Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 65 of 173
Found at i:19016620 original size:80 final size:79
Alignment explanation
Indices: 19016372--19016751 Score: 315
Period size: 80 Copynumber: 4.8 Consensus size: 79
19016362 CCAGCATGAT
* * * * * ** **
19016372 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGC-CCGATA
* *
19016437 TATCACTAGCACGAA
65 TATAACTAGCACAAA
*
19016452 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GATA
* * * *
19016517 CATCACTATCACGAA
65 TATAACTAGCACAAA
*
19016532 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGATTA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGA-TA
*
19016597 TAGTAACTCGCACAAA
65 TA-TAACTAGCACAAA
* * * ** * * * *
19016613 TGC-CTTCGGGACTTAACCCAGATTTAGTAACTCGTACCAATGC-CTTCGGG-CTTAGCCCGGA-
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GAT
*
19016674 ATTAGTAACTCGCACAAA
64 A-TA-TAACTAGCACAAA
* * * ** *
19016692 TGC-CTTCGGATCTTAGTCAGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCG
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCG
19016752 GACATCATTC
Statistics
Matches: 251, Mismatches: 40, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.00
79 58 0.23
80 169 0.67
81 23 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGATAT
ATAACTAGCACAAA
Found at i:19016641 original size:40 final size:39
Alignment explanation
Indices: 19016570--19016751 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 39
19016560 CACTAGCATG
19016570 AATGCTCTTCGGGACTTAGCCCGATTATAGTAACTCGCACA
1 AATGC-CTTCGGGACTTAGCCCGATT-TAGTAACTCGCACA
* * *
19016611 AATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGTACC
1 AATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCACA
*
19016651 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCACA
** * * * *
19016690 AATGCCTTC-GGATCTTAGTCAGGATATGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCACA
19016731 AA-GCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
19016752 GACATCATTC
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.28
40 62 0.53
41 21 0.18
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCACA
Found at i:19016660 original size:120 final size:119
Alignment explanation
Indices: 19016432--19016673 Score: 267
Period size: 120 Copynumber: 2.0 Consensus size: 119
19016422 GGTTTAGCAT
* * **
19016432 GGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATAACTAGCACAAATGCTC
* * * *
19016497 TTCGGGACTTAGCCCGGATACATCACTATCACGAATGCTCTTCGGAACTTAGCCC
66 TTCGGGACTTAACCCAGATACATAACTATCACCAATGCTCTTCGG-ACTTAGCCC
* * * *
19016552 GGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGC
1 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA-TACA-TAACTAGCACAAATGC
** * *
19016616 -CTTCGGGACTTAACCCAGATTTAGTAACTCGT-ACCAATGC-CTTCGGGCTTAGCCC
64 TCTTCGGGACTTAACCCAGATACA-TAACT-ATCACCAATGCTCTTCGGACTTAGCCC
19016671 GGA
1 GGA
19016674 ATTAGTAACT
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
119 13 0.13
120 65 0.64
121 23 0.23
122 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATAACTAGCACAAATGCTC
TTCGGGACTTAACCCAGATACATAACTATCACCAATGCTCTTCGGACTTAGCCC
Found at i:19016737 original size:79 final size:80
Alignment explanation
Indices: 19016576--19016753 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
19016566 CATGAATGCT
* *
19016576 CTTCGGGACTTAGCCC-GATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAG
1 CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAG
*
19016640 TAACTCGTACCAATGC
66 TAACTC-TACCAAAGC
**
19016656 CTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCAGGATAT
1 CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA-GATAT
* *
19016717 GGTCACT-TAGCACAAAGC
64 AGTAACTCTA-C-CAAAGC
19016735 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
19016754 CATCATTCGA
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
77 2 0.02
78 7 0.08
79 55 0.65
80 21 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGATATAG
TAACTCTACCAAAGC
Found at i:19018658 original size:37 final size:37
Alignment explanation
Indices: 19018608--19018686 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19018598 TTATTACGAA
* * *
19018608 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19018645 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19018682 GTCTT
1 GTCTT
19018687 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19018927 original size:47 final size:47
Alignment explanation
Indices: 19018805--19019120 Score: 492
Period size: 47 Copynumber: 6.7 Consensus size: 47
19018795 CCCTTCGGGA
* * * * * *
19018805 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19018852 CCTGTCACATA-ATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19018898 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19018945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19018992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19019039 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
19019086 CTTATCTCCTATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
19019121 AGAATCCTAA
Statistics
Matches: 252, Mismatches: 15, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 40 0.16
47 212 0.84
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19020776 original size:56 final size:55
Alignment explanation
Indices: 19020709--19021009 Score: 412
Period size: 56 Copynumber: 5.8 Consensus size: 55
19020699 TATTAGTTTA
*
19020709 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA-GACATGTT
19020765 TTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA-ACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAGACATGTT
19020809 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA-GACATGTT
