* * * * *
13613674 TTTAAATGAGAATCTTTGAGTTTTAAATGAGAATCTTT-AAAAATCTTTCAAATGAGAATTTTTT
1 TTCAAATGAGAATATTTAAGTTTTAAATGAGAATCTTTAAAAAATC-TTCAAATGAGAATCTTTG
13613738 AGTCTT-AAATGAAAATCTTGGAGTT-TTCAAATGACAATATTTGAGT-
65 AGTCTTCAAATGAAAATCTTGGAGTTCTT-AAATGACAATATTTGAGTC
* * *
13613784 TTCAAATGAGAATATTTAAGTTTTTAAATGAGAATCTTT---GAGT-TTCAAACGAGAATCTTTG
1 TTCAAATGAGAATATTTAAG-TTTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATCTTTG
* * *
13613845 AGTTTTCAAATGAGAATCTTTGAGT
65 AGTCTTCAAATGAAAATCTTGGAGT
13613870 CTGCAAACAA
Statistics
Matches: 171, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
107 20 0.12
108 16 0.09
109 2 0.01
110 19 0.11
111 58 0.34
112 56 0.33
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (112 bp):
TTCAAATGAGAATATTTAAGTTTTAAATGAGAATCTTTAAAAAATCTTCAAATGAGAATCTTTGA
GTCTTCAAATGAAAATCTTGGAGTTCTTAAATGACAATATTTGAGTC
Found at i:13614162 original size:22 final size:22
Alignment explanation
Indices: 13614137--13614179 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13614127 AATCTTGCTA
13614137 CAAATCTTGCA-ATTTGCAAATG
1 CAAATCTTG-AGATTTGCAAATG
13614159 CAAATCTTGAGATTTGCAAAT
1 CAAATCTTGAGATTTGCAAAT
13614180 TTGAAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (22 bp):
CAAATCTTGAGATTTGCAAATG
Found at i:13614635 original size:5 final size:5
Alignment explanation
Indices: 13614625--13614678 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
13614615 TAGATGTTTG
* * *
13614625 TTATT TTATT TTATTT TTATTT TTATT TT-TA TTCTT ATATT TTATT TTATT
1 TTATT TTATT TTA-TT TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT
13614676 TTA
1 TTA
13614679 GGATAATAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
4 3 0.07
5 28 0.67
6 11 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:13614644 original size:6 final size:6
Alignment explanation
Indices: 13614628--13614677 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
13614618 ATGTTTGTTA
*
13614628 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TCTTAT ATTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT TTTTAT
13614675 TTT
1 TTT
13614678 AGGATAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 10 0.25
6 26 0.65
7 4 0.10
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:13614901 original size:14 final size:15
Alignment explanation
Indices: 13614876--13614917 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 15
13614866 CATACACAAC
13614876 CAGAATAAAAAACACA
1 CAGAA-AAAAAACACA
13614892 -AGAAAAAAAACACA
1 CAGAAAAAAAACACA
13614906 CAGAAACAAAAA
1 CAGAAA-AAAAA
13614918 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.74, C:0.17, G:0.07, T:0.02
Consensus pattern (15 bp):
CAGAAAAAAAACACA
Found at i:13615469 original size:12 final size:12
Alignment explanation
Indices: 13615454--13615494 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
13615444 TTTTGGTATT
*
13615454 TTTTATTTAGTA
1 TTTTATTTAGTG
13615466 TTTTATTTATGTG
1 TTTTATTTA-GTG
*
13615479 TTTTTTTTAGTG
1 TTTTATTTAGTG
13615491 TTTT
1 TTTT
13615495 TTGAATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (12 bp):
TTTTATTTAGTG
Found at i:13615495 original size:12 final size:12
Alignment explanation
Indices: 13615453--13615496 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
13615443 TTTTTGGTAT
*
13615453 TTTTTATTTAGTA
1 TTTTT-TTTAGTG
*
13615466 TTTTATTTATGTG
1 TTTTTTTTA-GTG
13615479 TTTTTTTTAGTG
1 TTTTTTTTAGTG
13615491 TTTTTT
1 TTTTTT
13615497 GAATGATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTTTTTTAGTG
Found at i:13615531 original size:8 final size:8
Alignment explanation
Indices: 13615514--13615543 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13615504 TAAATTTAAA
13615514 AAAAAAAT
1 AAAAAAAT
*
13615522 AAAAACAT
1 AAAAAAAT
13615530 AAAAAAAT
1 AAAAAAAT
13615538 AAAAAA
1 AAAAAA
13615544 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:13616077 original size:14 final size:14
Alignment explanation
Indices: 13616060--13616086 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13616050 ATTTTTAACA
13616060 AAAAATAATTAAAT
1 AAAAATAATTAAAT
13616074 AAAAATAATTAAA
1 AAAAATAATTAAA
13616087 CCTTTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATAATTAAAT
Found at i:13620623 original size:10 final size:10
Alignment explanation
Indices: 13620597--13620632 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
13620587 AAAATATTGA
13620597 TTATTATTAT
1 TTATTATTAT
13620607 TTCATTATTAT
1 TT-ATTATTAT
13620618 TTATTATTAT
1 TTATTATTAT
13620628 TTATT
1 TTATT
13620633 TATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTATTAT
Found at i:13620631 original size:14 final size:14
Alignment explanation
Indices: 13620591--13620637 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
13620581 TTATTCAAAA
*
13620591 TATTGATTATTA-T
1 TATTTATTATTATT
13620604 TATTTCATTATTATT
1 TATTT-ATTATTATT
13620619 TA-TTATTATTTATT
1 TATTTATTA-TTATT
13620633 TATTT
1 TATTT
13620638 TTTTTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 8 0.28
14 16 0.55
15 5 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (14 bp):
TATTTATTATTATT
Found at i:13620842 original size:12 final size:12
Alignment explanation
Indices: 13620813--13620859 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
13620803 TATCATTTTT
13620813 ATTTTATTTAT-
1 ATTTTATTTATA
*
13620824 CTTTTATTTATA
1 ATTTTATTTATA
*
13620836 ATTTTA-TTATT
1 ATTTTATTTATA
13620847 ATTATTATTTATA
1 ATT-TTATTTATA
13620860 GCAAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 17 0.59
12 8 0.28
13 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATTTATA
Found at i:13621025 original size:4 final size:5
Alignment explanation
Indices: 13620998--13621026 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
13620988 TTTAGTTCCA
13620998 TATTT TATTT TATTT TATTT TA-TT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT
13621027 CTAAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:13621107 original size:23 final size:23
Alignment explanation
Indices: 13621046--13621122 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
13621036 TTATGACTAG
* *
13621046 TAATAATATAAAATAAAAATAAAAA
1 TAATAACA-AAAAT-AACATAAAAA
* *
13621071 TAATAACAATAATATCATAAAAGA
1 TAATAACAAAAATAACATAAAA-A
*
13621095 TAA-AATAAAAATAACATAAAAA
