Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 59 of 79
Found at i:19540034 original size:13 final size:11
Alignment explanation
Indices: 19540004--19540046 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
19539994 TTAATGGCAT
19540004 AAAAATAATATA
1 AAAAATAA-ATA
19540016 AAAAATAAATA
1 AAAAATAAATA
19540027 AACGAAATAAA-A
1 AA--AAATAAATA
19540039 AAAAATAA
1 AAAAATAA
19540047 TCCATGACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.21
11 5 0.17
12 11 0.38
13 7 0.24
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:19541706 original size:40 final size:41
Alignment explanation
Indices: 19541639--19541717 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
19541629 GAGTTTTAGT
* * **
19541639 TTAACCCTATTGGATTTCCGTTTAGCTCTTTTGAGCTTCAG
1 TTAACCCTATTGGATTTCCATTCAGCTCTTACGAGCTTCAG
19541680 TTAACCCT-TATGG-TTTCCATTCAGCTCTTACGAGCTTC
1 TTAACCCTAT-TGGATTTCCATTCAGCTCTTACGAGCTTC
19541718 TTTCAACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (41 bp):
TTAACCCTATTGGATTTCCATTCAGCTCTTACGAGCTTCAG
Found at i:19542108 original size:15 final size:15
Alignment explanation
Indices: 19542084--19542119 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19542074 ATCAATACGG
*
19542084 CCCAACTAGCCTAAA
1 CCCAATTAGCCTAAA
*
19542099 CCCAATTAGCCTAAG
1 CCCAATTAGCCTAAA
19542114 CCCAAT
1 CCCAAT
19542120 ACCCTAGCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.39, G:0.08, T:0.17
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:19558923 original size:16 final size:17
Alignment explanation
Indices: 19558892--19558924 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19558882 TGCCATTTCA
*
19558892 TAACTAAACAACATTTT
1 TAACCAAACAACATTTT
19558909 TAACCAAAC-ACATTTT
1 TAACCAAACAACATTTT
19558925 ACTTGCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACCAAACAACATTTT
Found at i:19559815 original size:40 final size:40
Alignment explanation
Indices: 19559710--19559845 Score: 130
Period size: 40 Copynumber: 3.4 Consensus size: 40
19559700 TATTATAATC
** * * * **
19559710 TCGCACACTAAGTGCTTTACATACCCAAAGCTATCTCAGTC
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTC-GAA
* * * * *
19559751 TCGCACACTAAGTGTCGTATATAGCTGAAGCTAT-TCCTAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCT-CGAA
*
19559791 TCGCACACTAAGTGCCATAAATAGCCGAAGTTATCTCGAA
1 TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAA
19559831 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
19559846 TAAACATAGT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
40 48 0.62
41 29 0.38
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAA
Found at i:19562658 original size:9 final size:9
Alignment explanation
Indices: 19562644--19562674 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19562634 GTTAAACGAA
19562644 TCGAGTTAT
1 TCGAGTTAT
*
19562653 TCGAGTTAA
1 TCGAGTTAT
19562662 TCGAGTTAT
1 TCGAGTTAT
19562671 TCGA
1 TCGA
19562675 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:19562746 original size:9 final size:9
Alignment explanation
Indices: 19562727--19562763 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
19562717 TGAGTTTTCA
*
19562727 AATTTGAAT
1 AATTCGAAT
*
19562736 AACTCGAAT
1 AATTCGAAT
19562745 AATTCGAAT
1 AATTCGAAT
19562754 AATTCGAAT
1 AATTCGAAT
19562763 A
1 A
19562764 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19564256 original size:23 final size:22
Alignment explanation
Indices: 19564222--19564269 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
19564212 TCTAAATTTT
19564222 AAAATTTTAAAAATAAAAA-AC
1 AAAATTTTAAAAATAAAAATAC
19564243 AAAATTCTTAAAAATAAAAATAC
1 AAAATT-TTAAAAATAAAAATAC
19564266 AAAA
1 AAAA
19564270 CTAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAATTTTAAAAATAAAAATAC
Found at i:19566594 original size:21 final size:22
Alignment explanation
Indices: 19566568--19566615 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
19566558 GAGCAAGTAT
19566568 AAAAAAA-TTGAGAAAATACAA
1 AAAAAAATTTGAGAAAATACAA
* *
19566589 AAAAAAATTTGAGAAGATACCA
1 AAAAAAATTTGAGAAAATACAA
19566611 AAAAA
1 AAAAA
19566616 TGTGAGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.69, C:0.06, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAAAATTTGAGAAAATACAA
Found at i:19566731 original size:20 final size:21
Alignment explanation
Indices: 19566708--19566757 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
19566698 AAGTGAATAT
19566708 ACCAAAAAAAC-TGAGGACAA
1 ACCAAAAAAACATGAGGACAA
* *
19566728 ACC-AATAAACATGAGGAGAA
1 ACCAAAAAAACATGAGGACAA
19566748 ACCAAAAAAA
1 ACCAAAAAAA
19566758 TAGGAGGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 14 0.56
21 5 0.20
ACGTcount: A:0.62, C:0.18, G:0.14, T:0.06
Consensus pattern (21 bp):
ACCAAAAAAACATGAGGACAA
Found at i:19567168 original size:23 final size:22
Alignment explanation
Indices: 19567142--19567188 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
19567132 TACTGAATTC
*
19567142 TAATTTTGAAACTATACCAATAA
1 TAATTATGAAACTATACCAA-AA
**
19567165 TAATTATGAAGGTATACCAAAA
1 TAATTATGAAACTATACCAAAA
19567187 TA
1 TA
19567189 TATGAAGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (22 bp):
TAATTATGAAACTATACCAAAA
Found at i:19567194 original size:20 final size:23
Alignment explanation
Indices: 19567154--19567196 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
19567144 ATTTTGAAAC
19567154 TATACCAATAATAATTATGAAGG
1 TATACCAATAATAATTATGAAGG
19567177 TATACCAA-AAT-A-TATGAAGG
1 TATACCAATAATAATTATGAAGG
19567197 AATATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 3 0.15
23 8 0.40
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (23 bp):
TATACCAATAATAATTATGAAGG
Found at i:19567748 original size:17 final size:17
Alignment explanation
Indices: 19567705--19567750 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
19567695 GCTTTTAAAG
*
19567705 ATATC-AAAATTATAAA
1 ATATCAAAAATTAAAAA
*
19567721 AT-TACATAAATTAAAAA
1 ATAT-CAAAAATTAAAAA
19567738 ATATCAAAAATTA
1 ATATCAAAAATTA
19567751 TGAGAGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.04
16 3 0.12
17 19 0.79
18 1 0.04
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATCAAAAATTAAAAA
Found at i:19568288 original size:15 final size:15
Alignment explanation
Indices: 19568268--19568311 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
19568258 GGTCAAAGTA
**
19568268 TAATTTTATCTTTTT
1 TAATTTTATAATTTT
19568283 TAATTTT-TAATTTT
1 TAATTTTATAATTTT
*
19568297 TAATTTTAAAATTTT
1 TAATTTTATAATTTT
19568312 ATCCTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TAATTTTATAATTTT
Found at i:19568305 original size:6 final size:7
Alignment explanation
Indices: 19568279--19568303 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19568269 AATTTTATCT
19568279 TTTTTAA
1 TTTTTAA
19568286 TTTTTAA
1 TTTTTAA
19568293 TTTTTAA
1 TTTTTAA
19568300 TTTT
1 TTTT
19568304 AAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:19570028 original size:114 final size:114
Alignment explanation
Indices: 19569909--19570530 Score: 887
Period size: 114 Copynumber: 5.4 Consensus size: 114
19569899 GTTTACTTGT
* * *
19569909 AAGCGCCACAAAATATCTTAACCAAAATGCGGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
19569974 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACACTTTTATAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCACTTTTATAA
* * * *
19570023 AAGCGCCACAAAATATCTTAACCAAAATGCAGTGCTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*** * *
19570088 GCTTATGAAAAAACGCCGCTAAAGCACGGAATTAGCGGCGC-ATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCACTTTTAT-AA
19570137 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * *
19570202 GCTTATGAAAAAATGCAGCTAAAGCACAGCATTAGCGGCGC-ATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCACTTTTAT-AA
*
19570251 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATATTTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
* * * *
19570316 TGCTTATGAGAAAACGTCGCTAAAGCACATCATTAGCGG-AGC-ATTATAAA
65 CGCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCA-CTTTTAT-AA
* *
19570366 AAGCGCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
19570431 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGTGCA-TTATA-AA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGC-G-GCACTTTTATAA
19570480 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
19570531 GAGCTAATAG
Statistics
Matches: 468, Mismatches: 33, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
113 4 0.01
114 356 0.76
115 104 0.22
116 3 0.01
117 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCACTTTTATAA
Found at i:19570428 original size:229 final size:228
Alignment explanation
Indices: 19569909--19570530 Score: 978
Period size: 229 Copynumber: 2.7 Consensus size: 228
19569899 GTTTACTTGT
* * *
19569909 AAGCGCCACAAAATATCTTAACCAAAATGCGGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * * * *
19569974 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACAC-TTTTATAAAAGCGCCACAAAATA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATA-AAAAGCGCCGCAAAATA
* *
19570038 TCTTAACCAAAATGCAG-TGCTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAAC
130 TCTTAACCAAAACGCAGCT-TTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAAC
* *
19570102 GCCGCTAAAGCACGGAATTAGCGGCGCATTATAAA
194 GCCGCTAAAGCACAGAATTAGCGGAGCATTATAAA
19570137 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
19570202 GCTTATGAAAAAATGCAGCTAAAGCACAGCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* *
19570267 CTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATATTTAGAATTAGTGGTGCTTATGAGAAAACG
131 CTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATA-TTAGAATTAGTGGCGCTTATGAAAAAACG
* **
19570332 TCGCTAAAGCACATCATTAGCGGAGCATTATAAA
195 CCGCTAAAGCACAGAATTAGCGGAGCATTATAAA
* *
19570366 AAGCGCCGTAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
19570431 GCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGTGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
*
19570496 CTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
131 CTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATA
19570531 GAGCTAATAG
Statistics
Matches: 363, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
228 145 0.40
229 218 0.60
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (228 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
CTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
CGCTAAAGCACAGAATTAGCGGAGCATTATAAA
Found at i:19570515 original size:343 final size:342
Alignment explanation
Indices: 19569909--19570530 Score: 1023
Period size: 343 Copynumber: 1.8 Consensus size: 342
19569899 GTTTACTTGT
* *
19569909 AAGCGCCACAAAATATCTTAACCAAAATGCGGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCACAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
19569974 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACACTTTTATAAAAGCGCCACAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACACTTATATAAAAGCGCCACAAAATAT
* *
19570039 CTTAACCAAAATGCAGTGCTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
131 CTTAACCAAAACGCAGCGCTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
*
19570104 CGCTAAAGCACGGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
196 CGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
19570169 CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCAGCTAAAGCACAGCAT
261 CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCAGCTAAAGCACAGCAT
19570234 TAGCGGCGCATTATAAA
326 TAGCGGCGCATTATAAA
* *
19570251 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCTTTTGGTCTTGAGGTATATTTAGAATTAGTGG
1 AAGCGCCACAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
* * * * **
19570316 TGCTTATGAGAAAACGTCGCTAAAGCACATCATTAGCGGAGCA-TTATA-AAAAGCGCCGTAAAA
65 CGCTTATGAAAAAACGCCGCTAAAGCACATAATTAGC-GA-CACTTATATAAAAGCGCCACAAAA
* * *
19570379 TATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAGAAAA
128 TATCTTAACCAAAACGCAGCGCTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAA
** *
19570444 CGCCGCTAAAGCACATCATTAGCGGTGCATTATAAAAAGCGCCGCAAAATATCTTAACCAAAACG
193 CGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAACCAAAACG
19570509 CAGCGTTTGGTCTTGAGGTATA
258 CAGCGTTTGGTCTTGAGGTATA
19570531 GAGCTAATAG
Statistics
Matches: 257, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
342 47 0.18
343 202 0.79
344 6 0.02
345 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (342 bp):
AAGCGCCACAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACACTTATATAAAAGCGCCACAAAATAT
CTTAACCAAAACGCAGCGCTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGC
CGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAACCAAAACGCAG
CGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCAGCTAAAGCACAGCAT
TAGCGGCGCATTATAAA
Found at i:19572358 original size:24 final size:24
Alignment explanation
Indices: 19572331--19572389 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
19572321 ATCCCTCAGT
19572331 TTTCCCCTCAAATTTTTCCCCAAA
1 TTTCCCCTCAAATTTTTCCCCAAA
* *
19572355 TTTCCCCTCCAA-TTTTCCCTAAA
1 TTTCCCCTCAAATTTTTCCCCAAA
*
19572378 ATTCCCC-CAAAT
1 TTTCCCCTCAAAT
19572390 CTAGAACCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 16 0.53
24 11 0.37
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (24 bp):
TTTCCCCTCAAATTTTTCCCCAAA
Found at i:19572368 original size:12 final size:12
Alignment explanation
Indices: 19572331--19572389 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 12
19572321 ATCCCTCAGT
19572331 TTTCCCCTCAAA
1 TTTCCCCTCAAA
*
19572343 TTTTTCCC-CAAA
1 -TTTCCCCTCAAA
*
19572355 TTTCCCCTCCAA
1 TTTCCCCTCAAA
*
19572367 TTTTCCCT-AAA
1 TTTCCCCTCAAA
*
19572378 ATTCCCC-CAAA
1 TTTCCCCTCAAA
19572389 T
1 T
19572390 CTAGAACCCT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
11 16 0.44
12 14 0.39
13 6 0.17
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (12 bp):
TTTCCCCTCAAA
Found at i:19573617 original size:25 final size:26
Alignment explanation
Indices: 19573583--19573640 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
19573573 CTCGTTGCAT
*
19573583 AATAATTCTTACTCTAT-GCGTATCA
1 AATAATTCTTACTCTATAGCGTATAA
*
19573608 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTTACTCTATAGCGTATAA
19573634 AATAATT
1 AATAATT
19573641 AAATTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (26 bp):
AATAATTCTTACTCTATAGCGTATAA
Found at i:19574349 original size:18 final size:20
Alignment explanation
Indices: 19574316--19574352 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
19574306 CGTTTTTCGA
19574316 AAAAGCGTCGCTAAAAGTCT
1 AAAAGCGTCGCTAAAAGTCT
19574336 AAAAGCG-C-CTAAAAGTC
1 AAAAGCGTCGCTAAAAGTC
19574353 ATGTTCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAAGCGTCGCTAAAAGTCT
Found at i:19574486 original size:43 final size:44
Alignment explanation
Indices: 19574361--19574625 Score: 210
Period size: 42 Copynumber: 6.2 Consensus size: 44
19574351 TCATGTTCTA
* * * *
19574361 TAGCGGCGTTTGT-GGA-AAATCGCCGCTAAAGAGCACGACCTT
1 TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
* * * * * *
19574403 TAGTGGCGTTTGTGGAAAAAAACGCCGCTAAAGAACATTACTTT
1 TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
* * *
19574447 TAGCGGCGTTTGT-GAAGAAAGGGCGGCTAAAGAACATTACCTT
1 TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
* * *
19574490 TAGCTGTGTTT-TCG-AGGAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
*** * *
19574532 TAGCGGCGTGTT-T-TTTG-AAGTGCCGCTAAAGAACATGATCTT
1 TAGCGGCGT-TTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
****
19574574 TAGCGGCGTTT-T--TTTTAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
*
19574615 TAGCGGTGTTT
1 TAGCGGCGTTT
19574626 ATTTCTGTAA
Statistics
Matches: 188, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
40 2 0.01
41 36 0.19
42 76 0.40
43 41 0.22
44 33 0.18
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (44 bp):
TAGCGGCGTTTGTCGAAGAAAGCGCCGCTAAAGAACATGACCTT
Found at i:19574598 original size:41 final size:41
Alignment explanation
Indices: 19574425--19574625 Score: 213
Period size: 42 Copynumber: 4.8 Consensus size: 41
19574415 TGGAAAAAAA
* * ***
19574425 CGCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAAGAAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT-TTTTG-AAG
* * * * * ***
19574468 GGCGGCTAAAGAACATTACCTTTAGCTGTGTTTTCGAGGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTT-TTTGAAG
19574510 CGCCGCTAAAGAACATGACCTTTAGCGGCGTGTTTTTTGAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTTTTGAAG
* * *
19574552 TGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAG
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
*
19574593 CGCCGCTAAAGAACATGACCTTTAGCGGTGTTT
1 CGCCGCTAAAGAACATGACCTTTAGCGGCGTTT
19574626 ATTTCTGTAA
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
41 39 0.29
42 63 0.46
43 34 0.25
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (41 bp):
CGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTGAAG
Found at i:19576377 original size:16 final size:15
Alignment explanation
Indices: 19576342--19576377 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19576332 CAAAGCTAAG
19576342 ATTTTTAAAACATTT
1 ATTTTTAAAACATTT
* *
19576357 ATTTTTACAATATTT
1 ATTTTTAAAACATTT
19576372 ATTTTT
1 ATTTTT
19576378 GCTTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAAAACATTT
Found at i:19579789 original size:19 final size:18
Alignment explanation
Indices: 19579749--19579789 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
19579739 AATATTACAC
*
19579749 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
19579767 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
19579786 ATTT
1 ATTT
19579790 TGCTTATTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:19580228 original size:9 final size:9
Alignment explanation
Indices: 19580211--19580254 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
19580201 TCCTTCCTCC
19580211 CTTTCTTTT
1 CTTTCTTTT
*
19580220 CTTTTTTTT
1 CTTTCTTTT
*
19580229 CATTCTTTTT
1 CTTTC-TTTT
19580239 CTTTCTTTT
1 CTTTCTTTT
19580248 CTTTCTT
1 CTTTCTT
19580255 AATTTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:19580240 original size:19 final size:19
Alignment explanation
Indices: 19580216--19580254 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
19580206 CCTCCCTTTC
*
19580216 TTTTCTTTTTTTTCATTCT
1 TTTTCTTTCTTTTCATTCT
*
19580235 TTTTCTTTCTTTTCTTTCT
1 TTTTCTTTCTTTTCATTCT
19580254 T
1 T
19580255 AATTTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTTCTTTTCATTCT
Found at i:19586557 original size:14 final size:14
Alignment explanation
Indices: 19586533--19586565 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19586523 AAATCTCACC
19586533 AAAATAATATTTTA
1 AAAATAATATTTTA
19586547 TAAAA-AATATTTTA
1 -AAAATAATATTTTA
19586561 AAAAT
1 AAAAT
19586566 TAAAAATACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATAATATTTTA
Found at i:19598603 original size:23 final size:23
Alignment explanation
Indices: 19598572--19598631 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
19598562 AGCCAAATAT
*
19598572 ATAAA-TTTTAAAAAAGTTT-TAA
1 ATAAATTTTTAAAAAA-TTTCAAA
19598594 ATAAATTTTTAAAAAATTTCAAA
1 ATAAATTTTTAAAAAATTTCAAA
* *
19598617 ATATATATTTAAAAA
1 ATAAATTTTTAAAAA
19598632 TTTTATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.24
23 25 0.76
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATAAATTTTTAAAAAATTTCAAA
Found at i:19598610 original size:11 final size:11
Alignment explanation
Indices: 19598577--19598612 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
19598567 AATATATAAA
*
19598577 TTTTAAAAAAG
1 TTTTAAAAAAT
19598588 TTTTAAATAAAT
1 TTTTAAA-AAAT
19598600 TTTTAAAAAAT
1 TTTTAAAAAAT
19598611 TT
1 TT
19598613 CAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (11 bp):
TTTTAAAAAAT
Found at i:19610276 original size:44 final size:42
Alignment explanation
Indices: 19610133--19610291 Score: 133
Period size: 42 Copynumber: 3.7 Consensus size: 42
19610123 AACTCGTACA
* ** * *
19610133 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATC-AATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
** * * *
19610175 ATATCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
* * *
19610217 ATGCCGATGTCCCAGACATGGTCTTATACATAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACAC-GAAA--TCAAATACG
* *
19610261 ATGCCAATGTCCCAGACGTGGTCCTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
19610292 TAACACATAT
Statistics
Matches: 90, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 50 0.56
43 8 0.09
44 26 0.29
45 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:19610654 original size:11 final size:12
Alignment explanation
Indices: 19610630--19610658 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
19610620 TAACTTAATT
19610630 ATTCAATATTTC
1 ATTCAATATTTC
19610642 ATTCAAT-TTTC
1 ATTCAATATTTC
19610653 ATTCAA
1 ATTCAA
19610659 GAACATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTCAATATTTC
Found at i:19614770 original size:79 final size:79
Alignment explanation
Indices: 19614680--19614835 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
19614670 TTTTTTCCCA
19614680 CTTTATATTAAATGAATCCAGTTGTTTATATTCAAAAGAAAATTATATAATAAAATGATTTTAAA
1 CTTTATATTAAATGAATCCAGTTGTTTATATTCAAAAGAAAATTATATAATAAAATGATTTTAAA
19614745 TATGATTTTTAGCC
66 TATGATTTTTAGCC
19614759 CTTTATATTAAATGAATCCAGTTGTTTATATTCAAAAGAAAATTATATAATAAAATGATTTTAAA
1 CTTTATATTAAATGAATCCAGTTGTTTATATTCAAAAGAAAATTATATAATAAAATGATTTTAAA
19614824 TATGATTTTTAG
66 TATGATTTTTAG
19614836 ATTTTTTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (79 bp):
CTTTATATTAAATGAATCCAGTTGTTTATATTCAAAAGAAAATTATATAATAAAATGATTTTAAA
TATGATTTTTAGCC
Found at i:19615864 original size:21 final size:21
Alignment explanation
Indices: 19615823--19615864 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19615813 TAACACTGTT
**
19615823 AAACAATAAATGGTATTTTTA
1 AAACAATAAATGGTAACTTTA
*
19615844 AAACAATAAATGTTAACTTTA
1 AAACAATAAATGGTAACTTTA
19615865 TTCTAATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
AAACAATAAATGGTAACTTTA
Found at i:19618085 original size:3 final size:3
Alignment explanation
Indices: 19618077--19618105 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19618067 ATTGATGGTT
19618077 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
19618106 GAATAAACAG
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:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19622155 original size:16 final size:16
Alignment explanation
Indices: 19622119--19622149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19622109 TGATGAATCT
19622119 ATATATATACATGTAC
1 ATATATATACATGTAC
*
19622135 ATATATATATATGTA
1 ATATATATACATGTA
19622150 ATTATAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