19020865 TTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA-ACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAGACATGTT
19020909 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAAGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTC-AGACATGTT
19020965 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
19021010 TGCCCATCAT
Statistics
Matches: 220, Mismatches: 1, Indels: 48
0.82 0.00 0.18
Matches are distributed among these distances:
44 76 0.35
46 4 0.02
49 8 0.04
51 8 0.04
54 3 0.01
55 1 0.00
56 120 0.55
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAGACATGTT
Found at i:19020808 original size:44 final size:44
Alignment explanation
Indices: 19020758--19021016 Score: 302
Period size: 44 Copynumber: 5.3 Consensus size: 44
19020748 ATGTTTCATG
19020758 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
19020802 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA
19020856 TGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 --ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
19020902 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----C-A
19020957 GACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 -ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
19021002 ACATGTTTTGCCCAT
1 ACATGTTTTGCCCAT
19021017 CATCCCTTGT
Statistics
Matches: 191, Mismatches: 0, Indels: 48
0.80 0.00 0.20
Matches are distributed among these distances:
44 91 0.48
45 1 0.01
46 3 0.02
49 8 0.04
51 8 0.04
54 3 0.02
55 1 0.01
56 76 0.40
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.46
Consensus pattern (44 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
Found at i:19020827 original size:100 final size:100
Alignment explanation
Indices: 19020709--19021016 Score: 598
Period size: 100 Copynumber: 3.1 Consensus size: 100
19020699 TATTAGTTTA
*
19020709 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
19020774 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
19020809 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
19020874 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
*
19020909 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCAAGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
19020974 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
19021009 TTGCCCAT
1 TTGCCCAT
19021017 CATCCCTTGT
Statistics
Matches: 206, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 206 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (100 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
CTTCTTATTTTATTTTTCCATTAACACAACATGTT
Found at i:19022983 original size:27 final size:26
Alignment explanation
Indices: 19022945--19022995 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
19022935 GAATATAAAT
19022945 GGGGTTGCTAAGTGCTGATTTCCCCAA
1 GGGGTTGCTAAGTGCTGA-TTCCCCAA
*
19022972 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
19022996 GATTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:19023071 original size:42 final size:42
Alignment explanation
Indices: 19023007--19023187 Score: 200
Period size: 42 Copynumber: 4.5 Consensus size: 42
19022997 ATTCATTGGT
*
19023007 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * *
19023049 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * *
19023091 GGTTTCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* *
19023124 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTTAAATGTG-AAAGG
19023168 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
19023188 CCGAATCATT
Statistics
Matches: 116, Mismatches: 12, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
33 21 0.18
34 3 0.03
35 1 0.01
36 2 0.02
37 2 0.02
38 4 0.03
39 2 0.02
40 3 0.03
41 2 0.02
42 56 0.48
44 20 0.17
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
Found at i:19023180 original size:77 final size:75
Alignment explanation
Indices: 19023049--19023224 Score: 253
Period size: 77 Copynumber: 2.3 Consensus size: 75
19023039 ATGTGAAGGG
* * *
19023049 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGGGGTTTCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
*
19023114 ATTCATTGGT
66 AATCATTGGT
* * *
19023124 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGGGGTTGCTAAGTGCTGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTG-AAAGGGGTTGCTAAGTGCTGATTCCC
19023189 CGAATCATTGGT
64 CGAATCATTGGT
* *
19023201 GGTTGCTAAGTGATGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
19023225 ATAACGGATA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
75 23 0.26
76 9 0.10
77 57 0.64
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGT
Found at i:19026309 original size:26 final size:29
Alignment explanation
Indices: 19026216--19026342 Score: 86
Period size: 31 Copynumber: 4.3 Consensus size: 29
19026206 TGTATACATT
*
19026216 ATATATAT-T-AGTGGGTGTTATATATATA
1 ATATATATGTGAGTGGTTG-TATATATATA
* * *
19026244 ATATATAAATGGGAG-AGTTGGTAATATACATAA
1 ATATAT--ATGTGAGTGGTT-GT-ATATATAT-A
*
19026277 ATATATATGTGCGT-G-TGT-TATATATA
1 ATATATATGTGAGTGGTTGTATATATATA
*
19026303 ATATATATATGAGTGGGTTGTATATATATA
1 ATATATATGTGAGT-GGTTGTATATATATA
19026333 CATATATATG
1 -ATATATATG
19026343 CGTGAGAGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
26 13 0.17
27 6 0.08
28 7 0.09
29 5 0.07
30 11 0.14
31 17 0.22
32 10 0.13
33 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (29 bp):
ATATATATGTGAGTGGTTGTATATATATA
Found at i:19034645 original size:50 final size:51
Alignment explanation
Indices: 19034523--19034662 Score: 149
Period size: 50 Copynumber: 2.8 Consensus size: 51
19034513 GATAATAACA
* ** *
19034523 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
* * * * * *
19034574 TGCCCATGCCATGTTCAAGACATGGTCTTATGA-GGGA-CCTCTCATCTCGC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTA-CATGGGATCCTCTCATATCGC