1 TAATAACAAAAATAACATAAAAA
13621117 TCAATA
1 T-AATA
13621123 TAAAATCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 2 0.05
23 24 0.57
24 9 0.21
25 7 0.17
ACGTcount: A:0.70, C:0.05, G:0.01, T:0.23
Consensus pattern (23 bp):
TAATAACAAAAATAACATAAAAA
Found at i:13621116 original size:17 final size:17
Alignment explanation
Indices: 13621096--13621152 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
13621086 CATAAAAGAT
* *
13621096 AAAATAAAAATAACATA
1 AAAATCAAAATAAAATA
* *
13621113 AAAATCAATATAAAATC
1 AAAATCAAAATAAAATA
13621130 AAAATCAAAATAGAAAATA
1 AAAATCAAAAT--AAAATA
13621149 AAAA
1 AAAA
13621153 AAAAAACATA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 23 0.72
19 9 0.28
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.18
Consensus pattern (17 bp):
AAAATCAAAATAAAATA
Found at i:13621148 original size:7 final size:6
Alignment explanation
Indices: 13621050--13621157 Score: 64
Period size: 6 Copynumber: 18.3 Consensus size: 6
13621040 GACTAGTAAT
* * * * *
13621050 AATATAA AATAAA AATAAA AATAAT AACAAT AAT-AT CATAAA AGAT-AA
1 AATA-AA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAAA
* * * * *
13621098 AATAAA AAT-AA CATAAA AATCAA TAT-AA AATCAA AATCAA AATAGAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATA-AA
13621145 AATAAA AA-AAA AA
1 AATAAA AATAAA AA
13621158 ACATACCAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
5 19 0.23
6 52 0.63
7 12 0.14
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:13622817 original size:16 final size:17
Alignment explanation
Indices: 13622785--13622827 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13622775 AATTTTATTA
*
13622785 ATAAAATATATATAAAT
1 ATAAAATATAAATAAAT
13622802 ATAAAAT-TAAATAAAT
1 ATAAAATATAAATAAAT
13622818 A-ACAAATATA
1 ATA-AAATATA
13622828 TATTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAATATAAATAAAT
Found at i:13623691 original size:15 final size:15
Alignment explanation
Indices: 13623671--13623731 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
13623661 CATATTTGAT
13623671 ATATAAGATATAAA-A
1 ATATAAGATA-AAATA
13623686 ATATAAGATAAAATA
1 ATATAAGATAAAATA
*
13623701 ATAT--TAT-AAATA
1 ATATAAGATAAAATA
* *
13623713 AAATAAAATAAAATA
1 ATATAAGATAAAATA
13623728 ATAT
1 ATAT
13623732 TATCATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 5 0.13
15 23 0.61
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
ATATAAGATAAAATA
Found at i:13624008 original size:16 final size:17
Alignment explanation
Indices: 13623977--13624010 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13623967 TAAAATAATT
*
13623977 ATAATTTTATTCTATTA
1 ATAATTTTATTATATTA
13623994 ATAATTTTA-TATATTA
1 ATAATTTTATTATATTA
13624010 A
1 A
13624011 ACCTGACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATTTTATTATATTA
Found at i:13625170 original size:2 final size:2
Alignment explanation
Indices: 13625163--13625194 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13625153 GCACTTTCAT
13625163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13625195 AGTTTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13626241 original size:16 final size:16
Alignment explanation
Indices: 13626215--13626247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13626205 AACATTTTTA
13626215 ATTAAATTTAAA-TCT
1 ATTAAATTTAAACTCT
13626230 ATTAAGATTTAAACTCT
1 ATTAA-ATTTAAACTCT
13626247 A
1 A
13626248 ATCATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTAAATTTAAACTCT
Found at i:13627215 original size:28 final size:28
Alignment explanation
Indices: 13627183--13627237 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13627173 TTTCCCTTTT
* *
13627183 AAAGTATAAGCAACAATTTTTAATATTG
1 AAAGTATAAACAACAATTCTTAATATTG
13627211 AAAGTATAAACAACAATTCTTAATATT
1 AAAGTATAAACAACAATTCTTAATATT
13627238 AAAACCAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAGTATAAACAACAATTCTTAATATTG
Found at i:13628468 original size:2 final size:2
Alignment explanation
Indices: 13628461--13628497 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13628451 AACAAAGAAA
13628461 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
13628498 ATAAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13629044 original size:2 final size:2
Alignment explanation
Indices: 13629037--13629079 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13629027 ATAGTTAAAA
13629037 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13629079 A
1 A
13629080 ATGGGGCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13633246 original size:13 final size:12
Alignment explanation
Indices: 13633219--13633269 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
13633209 ATTTCGCTTG
*
13633219 AAAACAAAG-GA
1 AAAAAAAAGAGA
*
13633230 AAAAAGAAGAAGA
1 AAAAAAAAG-AGA
13633243 AAAAAAAAGAGA
1 AAAAAAAAGAGA
*
13633255 AAGAGAAAAGAGA
1 AA-AAAAAAGAGA
13633268 AA
1 AA
13633270 GCAAAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.21
12 5 0.15
13 21 0.64
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAGA
Found at i:13633276 original size:13 final size:12
Alignment explanation
Indices: 13633232--13633277 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
13633222 ACAAAGGAAA
*
13633232 AAAGAAGAAGA-
1 AAAGAAAAAGAG
13633243 AAA-AAAAAGAG
1 AAAGAAAAAGAG
13633254 AAAGAGAAAAGAG
1 AAAGA-AAAAGAG
13633267 AAAGCAAAAAG
1 AAAG-AAAAAG
13633278 TTAGTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 6 0.20
11 6 0.20
12 1 0.03
13 16 0.53
14 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAG
Found at i:13635233 original size:47 final size:48
Alignment explanation
Indices: 13635176--13635267 Score: 125
Period size: 48 Copynumber: 1.9 Consensus size: 48
13635166 TAAACTAATA
* *
13635176 ATAATGATGATTTATAATGA-TTTTAA-AGATTGATCCATGATTTGTAT
1 ATAAAGATGATTTACAATGATTTTTAATA-ATTGATCCATGATTTGTAT
* *
13635223 ATAAAGATGATTTACGATGATTTTTAATAATTGATTCATGATTTG
1 ATAAAGATGATTTACAATGATTTTTAATAATTGATCCATGATTTG
13635268 GTTTGATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 17 0.44
48 21 0.54
49 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (48 bp):
ATAAAGATGATTTACAATGATTTTTAATAATTGATCCATGATTTGTAT
Found at i:13641023 original size:12 final size:12
Alignment explanation
Indices: 13641006--13641068 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