ATATATATACATGTAC
Found at i:19623816 original size:32 final size:31
Alignment explanation
Indices: 19623745--19623841 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
19623735 CAATCTGATT
*
19623745 ACTAAACTATTCAAAAGTTTTCATTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
19623776 ACTAAACTATTCAAAAGTTTTTATTTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTA-TTTAAGTC
* * *
19623808 ATTGAACTATTCAAAAGTTTTTACTTAAGTC
1 ACTAAACTATTCAAAAGTTTTTATTTAAGTC
19623839 ACT
1 ACT
19623842 GGGCTGTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 31 0.52
32 29 0.48
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.41
Consensus pattern (31 bp):
ACTAAACTATTCAAAAGTTTTTATTTAAGTC
Found at i:19624707 original size:24 final size:24
Alignment explanation
Indices: 19624680--19624725 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19624670 CTAATTAAAT
* *
19624680 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
19624704 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
19624726 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:19630832 original size:13 final size:14
Alignment explanation
Indices: 19630814--19630850 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
19630804 ACTATTAATC
*
19630814 AATAAATAAAT-AG
1 AATAAATAAATGAA
19630827 AATAAATAAATGAA
1 AATAAATAAATGAA
19630841 AATAAATAAA
1 AATAAATAAA
19630851 AATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (14 bp):
AATAAATAAATGAA
Found at i:19632272 original size:44 final size:43
Alignment explanation
Indices: 19632236--19632319 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 43
19632226 AGGAATTAGT
*
19632236 GCTTCAATCTATTCCACTGCAACTTCAGGGAAATAGGATTATC
1 GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAGGATTATC
* * *
19632279 GGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 -GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAGGATT
19632320 TGCCATCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
GCTTCAATCTACTCCACTGCAACTTCAGGGAAATAGGATTATC
Found at i:19632404 original size:44 final size:44
Alignment explanation
Indices: 19632282--19633190 Score: 402
Period size: 44 Copynumber: 20.9 Consensus size: 44
19632272 GATTATCGGC
* * * *
19632282 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGC-CA
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
*
19632325 TCTTCAGTCTG-TCTTACTGCAACTTCA-GGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTA
*
19632371 TTTAGCCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAG---A
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTA
** * * * ** *
19632412 -TGCGATCTACT-CTCTGTAACTTCAGAAAGATAAGA--T-CTGA
1 TTTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* * * * *
19632452 TTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TT-ATCA
1 -TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* * * * *
19632495 GCTTTAATCTGCTCCACTGCCACTTCAGGGAGGTAAGATTTGC-CA
1 --TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* *
19632540 TCTTCAGTCTGC-CTCACTGCAGCTTCA-AGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTA
* * *
19632586 CTTAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAG---A
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
** * * ** *
19632627 -TGCGATCTGCT-CTCTGCAACTTCATAGAGAGATAAGATCCAAGGTT-
1 TTTAG-TCTGCTCCACTGCAACTTC--AGGGAGATAAGA--CTTGCTTA
*
19632673 TTTA-TCCT-CTCCACTGCAACTTCAGGGAGATAAGATTTGC-TA
1 TTTAGT-CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
*
19632715 TCTTCAGTCTGC-CTCACTGCAACTTCA-GAAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTA
* * *
19632761 CTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTAG---A
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
** * * * *
19632802 -TGCGATATGCT-CTCTGCAACTTCAGGGAGATAAGATTTG-TGA
1 TTTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* * * * * **
19632844 TTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGA-TTATCGGA
1 -TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTA
* * * *
19632889 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC-CA
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* *
19632932 TCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAG-ATA
1 T-TT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTA
* * * * ** *
19632977 -TGA-TCTGCT-CTCTGTAACTTCATAGAGAGATAAGATCCAAG-GT-
1 TTTAGTCTGCTCCACTGCAACTTC--AGGGAGATAAGA--CTTGCTTA
* * * * * *
19633020 TTTAATCCGCTCCACTGCAACTTCAGGGAGGTAGGA-TT-ATTGGC
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTT--A
* * * *
19633064 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC-CA
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
* * *
19633107 TCTTCAGTCTGCTTCACTGCAACTTTA-AGAGGATAAGACTTGCTTA
1 T-TT-AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTA
*
19633153 CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
19633191 AGATGCGATC
Statistics
Matches: 660, Mismatches: 125, Indels: 161
0.70 0.13 0.17
Matches are distributed among these distances:
39 1 0.00
40 73 0.11
41 28 0.04
42 43 0.07
43 21 0.03
44 288 0.44
45 176 0.27
46 29 0.04
47 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA
Found at i:19632619 original size:215 final size:218
Alignment explanation
Indices: 19632248--19632709 Score: 705
Period size: 215 Copynumber: 2.1 Consensus size: 218
19632238 TTCAATCTAT
* *
19632248 TCCACTGCAACTTCAGGGAAATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* * * *
19632313 TAAGATTTGCCATCTTCAGTCTGTCTTACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGCC
* * *
19632378 TGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTACTCTCTGTAACTTC-AGAAAGA
131 TGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAAGAAAGA
*
19632442 TAAGAT-C-TGATTTTAATCCGC
196 TAAGATCCAAGATTTTAATCCGC
* * *
19632463 TCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGCTCCACTGCCACTTCAGGGAGG
1 TCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* *
19632528 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAGCTTCAAGAGGATAAGACTTGCTTACTTAGTC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGCC
* *
19632593 TGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATAGAGAG
131 TGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCA-AGAAAG
* * *
19632658 ATAAGATCCAAGGTTTTTATCCTC
195 ATAAGATCCAAGATTTTAATCCGC
*
19632682 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAGGATT
19632710 TGCTATCTTC
Statistics
Matches: 222, Mismatches: 21, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
215 172 0.77
217 12 0.05
218 1 0.00
219 37 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
TCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGATAAGACTTGCTTACTTAGCC
TGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAAGAAAGA
TAAGATCCAAGATTTTAATCCGC
Found at i:19632687 original size:175 final size:173
Alignment explanation
Indices: 19632497--19633049 Score: 708
Period size: 175 Copynumber: 3.2 Consensus size: 173
19632487 GATTATCAGC
* * * *
19632497 TTTAATCTGCTCCACTGCCACTTCAGGGAGGTAAGATTTGCCATCTTCAGTCTGCCTCACTGCAG
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
19632562 CTTCAAGAGGATAAGACTTGCTTACTTAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGA
66 CTTC-AGAGGATAAGACTTGCTTACTTAGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTAGA
19632627 TGCGATCTGCTCTCTGCAACTTCATAGAGAGATAAGATCCAAGGT
129 TGCGATCTGCTCTCTGCAACTTCATAGAGAGATAAGATCCAAGGT
* * *
19632672 TTTTATCCTCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
*
19632737 CTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTAGA
66 CTTCAG-AGGATAAGACTTGCTTACTTAGTCTGC-CCACTGCAACTTCAGGGAGATAAGACTAGA
* * **** *
19632802 TGCGATATGCTCTCTGCAACTTC--AGGGAGATAAGATTTGTGAT
129 TGCGATCTGCTCTCTGCAACTTCATAGAGAGATAAGATCCAAGGT
* * * *
19632845 TTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAT-CGGAT-TT-AATCTG-CTCCACTG
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT-TGC-CATCTTCAGTCTGCCT-CACTG
* * * *
19632906 TAACTTCAGGGAGATAAGATTTGC-CATCTTCAGTCTGCCTCACTGCAACTTCA-GGAGGATAAG
63 CAACTTCAGAG-GATAAGACTTGCTTA-CTT-AGTCTGCC-CACTGCAACTTCAGGGA-GATAAG
** *
19632969 ACTAGATATGATCTGCTCTCTGTAACTTCATAGAGAGATAAGATCCAAGGT
123 ACTAGATGCGATCTGCTCTCTGCAACTTCATAGAGAGATAAGATCCAAGGT
19633020 TTTAATCCGCTCCACTGCAACTTCAGGGAG
1 TTTAATCCGCTCCACTGCAACTTCAGGGAG
19633050 GTAGGATTAT
Statistics
Matches: 329, Mismatches: 38, Indels: 22
0.85 0.10 0.06
Matches are distributed among these distances:
171 4 0.01
172 36 0.11
173 101 0.31
174 5 0.02
175 183 0.56
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (173 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAA
CTTCAGAGGATAAGACTTGCTTACTTAGTCTGCCCACTGCAACTTCAGGGAGATAAGACTAGATG
CGATCTGCTCTCTGCAACTTCATAGAGAGATAAGATCCAAGGT
Found at i:19633070 original size:175 final size:175
Alignment explanation
Indices: 19632589--19633131 Score: 701
Period size: 175 Copynumber: 3.1 Consensus size: 175
19632579 TTGCTTACTT
19632589 AGTCTGCGC-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATA
1 AGTCTGC-CTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATA
* * * **
19632653 GAGAGATAAGATCCAAGGTTTTTATCCTCTCCACTGCAACTTCAGGGAGATAAGATT-TGCTATC
65 GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT--TGGC
* * * * * *
19632717 TTCAGTCTGC-CTCACTGCAACTTCA-GAAGGATAAGACTTG-CTTACTT-
128 TTTAATCTGCTC-CACTGTAACTTCAGGGA-GATAAGATTTGCCAT-CTTC
* *
19632764 AGTCTG-CTCCGCTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTC--A
1 AGTCTGCCT-CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATA
* **** * * * *
19632826 GGGAGATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGATT
65 GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTT
19632891 TAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTC
130 TAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTC
** *
19632937 AGTCTGCCTCACTGCAACTTCA-GGAGGATAAGACTAGATATGATCTGCTCTCTGTAACTTCATA
1 AGTCTGCCTCACTGCAACTTCAGGGA-GATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATA
*
19633001 GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGGTAGGATTATTGGCTT
65 GAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTT
19633066 TAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTC
130 TAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTC
*
19633112 AGTCTGCTTCACTGCAACTT
1 AGTCTGCCTCACTGCAACTT
19633132 TAAGAGGATA
Statistics
Matches: 319, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
172 36 0.11
173 103 0.32
174 3 0.01
175 177 0.55
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (175 bp):
AGTCTGCCTCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATAG
AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTC
Found at i:19633102 original size:392 final size:389
Alignment explanation
Indices: 19632248--19633276 Score: 1408
Period size: 392 Copynumber: 2.6 Consensus size: 389
19632238 TTCAATCTAT
* *
19632248 TCCACTGCAACTTCAGGGAAATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTAATCT-CTCCACTGCAACTTCAGGGAGA
* * * * *
19632313 TAAGATTTGCCATCTTCAGTCTGTCTTACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGCC
65 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCTTACTTAGTC
* * *
19632378 TGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTACTCTCTGTAACTTCAGAAAGAT
130 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGAT
* *