* *
19034624 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGATC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
19034663 TCTTTACCCA
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
49 1 0.01
50 38 0.54
51 30 0.43
52 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
Found at i:19040950 original size:16 final size:16
Alignment explanation
Indices: 19040926--19040979 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
19040916 TTTGGTTCGC
* *
19040926 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
19040942 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19040958 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
19040974 TGTAAT
1 TGTAAT
19040980 AGCAAATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:19041234 original size:18 final size:17
Alignment explanation
Indices: 19041213--19041247 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19041203 TTATTATTAA
*
19041213 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
19041231 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19041248 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19041331 original size:120 final size:120
Alignment explanation
Indices: 19041191--19041718 Score: 884
Period size: 120 Copynumber: 4.4 Consensus size: 120
19041181 ATTTAATCAT
* *
19041191 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * * *
19041256 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATA
65 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
19041312 TTTTAACATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
**
19041376 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
19041431 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
19041493 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
19041548 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
19041613 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
19041668 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
19041719 CTAAAGTTTG
Statistics
Matches: 388, Mismatches: 15, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
116 20 0.05
117 91 0.23
118 2 0.01
119 87 0.22
120 185 0.48
121 3 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:19041373 original size:17 final size:17
Alignment explanation
Indices: 19041333--19041366 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
19041323 TTATTATTAA
19041333 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19041350 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
19041367 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:19041572 original size:26 final size:26
Alignment explanation
Indices: 19041542--19041699 Score: 83
Period size: 26 Copynumber: 6.5 Consensus size: 26
19041532 AATACTATAT
19041542 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
*
19041568 AATATAATTTAATAA-AAATA-TA-T-
1 AATATAATTTAA-AATAATTATTATTA
* ** *
19041591 AATTTAA--TAAAATTCTTAATATTA
1 AATATAATTTAAAATAATTATTATTA
* * *
19041615 AATAT--TCTT-ATATGAATT-TAATAA
1 AATATAAT-TTAAAAT-AATTATTATTA
* * *
19041639 AATCATAA--T-ATATAA-TACTATAA
1 AAT-ATAATTTAAAATAATTATTATTA
19041662 AATATAATTTAAAATAATTATTATTA
1 AATATAATTTAAAATAATTATTATTA
19041688 AATATAATTTAA
1 AATATAATTTAA
19041700 TAAAAATATA
Statistics
Matches: 98, Mismatches: 17, Indels: 34
0.66 0.11 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 7 0.07
23 16 0.16
24 20 0.20
25 12 0.12
26 34 0.35
27 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AATATAATTTAAAATAATTATTATTA
Found at i:19041615 original size:18 final size:18
Alignment explanation
Indices: 19041449--19041602 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
19041439 TAATTATTAA
19041449 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
19041467 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
19041485 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
19041504 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
19041522 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
19041538 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
19041557 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
19041569 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
19041587 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
19041603 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:19044623 original size:122 final size:124
Alignment explanation
Indices: 19044480--19044757 Score: 366
Period size: 122 Copynumber: 2.3 Consensus size: 124
19044470 TTTTTTTGAG
* ** ** * *
19044480 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACGAGGATGCTATATAAGAAGAAATTGT
* * *
19044544 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGTGAGAAAT-A-TTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAACTTTTT
* * *
19044601 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACGAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACGAGGATGCTATATAAGAAGAAATTGT
*
19044666 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAACTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAACTTTTT
* *
19044726 TTGACGTTTCTGAGCAAACAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
19044758 GCCCTCGTGG
Statistics
Matches: 135, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
121 6 0.04
122 79 0.59
123 16 0.12
124 23 0.17
125 11 0.08
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACGAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAACTTTTT
Found at i:19047264 original size:33 final size:32
Alignment explanation
Indices: 19047171--19047576 Score: 338
Period size: 33 Copynumber: 13.1 Consensus size: 32
19047161 AGAGAATGCA
* *
19047171 TAAATTAGGTTAGGGTTAGAGTTTTTAATTTAGT