13640996 TATTATTTTG
*
13641006 TAAATAAATATT
1 TAAATAAATAAT
*
13641018 TAAATATATAAT
1 TAAATAAATAAT
*
13641030 T-ATTCAAATATAT
1 TAAAT-AAATA-AT
13641043 ATAAATAAATAAT
1 -TAAATAAATAAT
*
13641056 TAAAAAAATAAT
1 TAAATAAATAAT
13641068 T
1 T
13641069 TTTATATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
11 2 0.05
12 27 0.66
13 4 0.10
14 6 0.15
15 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:13641033 original size:16 final size:16
Alignment explanation
Indices: 13641009--13641043 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13640999 TATTTTGTAA
*
13641009 ATAAATATTTAAATAT
1 ATAAATATTCAAATAT
*
13641025 ATAATTATTCAAATAT
1 ATAAATATTCAAATAT
13641041 ATA
1 ATA
13641044 TAAATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAATATTCAAATAT
Found at i:13643657 original size:29 final size:30
Alignment explanation
Indices: 13643618--13643681 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 30
13643608 CATTTAAGCA
13643618 TTTAATATTTTATTCTAA-TTAATTAAACT
1 TTTAATATTTTATTCTAACTTAATTAAACT
* *
13643647 TTTAATCTTTTATTTTAACTTAATTAAACT
1 TTTAATATTTTATTCTAACTTAATTAAACT
13643677 TTTAA
1 TTTAA
13643682 ATAGATAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTAATATTTTATTCTAACTTAATTAAACT
Found at i:13645381 original size:10 final size:10
Alignment explanation
Indices: 13645366--13645391 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13645356 GTTTGGATAA
13645366 AAATTAAATG
1 AAATTAAATG
13645376 AAATTAAATG
1 AAATTAAATG
13645386 AAATTA
1 AAATTA
13645392 GATATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (10 bp):
AAATTAAATG
Found at i:13645602 original size:22 final size:22
Alignment explanation
Indices: 13645577--13645641 Score: 58
Period size: 28 Copynumber: 2.7 Consensus size: 22
13645567 CAAACTTAAT
13645577 TTTTATTTTTATATAATTTTTA
1 TTTTATTTTTATATAATTTTTA
13645599 TTTTAAATTTTTACATATATAATTTTTA
1 TTTT--A-TTTT---TATATAATTTTTA
**
13645627 TTTTAAATTTATATA
1 TTTTATTTTTATATA
13645642 TATATGAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
22 10 0.29
24 1 0.03
25 6 0.17
26 1 0.03
28 17 0.49
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTATTTTTATATAATTTTTA
Found at i:13645609 original size:13 final size:13
Alignment explanation
Indices: 13645591--13645636 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
13645581 ATTTTTATAT
13645591 AATTTTTATTTTA
1 AATTTTTATTTTA
* *
13645604 AATTTTTACATATA
1 AATTTTTA-TTTTA
13645618 TAATTTTTATTTTA
1 -AATTTTTATTTTA
13645632 AATTT
1 AATTT
13645637 ATATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 13 0.48
14 6 0.22
15 8 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
AATTTTTATTTTA
Found at i:13645621 original size:28 final size:28
Alignment explanation
Indices: 13645586--13645651 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
13645576 TTTTTATTTT
*
13645586 TATATAATTTTTATTTTAAATTTTTACA
1 TATATAATTTTTATTTTAAATTTATACA
*
13645614 TATATAATTTTTATTTTAAATTTATATA
1 TATATAATTTTTATTTTAAATTTATACA
13645642 TATATGAATT
1 TATAT-AATT
13645652 AAATATAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
TATATAATTTTTATTTTAAATTTATACA
Found at i:13646860 original size:2 final size:2
Alignment explanation
Indices: 13646847--13646882 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
13646837 AAGTGACGTG
*
13646847 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13646883 TCTGTCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13648805 original size:202 final size:203
Alignment explanation
Indices: 13648438--13648805 Score: 451
Period size: 202 Copynumber: 1.8 Consensus size: 203
13648428 AATTTAATTA
* * ** * *
13648438 TATTGAAGATTTTTTATAAATATTCCAATATGCTGGTAATATTTTACAAAAAATCTTCTCACCTA
1 TATTGAAGAATTTTTATAAATACTCCAATACACTAGTAATATTTTAAAAAAAATCTTCTCACCTA
* * * * * *
13648503 GAGATTTTTTAAAGCATCTCTACTCGGAATACTTTTAGAATCTCATTACCGGATAAAATTTCTTT
66 AAGATTTCTTAAAGCATCACTACTCGAAATACCTTTAGAATCTCATCACCGGATAAAATTTCTTT
* * *
13648568 TCTTCTCATTTTTACTTGTATTTTTAATATATTAAACAATTTTTATTTATTATTAAAAAAAAATT
131 TCTACTCATTTTTACTTGTAGTATTAATATATTAAACAATTTTTATTTATTATTAAAAAAAAATT
13648633 TTTTACTG
196 TTTTACTG
* *
13648641 TATTGAA-AATTTTTATAAATACTCCAATACACTAGTAGTATTTTAAAAAAAATCTTTTCACCTA
1 TATTGAAGAATTTTTATAAATACTCCAATACACTAGTAATATTTTAAAAAAAATCTTCTCACCTA
* **
13648705 AAGATTTCTT-AGGCATCACTACTCGAAATACCTTT-GAATCTCATCGTCGGATAAAAATTTCCT
66 AAGATTTCTTAAAGCATCACTACTCGAAATACCTTTAGAATCTCATCACCGGAT-AAAATTT-CT
**
13648768 TTTCCTACATTTTTTATTACTT-TAGTATT-AT-TATTAAA
129 TTT-CTAC-TCATTT-TTACTTGTAGTATTAATATATTAAA
13648806 TTTATTTTTA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
200 14 0.10
201 28 0.20
202 69 0.50
203 12 0.09
204 9 0.07
205 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (203 bp):
TATTGAAGAATTTTTATAAATACTCCAATACACTAGTAATATTTTAAAAAAAATCTTCTCACCTA
AAGATTTCTTAAAGCATCACTACTCGAAATACCTTTAGAATCTCATCACCGGATAAAATTTCTTT
TCTACTCATTTTTACTTGTAGTATTAATATATTAAACAATTTTTATTTATTATTAAAAAAAAATT
TTTTACTG
Found at i:13648971 original size:14 final size:13
Alignment explanation
Indices: 13648946--13648970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13648936 AATAATATAT
13648946 AAAAAAAATTTTA
1 AAAAAAAATTTTA
13648959 AAAAAAAATTTT
1 AAAAAAAATTTT
13648971 TTTTACCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAAAATTTTA
Found at i:13649030 original size:13 final size:13
Alignment explanation
Indices: 13649012--13649043 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
13649002 ATCAACGCGT
*
13649012 GGTTCGGTTCGAC
1 GGTTCGGTCCGAC
13649025 GGTTCGGTCCGAC
1 GGTTCGGTCCGAC
13649038 GGTTCG
1 GGTTCG
13649044 ACGATTCGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.25, G:0.41, T:0.28
Consensus pattern (13 bp):
GGTTCGGTCCGAC
Found at i:13649978 original size:11 final size:11
Alignment explanation
Indices: 13649964--13650004 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
13649954 TTTTTATATA
13649964 TTTTGTATTAT
1 TTTTGTATTAT
13649975 TTTTGGTA-TAT
1 TTTT-GTATTAT
13649986 TTTT-TATTAT
1 TTTTGTATTAT
*
13649996 ATTTGTATT
1 TTTTGTATT
13650005 TTGTATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 2 0.08
10 6 0.23
11 15 0.58
12 3 0.12
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTGTATTAT
Found at i:13649984 original size:21 final size:20