19632443 AAGA-TCTGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTTAATCTGC
195 AAGATTATGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGATTTAATCTGC
* * *
19632507 TCCACTGCCACTTCAGGGAGGTAAGATTTGCCATCTTCAGTCTGCCTCACTGCAGCTTCAAGAGG
260 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGG
* * * * * * *
19632572 ATAAGACTTGCTTACTTAGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGC
325 ATAAGACTAGCATACTGAGTCTGCGCCACTGCAACTTCAGAGAGATAAGACAAGATGCAATCCGC
* * * * * *
19632637 T-CTCTGCAACTTCATAGAGAGATAAGATCCA-AGGTTTTTATCCTCTCCACTGCAACTTCAGGG
1 TCCACTGCAACTTC--AGGGAGATAGGAT-TATAGGCTTTAAT-CTCTCCACTGCAACTTCAGGG
*
19632700 AGATAAGATTTGCTATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCTTACTTA
62 AGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCTTACTTA
* * * *
19632765 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGGGA
127 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGA
* * *
19632830 GATAAGATTTGTGATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGATTTAAT
192 GATAAGA-TTATGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGATTTAAT
* *
19632895 CTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAG
256 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAA
* * * *
19632960 GAGGATAAGACTAG-ATA-TGA-TCTGC-TCTCTGTAACTTCATAGAGAGATAAGATCCAAGGTT
321 GAGGATAAGACTAGCATACTGAGTCTGCGCCACTGCAACTTC--AGAGAGATAAGA--CAA-GAT
**
19633021 TTAATCCGC
381 GCAATCCGC
* * *
19633030 TCCACTGCAACTTCAGGGAGGTAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTAATCT-CTCCACTGCAACTTCAGGGAGA
* *
19633095 TAAGATTTGCCATCTTCAGTCTGCTTCACTGCAACTTTA-AGAGGATAAGACTTGCTTACTTAGT
65 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGA-AGGATAAGACTTGCTTACTTAGT
19633159 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
129 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGA
* * *
19633224 TAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
194 TAAGAT-TATGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
19633277 TGGCCACCGA
Statistics
Matches: 560, Mismatches: 64, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
388 21 0.04
389 6 0.01
390 173 0.31
391 10 0.02
392 331 0.59
393 8 0.01
394 11 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (389 bp):
TCCACTGCAACTTCAGGGAGATAGGATTATAGGCTTTAATCTCTCCACTGCAACTTCAGGGAGAT
AAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCTTACTTAGTCT
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATA
AGATTATGATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGATTTAATCTGCT
CCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAGAGGA
TAAGACTAGCATACTGAGTCTGCGCCACTGCAACTTCAGAGAGATAAGACAAGATGCAATCCGC
Found at i:19633162 original size:219 final size:217
Alignment explanation
Indices: 19632681--19633280 Score: 627
Period size: 217 Copynumber: 2.8 Consensus size: 217
19632671 TTTTTATCCT
* * * * *
19632681 CTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTGC-CTCACTGCAACTTCA-GA
1 CTCCACTGCAACTTAAGAGAGATAAGACTTGCCATCTTCAGTCTGCTC-CACTGCAACTTCAGGG
* * * * * * * * ***
19632744 AGGATAAGACTTGCTTACTTAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGA--CTAGATGCGA
65 A-GATAAGACTAG-ATAC-GA-TCTGCT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTA
* * **
19632807 TAT--GCT-CTCTGCAACTTCAGGGAGATAAGATT-TGTGATTTTAATCCGCTCCACTGCAACTT
125 -ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TGGCTTTAATCCGCTCCACTGCAACTT
* *
19632868 CAAGGAGATAGGATTATCGGATTTAATCTG
188 CAAGGAGATAAGATTATCGCATTTAATCTG
* * * *
19632898 CTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTTCA-GG
1 CTCCACTGCAACTTAAGAGAGATAAGACTTGCCATCTTCAGTCTGCTC-CACTGCAACTTCAGGG
*
19632961 AGGATAAGACTAGATATGATCTGCTCTCTGTAACTTCATAGAGAGATAAGATCCAAGGTTTTAAT
65 A-GATAAGACTAGATACGATCTGCTCTCTGTAACTTC--AGAGAGATAAGATCCAAGGTTTTAAT
* * * *
19633026 CCGCTCCACTGCAACTTCAGGGAGGTAGGATTATTGGCTTTAATCTGCTCCACTGTAACTTCAGG
127 CCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCCGCTCCACTGCAACTTCAAG
*
19633091 GAGATAAGATT-T-GCCATCTTCAGTCTG
192 GAGATAAGATTATCG-CAT-TT-AATCTG
* *
19633118 CTTCACTGCAACTTTAAGAG-GATAAGACTTG-CTTACTT-AGTCTGCTCCACTGCAACTTCAGG
1 CTCCACTGCAAC-TTAAGAGAGATAAGACTTGCCAT-CTTCAGTCTGCTCCACTGCAACTTCAGG
*
19633180 GAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCC
64 GAGATAAGACTAGATACGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCC
19633245 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
129 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
19633281 CACCGATCTG
Statistics
Matches: 333, Mismatches: 35, Indels: 30
0.84 0.09 0.08
Matches are distributed among these distances:
213 10 0.03
214 6 0.02
215 12 0.04
216 4 0.01
217 141 0.42
218 6 0.02
219 116 0.35
220 33 0.10
221 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTAAGAGAGATAAGACTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTAGATACGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGC
TCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCCGCTCCACTGCAACTTCAAGGAGA
TAAGATTATCGCATTTAATCTG
Found at i:19633243 original size:348 final size:347
Alignment explanation
Indices: 19632589--19633274 Score: 786
Period size: 348 Copynumber: 2.0 Consensus size: 347
19632579 TTGCTTACTT
*
19632589 AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCATAG
1 AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCATAG
* * *
19632654 AGAGATAAGATCCAAGGTTTTTATCCTCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTAGCTT
* * *
19632719 CAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCTTACTTAGTCTGCTCCGCTGCAACTT
130 CAATCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTT
* * * * * * **
19632784 CAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGGGAGATAAGATTTGTGATTTTA
195 AAGAGAGATAAGACTAGATACGATATGCTCACTGCAACTTCAGGGAGATAAGATCTGAGATTGCA
* * * * *
19632849 ATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGATTTAATCTGCTCCACTGTAACTTCA
260 ATCCGCTCCACTGCAACTTCAAGGAGATAAGATCATAGGATTTAATCCGCTCCACTGCAACTTCA
19632914 GGGAGATAAGATTTGCCATCTTC
325 GGGAGATAAGATTTGCCATCTTC
* *
19632937 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAGATATGATCTGCTCTCTGTAACTTCAT
1 AGTCTGCGC-CACTGCAACTTCAGGGA-GATAAGACTAGATACGATCTGCTCTCTGCAACTTCAT
* * *
19633000 AGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGGTAGGATTAT-TGGC
64 AGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT-TCTAGC
* * * * *
19633064 TTTAATCTG-CTCCACTGTAACTTCAG-GGAGATAAGATTTGCCAT-CTTCAGTCTGCTTCACTG
128 TTCAATCTGCCT-CACTGCAACTTCAGAAG-GATAAGACTTG-CATACTT-AGTCTGCTCCACTG
* * * *
19633126 CAACTTTAAGAG-GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-
189 CAAC-TTAAGAGAGATAAGACTAG-ATAC-GA-TATGCT-CACTGCAACTTCAGGGAGATAAGAT
* * * * *
19633189 CT-AGA-TGCGATCTGCT-CTCTGTAACTTC-AGAGAGATAAGATCCA-AGGTTTTAATCCGCTC
249 CTGAGATTGCAATCCGCTCCACTGCAACTTCAAG-GAGATAAGAT-CATAGGATTTAATCCGCTC
*
19633249 CACTGCAACTTCAGGGAGATAGGATT
312 CACTGCAACTTCAGGGAGATAAGATT
19633275 ATTGGCCACC
Statistics
Matches: 284, Mismatches: 40, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
346 3 0.01
347 41 0.14
348 192 0.68
349 16 0.06
350 3 0.01
351 6 0.02
352 23 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (347 bp):
AGTCTGCGCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCATAG
AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTCTAGCTTC
AATCTGCCTCACTGCAACTTCAGAAGGATAAGACTTGCATACTTAGTCTGCTCCACTGCAACTTA
AGAGAGATAAGACTAGATACGATATGCTCACTGCAACTTCAGGGAGATAAGATCTGAGATTGCAA
TCCGCTCCACTGCAACTTCAAGGAGATAAGATCATAGGATTTAATCCGCTCCACTGCAACTTCAG
GGAGATAAGATTTGCCATCTTC
Found at i:19647118 original size:18 final size:17
Alignment explanation
Indices: 19647088--19647121 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19647078 AAATTACTAT
19647088 ATAAAAAATTTAAATAA
1 ATAAAAAATTTAAATAA
*
19647105 ATAAAAATTATTAAATA
1 ATAAAAAAT-TTAAATA
19647122 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAAATTTAAATAA
Found at i:19652440 original size:26 final size:28
Alignment explanation
Indices: 19652372--19652432 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
19652362 TACAATGTAA
*
19652372 AAAAATAA-AAAAATACATATGCTGTTAT
1 AAAAATAATATAAATACATAT-CTGTTAT
*
19652400 AAAATTAATATAAATACATAT-T-TTAT
1 AAAAATAATATAAATACATATCTGTTAT
19652426 AAAAATA
1 AAAAATA
19652433 CTGTAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.34
27 1 0.03
28 7 0.24
29 11 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAAATAATATAAATACATATCTGTTAT
Found at i:19654496 original size:59 final size:60
Alignment explanation
Indices: 19654409--19654522 Score: 212
Period size: 59 Copynumber: 1.9 Consensus size: 60
19654399 TATTTAAGTT
*
19654409 AAAAAATCTAAAAACAATCATTTTAATAGCCT-AAAAAAACTCATTTCCTTTCTTTTTAA
1 AAAAAATCTAAAAAAAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTTTTAA
19654468 AAAAAATCTAAAAAAAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTT
1 AAAAAATCTAAAAAAAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTT
19654523 ATTTTTCTCG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
59 31 0.58
60 22 0.42
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (60 bp):
AAAAAATCTAAAAAAAATCATTTTAATAGCCTAAAAAAAACTCATTTCCTTTCTTTTTAA
Found at i:19659455 original size:57 final size:57
Alignment explanation
Indices: 19659381--19659536 Score: 182
Period size: 51 Copynumber: 2.8 Consensus size: 57
19659371 GGAGAAATGG
19659381 GAAAT-ATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATAAAGAAAT
1 GAAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATAAAGAAAT
* * **
19659437 GAAATCATTTGGAAATGATTATAGTTTTCTCCAAAATG-AAAT-----TGGAGAAAT
1 GAAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATAAAGAAAT
* * * *
19659488 GGAATCATTTAAAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAAA
1 GAAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAAT-AAAAA
19659537 GATTTGGAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
51 39 0.48
52 4 0.05
56 9 0.11
57 30 0.37
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.31
Consensus pattern (57 bp):
GAAATCATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATAAAAATAAAGAAAT
Found at i:19669344 original size:18 final size:18
Alignment explanation
Indices: 19669321--19669356 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19669311 AGTTGAACTA
19669321 GAATTTTTAAAAATTTTT
1 GAATTTTTAAAAATTTTT
*
19669339 GAATTTTTAATAATTTTT
1 GAATTTTTAAAAATTTTT
19669357 TAATCGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
GAATTTTTAAAAATTTTT
Found at i:19672325 original size:45 final size:45
Alignment explanation
Indices: 19672258--19672509 Score: 371
Period size: 45 Copynumber: 5.6 Consensus size: 45
19672248 AAGCTTTATA
*
19672258 GTCTTCCTGTATTGGCAACGAAGTAGATCAAAGATAGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
* * * *
19672303 GTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
*
19672348 GTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
* * * *
19672393 GTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
* *
19672438 GTCTTCCTGTATTGGCAGCAAAGTAGATCGAAA-ACAGCAGATCTT
1 GTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAGCAGATCTT
*
19672483 ATCTTCCTGTATTGGCAGCGAAGTAGA
1 GTCTTCCTGTATTGGCAGCGAAGTAGA
19672510 CCGAAGACAG
Statistics
Matches: 183, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 181 0.99
46 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTT
Found at i:19672411 original size:90 final size:90