1 TAAA-TAGGTTA-GGTTAGGGTTTTTAATTTAAT
*
19047205 TAAATTAGGTTAGGTTA-GGTTTTTAATTTATT
1 TAAA-TAGGTTAGGTTAGGGTTTTTAATTTAAT
* *
19047237 TAAATAGGTTAGTATTTGGGTTTTTAA-TT-A-
1 TAAATAGGTTAG-GTTAGGGTTTTTAATTTAAT
*
19047267 -AATTAGGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAATAGGTTAGGTTAGGGTTTTTAATTTAAT
*
19047298 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAA-TAGGTTAGGTTAGGGTTTTTAATTTAAT
* *
19047331 TAATTAGGTTAGGGTTTGGGTTTTTAA-TT-A-
1 TAAATAGGTTA-GGTTAGGGTTTTTAATTTAAT
* *
19047361 -AATTAGGTTAGGGTTAGGGTTTTTAA-TTATT
1 TAAATAGGTTA-GGTTAGGGTTTTTAATTTAAT
*
19047392 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAA-TAGGTTAGGTTAGGGTTTTTAATTTAAT
* *
19047425 TAATTAGGTTAGGGTTTGGG---TT--TTTAAT
1 TAAATAGGTTA-GGTTAGGGTTTTTAATTTAAT
19047453 T-AA-A--TTAGGTTAGGGTTTTTAATT--A-
1 TAAATAGGTTAGGTTAGGGTTTTTAATTTAAT
* *
19047478 -AATTAGGTTAGGGTTAGGGTTTTTAA-TTATT
1 TAAATAGGTTA-GGTTAGGGTTTTTAATTTAAT
* *
19047509 TAAATTAAGTTAGGTTACGGTTTTTAATTTAAT
1 TAAA-TAGGTTAGGTTAGGGTTTTTAATTTAAT
* * * *
19047542 TAATTAGGTTTGGGTTTGGGTTTTTAATTAAAT
1 TAAATAGG-TTAGGTTAGGGTTTTTAATTTAAT
19047575 TA
1 TA
19047577 GGTTAGGGTT
Statistics
Matches: 306, Mismatches: 35, Indels: 63
0.76 0.09 0.16
Matches are distributed among these distances:
23 7 0.02
24 3 0.01
25 1 0.00
26 5 0.02
27 1 0.00
28 25 0.08
29 54 0.18
30 3 0.01
31 9 0.03
32 73 0.24
33 113 0.37
34 12 0.04
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (32 bp):
TAAATAGGTTAGGTTAGGGTTTTTAATTTAAT
Found at i:19047349 original size:94 final size:94
Alignment explanation
Indices: 19047171--19047593 Score: 497
Period size: 94 Copynumber: 4.7 Consensus size: 94
19047161 AGAGAATGCA
* * *
19047171 TAAATTAGGTTAGGGTTAGAGTTTTTAATTTAGTTAAATTAGGTTAGGTTA-GGTTTTTAATTTA
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTA
* * **
19047235 TTTAAATAGGTTAGTATTTGGGTTTTTAAT
65 ATTAATTAGGTTAGGGTTTGGGTTTTTAAT
19047265 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA
19047330 TTAATTAGGTTAGGGTTTGGGTTTTTAAT
66 TTAATTAGGTTAGGGTTTGGGTTTTTAAT
*
19047359 TAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTA
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTA
19047423 ATTAATTAGGTTAGGGTTTGGGTTTTTAAT
65 ATTAATTAGGTTAGGGTTTGGGTTTTTAAT
*
19047453 T-AA--A--TTAGGTTAGGG---TT--TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTA
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA-GGTTAGGGTTTTTAATTTA
* * **
19047507 TTTAAATTAAGTTA-GGTTACGGTTTTTAAT
65 ATT-AATTAGGTTAGGGTTTGGGTTTTTAAT
* * * *** *
19047537 TTAATTA-ATTAGGTTTGGG-TTTGGGTTT--TT-AATTAAATTAGGTTAGGGTTTTTAATT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATT
19047594 AAGTAGGGTT
Statistics
Matches: 297, Mismatches: 18, Indels: 33
0.85 0.05 0.09
Matches are distributed among these distances:
84 35 0.12
85 28 0.09
87 1 0.00
88 33 0.11
89 12 0.04
90 3 0.01
91 1 0.00
92 3 0.01
93 37 0.12
94 129 0.43
95 15 0.05
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (94 bp):
TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA
TTAATTAGGTTAGGGTTTGGGTTTTTAAT
Found at i:19047388 original size:24 final size:26
Alignment explanation
Indices: 19047329--19047500 Score: 89
Period size: 29 Copynumber: 6.0 Consensus size: 26
19047319 TTTTAATTTA
*
19047329 ATTAATTAGGTTAGGGTTTGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
19047356 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
* **
19047385 AATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTT
1 -ATTAATTAGGTT-AG---GGTTAGGG----T--TTT
*
19047422 AATTAATTAGGTTAGGGTTTGGG-TTT
1 -ATTAATTAGGTTAGGGTTAGGGTTTT
**
19047448 -TTAATTAAATTA-GGTTAGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
19047473 AATTAAATTAGGTTAGGGTTAGGGTTTT
1 -ATT-AATTAGGTTAGGGTTAGGGTTTT
19047501 TAATTATTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
23 7 0.06
24 10 0.09
25 3 0.03
26 3 0.03
27 2 0.02
28 21 0.18
29 37 0.32
32 8 0.07
33 7 0.06
35 2 0.02
36 2 0.02
37 13 0.11
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (26 bp):
ATTAATTAGGTTAGGGTTAGGGTTTT
Found at i:19047468 original size:23 final size:23
Alignment explanation
Indices: 19047437--19047492 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
19047427 ATTAGGTTAG
*
19047437 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
19047460 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
19047483 GGTTAGGGTT
1 GGTTAGGGTT
19047493 AGGGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:19047503 original size:117 final size:117
Alignment explanation
Indices: 19047264--19047595 Score: 513
Period size: 117 Copynumber: 2.8 Consensus size: 117
19047254 GGGTTTTTAA
* * *
19047264 TTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA-GGTTAGGGTTTTTAATTT
1 TTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTTAA-TT
19047328 AATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAT
64 -A--AATTAGGTTA------GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAT
19047391 TTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAA
19047456 ATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAT
66 ATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAT
* *
19047508 TTAAATTAAGTTAGGTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAA
1 TTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAA
19047573 ATTAGGTTAGGGTTTTTAATTAA
66 ATTAGGTTAGGGTTTTTAATTAA
19047596 GTAGGGTTAG
Statistics
Matches: 199, Mismatches: 5, Indels: 12
0.92 0.02 0.06
Matches are distributed among these distances:
117 129 0.65
123 10 0.05
125 1 0.01
126 11 0.06
127 48 0.24
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (117 bp):
TTAAATTAAGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAA
ATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAT
Found at i:19047585 original size:23 final size:24
Alignment explanation
Indices: 19047553--19047620 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
19047543 AATTAGGTTT
*
19047553 GGGTTTGGGTTTTTAATTAAATTA
1 GGGTTAGGGTTTTTAATTAAATTA
*
19047577 -GGTTAGGGTTTTTAATT-AAGTA
1 GGGTTAGGGTTTTTAATTAAATTA
* *
19047599 GGGTTAGGGATTTTAATCAAAT
1 GGGTTAGGGTTTTTAATTAAAT
19047621 AATGTCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 31 0.84
24 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (24 bp):
GGGTTAGGGTTTTTAATTAAATTA
Found at i:19047848 original size:21 final size:21
Alignment explanation
Indices: 19047808--19047852 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19047798 GGCGGTTGTT
*
19047808 GTTCTTCCGGTGGGGAATCTG
1 GTTCTTCCGGTGCGGAATCTG
* *
19047829 GTTCTTCCGGTTCGGCATCTG
1 GTTCTTCCGGTGCGGAATCTG
19047850 GTT
1 GTT
19047853 GTCGGACTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.22, G:0.33, T:0.38
Consensus pattern (21 bp):
GTTCTTCCGGTGCGGAATCTG
Found at i:19049917 original size:29 final size:30
Alignment explanation
Indices: 19049879--19049936 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
19049869 TGAAAATATT
19049879 AAAAACTTTAAAATTAT-TTAAAAAAAATA
1 AAAAACTTTAAAATTATCTTAAAAAAAATA
* *
19049908 AAAAATTTTAAAATTTTCTTAAAAAAAAT
1 AAAAACTTTAAAATTATCTTAAAAAAAAT
19049937 GAAATTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (30 bp):
AAAAACTTTAAAATTATCTTAAAAAAAATA
Found at i:19050008 original size:22 final size:22
Alignment explanation
Indices: 19049978--19050019 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
19049968 ATTTGGAGAT
*
19049978 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
19050000 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
19050020 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:19050027 original size:30 final size:30
Alignment explanation
Indices: 19049991--19050049 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
19049981 TTGAAGGAAA
* *
19049991 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
19050021 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
19050050 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:19050040 original size:52 final size:51
Alignment explanation
Indices: 19049969--19050071 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
19049959 TTAATATGGA
* * *
19049969 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
19050020 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
19050072 AACTTTTTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:19050064 original size:23 final size:22
Alignment explanation
Indices: 19050021--19050087 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
19050011 ATTTGAGAGT
19050021 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAGGAAA
*
19050043 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTGAAGGAAA
*
19050065 TTGAGAGAACTTTTTGAAAGGAA
1 TTGAGAGAA-ATTTTG-AAGGAA
19050088 TTTGTTTGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
22 23 0.59
23 11 0.28
24 5 0.13
ACGTcount: A:0.40, C:0.01, G:0.30, T:0.28
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAGGAAA
Found at i:19050088 original size:23 final size:21
Alignment explanation
Indices: 19050021--19050089 Score: 84
Period size: 23 Copynumber: 3.1 Consensus size: 21
19050011 ATTTGAGAGT
*
19050021 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
*
19050043 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
19050065 TTGAGAGAACTTTTTGAAAGGAA
1 TTGAGAGAA--TTTTGAAAGGAA
19050088 TT
1 TT
19050090 TGTTTGTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.05
22 16 0.39
23 23 0.56
ACGTcount: A:0.39, C:0.01, G:0.29, T:0.30
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:19050852 original size:20 final size:19
Alignment explanation
Indices: 19050827--19050915 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 19
19050817 TAAAAATAAT
19050827 TTTTACTTAAATTATTTGAA
1 TTTTACTTAAATTATTT-AA
* *
19050847 TTTTACTTAAATTGTTCAA
1 TTTTACTTAAATTATTTAA
* ** *
19050866 TATAGTAGATAGATTATTTAA
1 T-T-TTACTTAAATTATTTAA
19050887 -TTTACTTAAATTATTTAA
1 TTTTACTTAAATTATTTAA
19050905 GTTTTACTTAA
1 -TTTTACTTAA
19050916 TAGATAAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 13 0.25
19 4 0.08
20 25 0.47
21 11 0.21
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTTACTTAAATTATTTAA
Found at i:19055229 original size:14 final size:16
Alignment explanation
Indices: 19055210--19055243 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
19055200 GTTTTAATAA
19055210 ATTTT-AAATTTT-AT
1 ATTTTAAAATTTTGAT
19055224 ATTTTAAAATTTTGAT
1 ATTTTAAAATTTTGAT
19055240 ATTT
1 ATTT
19055244 ATCAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 7 0.39
16 6 0.33
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTTAAAATTTTGAT
Found at i:19056106 original size:2 final size:2
Alignment explanation
Indices: 19056095--19056139 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
19056085 ATGTGAAAAC
19056095 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
19056136 AG AG
1 AG AG
19056140 GGGCAGAGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19056329 original size:14 final size:16
Alignment explanation
Indices: 19056305--19056337 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19056295 GACGAGAAGT
19056305 AAAAAATAAT-AATAC
1 AAAAAATAATAAATAC
19056320 AAAAAA-AATAAATAC
1 AAAAAATAATAAATAC
19056335 AAA
1 AAA
19056338 CTCTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAATAAATAC
Found at i:19058464 original size:18 final size:20
Alignment explanation
Indices: 19058430--19058466 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
19058420 TTTTATGTAA