Alignment explanation
Indices: 13649960--13650015 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
13649950 CTTTTTTTTA
*
13649960 TATATTTTGTATTATTTTTGG
1 TATATTTTGTATTATATTT-G
*
13649981 TATATTTTTTATTATATTTG
1 TATATTTTGTATTATATTTG
13650001 --TATTTTGTATT-TATT
1 TATATTTTGTATTATATT
13650016 ACGTATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 4 0.12
18 10 0.31
20 1 0.03
21 17 0.53
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (20 bp):
TATATTTTGTATTATATTTG
Found at i:13650407 original size:49 final size:49
Alignment explanation
Indices: 13650203--13650526 Score: 333
Period size: 49 Copynumber: 6.7 Consensus size: 49
13650193 AAAAAACTCT
* * *
13650203 TCTCAGCAGTGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAAGCTCA
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGGCTCC
* *
13650253 TCTCAGCAGAGGCTCAACAACTTTAAAAATTTCAT-TTGGAAAA-GCTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTGAAAAAGGCTCC
* * *
13650301 TCTAAGTAGAGACTCAACAACTTT-AAA----ATCTTGAAAAAGGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCC
* * * * *
13650345 TCTCAGCAAAGGCTCAACGACTTTAAAATCTCATCTTGGAAATGGCTCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCC
* * * * * *
13650394 TTTTAGCAGAGGCTTAACAATTTTAAAA-ATCATCTTGAAAAAGGCTAC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCC
* ** * *
13650442 TCTCAGTAGAGGCTCAACAACTTTAAAAT-TTTTTTTGGAAAAGGGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-GAAAAAGGCTCC
*
13650491 TCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCT
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCT
13650527 ATTTTTTAAA
Statistics
Matches: 222, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
42 2 0.01
43 7 0.03
44 24 0.11
45 3 0.01
46 3 0.01
48 67 0.30
49 80 0.36
50 36 0.16
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (49 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCC
Found at i:13650450 original size:141 final size:142
Alignment explanation
Indices: 13650203--13650526 Score: 411
Period size: 141 Copynumber: 2.3 Consensus size: 142
13650193 AAAAAACTCT
* *
13650203 TCTCAGCAGTGGCTCAACAACTTTAAAAATCTCATCTTGAAAAAAGCTCATCTCAGCAGAGGCTC
1 TCTCAGCAGAGGCTCAACGACTTT-AAAATCTCATCTTGAAAAAAGCTCATCTCAGCAGAGGCTC
* *
13650268 AACAACTTTAAAAATTTCATTTGGAAAAGCTCCTCTAAGTAGAGACTCAACAACTTTAAAA-TCT
65 AACAACTTTAAAAA-TTCATTTGAAAAAGCTACTCTAAGTAGAGACTCAACAACTTTAAAATTCT
13650332 T-GAAAAAGGCTCC
129 TGGAAAAAGGCTCC
* * ** * * * *
13650345 TCTCAGCAAAGGCTCAACGACTTTAAAATCTCATCTTGGAAATGGCTCTTTTTAGCAGAGGCTTA
1 TCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTGAAAAAAGCTCATCTCAGCAGAGGCTCA
* * *
13650410 ACAATTTTAAAAA-TCATCTTGAAAAAGGCTACTCTCAGTAGAGGCTCAACAACTTTAAAATTTT
66 ACAACTTTAAAAATTCAT-TTGAAAAA-GCTACTCTAAGTAGAGACTCAACAACTTTAAAA---T
* *
13650474 TTTTGGAAAAGGGCTCC
126 TCTTGGAAAAAGGCTCC
13650491 TCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCT
1 TCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCT
13650527 ATTTTTTAAA
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
139 4 0.03
140 7 0.04
141 76 0.48
142 21 0.13
145 3 0.02
146 46 0.29
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (142 bp):
TCTCAGCAGAGGCTCAACGACTTTAAAATCTCATCTTGAAAAAAGCTCATCTCAGCAGAGGCTCA
ACAACTTTAAAAATTCATTTGAAAAAGCTACTCTAAGTAGAGACTCAACAACTTTAAAATTCTTG
GAAAAAGGCTCC
Found at i:13651291 original size:10 final size:9
Alignment explanation
Indices: 13651270--13651310 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
13651260 TAAGTCATTA
13651270 TTTTTTCAT
1 TTTTTTCAT
*
13651279 TTTTTAC-T
1 TTTTTTCAT
13651287 TTTTTTCAT
1 TTTTTTCAT
13651296 TTTTTTCAT
1 TTTTTTCAT
13651305 TTTTTT
1 TTTTTT
13651311 TCAAGCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTCAT
Found at i:13651292 original size:17 final size:18
Alignment explanation
Indices: 13651270--13651310 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
13651260 TAAGTCATTA
13651270 TTTTTTCATTTTTTAC-T
1 TTTTTTCATTTTTTACAT
*
13651287 TTTTTTCATTTTTTTCAT
1 TTTTTTCATTTTTTACAT
13651305 TTTTTT
1 TTTTTT
13651311 TCAAGCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCATTTTTTACAT
Found at i:13652604 original size:22 final size:22
Alignment explanation
Indices: 13652579--13652620 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13652569 ATCACCTAAG
*
13652579 GAAATT-TTAAGAATCACTATTC
1 GAAATTCTTAAAAATC-CTATTC
13652601 GAAATTCTTAAAAATCCTAT
1 GAAATTCTTAAAAATCCTAT
13652621 CTTTAGCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (22 bp):
GAAATTCTTAAAAATCCTATTC
Found at i:13655978 original size:3 final size:3
Alignment explanation
Indices: 13655970--13655995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13655960 AGGCAGGGAA
13655970 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13655996 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13657254 original size:23 final size:23
Alignment explanation
Indices: 13657219--13657272 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
13657209 CCCCTTGACT
13657219 TTTGTCTTATTTTCGTT-TCTTTTG
1 TTTGT-TTATTTT-GTTATCTTTTG
* *
13657243 TTTGTTTATTTTTTTATTTTTTG
1 TTTGTTTATTTTGTTATCTTTTG
13657266 TTTGTTT
1 TTTGTTT
13657273 CGTTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 20 0.74
24 5 0.19
ACGTcount: A:0.06, C:0.06, G:0.11, T:0.78
Consensus pattern (23 bp):
TTTGTTTATTTTGTTATCTTTTG
Found at i:13657490 original size:13 final size:13
Alignment explanation
Indices: 13657472--13657501 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13657462 CAACAACTTT
13657472 AAAATCTCATATG
1 AAAATCTCATATG
*
13657485 AAAATCTCATCTG
1 AAAATCTCATATG
13657498 AAAA
1 AAAA
13657502 AGCTCCTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (13 bp):
AAAATCTCATATG
Found at i:13657567 original size:14 final size:15
Alignment explanation
Indices: 13657538--13657571 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
13657528 CTTTAAAATT
*
13657538 CTCATCTTGGAAAAG
1 CTCATCTTGAAAAAG
13657553 CTCATC-TGAAAAAG
1 CTCATCTTGAAAAAG
13657567 CTCAT
1 CTCAT
13657572 TTCAATAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (15 bp):
CTCATCTTGAAAAAG
Found at i:13657582 original size:63 final size:63
Alignment explanation
Indices: 13657436--13657623 Score: 247
Period size: 63 Copynumber: 3.0 Consensus size: 63
13657426 ATTTTATTTT