Alignment explanation
Indices: 19672258--19672516 Score: 430
Period size: 90 Copynumber: 2.9 Consensus size: 90
19672248 AAGCTTTATA
*
19672258 GTCTTCCTGTATTGGCAACGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG
19672323 AAGTAGATCGAAGATAACAGATCTT
66 AAGTAGATCGAAGATAACAGATCTT
*
19672348 GTCTTCCTGTACTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG
1 GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG
19672413 AAGTAGATCGAAGATAACAGATCTT
66 AAGTAGATCGAAGATAACAGATCTT
* * * * *
19672438 GTCTTCCTGTATTGGCAGCAAAGTAGATCGAAA-ACAGCAGATCTTATCTTCCTGTATTGGCAGC
1 GTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAGCAGATCTTGTCTTCCTATATTGGTAGC
*
19672502 GAAGTAGACCGAAGA
65 GAAGTAGATCGAAGA
19672517 CAGAAGTAAC
Statistics
Matches: 159, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
90 156 0.98
91 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (90 bp):
GTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCG
AAGTAGATCGAAGATAACAGATCTT
Found at i:19672675 original size:44 final size:43
Alignment explanation
Indices: 19672523--19672729 Score: 197
Period size: 44 Copynumber: 4.8 Consensus size: 43
19672513 AAGACAGAAG
* * *
19672523 TAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTT-AA
1 TAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* * * *
19672565 -AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA
1 TAA-C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* * * *
19672610 T--CCAATCTCATCACCCCGAGGTTGCAGTGGAGCAGATTGAA
1 TAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* * *
19672651 TAAGCCAATCTTATCTCCCTGAGGTTGTAGTGGAACAGATTGAA
1 TAA-CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* *
19672695 GAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAG
1 -TAACCAATCTTATCTCCCTGAAGTTGCAGTGGAG
19672730 TGGATCAGAA
Statistics
Matches: 131, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
41 32 0.24
42 3 0.02
43 3 0.02
44 90 0.69
45 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (43 bp):
TAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
Found at i:19673141 original size:22 final size:23
Alignment explanation
Indices: 19673113--19673157 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19673103 CTGCAATCTT
19673113 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
19673135 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
19673158 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:19674545 original size:65 final size:65
Alignment explanation
Indices: 19674461--19674717 Score: 487
Period size: 65 Copynumber: 4.0 Consensus size: 65
19674451 AAAAGATTGG
* * *
19674461 TGGCGACTTCATTTTCGTTTTAAAAGTCGAGCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
1 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
19674526 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
1 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
19674591 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
1 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
19674656 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACA
1 TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACA
19674718 CAAATTAATA
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 189 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (65 bp):
TGGCGACTCCACTTTCGTTTTAAAAGTCGACCCCGTTTTTCAAAATAAAAATGGTTTCGACAGCT
Found at i:19681645 original size:26 final size:26
Alignment explanation
Indices: 19681566--19681645 Score: 67
Period size: 26 Copynumber: 3.0 Consensus size: 26
19681556 TCATCCAAAC
* *
19681566 TCAAAACAAAATATAAAATAAAATAAAA
1 TCAAAA-AAAATATATAA-AAAATAAAT
**
19681594 T-AATGAAAATAT-TAAAAAGCAT-AAT
1 TCAAAAAAAATATATAAAAA--ATAAAT
19681619 TCAAAAAAAATATATAAAAAATAAAT
1 TCAAAAAAAATATATAAAAAATAAAT
19681645 T
1 T
19681646 GGAATTCATC
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
24 3 0.07
25 7 0.17
26 22 0.54
27 8 0.20
28 1 0.02
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.24
Consensus pattern (26 bp):
TCAAAAAAAATATATAAAAAATAAAT
Found at i:19685356 original size:3 final size:3
Alignment explanation
Indices: 19685350--19685406 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
19685340 TTTGACATTG
*
19685350 TAT TAT TAT TAT TATT TAC TAT TAT TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
19685395 CAT TAT TTT TAT
1 TAT TAT TAT TAT
19685407 ATCCATATGC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19687060 original size:16 final size:16
Alignment explanation
Indices: 19687039--19687069 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
19687029 GTTTCACTTT
19687039 GACTGCATGGCATTTA
1 GACTGCATGGCATTTA
19687055 GACTGCATGGCATTT
1 GACTGCATGGCATTT
19687070 CATTATAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (16 bp):
GACTGCATGGCATTTA
Found at i:19687530 original size:19 final size:18
Alignment explanation
Indices: 19687506--19687551 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
19687496 AACGTCTCTT
*
19687506 TTTGCATTCATTTCATGCA
1 TTTGCATTCATTACAT-CA
19687525 TTTGCATTTCATTACATCA
1 TTTGCA-TTCATTACATCA
*
19687544 TATGCATT
1 TTTGCATT
19687552 AAACACCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.48
Consensus pattern (18 bp):
TTTGCATTCATTACATCA
Found at i:19690391 original size:7 final size:7
Alignment explanation
Indices: 19690379--19690421 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
19690369 AAATGACGAT
19690379 ATGAAAA
1 ATGAAAA
19690386 ATGAAAA
1 ATGAAAA
19690393 AGTG-AAA
1 A-TGAAAA
19690400 ATGAAAA
1 ATGAAAA
*
19690407 TTGAAAA
1 ATGAAAA
19690414 ATGGAAAA
1 AT-GAAAA
19690422 GTAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 2 0.06
7 22 0.71
8 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (7 bp):
ATGAAAA
Found at i:19690400 original size:14 final size:13
Alignment explanation
Indices: 19690383--19690429 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
19690373 GACGATATGA
19690383 AAAATGAAAAAGTG
1 AAAATG-AAAAGTG
*
19690397 AAAATGAAAATTG
1 AAAATGAAAAGTG
19690410 AAAAATGGAAAAGT-
1 -AAAAT-GAAAAGTG
19690424 AAAATG
1 AAAATG
19690430 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 11 0.38
14 11 0.38
15 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (13 bp):
AAAATGAAAAGTG
Found at i:19691790 original size:44 final size:44
Alignment explanation
Indices: 19691722--19692213 Score: 474
Period size: 44 Copynumber: 11.2 Consensus size: 44
19691712 GTTAAAAAGT
*
19691722 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGAA
* * * *
19691766 AACATATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGATA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGA-A
*
19691811 ATG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAA
1 A-GCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGA-G-AA
* * * * *
19691856 TG--GATCTTGTCTTCATCTATGGACATGAAGTAGATTAGAGAA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGAA
** * *
19691898 AATAGATCTTATCTTCATGTATTGACATGAAGTAGATC-GAAGATA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAG-AGA-A
* * * *
19691943 ATG--GATATTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATA
1 A-GCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGA-A
* * *
19691987 ATG--GATATTGTCTTCATATATTGACATGAAGTAGATCAGATGTAA
1 A-GCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGA-G-AA
* *
19692032 TG--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGAA
* *
19692074 AACAGGTCTTGTCTTCATGTATTGGA-GTGAAGTAGATC-GAAGAA
1 AGCAGATCTTGTCTTCATGTATT-GACGTGAAGTAGATCAG-AGAA
* *
19692118 AGCAGATCTTGTCTTCATGTATT-AGCGTGAAGTAGGTCAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGA-CGTGAAGTAGATCAGAGAA
*
19692162 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCA-AGAA
1 AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGAT-CAGAGAA
*
19692206 AGTAGATC
1 AGCAGATC
19692214 CAAGAAAGCA
Statistics
Matches: 389, Mismatches: 38, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
42 5 0.01
43 4 0.01
44 366 0.94
45 12 0.03
46 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCAGAGAA
Found at i:19691881 original size:88 final size:88
Alignment explanation
Indices: 19691726--19692199 Score: 548
Period size: 88 Copynumber: 5.4 Consensus size: 88
19691716 AAAAGTAGCA
** *** *
19691726 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAAAACATATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAATGGATCTTGTCTTCATGTATGGA
*
19691791 CATGAAGTAGATCAAAGATAATG
66 CATGAAGTAGATCAAAGAAAATG
*
19691814 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAATGGATCTTGTCTTCATCTATGGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAATGGATCTTGTCTTCATGTATGGA
* * *
19691879 CATGAAGTAGATTAGAGAAAATA
66 CATGAAGTAGATCAAAGAAAATG
* * *
19691902 GATCTTATCTTCATGTATTGACATGAAGTAGATC-GAAGATAATGGATATTGTCTTCATGTATTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGGTAATGGATCTTGTCTTCATGTA-TG
*
19691966 G-CATGAAGTAGATCAAAGATAATG
64 GACATGAAGTAGATCAAAGAAAATG
* * * *
19691990 GATATTGTCTTCATATATTGACATGAAGTAGATCAGATGTAATGGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAATGGATCTTGTCTTCATGTATGGA
* *
19692055 CATGAAGTAGATCAGAGAAAACAG
66 CATGAAGTAGATCAAAGAAAA-TG
* * *
19692079 G-TCTTGTCTTCATGTATTGGA-GTGAAGTAGATC-GAAG-AAAGCAGATCTTGTCTTCATGTAT
1 GATCTTGTCTTCATGTATT-GACATGAAGTAGATCAGAGGTAATG--GATCTTGTCTTCATGTAT
* * * ***
19692140 -TAGCGTGAAGTAGGTCAAAGAAAGCA
63 GGA-CATGAAGTAGATCAAAGAAAATG
* *
19692166 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATC
19692200 CAAGAAAGTA
Statistics
Matches: 333, Mismatches: 42, Indels: 22
0.84 0.11 0.06
Matches are distributed among these distances:
86 3 0.01
87 9 0.03
88 313 0.94
89 8 0.02
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (88 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGGTAATGGATCTTGTCTTCATGTATGGA
CATGAAGTAGATCAAAGAAAATG
Found at i:19692210 original size:14 final size:14
Alignment explanation
Indices: 19692191--19692226 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19692181 TATTGGCGTG
19692191 AAGTAGATCCAAGA
1 AAGTAGATCCAAGA
19692205 AAGTAGATCCAAGA
1 AAGTAGATCCAAGA
*
19692219 AAGCAGAT
1 AAGTAGAT
19692227 ATTGTCTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.14
Consensus pattern (14 bp):
AAGTAGATCCAAGA
Found at i:19692221 original size:58 final size:58
Alignment explanation
Indices: 19692147--19692271 Score: 196
Period size: 58 Copynumber: 2.2 Consensus size: 58
19692137 TATTAGCGTG
* * *
19692147 AAGTAGGTCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGA
1 AAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA
* *
19692205 AAGTAGATCCAAGAAAGCAGATATTGTCTTCATTTATTGGCGTGAAGTAGATCAAAGA
1 AAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA
*
19692263 AAGCAGATC
1 AAGTAGATC
19692272 TTGTCTTCAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (58 bp):
AAGTAGATCAAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGA
Found at i:19692253 original size:44 final size:44
Alignment explanation
Indices: 19692205--19692632 Score: 649
Period size: 44 Copynumber: 9.7 Consensus size: 44
19692195 AGATCCAAGA
* * *
19692205 AAGTAGATCCAAGAAAGCAGATATTGTCTTCATTTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
*
19692249 AAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
* *
19692293 AAGTAGATCGAAGAAAGCAGGTCTTATCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
*