19058430 TATTTTATTTAAAATATTAG
1 TATTTTATTTAAAATATTAG
19058450 TATTTTA-TT-AAATATTA
1 TATTTTATTTAAAATATTA
19058467 TTATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTATTTAAAATATTAG
Found at i:19061889 original size:91 final size:91
Alignment explanation
Indices: 19061715--19061889 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 91
19061705 GTTTATCCAC
* * *
19061715 AAACTTACTGGCAACTTTTATCTACAAACAGGTTGTGCATTCACAACCCACTAGCAGTGTATTAA
1 AAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATTCACAACCCAATAGCAGCGTATTAA
* * *
19061780 CTTGTAAAAATTGATGGTTCATTTAG
66 CCTGCAAAAACTGATGGTTCATTTAG
** ** *
19061806 AAACTTACTGGCAGTTTTTATCTACAAACACGTTGTGCATTCAGTACCTAAT-GTCAGCGTATTA
1 AAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATTCACAACCCAATAG-CAGCGTATTA
* *
19061870 ACCTGCAAACACTGGTGGTT
65 ACCTGCAAAAACTGATGGTT
19061890 TATCCAAAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
90 1 0.01
91 69 0.99
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.33
Consensus pattern (91 bp):
AAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATTCACAACCCAATAGCAGCGTATTAA
CCTGCAAAAACTGATGGTTCATTTAG
Found at i:19063516 original size:27 final size:28
Alignment explanation
Indices: 19063484--19063536 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
19063474 CGTCCCAATA
*
19063484 GACTTA-CCCTTGTTTATTGTCTTGGTG
1 GACTTATCCCGTGTTTATTGTCTTGGTG
* *
19063511 GACTTATCTCGTGTTTATTGTTTTGG
1 GACTTATCCCGTGTTTATTGTCTTGG
19063537 CAAATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (28 bp):
GACTTATCCCGTGTTTATTGTCTTGGTG
Found at i:19077868 original size:26 final size:26
Alignment explanation
Indices: 19077838--19077889 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19077828 CACCAATGAA
*
19077838 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19077864 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19077890 CTTTTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:19077931 original size:102 final size:102
Alignment explanation
Indices: 19077706--19078057 Score: 570
Period size: 102 Copynumber: 3.5 Consensus size: 102
19077696 TAGCCGTTAT
** *
19077706 TGGTGGATCCCGCACTTAGCACCA-CACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
19077770 AATCAGCACATAGCAACCCCC-TTT-ATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
19077806 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
19077871 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
19077908 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
19077972 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * *
19078011 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
19078058 ACTGCAACCC
Statistics
Matches: 239, Mismatches: 7, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
100 47 0.20
101 37 0.15
102 86 0.36
103 68 0.28
104 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:19077978 original size:25 final size:25
Alignment explanation
Indices: 19077944--19077991 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
19077934 AATGAAATCG
*
19077944 GGGAATCAGCACTTAGCAACCCCTC
1 GGGAATCAGCACATAGCAACCCCTC
19077969 GGGAATCAGCACATAGCAACCCC
1 GGGAATCAGCACATAGCAACCCC
19077992 CTTTCACATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.35, G:0.21, T:0.12
Consensus pattern (25 bp):
GGGAATCAGCACATAGCAACCCCTC
Found at i:19078426 original size:28 final size:30
Alignment explanation
Indices: 19078394--19078458 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
19078384 TAATCCACCA
19078394 CCCAACTTTTTG-AAAATTACAATTTTG-C
1 CCCAACTTTTTGCAAAATTACAATTTTGTC
* *
19078422 CCCAAAC-TTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTTGCAAAATTACAATTTTGTC
19078452 CCCAACT
1 CCCAACT
19078459 CGGAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 8 0.26
29 19 0.61
30 4 0.13
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.37
Consensus pattern (30 bp):
CCCAACTTTTTGCAAAATTACAATTTTGTC
Found at i:19082451 original size:100 final size:102
Alignment explanation
Indices: 19082277--19082607 Score: 555
Period size: 100 Copynumber: 3.3 Consensus size: 102
19082267 TTACCGTTAT
* *
19082277 TGGTGGAT-CCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
19082341 AATCAGCACATAGCAACCCCCTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
19082378 TGGT-GATATCGCACTTAGCACCACCAATG-ATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
19082441 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
19082478 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
19082542 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
*
19082582 TGGTGGATCA-CGCACATAGCACCACC
1 TGGTGGAT-ATCGCACTTAGCACCACC
19082608 CATAAATCAC
Statistics
Matches: 219, Mismatches: 4, Indels: 11
0.94 0.02 0.05
Matches are distributed among these distances:
100 77 0.35
101 48 0.22
102 28 0.13
103 29 0.13
104 36 0.16
105 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCATTTCAAAGATA
Found at i:19082540 original size:26 final size:26
Alignment explanation
Indices: 19082511--19082562 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
19082501 ACCAATGAAA
*
19082511 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19082537 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
19082563 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:19082617 original size:25 final size:25
Alignment explanation
Indices: 19082588--19082640 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
19082578 GATATGGTGG
19082588 ATCACGCACATAGCACCACCCATAA
1 ATCACGCACATAGCACCACCCATAA
19082613 ATCACGCACATAGCACCACCCATAA
1 ATCACGCACATAGCACCACCCATAA
19082638 ATC
1 ATC
19082641 GGGAATCAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.40, G:0.08, T:0.13