* * * * * *
13657436 TGAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCAT-AT-GAAAATCTCATC
1 TGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTCATC
* *
13657496 TGAAAAAGCTCCTCTCAACAGAGGCTCCATAACTTTAAAATTCTCATCTTGGAAAAGCTCATC
1 TGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTCATC
* * * *
13657559 TGAAAAAGCTCATTTCAATAGAGGCTCCACAACTTTAAAATTCTGATCTTGGAAAAGCTCCTC
1 TGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTCATC
13657622 TG
1 TG
13657624 CTTTCAGTAG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
60 36 0.32
61 6 0.05
62 1 0.01
63 70 0.62
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (63 bp):
TGAAAAAGCTCATCTCAACAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTCATC
Found at i:13657688 original size:52 final size:50
Alignment explanation
Indices: 13657548--13657808 Score: 297
Period size: 47 Copynumber: 5.3 Consensus size: 50
13657538 CTCATCTTGG
* * ** *
13657548 AAAAGCTCATCTGAAAAAGCTC-AT-T-TCAATAGAGGCTCCACAACTTT
1 AAAATCTCATCTGAAAAAGCTCTCTCTCTCAGCAGAGGCTCAACAACTTT
* * * * *
13657595 AAAATTCTGATCTTGGAAAAGCTCCTCTGCTTTCAGTAGAGGCTCAACGACTTT
1 AAAA-TCTCATC-TGAAAAAGCT-CTCT-CTCTCAGCAGAGGCTCAACAACTTT
*
13657649 AAAATCTCATCTGAAAAAGCTCCTCTGCTCTCAGCAGAGGCTCAGCAACTTT
1 AAAATCTCATCTGAAAAAGCT-CTCT-CTCTCAGCAGAGGCTCAACAACTTT
13657701 AAAATCTCATCTGAAAAAG-T-TC-CTCTCAGCAGAGGCTCAACAACTTT
1 AAAATCTCATCTGAAAAAGCTCTCTCTCTCAGCAGAGGCTCAACAACTTT
13657748 AAAATCTCATCTGAAAAAGCTC-CTCTCT-A-CAGAGGCTCAACAACTTT
1 AAAATCTCATCTGAAAAAGCTCTCTCTCTCAGCAGAGGCTCAACAACTTT
13657795 AAAAATCTCATCTG
1 -AAAATCTCATCTG
13657809 TTTTTAAATT
Statistics
Matches: 189, Mismatches: 14, Indels: 21
0.84 0.06 0.09
Matches are distributed among these distances:
47 65 0.34
48 21 0.11
49 15 0.08
50 1 0.01
51 2 0.01
52 55 0.29
53 7 0.04
54 23 0.12
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (50 bp):
AAAATCTCATCTGAAAAAGCTCTCTCTCTCAGCAGAGGCTCAACAACTTT
Found at i:13657751 original size:99 final size:95
Alignment explanation
Indices: 13657548--13657808 Score: 299
Period size: 99 Copynumber: 2.6 Consensus size: 95
13657538 CTCATCTTGG
* * * * * * * * *
13657548 AAAAGCTCATCTGAAAAAGCTCATTTCAATAGAGGCTCCACAACTTTAAAATTCTGATCTTGGAA
1 AAAATCTCATCTGAAAAAGCTCCTCTCTACAGAGGCTCAACAACTTTAAAAATCTCATC-TGAAA
* * *
13657613 AAGCTCCTCTGCTTTCAGTAGAGGCTCAACGACTTT
65 AAG-T--TC--CTCTCAGCAGAGGCTCAACAACTTT
*
13657649 AAAATCTCATCTGAAAAAGCTCCTCTGCTCTCAGCAGAGGCTCAGCAACTTT-AAAATCTCATCT
1 AAAATCTCATCTGAAAAAGCT-C-CT-CTCT-A-CAGAGGCTCAACAACTTTAAAAATCTCATCT
13657713 GAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTT
61 GAAAAAGTTCCTCTCAGCAGAGGCTCAACAACTTT
13657748 AAAATCTCATCTGAAAAAGCTCCTCTCTACAGAGGCTCAACAACTTTAAAAATCTCATCTG
1 AAAATCTCATCTGAAAAAGCTCCTCTCTACAGAGGCTCAACAACTTTAAAAATCTCATCTG
13657809 TTTTTAAATT
Statistics
Matches: 140, Mismatches: 14, Indels: 18
0.81 0.08 0.10
Matches are distributed among these distances:
94 17 0.12
95 14 0.10
96 4 0.03
97 2 0.01
98 1 0.01
99 43 0.31
101 22 0.16
102 1 0.01
103 2 0.01
104 9 0.06
105 10 0.07
106 15 0.11
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (95 bp):
AAAATCTCATCTGAAAAAGCTCCTCTCTACAGAGGCTCAACAACTTTAAAAATCTCATCTGAAAA
AGTTCCTCTCAGCAGAGGCTCAACAACTTT
Found at i:13657993 original size:23 final size:23
Alignment explanation
Indices: 13657967--13658054 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 23
13657957 AATCAAATTT
13657967 ATGCCCGGAGGTCTTACAAAATC
1 ATGCCCGGAGGTCTTACAAAATC
** *
13657990 ATGCCTAGAGGTTTTACAAAAT-
1 ATGCCCGGAGGTCTTACAAAATC
* * * *
13658012 -TACTCGTAGGT-TT-TAAAATC
1 ATGCCCGGAGGTCTTACAAAATC
13658032 ATGCCCGGAGGTCTTACAGAAAT
1 ATGCCCGGAGGTCTTACA-AAAT
13658055 GACTGGGATA
Statistics
Matches: 47, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
19 5 0.11
20 2 0.04
21 14 0.30
22 2 0.04
23 20 0.43
24 4 0.09
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (23 bp):
ATGCCCGGAGGTCTTACAAAATC
Found at i:13658043 original size:21 final size:21
Alignment explanation
Indices: 13657967--13658043 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 21
13657957 AATCAAATTT
*
13657967 ATGCCCGGAGGTCTTACAAAATC
1 ATGCCCGGAGGT-TT-TAAAATC
**
13657990 ATGCCTAGAGGTTTTACAAA--
1 ATGCCCGGAGGTTTTA-AAATC
* * *
13658010 ATTACTCGTAGGTTTTAAAATC
1 A-TGCCCGGAGGTTTTAAAATC
13658032 ATGCCCGGAGGT
1 ATGCCCGGAGGT
13658044 CTTACAGAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
20 4 0.10
21 19 0.49
22 6 0.15
23 10 0.26
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (21 bp):
ATGCCCGGAGGTTTTAAAATC
Found at i:13658147 original size:23 final size:23
Alignment explanation
Indices: 13658117--13658164 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
13658107 CGAATCAAAT
13658117 TCATGCCCCGAGGTCTTACAGAA
1 TCATGCCCCGAGGTCTTACAGAA
* *
13658140 TCATGCCCGGAGGTCTTATAGAA
1 TCATGCCCCGAGGTCTTACAGAA
13658163 TC
1 TC
13658165 TCAAAATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (23 bp):
TCATGCCCCGAGGTCTTACAGAA
Found at i:13658845 original size:33 final size:33
Alignment explanation
Indices: 13658743--13659285 Score: 625
Period size: 33 Copynumber: 16.5 Consensus size: 33
13658733 TCGGGGCTAA
* *
13658743 ATAAACTGGGCTTAAAT-TTTATTGAAGGCCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* * * ** *
13658775 CTAAATTGGGCTTAAAACCCCATTTGAGGGCCAG
1 ATAAACTGGGCTTAAATCTTCA-TTGATGGCCAG
13658809 ATAAACTGGGCTTAAATCTTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAATCTTCA-TTGATGGCCAG
* *
13658842 ATAAACTGGGCTTAAATCTTTATTTGA-GACCAG
1 ATAAACTGGGCTTAAATCTTCA-TTGATGGCCAG
* * *
13658875 ATAAACTGGGCTTAAATCTTCATTAATGGTCAA
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* * *
13658908 ATAAACTGGGTTTAAAGCCTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
*
13658941 ATAAACTGGGCTTAAAGT-TTCATTGATGGCCAA
1 ATAAACTGGGCTTAAA-TCTTCATTGATGGCCAG
* **
13658974 ATAAACTAGGCTTAAATCTTCATTGATGGTTAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* * *
13659007 ATAAATTGGGCTTAAATTTTCATTGATAGCCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* *
13659040 AT-AATTGAGCTTAAAT-TATCATTGATGGCCAG
1 ATAAACTGGGCTTAAATCT-TCATTGATGGCCAG
* * *
13659072 ATAAACTGGGCTTAAAGCATCATTGATGGTCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* *
13659105 ATAAACTGGGCTTAAAGCTTCGTTGATGGCCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