19692337 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGGGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
*
19692381 AAGTAGATCCAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
* *
19692425 AAGTAGATCCAAGAAAGCAGATATTGTCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
19692469 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
*
19692513 AAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGGCGTG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
* * *** * *
19692557 AAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATATTGGGGGCG
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT-GGCGTG
*** *
19692602 AAGTAGATTTTAGAAAGTAGATCTTGTCTTC
1 AAGTAGATCGAAGAAAGCAGATCTTGTCTTC
19692633 CCATATATTA
Statistics
Matches: 357, Mismatches: 26, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
44 327 0.92
45 30 0.08
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (44 bp):
AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTG
Found at i:19692595 original size:132 final size:132
Alignment explanation
Indices: 19691717--19692632 Score: 968
Period size: 132 Copynumber: 6.8 Consensus size: 132
19691707 AGCAGGTTAA
* * * * *
19691717 AAAG-TAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAAAACATATCTTGTCTT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
* * * * *
19691781 CATGTATTGACATGAAGTAGATCAAAGATAATG--GATCTTGTCTTCATGTATTGACATGAAGTA
66 CATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTATTGGCGTGAAGTA
19691844 GATC
129 GATC
* * *** * * * * ** *
19691848 AGAGGTAATGGATCTTGTCTTCATCTA-TGGACATGAAGTAGATTAGAGAAAATAGATCTTATCT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGAAAGCAGATCTTGTCT
* * * *
19691912 TCATGTATTGACATGAAGTAGATCGAAGATAATG--GATATTGTCTTCATGTATTGGCATGAAGT
65 TCATGTATTGGCGTGAAGTAGATCGAAGA-AA-GCAGATCTTGTCTTCATGTATTGGCGTGAAGT
19691975 AGATC
128 AGATC
*** * * * * * *
19691980 AAAGATAATGGATATTGTCTTCATATATTGACATGAAGTAGATCAGATGTAATG--GATCTTGTC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA-AAG-AAAGCAGATCTTGTC
* * * * *
19692043 TTCATGTATTGACATGAAGTAGATC-AGAGAAAACAGGTCTTGTCTTCATGTATTGGAGTGAAGT
64 TTCATGTATTGGCGTGAAGTAGATCGA-AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGT
19692107 AGATC
128 AGATC
* * * *
19692112 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGGTCAAAGAAAGCAGATCTTGTCTT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
* *
19692177 CATGTATTGGCGTGAAGTAGATCCAAGAAAGTAGATCCAAGAAAGCAGATATTGTCTTCATTTAT
66 CATGTATTGGCGTGAAGTAGAT-C---------G----AAGAAAGCAGATCTTGTCTTCATGTAT
19692242 TGGCGTGAAGTAGATC
117 TGGCGTGAAGTAGATC
* * * *
19692258 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGGTCTTATCTT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
*
19692323 CATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGGGTGAAGTAGA
66 CATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
19692388 TC
131 TC
* * * *
19692390 CAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCCAAGAAAGCAGATATTGTCTT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
19692455 CATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
19692520 TC
131 TC
* *
19692522 GAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTT
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
*** * * *** *
19692587 CCCATATTGGGGGCGAAGTAGATTTTAGAAAGTAGATCTTGTCTTC
66 CATGTATT-GGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
19692633 CCATATATTA
Statistics
Matches: 681, Mismatches: 78, Indels: 50
0.84 0.10 0.06
Matches are distributed among these distances:
130 3 0.00
131 10 0.01
132 510 0.75
133 35 0.05
134 2 0.00
136 1 0.00
145 1 0.00
146 118 0.17
147 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (132 bp):
AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:19694118 original size:3 final size:3
Alignment explanation
Indices: 19694112--19694151 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
19694102 TTTGACATTG
*
19694112 TAT TAT TAT TATT TAC TAT TAT TAT TAT TAT TAT T-T TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19694152 GTTTTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:19696640 original size:56 final size:55
Alignment explanation
Indices: 19696555--19696661 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 55
19696545 TTATGGATTG
* *
19696555 CAAATTAATTCTTCATGAGCACTATTCAAATTAAAAGTGATAATTTATCATATTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATATTA
* *
19696610 CAAATTTAATTATTCATAAGCATTATTCAAATTAAAAGTGATGATTTATCAT
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCAT
19696662 CTAATGGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 4 0.09
56 43 0.91
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTGATAATTTATCATATTA
Found at i:19713839 original size:138 final size:138
Alignment explanation
Indices: 19713613--19713880 Score: 536
Period size: 138 Copynumber: 1.9 Consensus size: 138
19713603 ATAAAATAAC
19713613 TGGAATTATTTATTTATTTGTAAGCTCTTCCACGAAAGCTTTAATGTTGTTATATGAAGTCCCTC
1 TGGAATTATTTATTTATTTGTAAGCTCTTCCACGAAAGCTTTAATGTTGTTATATGAAGTCCCTC
19713678 CTTCCTCCACAGCTTCTTTAGCCAAATCCTTCCATTTCTTGGCATTCTTTTTAATTTCTTCACCT
66 CTTCCTCCACAGCTTCTTTAGCCAAATCCTTCCATTTCTTGGCATTCTTTTTAATTTCTTCACCT
19713743 ATATAAAA
131 ATATAAAA
19713751 TGGAATTATTTATTTATTTGTAAGCTCTTCCACGAAAGCTTTAATGTTGTTATATGAAGTCCCTC
1 TGGAATTATTTATTTATTTGTAAGCTCTTCCACGAAAGCTTTAATGTTGTTATATGAAGTCCCTC
19713816 CTTCCTCCACAGCTTCTTTAGCCAAATCCTTCCATTTCTTGGCATTCTTTTTAATTTCTTCACCT
66 CTTCCTCCACAGCTTCTTTAGCCAAATCCTTCCATTTCTTGGCATTCTTTTTAATTTCTTCACCT
19713881 CCCATCACCA
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 130 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (138 bp):
TGGAATTATTTATTTATTTGTAAGCTCTTCCACGAAAGCTTTAATGTTGTTATATGAAGTCCCTC
CTTCCTCCACAGCTTCTTTAGCCAAATCCTTCCATTTCTTGGCATTCTTTTTAATTTCTTCACCT
ATATAAAA
Found at i:19725561 original size:33 final size:33
Alignment explanation
Indices: 19725519--19725586 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
19725509 CTATGCACAT
19725519 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
19725552 TCTCATCATACCCATAAACAACATTATTTGCAA
1 TCTCATCATACCCATAAACAACATTATTTGCAA
19725585 TC
1 TC
19725587 ACATGTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (33 bp):
TCTCATCATACCCATAAACAACATTATTTGCAA
Found at i:19727054 original size:9 final size:9
Alignment explanation
Indices: 19727024--19727123 Score: 69
Period size: 9 Copynumber: 10.7 Consensus size: 9
19727014 ACGGTCATTG
*
19727024 ATTTTAATA
1 ATTTTTATA
*
19727033 TTTTTTACT-
1 ATTTTTA-TA
19727042 ATTTTTATA
1 ATTTTTATA
*
19727051 ATTTTT-TT
1 ATTTTTATA
19727059 ATTTTCTAATA
1 ATTTT-T-ATA
* *
19727070 AATTTTAAA
1 ATTTTTATA
19727079 TATTTTTATTAA
1 -ATTTTTA-T-A
*
19727091 AATTTTATA
1 ATTTTTATA
*
19727100 ACTTTTATA
1 ATTTTTATA
19727109 ATTTTTATA
1 ATTTTTATA
19727118 ATTTTT
1 ATTTTT
19727124 TTGCCACATG
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
8 7 0.10
9 43 0.61
10 9 0.13
11 11 0.15
12 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:19727054 original size:19 final size:18
Alignment explanation
Indices: 19727032--19727123 Score: 62
Period size: 19 Copynumber: 4.8 Consensus size: 18
19727022 TGATTTTAAT
19727032 ATTTTTTACTATTTTTATA
1 ATTTTTTA-TATTTTTATA
19727051 ATTTTTT-TATTTTCTAATAA
1 ATTTTTTATATTTT-T-AT-A
**
19727071 ATTTTAAATATTTTTATTA
1 ATTTTTTATATTTTTA-TA
** *
19727090 AAATTTTATAACTTTTATA
1 ATTTTTTAT-ATTTTTATA
19727109 A-TTTTTATAATTTTT
1 ATTTTTTAT-ATTTTT
19727124 TTGCCACATG
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.10
18 13 0.22
19 19 0.33
20 14 0.24
21 6 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTTTATATTTTTATA
Found at i:19727084 original size:21 final size:21
Alignment explanation
Indices: 19727058--19727097 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19727048 ATAATTTTTT
19727058 TATTTTCTAAT-AAATTTTAAA
1 TATTTT-TAATAAAATTTTAAA
*
19727079 TATTTTTATTAAAATTTTA
1 TATTTTTAATAAAATTTTA
19727098 TAACTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTTAATAAAATTTTAAA
Found at i:19727333 original size:76 final size:78
Alignment explanation
Indices: 19727190--19727336 Score: 201
Period size: 76 Copynumber: 1.9 Consensus size: 78
19727180 AAAGTGTCTT
** * * * *
19727190 TTTGATACATTTTGACCGTTCAAATTACCAAATTGAGTGAGAAAAAAGTAGAGGTTTAATTGTTT
1 TTTGATACATTTTGAAAGTTCAAATTACCAAATTGAG-GAGAAAAAAATAAAGGTTTAAATATTT
19727255 TTTTTTTTAAGTTC
65 TTTTTTTTAAGTTC
19727269 TTTGATACATTTTGAAAGTTCAAA-TATCC-AATTGA-GAGAAAAAAATAAAGGTTTAAATATTT
1 TTTGATACATTTTGAAAGTTCAAATTA-CCAAATTGAGGAGAAAAAAATAAAGGTTTAAATATTT
19727331 TTTTTT
65 TTTTTT
19727337 AAAAAATTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
76 29 0.48
78 8 0.13
79 24 0.39
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.42
Consensus pattern (78 bp):
TTTGATACATTTTGAAAGTTCAAATTACCAAATTGAGGAGAAAAAAATAAAGGTTTAAATATTTT
TTTTTTTAAGTTC
Found at i:19734326 original size:51 final size:47
Alignment explanation
Indices: 19734222--19734328 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 47
19734212 TCAAAATGAA
19734222 AATGAAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAGAAAG
1 AATGAAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAGAAAG
* *
19734269 AA-GAAAAAATC-AAAATCAAGATCAAAATGAAAATGAGAAAAAGAA-AGAAG
1 AATGAAAAAATCAAAAATCAAAAT-AAAA--AAAA--ACAAAAAGAAGA-AAG
19734319 AATGAAAAAA
1 AATGAAAAAA
19734329 GAGAAATTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
45 10 0.20
46 13 0.25
47 2 0.04
48 4 0.08
49 1 0.02
50 14 0.27
51 7 0.14
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (47 bp):
AATGAAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAGAAAG
Found at i:19735308 original size:7 final size:6
Alignment explanation
Indices: 19735246--19735305 Score: 102
Period size: 6 Copynumber: 9.7 Consensus size: 6
19735236 GAAAATATGA
19735246 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG -AAAATG
19735295 AAAAATG AAAA
1 -AAAATG AAAA
19735306 ATGGAGAGGC
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 40 0.75
7 13 0.25
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:19736892 original size:44 final size:43
Alignment explanation
Indices: 19736829--19737140 Score: 135
Period size: 44 Copynumber: 6.7 Consensus size: 43
19736819 CCGATAATCC
*
19736829 TATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACAAATGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAA-GATCT
* **
19736873 TATCTCTCTGAAGTTACAGTCGAGTAGATCGTATCCGATTGAAGCCAGAA-ATCT
1 TATCTCCCTGAAGTTACAGT-G-G-AG--CG-----GATT-AAAACA-AAGATCT
* *
19736927 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAA-GATCT
* * *
19736971 TATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTCGATTGAAGACAGAGATCT
1 TATCTCCCTGAAGTTACAGT-G-G-AG--CG-----GATT-AAAACAAAGATCT
** * * * ** *
19737025 TATCTCCCTG-AGATTACAGCAGAGCAGATCGAAGAC-ACTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCGGAT-TAAAACAAAGATCT
* **
19737068 TATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGTAATAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAA-AGATCT
* * * *
19737112 TATCTCTCTGAAGTTGCAGTAGAGTGGAT
1 TATCTCCCTGAAGTTACAGTGGAGCGGAT
19737141 CGCATTAGGT
Statistics
Matches: 199, Mismatches: 39, Indels: 60
0.67 0.13 0.20
Matches are distributed among these distances:
42 4 0.02
43 30 0.15
44 81 0.41
45 2 0.01
46 2 0.01
47 4 0.02
49 5 0.03
51 4 0.02
52 2 0.01
53 3 0.02