Consensus pattern (25 bp):
ATCACGCACATAGCACCACCCATAA
Found at i:19082651 original size:203 final size:196
Alignment explanation
Indices: 19082277--19082663 Score: 503
Period size: 203 Copynumber: 1.9 Consensus size: 196
19082267 TTACCGTTAT
*
19082277 TGGTGGATCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 TGGTGGATCCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
19082342 ATCAGCACATAGCAACCCCCTTTTATTTCAAAGATATGGTGATATCGCACTTAGCACCACCAATG
66 ATCAGCACATAGCAACCCCCTTTCATTTCAAAGATATGGTGATATCGCACATAGCACCACCAATG
* * * * *
19082407 ATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCATTTCA
131 A-----GAATCAGCACATAGCAACCCATAGCGGGAATCAGCACACAGCAACCCCCTTTCATTTCA
19082472 AAGATA
191 AAGATA
*
19082478 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGAT-CCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
19082542 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGCACCA
64 GAATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATATGGT-GAT-ATCGCACATAGCACCA
* *
19082606 CCCAT-A-AATCACGCACATAGCACCACCCATAAATCGGGAATCAGCACACAGCAACCCC
125 CCAATGAGAATCA-GCACATAGCA--ACCCAT--AGCGGGAATCAGCACACAGCAACCCC
19082664 TTTTATATAC
Statistics
Matches: 164, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
198 5 0.03
199 9 0.05
201 13 0.08
202 47 0.29
203 52 0.32
204 17 0.10
205 20 0.12
206 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (196 bp):
TGGTGGATCCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCATTTCAAAGATATGGTGATATCGCACATAGCACCACCAATG
AGAATCAGCACATAGCAACCCATAGCGGGAATCAGCACACAGCAACCCCCTTTCATTTCAAAGAT
A
Found at i:19083021 original size:30 final size:29
Alignment explanation
Indices: 19082987--19083051 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19082977 TAATCCACCA
19082987 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
19083017 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
19083047 CCCAA
1 CCCAA
19083052 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:19083025 original size:31 final size:30
Alignment explanation
Indices: 19082994--19083051 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19082984 CCACCCAACT
19082994 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
19083024 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
19083052 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:19094637 original size:8 final size:8
Alignment explanation
Indices: 19094624--19094661 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
19094614 AAATCGGCTC
19094624 AATTTTAA
1 AATTTTAA
19094632 AATTTTAA
1 AATTTTAA
19094640 AATTTTAA
1 AATTTTAA
19094648 AATTTTAA
1 AATTTTAA
19094656 AATTTT
1 AATTTT
19094662 TGTTGTGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTTAA
Found at i:19096946 original size:18 final size:18
Alignment explanation
Indices: 19096923--19096959 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
19096913 AGAGAGTTAA
19096923 TAAGTCTAAAGGCTTATT
1 TAAGTCTAAAGGCTTATT
*
19096941 TAAGTCTAAATGCTTATT
1 TAAGTCTAAAGGCTTATT
19096959 T
1 T
19096960 TACAGCACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAGTCTAAAGGCTTATT
Found at i:19099481 original size:25 final size:26
Alignment explanation
Indices: 19099421--19099488 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
19099411 AAGTTCCGAC
* *
19099421 TCACAGCTTGTGTGAGCAGTCCCATTT
1 TCACAGCTCGTGTGAGCAG-CACATTT
19099448 TCACAGCTCGTGTGAGCA-CAC-TTAT
1 TCACAGCTCGTGTGAGCAGCACATT-T
19099473 TCACAGCTCGTGTGAG
1 TCACAGCTCGTGTGAG
19099489 TATATATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
27 17 0.45
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCAGCACATTT
Found at i:19107306 original size:79 final size:78
Alignment explanation
Indices: 19107137--19107327 Score: 321
Period size: 79 Copynumber: 2.4 Consensus size: 78
19107127 AACCCTCTTG
*
19107137 TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGCCACTAAAGCAAAGCTTGAGAAAAATATATAA
1 TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGCCACTAAAGCAAAGCTTGACAAAAATATATAA
19107202 GTTGAGATTTTTA
66 GTTGAGATTTTTA
*
19107215 TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGTCACTAAAGCAAAAGCTTGACAAAAATATA-A
1 TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGCCACTAAAGC-AAAGCTTGACAAAAATATATA
19107279 TAGTTGAGATTTTTA
65 -AGTTGAGATTTTTA
* *
19107294 TGCAAGAAAACTTAAAAGGCATATAAAGAAAAGC
1 TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGC
19107328 ATTCAATAAG
Statistics
Matches: 106, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
78 43 0.41
79 63 0.59
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.22
Consensus pattern (78 bp):
TGCAAGAAAACTTAAAAGGAATGTAAAGAAAAGCCACTAAAGCAAAGCTTGACAAAAATATATAA
GTTGAGATTTTTA
Found at i:19109129 original size:13 final size:13
Alignment explanation
Indices: 19109108--19109145 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
19109098 TAACTCATTG
*
19109108 CACATAAAACAAA
1 CACAAAAAACAAA
19109121 CACACAAAAACAAA
1 CACA-AAAAACAAA
19109135 -ACAAAAAACAA
1 CACAAAAAACAA
19109146 CCAAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.74, C:0.24, G:0.00, T:0.03
Consensus pattern (13 bp):
CACAAAAAACAAA
Found at i:19119444 original size:25 final size:24
Alignment explanation
Indices: 19119412--19119460 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
19119402 GACCTTGCCT
* * *
19119412 GTTATCAGCTTGTATGAGCTTACC
1 GTTATCAGCTCGGAGGAGCTTACC
19119436 GTTATTCAGCTCGGAGGAGCTTACC
1 GTTA-TCAGCTCGGAGGAGCTTACC
19119461 ATTTATCGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (24 bp):
GTTATCAGCTCGGAGGAGCTTACC
Found at i:19122009 original size:21 final size:20
Alignment explanation
Indices: 19121974--19122013 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