*
13659138 ATAAACTGGGCTTAAATCTTCATTGATGACCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* * *
13659171 ATAAATTAGGCTTAAATTTTCATTGATGGCCAG
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
* * *
13659204 ATAAACTAGGCTTAAATCTTTATTGATGGCCAA
1 ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
13659237 ATAAACTGGGCTTAAAGT-TTCATTGGA-GGCCAG
1 ATAAACTGGGCTTAAA-TCTTCATT-GATGGCCAG
*
13659270 ATAAACTAGGCTTAAA
1 ATAAACTGGGCTTAAA
13659286 GTTTTTCTCC
Statistics
Matches: 437, Mismatches: 64, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
31 1 0.00
32 46 0.11
33 355 0.81
34 35 0.08
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (33 bp):
ATAAACTGGGCTTAAATCTTCATTGATGGCCAG
Found at i:13668202 original size:6 final size:6
Alignment explanation
Indices: 13668181--13668222 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
13668171 TTGTCTTTGG
*
13668181 TTTTTA TTTCTA TTTTT- TTTTTA TTTTTA TGTTTCTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T-TTT-TA TTTTT
13668223 TTGATTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 17 0.55
7 6 0.19
8 3 0.10
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:13669449 original size:92 final size:92
Alignment explanation
Indices: 13669326--13669510 Score: 307
Period size: 92 Copynumber: 2.0 Consensus size: 92
13669316 AGCTAGGTAA
* * * * * *
13669326 TAACCAAGTAACAATAGAGAGCAAGTAAGAGTGTGTAACATTAGGGACTTAGGCCTCAAGAGCTT
1 TAACCAAGTAACAACAAAAAACAAGTAAGAGTGTGTAACATTAGGGACTTAAGCCTCAAGAGCCT
13669391 TTGTAGAGAATACATAAGGATTGTGTT
66 TTGTAGAGAATACATAAGGATTGTGTT
*
13669418 TAACCAAGTAACAACAAAAAACAAGTAAGAGTGTGTAGCATTAGGGACTTAAGCCTCAAGAGCCT
1 TAACCAAGTAACAACAAAAAACAAGTAAGAGTGTGTAACATTAGGGACTTAAGCCTCAAGAGCCT
13669483 TTGTAGAGAATACATAAGGATTGTGTT
66 TTGTAGAGAATACATAAGGATTGTGTT
13669510 T
1 T
13669511 TAAGAGCAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.25
Consensus pattern (92 bp):
TAACCAAGTAACAACAAAAAACAAGTAAGAGTGTGTAACATTAGGGACTTAAGCCTCAAGAGCCT
TTGTAGAGAATACATAAGGATTGTGTT
Found at i:13673609 original size:23 final size:24
Alignment explanation
Indices: 13673565--13673609 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
13673555 TAGCAAGATA
13673565 AATTATTTAATTTTTTTCATATGT
1 AATTATTTAATTTTTTTCATATGT
13673589 AATTATTT-ATTATTTTT-ATAT
1 AATTATTTAATT-TTTTTCATAT
13673610 AAAAAATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
AATTATTTAATTTTTTTCATATGT
Found at i:13682603 original size:15 final size:15
Alignment explanation
Indices: 13682566--13682603 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13682556 CACCATGGGC
* *
13682566 ATATAAATTATTAAA
1 ATATAATTTAATAAA
13682581 ATAT-ATTTAATAAA
1 ATATAATTTAATAAA
13682595 ATATAATTT
1 ATATAATTT
13682604 TATATCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATAATTTAATAAA
Found at i:13683508 original size:30 final size:30
Alignment explanation
Indices: 13683474--13683541 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
13683464 CAATTATTAT
13683474 TATTTCATTGTAATC-AACTAAACCTTTAAA
1 TATTT-ATTGTAATCTAACTAAACCTTTAAA
* * * *
13683504 TATTTATTTTTATCTAATTAAACTTTTAAA
1 TATTTATTGTAATCTAACTAAACCTTTAAA
*
13683534 TATCTATT
1 TATTTATT
13683542 TTCATCATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 7 0.22
30 25 0.78
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTTATTGTAATCTAACTAAACCTTTAAA
Found at i:13683542 original size:30 final size:31
Alignment explanation
Indices: 13683491--13683580 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 31
13683481 TTGTAATCAA
*
13683491 CTAAACCTTTAAATATTTATTTTTATCTAAT
1 CTAAACTTTTAAATATTTATTTTTATCTAAT
* * *
13683522 -TAAACTTTTAAATATCTATTTTCATC-ATT
1 CTAAACTTTTAAATATTTATTTTTATCTAAT
* *
13683551 CTGAATTTTTAAATATTTATTTTTATCTAA
1 CTAAACTTTTAAATATTTATTTTTATCTAA
13683581 GTAAGTCTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 45 0.94
31 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.53
Consensus pattern (31 bp):
CTAAACTTTTAAATATTTATTTTTATCTAAT
Found at i:13683592 original size:30 final size:29
Alignment explanation
Indices: 13683497--13683592 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
13683487 TCAACTAAAC
* *
13683497 CTTTAAATATTTATTTTTATCTAATTAAA
1 CTTTAAATATTTATTTTTATCTAACTAAT
* * *
13683526 CTTTTAAATATCTATTTTCATC-ATTCTGAAT
1 C-TTTAAATATTTATTTTTATCTA-ACT-AAT
* *
13683557 TTTTAAATATTTATTTTTATCTAAGTAAGT
1 CTTTAAATATTTATTTTTATCTAACTAA-T
13683587 CTTTAA
1 CTTTAA
13683593 TTGGACAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
29 4 0.08
30 44 0.86
31 3 0.06
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.54
Consensus pattern (29 bp):
CTTTAAATATTTATTTTTATCTAACTAAT
Found at i:13684352 original size:161 final size:163
Alignment explanation
Indices: 13684178--13684476 Score: 521
Period size: 163 Copynumber: 1.8 Consensus size: 163
13684168 GAAACACTTC
***
13684178 GACATAATAAATTAT-A-ATATATATATATATGTATAGGATAATGTTACATGCATTAACATGCTA
1 GACATAATAAATTATAATATATATATATATATGTATAGGATAATGTTACATGCATTAACACAATA
* *
13684241 CACTTAAATAATATATTCACTTTTTTTACATTTTATTTTAGAGATTTAAGGCTACATTTGGTGTA
66 CACTTAAATAATATATTCAATTTTTTTACATTTTATTTTAGAGATTTAAAGCTACATTTGGTGTA
13684306 TAAGATTATGAAAGAAACACTTCAATACTTGTT
131 TAAGATTATGAAAGAAACACTTCAATACTTGTT
13684339 GACATAATAAATTATAATATATATATATATATGTATAGGATAATGTTACATGCATTAACACAATA
1 GACATAATAAATTATAATATATATATATATATGTATAGGATAATGTTACATGCATTAACACAATA
* *
13684404 CACTTAAATAATTTATTCAATTTTTTTACATTTTATTTTAGAGATTTAAAGCTACGTTTGGTGTA
66 CACTTAAATAATATATTCAATTTTTTTACATTTTATTTTAGAGATTTAAAGCTACATTTGGTGTA
13684469 TAAGATTA
131 TAAGATTA
13684477 AGATATGATA
Statistics
Matches: 129, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
161 15 0.12
162 1 0.01
163 113 0.88
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (163 bp):
GACATAATAAATTATAATATATATATATATATGTATAGGATAATGTTACATGCATTAACACAATA
CACTTAAATAATATATTCAATTTTTTTACATTTTATTTTAGAGATTTAAAGCTACATTTGGTGTA
TAAGATTATGAAAGAAACACTTCAATACTTGTT
Found at i:13685952 original size:26 final size:26
Alignment explanation
Indices: 13685901--13685952 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
13685891 TTTGGTGAGA
* *
13685901 TTTTATTTGAAAGATATTTATAAAAT
1 TTTTATTTGAAAGAAATGTATAAAAT
*
13685927 TTTTATTTTGAAA-AAATGTATTAAAT
1 TTTTA-TTTGAAAGAAATGTATAAAAT