54 50 0.25
55 10 0.05
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGATCT
Found at i:19736981 original size:98 final size:98
Alignment explanation
Indices: 19736812--19737053 Score: 344
Period size: 98 Copynumber: 2.5 Consensus size: 98
19736802 AAGGAAGCAA
* * * * *
19736812 ATTGAAGCC-GATAATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAACAAATGATCTTAT
1 ATTGAAGCCAGA-AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCCTAT
* *
19736876 CTCTCTGAAGTTACAGTCGAGTAGATCGTATCCG
65 CTCTCTGAAGTTACAGTAGAGTAGATCGCATCCG
19736910 ATTGAAGCCAGAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCCTATC
1 ATTGAAGCCAGAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCCTATC
*
19736975 TCTCTGAAGTTACAGTAGAGTAGATCGCATTCG
66 TCTCTGAAGTTACAGTAGAGTAGATCGCATCCG
* * **
19737008 ATTGAAGACAGAGATCTTATCTCCCTG-AGATTACAGCAGAGCAGAT
1 ATTGAAGCCAGAAATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT
19737054 CGAAGACACT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
97 2 0.02
98 126 0.97
99 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (98 bp):
ATTGAAGCCAGAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCCTATC
TCTCTGAAGTTACAGTAGAGTAGATCGCATCCG
Found at i:19737198 original size:44 final size:44
Alignment explanation
Indices: 19737149--19737268 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
19737139 ATCGCATTAG
* *
19737149 GTCTTATCACCCTGAGGTTGCATTGGAGCAGACTG-AGAAAACAA
1 GTCTTATCACCCTGAGGTTGCAGTGGAGCAGACCGAAG-AAACAA
* * * *
19737193 GTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACCGAAGAAGCAA
1 GTCTTATCACCCTGAGGTTGCAGTGGAGCAGACCGAAGAAACAA
* *
19737237 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 GTCTTATCACCCTGAGGTTGCAGTGGAGCAGA
19737269 TTGAAGTCGA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 63 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.23
Consensus pattern (44 bp):
GTCTTATCACCCTGAGGTTGCAGTGGAGCAGACCGAAGAAACAA
Found at i:19738351 original size:18 final size:19
Alignment explanation
Indices: 19738328--19738368 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19738318 GGGGCTAGGG
19738328 TTTTAG-TTT-GTTTATGTT
1 TTTTAGCTTTAGTTTAT-TT
19738346 TTTTAGCTTTAGTTTATTT
1 TTTTAGCTTTAGTTTATTT
19738365 TTTT
1 TTTT
19738369 TTTAGTTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (19 bp):
TTTTAGCTTTAGTTTATTT
Found at i:19739019 original size:21 final size:21
Alignment explanation
Indices: 19738968--19739019 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
19738958 AGTGGTCGTG
*
19738968 CATAT-TTATTTTTTAATCTAT
1 CATATATTA-TTTTAAATCTAT
* *
19738989 CAT-TAATATTTTAAATGTAT
1 CATATATTATTTTAAATCTAT
19739009 CATATATTATT
1 CATATATTATT
19739020 ATTTCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (21 bp):
CATATATTATTTTAAATCTAT
Found at i:19739150 original size:17 final size:16
Alignment explanation
Indices: 19739119--19739152 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19739109 TATTTATTGA
*
19739119 TTTTGTTTTTTTTTTC
1 TTTTCTTTTTTTTTTC
19739135 TTTTCTTTTCTTTTTTC
1 TTTTCTTTT-TTTTTTC
19739152 T
1 T
19739153 CTCCTTGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:19740549 original size:5 final size:5
Alignment explanation
Indices: 19740539--19740578 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
19740529 TGCCTAAGAT
* *
19740539 TTGAA TTGAA TTGAA TTGAA TATGAA TTGTA TTAAA TTGA
1 TTGAA TTGAA TTGAA TTGAA T-TGAA TTGAA TTGAA TTGA
19740579 GTTAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (5 bp):
TTGAA
Found at i:19741163 original size:24 final size:24
Alignment explanation
Indices: 19741136--19741191 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
19741126 TTCGGAGTTA
19741136 CCCGTTATTGGCTCGCATGAGCTT
1 CCCGTTATTGGCTCGCATGAGCTT
**
19741160 CCCGATTA-TGGCTCTTATGAGCTT
1 CCCG-TTATTGGCTCGCATGAGCTT
19741184 CCCGTTAT
1 CCCGTTAT
19741192 ACAACCCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 3 0.11
ACGTcount: A:0.14, C:0.29, G:0.21, T:0.36
Consensus pattern (24 bp):
CCCGTTATTGGCTCGCATGAGCTT
Found at i:19749322 original size:14 final size:13
Alignment explanation
Indices: 19749303--19749342 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
19749293 TTCCTTCTAA
19749303 AAAAAATAAGTAAG
1 AAAAAA-AAGTAAG
*
19749317 AAAAAAAAATAAG
1 AAAAAAAAGTAAG
19749330 AATAAAAAAGTAA
1 AA-AAAAAAGTAA
19749343 ACGAGATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (13 bp):
AAAAAAAAGTAAG
Found at i:19749323 original size:17 final size:16
Alignment explanation
Indices: 19749301--19749338 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
19749291 GTTTCCTTCT
19749301 AAAAAAAATAAGTAAGA
1 AAAAAAAATAAG-AAGA
*
19749318 AAAAAAAATAAGAATA
1 AAAAAAAATAAGAAGA
19749334 AAAAA
1 AAAAA
19749339 GTAAACGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
AAAAAAAATAAGAAGA
Found at i:19749329 original size:13 final size:14
Alignment explanation
Indices: 19749302--19749342 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
19749292 TTTCCTTCTA
19749302 AAAAAAATAAGTAAG
1 AAAAAAA-AAGTAAG
19749317 AAAAAAAAA-TAAG
1 AAAAAAAAAGTAAG
*
19749330 AATAAAAAAGTAA
1 AAAAAAAAAGTAA
19749343 ACGAGATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 12 0.50
14 5 0.21
15 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (14 bp):
AAAAAAAAAGTAAG
Found at i:19749792 original size:28 final size:30
Alignment explanation
Indices: 19749761--19749822 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
19749751 AAAAAAATTG
*
19749761 AATTAAGCCCT-AATTGAAAACT-GCAATC
1 AATTAAGCCCTGAATAGAAAACTGGCAATC
* **
19749789 AATTAAGTCCTGAATAGAAAGTTGGCAATC
1 AATTAAGCCCTGAATAGAAAACTGGCAATC
19749819 AATT
1 AATT
19749823 GGGCCCTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.36
29 8 0.29
30 10 0.36
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (30 bp):
AATTAAGCCCTGAATAGAAAACTGGCAATC
Found at i:19754623 original size:21 final size:23
Alignment explanation
Indices: 19754587--19754632 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
19754577 TCAGTTTAAA
19754587 ATGCATTATAACAATTT-ATTTC
1 ATGCATTATAACAATTTAATTTC
*
19754609 ATGCA-TATGACAATTTAATTTC
1 ATGCATTATAACAATTTAATTTC
19754631 AT
1 AT
19754633 TTTATAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (23 bp):
ATGCATTATAACAATTTAATTTC
Found at i:19769068 original size:16 final size:16
Alignment explanation
Indices: 19769049--19769099 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
19769039 GAACATTTGG
19769049 TATGAAGATTAGTCAT
1 TATGAAGATTAGTCAT
* **
19769065 TATGAACATT--T-GG
1 TATGAAGATTAGTCAT
19769078 TATGAAGATTAGTCAT
1 TATGAAGATTAGTCAT
19769094 TATGAA
1 TATGAA
19769100 CATTTGGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 1 0.04
16 15 0.58
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (16 bp):
TATGAAGATTAGTCAT
Found at i:19769078 original size:29 final size:29
Alignment explanation
Indices: 19769036--19769123 Score: 176
Period size: 29 Copynumber: 3.0 Consensus size: 29
19769026 ATATTGGTTG
19769036 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
19769065 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
19769094 TATGAACATTTGGTATGAAGATTAGTCAT
1 TATGAACATTTGGTATGAAGATTAGTCAT
19769123 T
1 T
19769124 CTTTGCATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 59 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (29 bp):
TATGAACATTTGGTATGAAGATTAGTCAT
Found at i:19771316 original size:31 final size:31
Alignment explanation
Indices: 19771257--19771316 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
19771247 ATTTACTCTT
* * *
19771257 TTAAAAATCATATTTGACTTGCTGTTTGAAA
1 TTAAAAATCAAATTTAACTTGCTCTTTGAAA
19771288 TTAAAAATCAAATTTAACTT-CATCTTTGA
1 TTAAAAATCAAATTTAACTTGC-TCTTTGA
19771317 TCTTCCTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
TTAAAAATCAAATTTAACTTGCTCTTTGAAA
Found at i:19772720 original size:6 final size:6
Alignment explanation
Indices: 19772709--19772734 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19772699 ATATAAAAAA
19772709 ATATTT ATATTT ATATTT ATATTT AT
1 ATATTT ATATTT ATATTT ATATTT AT
19772735 GTAAAACACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATATTT
Found at i:19785623 original size:9 final size:9
Alignment explanation
Indices: 19785609--19785638 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
19785599 GGTTTTTGGA
19785609 TTTTAGGGT
1 TTTTAGGGT
*
19785618 TTTTAGGAT
1 TTTTAGGGT
19785627 TTTTAGGGT
1 TTTTAGGGT
19785636 TTT
1 TTT
19785639 AAAGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.27, T:0.60
Consensus pattern (9 bp):
TTTTAGGGT
Found at i:19785626 original size:17 final size:17
Alignment explanation
Indices: 19785599--19785638 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
19785589 CTGACTTGTA
19785599 GGTTTTTGGA-TTTTAG
1 GGTTTTTGGATTTTTAG
19785615 GGTTTTTAGGATTTTTAG
1 GGTTTTT-GGATTTTTAG
19785633 GGTTTT
1 GGTTTT
19785639 AAAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 12 0.55
ACGTcount: A:0.12, C:0.00, G:0.30, T:0.57
Consensus pattern (17 bp):
GGTTTTTGGATTTTTAG
Found at i:19785639 original size:17 final size:16
Alignment explanation
Indices: 19785599--19785639 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
19785589 CTGACTTGTA
*
19785599 GGTTTTTGGATTTTAG
1 GGTTTTAGGATTTTAG
19785615 GGTTTTTAGGATTTTTAG
1 GG-TTTTAGGA-TTTTAG
19785633 GGTTTTA
1 GGTTTTA
19785640 AAGAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 12 0.55
18 8 0.36
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (16 bp):
GGTTTTAGGATTTTAG
Found at i:19787381 original size:20 final size:22
Alignment explanation
Indices: 19787339--19787381 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19787329 TTTTTTTCTC
*
19787339 TCATTTTCTCTCTTGCCAAACA
1 TCATTTTCTCTCTTGCAAAACA
19787361 TCATTTTCT-TCTT-CAAAACA
1 TCATTTTCTCTCTTGCAAAACA
19787381 T
1 T
19787382 ATAGTTGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (22 bp):
TCATTTTCTCTCTTGCAAAACA
Found at i:19787937 original size:21 final size:22
Alignment explanation
Indices: 19787894--19787938 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
19787884 ACACCAAAAC
*
19787894 AGGCTTTTAGCGGCGCATTTTT
1 AGGCCTTTAGCGGCGCATTTTT
*
19787916 AGGCCTTTAGCGTCGC-TTTTT
1 AGGCCTTTAGCGGCGCATTTTT
19787937 AG
1 AG
19787939 TGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCATTTTT
Found at i:19788078 original size:43 final size:43
Alignment explanation
Indices: 19788030--19788136 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
19788020 TATTAGAAAT
19788030 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
* * * *
19788073 AAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
* * *
19788116 AAATGTCGCTAAAGACTATGA
1 AAACGCCGCTAAAGACCATGA
19788137 TCTTTAGTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
Found at i:19788142 original size:43 final size:42
Alignment explanation
Indices: 19788030--19788148 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
19788020 TATTAGAAAT
*
19788030 AAACGCCGCTAAAGACCATGACATTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGACCATGAC-TTTAGCGGCGCTTCTCCCAC
* *
19788073 AAACGCCGTTAAAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGA-CTTTAGCGGCGCTTCTCCCAC
* * * *
19788116 AAATGTCGCTAAAGACTATGATCTTTAGTGGCG
1 AAACGCCGCTAAAGACCATGA-CTTTAGCGGCG
19788149 TTGTTTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 65 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGACTTTAGCGGCGCTTCTCCCAC