13685953 CTTCCAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (26 bp):
TTTTATTTGAAAGAAATGTATAAAAT
Found at i:13686255 original size:20 final size:21
Alignment explanation
Indices: 13686230--13686277 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
13686220 TTTCAATTTA
*
13686230 AAATAAGAAAT-AATAAGAGT
1 AAATAAAAAATAAATAAGAGT
*
13686250 AAATAAAAAATAAATAAGA-A
1 AAATAAAAAATAAATAAGAGT
13686270 AAATAAAA
1 AAATAAAA
13686278 TCAAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (21 bp):
AAATAAAAAATAAATAAGAGT
Found at i:13687195 original size:32 final size:33
Alignment explanation
Indices: 13687123--13687195 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 33
13687113 ATCAAAATTC
* * *
13687123 AAAGTTAAAATGATTCGAATGAAGTCAAATTAG
1 AAAGTGAAAATGATTCGAATGAAATCAAAGTAG
* *
13687156 AATGTGAAAATGATT-GAACT-AAATCAAAGTCG
1 AAAGTGAAAATGATTCGAA-TGAAATCAAAGTAG
13687188 AAAGTGAA
1 AAAGTGAA
13687196 CGTGGTGTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (33 bp):
AAAGTGAAAATGATTCGAATGAAATCAAAGTAG
Found at i:13687445 original size:34 final size:33
Alignment explanation
Indices: 13687403--13687471 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
13687393 AAATCGAGAT
* *
13687403 AAAAAATAAGT-AACTGAGATTGAACCACAGGTCA
1 AAAAAATAAATGAACTG-GATTGAACCA-AGATCA
*
13687437 AAAAAATAAATGATCTGGATTGAACCAAGATCA
1 AAAAAATAAATGAACTGGATTGAACCAAGATCA
13687470 AA
1 AA
13687472 GATAAGTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 7 0.23
34 20 0.65
35 4 0.13
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (33 bp):
AAAAAATAAATGAACTGGATTGAACCAAGATCA
Found at i:13689366 original size:17 final size:17
Alignment explanation
Indices: 13689344--13689376 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13689334 CTTCTGCATC
13689344 TTTTTTTTCCTTTTTCT
1 TTTTTTTTCCTTTTTCT
*
13689361 TTTTTTTTTCTTTTTC
1 TTTTTTTTCCTTTTTC
13689377 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTCCTTTTTCT
Found at i:13692524 original size:60 final size:61
Alignment explanation
Indices: 13692442--13692572 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 61
13692432 ATCCCAAAGT
* * * ** *
13692442 CAAACTCT-AAATCCTAACCCTAATTCAAACCCTAAATATTGGTCGAACCTAA-CACTAATC
1 CAAACCCTAAAATCCTAACCCTAATCCAAACCCTAAACATTGACCAAACCTAACCA-TAATC
* * * *
13692502 CAAACCTTAAAAT-CTAATCCTAATCCAAACCTTAAACCTTGACCAAACCTAACCATAATC
1 CAAACCCTAAAATCCTAACCCTAATCCAAACCCTAAACATTGACCAAACCTAACCATAATC
13692562 CAAACCCTAAA
1 CAAACCCTAAA
13692573 CCTTAGCCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
60 52 0.90
61 6 0.10
ACGTcount: A:0.43, C:0.31, G:0.03, T:0.23
Consensus pattern (61 bp):
CAAACCCTAAAATCCTAACCCTAATCCAAACCCTAAACATTGACCAAACCTAACCATAATC
Found at i:13692549 original size:18 final size:18
Alignment explanation
Indices: 13692526--13692586 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
13692516 TAATCCTAAT
13692526 CCAAACCTTAAACCTT-G
1 CCAAACCTTAAACCTTAG
* *
13692543 ACCAAACC-T-AACCATAAT
1 -CCAAACCTTAAACC-TTAG
*
13692561 CCAAACCCTAAACCTTAG
1 CCAAACCTTAAACCTTAG
13692579 CCAAACCT
1 CCAAACCT
13692587 AACCATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 9 0.26
18 17 0.50
19 4 0.12
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (18 bp):
CCAAACCTTAAACCTTAG
Found at i:13692563 original size:35 final size:35
Alignment explanation
Indices: 13692522--13692613 Score: 132
Period size: 35 Copynumber: 2.6 Consensus size: 35
13692512 AATCTAATCC
*
13692522 TAATCCAAACCTTAAACCTT-GACCAAACCTAACCA
1 TAATCCAAACCCTAAACCTTAG-CCAAACCTAACCA
13692557 TAATCCAAACCCTAAACCTTAGCCAAACCTAACCA
1 TAATCCAAACCCTAAACCTTAGCCAAACCTAACCA
* *
13692592 TAAAACCAAACCCTAAAACTTA
1 T-AATCCAAACCCTAAACCTTA
13692614 AATCCTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.63
36 19 0.37
ACGTcount: A:0.46, C:0.34, G:0.02, T:0.18
Consensus pattern (35 bp):
TAATCCAAACCCTAAACCTTAGCCAAACCTAACCA
Found at i:13692600 original size:18 final size:17
Alignment explanation
Indices: 13692543--13692603 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
13692533 TTAAACCTTG
13692543 ACCAAACCTAACCATAA
1 ACCAAACCTAACCATAA
* *
13692560 TCCAAACCCTAAACC-TTA
1 ACCAAA-CCT-AACCATAA
*
13692578 GCCAAACCTAACCATAAA
1 ACCAAACCTAACCAT-AA
13692596 ACCAAACC
1 ACCAAACC
13692604 CTAAAACTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 4 0.11
17 9 0.26
18 18 0.51
19 4 0.11
ACGTcount: A:0.48, C:0.38, G:0.02, T:0.13
Consensus pattern (17 bp):
ACCAAACCTAACCATAA
Found at i:13692709 original size:13 final size:14
Alignment explanation
Indices: 13692683--13692711 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
13692673 CCCCAAGGTT
13692683 AAACCCTAAAACCA
1 AAACCCTAAAACCA
13692697 AAACCCT-AAACCA
1 AAACCCTAAAACCA
13692710 AA
1 AA
13692712 GTAAAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.34, G:0.00, T:0.07
Consensus pattern (14 bp):
AAACCCTAAAACCA
Found at i:13692725 original size:32 final size:31
Alignment explanation
Indices: 13692683--13692763 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 31
13692673 CCCCAAGGTT
* *
13692683 AAACCCTAAAACCAAAACCCTAAACCAAAGTA
1 AAACCTTAAAACCAAAACCCAAAACC-AAGTA
* *
13692715 AAACCTTAAAATCAAAACCCAAAACCAAGTC
1 AAACCTTAAAACCAAAACCCAAAACCAAGTA
*
13692746 AAACCTCAAAACCAAAAC
1 AAACCTTAAAACCAAAAC
13692764 TATAAAATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 20 0.47
32 23 0.53
ACGTcount: A:0.57, C:0.31, G:0.02, T:0.10
Consensus pattern (31 bp):
AAACCTTAAAACCAAAACCCAAAACCAAGTA
Found at i:13692762 original size:31 final size:32
Alignment explanation
Indices: 13692682--13692763 Score: 105
Period size: 31 Copynumber: 2.6 Consensus size: 32
13692672 GCCCCAAGGT
* *
13692682 TAAACCCT-AAAACCAAAACCCTAAACCAAAG
1 TAAAACCTCAAAACCAAAACCCAAAACCAAAG
* *
13692713 TAAAACCTTAAAATCAAAACCCAAAACC-AAG
1 TAAAACCTCAAAACCAAAACCCAAAACCAAAG
*
13692744 TCAAACCTCAAAACCAAAAC
1 TAAAACCTCAAAACCAAAAC
13692764 TATAAAATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 27 0.61
32 17 0.39
ACGTcount: A:0.56, C:0.30, G:0.02, T:0.11
Consensus pattern (32 bp):
TAAAACCTCAAAACCAAAACCCAAAACCAAAG
Found at i:13692823 original size:19 final size:19
Alignment explanation
Indices: 13692794--13692850 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
13692784 AAAATTGGAA
13692794 CCCTAAAACCAAAAGTCAA-
1 CCCT-AAACCAAAAGTCAAT
13692813 CACCTAAACCAAAAGTCAAT