Found at i:19788621 original size:66 final size:66
Alignment explanation
Indices: 19788515--19788656 Score: 189
Period size: 66 Copynumber: 2.2 Consensus size: 66
19788505 TGCAGCGTCT
* *
19788515 GCTTCTCTTGCTGTCGCATCTGCTTTAAGCTGCAGGTGGAGTTCTTCATA-CTTTCGTTAAACCT
1 GCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTT-GTTAAACCT
19788579 CA
65 CA
* * * * *
19788581 GCTTCTCTCGCTG-CTGCATCTGTTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCT
1 GCTTCTCTCGCTGTC-GCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTTGTTAAACCT
19788645 CA
65 CA
19788647 GCTTCTCTCG
1 GCTTCTCTCG
19788657 ACACTGCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 62 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGCTGTCGCATCTGCTTTAAGCTGCAGCTGGAGTTCTTCATATCTTTGTTAAACCTC
A
Found at i:19788674 original size:66 final size:66
Alignment explanation
Indices: 19788530--19788679 Score: 178
Period size: 66 Copynumber: 2.3 Consensus size: 66
19788520 TCTTGCTGTC
* * * * *
19788530 GCATCTGCTTTAAGCTGCAGGTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTGC
1 GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTAC
19788595 T
66 T
* * * *
19788596 GCATCTGTTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGAC-
1 GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTAAACCTCAGCTTCTCTCG-CT
19788659 ACT
64 ACT
*
19788662 GCCTCCGCTTTAAGTTGT
1 GCATCCGCTTTAAGTTGT
19788680 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
66 67 0.93
67 5 0.07
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (66 bp):
GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTAAACCTCAGCTTCTCTCGCTAC
T
Found at i:19795703 original size:42 final size:42
Alignment explanation
Indices: 19795639--19795723 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
19795629 GCTTCTCCAT
* *
19795639 AAGATCTAACTCATCAACGATAAAATCTGTTAAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
* *
19795681 AAGATCAAACTCAGCAATGATAAAATCTGTTGAAAATTCTTG
1 AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
19795723 A
1 A
19795724 GCTATTTCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (42 bp):
AAGATCAAACTCAGCAACGATAAAATCTGTTAAAAATTCTTG
Found at i:19797313 original size:66 final size:65
Alignment explanation
Indices: 19797227--19797405 Score: 202
Period size: 66 Copynumber: 2.7 Consensus size: 65
19797217 ATTCAAGAAC
* * * * *
19797227 TTGAGAATACATGATATCTCGTTCAGGAGCTTGGGAAAA-CTCGATATCTCGTTCAAGATA-TTG
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATC-CAATATCGCGTTC-AGA-ACTTG
19797290 GAA
63 GAA
* * *
19797293 TTGAGAAGACCTGATATCTCGTTCAAGAGCTTAGGAAGATCCAATATCGCGTTCAGAAGCTTGGT
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATCCAATATCGCGTTCAGAA-CTTGGA
19797358 A
65 A
* *
19797359 TTGAGAAGACCTAATATCTTGTTCAGGAGCTTA-GAAAGATCCAATAT
1 TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAA-ATCCAATAT
19797406 TTGAGTTTTC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
64 1 0.01
65 6 0.06
66 89 0.92
67 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (65 bp):
TTGAGAAGACCTGATATCTCGTTCAGGAGCTTAGGAAAATCCAATATCGCGTTCAGAACTTGGAA
Found at i:19797340 original size:30 final size:30
Alignment explanation
Indices: 19797306--19797405 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 30
19797296 AGAAGACCTG
19797306 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
1 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
*
19797336 ATATCGCGTTC-AGAAGCTTGGTATTGAGAAGA-CCTA
1 ATATCTCGTTCAAG-AGC-T--TA--G-GAAGATCC-A
* * *
19797372 ATATCTTGTTCAGGAGCTTAGAAAGATCCA
1 ATATCTCGTTCAAGAGCTTAGGAAGATCCA
19797402 ATAT
1 ATAT
19797406 TTGAGTTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 20
0.69 0.06 0.25
Matches are distributed among these distances:
29 2 0.04
30 22 0.40
31 4 0.07
33 4 0.07
35 4 0.07
36 18 0.33
37 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (30 bp):
ATATCTCGTTCAAGAGCTTAGGAAGATCCA
Found at i:19798929 original size:39 final size:39
Alignment explanation
Indices: 19798875--19799004 Score: 235
Period size: 39 Copynumber: 3.4 Consensus size: 39
19798865 TTTAGTTTGA
19798875 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
*
19798914 GTCTTTAATTATGTCTTAGTTTGAACACCATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
*
19798953 GTCTTTAATTATGTCTTAGTTTGAACATTATTAATATGT
1 GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
19798992 GT-TTTAATTATGT
1 GTCTTTAATTATGT
19799005 GTCTTAATTC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 11 0.12
39 77 0.88
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (39 bp):
GTCTTTAATTATGTCTTAGTTTGAACATCATTAATATGT
Found at i:19799080 original size:24 final size:24
Alignment explanation
Indices: 19799059--19799124 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
19799049 ATAAATTGTG
*
19799059 TTTAAACCTTGTTTTAATATTGCA
1 TTTAAACCGTGTTTTAATATTGCA
19799083 TTTAAACCGTGTTTTAATATTGCA
1 TTTAAACCGTGTTTTAATATTGCA
19799107 TTTAAACCGTGTTTTAAT
1 TTTAAACCGTGTTTTAAT
19799125 GTGTACCAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (24 bp):
TTTAAACCGTGTTTTAATATTGCA
Found at i:19804443 original size:18 final size:18
Alignment explanation
Indices: 19804387--19804459 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
19804377 AGCTAAAAAT
19804387 AAAAGAAATTGAGAGAAGAAA
1 AAAAGAAATT--GA-AAGAAA
19804408 AAAAGAAATGTG--AG--A
1 AAAAGAAAT-TGAAAGAAA
19804423 AAAAGAAATTGAAAGAAA
1 AAAAGAAATTGAAAGAAA
**
19804441 AAAAGAGCTTGAAAGAAA
1 AAAAGAAATTGAAAGAAA
19804459 A
1 A
19804460 GAGAAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
14 2 0.04
15 10 0.22
16 2 0.04
17 2 0.04
18 18 0.40
20 1 0.02
21 9 0.20
22 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.22, T:0.11
Consensus pattern (18 bp):
AAAAGAAATTGAAAGAAA
Found at i:19804548 original size:21 final size:21
Alignment explanation
Indices: 19804507--19804554 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
19804497 AAAAAGAGTT
*
19804507 TGAGAATGAAAAAGAGGAAAA
1 TGAGAATGAAAAAGAAGAAAA
*
19804528 TGAGAATGAAAGAA-AATAAAA
1 TGAGAATGAAA-AAGAAGAAAA
19804549 TGAGAA
1 TGAGAA
19804555 AGATGAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (21 bp):
TGAGAATGAAAAAGAAGAAAA
Found at i:19806588 original size:39 final size:39
Alignment explanation
Indices: 19806534--19806662 Score: 242
Period size: 39 Copynumber: 3.3 Consensus size: 39
19806524 TTAGTTTGAT
*
19806534 TCTTTAATTATGTCTTAGTTTAAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
19806573 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
19806612 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
1 TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
19806651 T-TTTAATTATGT
1 TCTTTAATTATGT
19806663 GTCTTAATTT
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
38 11 0.12
39 78 0.88
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (39 bp):
TCTTTAATTATGTCTTAGTTTGAACATCATTAATATGTG
Found at i:19808687 original size:101 final size:101
Alignment explanation
Indices: 19808512--19808723 Score: 273
Period size: 101 Copynumber: 2.1 Consensus size: 101
19808502 AATTGATGAA
* * * *
19808512 TAAGATCATGGTTGGACCATGACAACGTTTACATGTAAGACCATAGCTGGGCTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
* **
19808577 TAAAAAGACCATAACTA-GGTTATGACATTTTGAACG
66 TAAAAAGACCATAA-TAGGGTTATGACACTACGAACG
** * * *
19808613 TAAGACCATGGTTGGACCATGACAGTATTTATAAGTAAGACCATAGTTGGGATATGGCATTTTGA
1 TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
* * *
19808678 TGATAAGACCATAATAGGGTTATGACACTACGAATG
66 TAAAAAGACCATAATAGGGTTATGACACTACGAACG
19808714 TAAGACCATG
1 TAAGACCATG
19808724 ACAGGGCCAT
Statistics
Matches: 95, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 2 0.02
101 93 0.98
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAACATTTACAAGTAAGACCATAGCTGGGATATGGCATTTTAA
TAAAAAGACCATAATAGGGTTATGACACTACGAACG
Found at i:19808690 original size:33 final size:33
Alignment explanation
Indices: 19808547--19808690 Score: 96
Period size: 33 Copynumber: 4.3 Consensus size: 33
19808537 CGTTTACATG
* * *
19808547 TAAGACCATAGCTGGGCTATGGCATTTTAATAA
1 TAAGACCATAGCTGGGATATGACATTTTGATAA
* * * * *
19808580 AAAGACCATAACTAGGTTATGACATTTTGA-ACG
1 TAAGACCATAGCTGGGATATGACATTTTGATA-A
* * *
19808613 TAAGACCAT-GGTTGGACCATGACAGTATTT-ATAA
1 TAAGACCATAGCTGGGA-TATGACA-T-TTTGATAA
* * *
19808647 GTAAGACCATAGTTGGGATATGGCATTTTGATGA
1 -TAAGACCATAGCTGGGATATGACATTTTGATAA
19808681 TAAGACCATA
1 TAAGACCATA
19808691 ATAGGGTTAT
Statistics
Matches: 84, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
32 4 0.05
33 51 0.61
34 6 0.07
35 18 0.21
36 5 0.06
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (33 bp):
TAAGACCATAGCTGGGATATGACATTTTGATAA
Found at i:19808734 original size:101 final size:99
Alignment explanation
Indices: 19808546--19808770 Score: 247
Period size: 101 Copynumber: 2.3 Consensus size: 99
19808536 ACGTTTACAT
* * * **
19808546 GTAAGACCATAGCTGGGCTATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACATTTTGAA
1 GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACACTACGAA
*** **
19808611 CGTAAGACCATGGTTGGACCATGACAGTATTTATAA
66 CGTAAGACCATGACAGGACCATGACA--ATGCATAA
* * *
19808647 GTAAGACCATAGTTGGGATATGGCATTTTGATGATAAGACCATAA-TAGGGTTATGACACTACGA
1 GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTA-GGTTATGACACTACGA
* * **
19808711 ATGTAAGACCATGACAGGGCCATGACAATGCATGT
65 ACGTAAGACCATGACAGGACCATGACAATGCATAA
19808746 GTAAGACCATAGTT-GGACTATGGCA
1 GTAAGACCATAGTTGGGA-TATGGCA
19808771 CAAAAAAAAA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
98 3 0.03
99 25 0.24
100 2 0.02
101 75 0.71
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (99 bp):
GTAAGACCATAGTTGGGATATGGCATTTTAATAAAAAGACCATAACTAGGTTATGACACTACGAA
CGTAAGACCATGACAGGACCATGACAATGCATAA
Found at i:19810628 original size:17 final size:17
Alignment explanation
Indices: 19810603--19810642 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
19810593 CTCATGCATA
* * *
19810603 TATATATATATATATAT
1 TATAGATATATAGAGAT
19810620 TATAGATATATAGAGAT
1 TATAGATATATAGAGAT
19810637 TATAGA
1 TATAGA
19810643 AAGAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (17 bp):
TATAGATATATAGAGAT
Found at i:19817525 original size:41 final size:40
Alignment explanation
Indices: 19817403--19817538 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
19817393 ACCAGTTTGG
* * *
19817403 CACCCAGTGCCTCATTGGATAAT-TCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAATCT-GAAGTAGTAAATTGA
* * ** * * *
19817443 CACCCAATGTCTCATCGGCTAAACCGAAGT-G--AATTGG
1 CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
19817480 CACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCTGAAGTAGTAAATTGA
*
19817521 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
19817539 CTCGAAGTCG
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 20 0.27
38 9 0.12
39 1 0.01
40 23 0.31
41 22 0.29
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCTGAAGTAGTAAATTGA
Found at i:19818425 original size:9 final size:9
Alignment explanation
Indices: 19818411--19818435 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19818401 AAACCCTAAG
19818411 CCTTCTTCT
1 CCTTCTTCT
19818420 CCTTCTTCT
1 CCTTCTTCT
19818429 CCTTCTT
1 CCTTCTT
19818436 TCTTTCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (9 bp):
CCTTCTTCT
Done.