1 C-CCTAAACCAAAAGTCAAT
13692833 CCCTAAATCC-AAAGTCAA
1 CCCTAAA-CCAAAAGTCAA
13692851 ACTTTAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 29 0.83
20 6 0.17
ACGTcount: A:0.49, C:0.32, G:0.05, T:0.14
Consensus pattern (19 bp):
CCCTAAACCAAAAGTCAAT
Found at i:13692962 original size:19 final size:19
Alignment explanation
Indices: 13692916--13692977 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
13692906 CCCCAAAATG
* *
13692916 AAACCCTAAACCAAGCCCT
1 AAACCTTAAACCAAACCCT
*
13692935 AATCCTTAAACCAAACCCT
1 AAACCTTAAACCAAACCCT
* *
13692954 AAA-CTTTAACCTAAATCCT
1 AAACCTTAAACC-AAACCCT
13692973 AAACC
1 AAACC
13692978 AAGCCCTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
18 7 0.20
19 27 0.77
20 1 0.03
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACCTTAAACCAAACCCT
Found at i:13694481 original size:25 final size:24
Alignment explanation
Indices: 13694452--13694547 Score: 66
Period size: 28 Copynumber: 3.6 Consensus size: 24
13694442 AAAAATTATG
13694452 AAATAAGTTTGATAATTTATATAAT
1 AAATAA-TTTGATAATTTATATAAT
* *
13694477 AAATAAATTTTATTATTTAATATATTAAT
1 AAAT-AATTTGA-TAATT--TATA-TAAT
*
13694506 AAATAATTTGAAAAAAGTTTATATAAT
1 AAATAATTTG--ATAA-TTTATATAAT
*
13694533 AAATATATTTTATAA
1 AAATA-ATTTGATAA
13694548 ATGTTAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
25 8 0.15
26 9 0.16
27 9 0.16
28 17 0.31
29 9 0.16
30 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (24 bp):
AAATAATTTGATAATTTATATAAT
Found at i:13694516 original size:53 final size:55
Alignment explanation
Indices: 13694431--13694545 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 55
13694421 TTTTAATTTG
*
13694431 ATTTT-TTATTTAAAAATTATGAAATAAGTTTG-ATAA-TTTATATAATAAATAA
1 ATTTTATTATTTAAAAATTATGAAATAAGTTTGAAAAAGTTTATATAATAAATAA
* *
13694483 ATTTTATTATTTAATATATTAAT-AAATAA-TTTGAAAAAAGTTTATATAATAAATAT
1 ATTTTATTATTTAA-AAATT-ATGAAATAAGTTTG-AAAAAGTTTATATAATAAATAA
13694539 ATTTTAT
1 ATTTTAT
13694546 AAATGTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
52 5 0.09
53 12 0.22
54 10 0.19
55 5 0.09
56 22 0.41
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (55 bp):
ATTTTATTATTTAAAAATTATGAAATAAGTTTGAAAAAGTTTATATAATAAATAA
Found at i:13694558 original size:27 final size:27
Alignment explanation
Indices: 13694502--13694559 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
13694492 TTTAATATAT
*
13694502 TAATAAATAATTTGAAAAAAGTTTATA
1 TAATAAATAATTTGAAAAAAGTTTAAA
* * *
13694529 TAATAAATATATTTTATAAATG-TTAAA
1 TAATAAATA-ATTTGAAAAAAGTTTAAA
13694556 TAAT
1 TAAT
13694560 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (27 bp):
TAATAAATAATTTGAAAAAAGTTTAAA
Found at i:13695279 original size:29 final size:29
Alignment explanation
Indices: 13695233--13695289 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13695223 AGTAATTTTT
* * *
13695233 AAATTTTGAATAAATTTTATTTTAATCTC
1 AAATTTTGAAAAAATTTTAATTGAATCTC
13695262 AAATTTT-AAAAAATTTTTAATTGAATCT
1 AAATTTTGAAAAAA-TTTTAATTGAATCT
13695290 TCAATTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (29 bp):
AAATTTTGAAAAAATTTTAATTGAATCTC
Found at i:13695740 original size:63 final size:63
Alignment explanation
Indices: 13695624--13695746 Score: 142
Period size: 63 Copynumber: 2.0 Consensus size: 63
13695614 AAAAATGTTG
* * * * * *
13695624 AAAAAATTTCATATCATTTTAAAAAATTAAGCAAAATTTTCTATATTTGTTTAAAGAATTAAA
1 AAAAAATTCCATATCATTTTAAAAAATGAAACAAAAATTTCTATATATGTTTAAAAAATTAAA
* *
13695687 AAAAAATTCCATATCATTTTAAAATATGAAATAAAAATTTC-ATTATCAT-TTTAAAAAATT
1 AAAAAATTCCATATCATTTTAAAAAATGAAACAAAAATTTCTA-TAT-ATGTTTAAAAAATT
13695747 TGATTTAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.39
Consensus pattern (63 bp):
AAAAAATTCCATATCATTTTAAAAAATGAAACAAAAATTTCTATATATGTTTAAAAAATTAAA
Found at i:13696617 original size:14 final size:14
Alignment explanation
Indices: 13696588--13696641 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
13696578 TAAATTTCTT
* *
13696588 AAAATAAAATTATA
1 AAAATAATATTTTA
*
13696602 AAAATATTATTTTA
1 AAAATAATATTTTA
*
13696616 AATATAATATTTTA
1 AAAATAATATTTTA
* *
13696630 TAAATTATATTT
1 AAAATAATATTT
13696642 GAATTATAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAAATAATATTTTA
Found at i:13702434 original size:26 final size:27
Alignment explanation
Indices: 13702401--13702456 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
13702391 TCTTCAATTG
13702401 CTTATATTTAATTCT-ATACTTGTAAA
1 CTTATATTTAATTCTAATACTTGTAAA
*
13702427 CTTATATTTAATTCTAATACTTGTATA
1 CTTATATTTAATTCTAATACTTGTAAA
13702454 CTT
1 CTT
13702457 TCAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (27 bp):
CTTATATTTAATTCTAATACTTGTAAA
Found at i:13702816 original size:78 final size:78
Alignment explanation
Indices: 13702733--13702901 Score: 169
Period size: 78 Copynumber: 2.2 Consensus size: 78
13702723 CATTTTATTG
* * *
13702733 CGTTAAGGCATATGGCCTAACACAAATGCCACTTCCTGCCAACATGC-TTAACATGCCCTAATAT
1 CGTTAAGGCATATGGCCTAACACAAATCCCACTTCCTACCAACA-CCTTTAACATGCCCTAATAT
*
13702797 GCCACATTGTATCA
65 GCCACATTCTATCA
* ** ** * * * * * * *
13702811 TGTTAAAACATATGGGTTAACATAGATCCCACTTCCTATCGACACCTTTAACATTCCTTACTATG
1 CGTTAAGGCATATGGCCTAACACAAATCCCACTTCCTACCAACACCTTTAACATGCCCTAATATG
*
13702876 CCACATTCTATTA
66 CCACATTCTATCA
13702889 CGTTAAGGCATAT
1 CGTTAAGGCATAT
13702902 AGGTTAACAT
Statistics
Matches: 70, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
77 1 0.01
78 69 0.99
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (78 bp):
CGTTAAGGCATATGGCCTAACACAAATCCCACTTCCTACCAACACCTTTAACATGCCCTAATATG
CCACATTCTATCA
Found at i:13702907 original size:78 final size:78
Alignment explanation
Indices: 13702780--13702925 Score: 202
Period size: 78 Copynumber: 1.9 Consensus size: 78
13702770 GCCAACATGC
* * *
13702780 TTAACATGCCCTAATATGCCACATTGTATCATGTTAAAACATATGGGTTAACATAGATCCCACTT
1 TTAACATGCCCTAATATGCCACATTCTATCACGTTAAAACATATAGGTTAACATAGATCCCACTT
13702845 CCTATCGACACCT
66 CCTATCGACACCT
* * * * ** *
13702858 TTAACATTCCTTACTATGCCACATTCTATTACGTTAAGGCATATAGGTTAACATAGATCCTACTT
1 TTAACATGCCCTAATATGCCACATTCTATCACGTTAAAACATATAGGTTAACATAGATCCCACTT
13702923 CCT
66 CCT
13702926 TCTAACATGC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (78 bp):
TTAACATGCCCTAATATGCCACATTCTATCACGTTAAAACATATAGGTTAACATAGATCCCACTT
CCTATCGACACCT
Done.