19121964 GACTAAATTA
*
19121974 GAAACGTTTGAAAAATTTAG
1 GAAACGTTAGAAAAATTTAG
19121994 GAAACAGTTAGAAAAATTTA
1 GAAAC-GTTAGAAAAATTTA
19122014 ATTGCAGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (20 bp):
GAAACGTTAGAAAAATTTAG
Found at i:19124083 original size:45 final size:46
Alignment explanation
Indices: 19124018--19124185 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 46
19124008 GATTGGAGAG
* * * * *
19124018 TGCCATAGTGTCTTTTAACCATGGTCTTATTTATTCTT-GTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGT
* * *
19124063 TGCCATAGTGTCTTTCAACCACGGTCTTATTCATTTTTCATCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGT
19124109 TG-CACTAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGT
1 TGCCA-TAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGT
* * * *
19124155 TGTCATAGTGTCTTTCAGCTATGGTCATATT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATT
19124186 TCTTTGATAC
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
45 36 0.34
46 69 0.64
47 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGT
Found at i:19124213 original size:91 final size:90
Alignment explanation
Indices: 19124018--19124228 Score: 210
Period size: 91 Copynumber: 2.3 Consensus size: 90
19124008 GATTGGAGAG
* * *
19124018 TGCCATAGTGTCTTTTAACCATGGTCTTATTTATTCTTGTCTTGATGCCATAGTGTCTTTCAACC
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTGTCATGATGCCATAGTGTCTTTCAACC
* * * *
19124083 ACGGTCTTATTCATTTTTCATCGTGT
66 ACGGTCATATT-ATCTTTCATCCTGA
* * * *
19124109 TG-CACTAGTGTCTTTCAACCATGGTCTTATTCATTTTTCGTCATGTTGTCATAGTGTCTTTCAG
1 TGCCA-TAGTGTCTTTCAACCATGGTCTTATTCATTCTT-GTCATGATGCCATAGTGTCTTTCAA
* * *
19124173 CTATGGTCATATT-TCTTTGATACCTGA
64 CCACGGTCATATTATCTTTCAT-CCTGA
* * * *
19124200 TGCCATAGCGTCTTCCAGCTATGGTCTTA
1 TGCCATAGTGTCTTTCAACCATGGTCTTA
19124229 CTCGATAGAA
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
90 8 0.08
91 57 0.58
92 33 0.34
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (90 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTCTTGTCATGATGCCATAGTGTCTTTCAACC
ACGGTCATATTATCTTTCATCCTGA
Found at i:19139374 original size:17 final size:18
Alignment explanation
Indices: 19139352--19139395 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
19139342 CTAATGAATG
*
19139352 ACAAATAATCAATA-AAT
1 ACAAATAAGCAATACAAT
19139369 ACAAATAAGCAATACAAT
1 ACAAATAAGCAATACAAT
*
19139387 ACACATAAG
1 ACAAATAAG
19139396 AGAAATAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.61, C:0.16, G:0.05, T:0.18
Consensus pattern (18 bp):
ACAAATAAGCAATACAAT
Found at i:19140117 original size:23 final size:23
Alignment explanation
Indices: 19140037--19140129 Score: 93
Period size: 23 Copynumber: 4.0 Consensus size: 23
19140027 TAACAAATAC
* * *
19140037 ATGATAAATGT-AAGTAATGTTA
1 ATGATAAATTTAAAATAATATTA
*
19140059 ATGATAAATTTAAAATAATAATA
1 ATGATAAATTTAAAATAATATTA
*
19140082 CATTG-TAAA-TTAAAATAATATTG
1 -A-TGATAAATTTAAAATAATATTA
19140105 ATGATAAATTTAAAAGTAATATTA
1 ATGATAAATTTAAAA-TAATATTA
19140129 A
1 A
19140130 GCTTAAACAT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
21 2 0.03
22 15 0.26
23 26 0.45
24 13 0.22
25 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATTA
Found at i:19141295 original size:18 final size:19
Alignment explanation
Indices: 19141272--19141315 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
19141262 ATTGGGCTTA
*
19141272 TTTATTTGTAATTGGA-TT
1 TTTATTTGTAAATGGACTT
19141290 TTTA-TTGTAAATGGACTT
1 TTTATTTGTAAATGGACTT
19141308 TGTTATTT
1 T-TTATTT
19141316 TTGGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 3 0.14
20 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (19 bp):
TTTATTTGTAAATGGACTT
Found at i:19153182 original size:17 final size:18
Alignment explanation
Indices: 19153160--19153202 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19153150 TAATGAACGT
*
19153160 CAAATAATCAATA-AATA
1 CAAATAAGCAATACAATA
19153177 CAAATAAGCAATACAATA
1 CAAATAAGCAATACAATA
*
19153195 CACATAAG
1 CAAATAAG
19153203 AGCAATAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.60, C:0.16, G:0.05, T:0.19
Consensus pattern (18 bp):
CAAATAAGCAATACAATA
Found at i:19153929 original size:22 final size:24
Alignment explanation
Indices: 19153842--19153935 Score: 72
Period size: 23 Copynumber: 4.0 Consensus size: 24
19153832 TTACATAACA
* *
19153842 AATACATGATAAATGT-AAGTAAT
1 AATACATGATAAATTTAAAATAAT
**
19153865 GTTA-ATGATAAATTTAAAATAAT
1 AATACATGATAAATTTAAAATAAT
*
19153888 AATACATTG-TAAA-TTAAAAAAAT
1 AATACA-TGATAAATTTAAAATAAT
**
19153911 -ATTGATGATAAATTTAAAAGTAAT
1 AATACATGATAAATTTAAAA-TAAT
19153935 A
1 A
19153936 TTAAGCTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
21 2 0.04
22 17 0.31
23 25 0.46
24 8 0.15
25 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (24 bp):
AATACATGATAAATTTAAAATAAT
Found at i:19153947 original size:46 final size:48
Alignment explanation
Indices: 19153869--19153961 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
19153859 AGTAATGTTA
*
19153869 ATGATAAATTTAAAATAATAATACATTGTAAAT-TAAAAA-AATATTG
1 ATGATAAATTTAAAATAATAATACACTGTAAATATAAAAATAATATTG
*
19153915 ATGATAAATTTAAAAGTAATATTA-AGCT-TAAATATAAAAATAATATT
1 ATGATAAATTTAAAA-TAATAATACA-CTGTAAATATAAAAATAATATT
19153962 AGATTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
46 21 0.51
47 14 0.34
48 6 0.15
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (48 bp):
ATGATAAATTTAAAATAATAATACACTGTAAATATAAAAATAATATTG
Found at i:19153969 original size:24 final size:23
Alignment explanation
Indices: 19153873--19153976 Score: 79
Period size: 24 Copynumber: 4.4 Consensus size: 23
19153863 ATGTTAATGA
* * *
19153873 TAAATTTAAAATAATAATACATT
1 TAAATTAAAAATAATATTAGATT
*
19153896 GTAAATTAAAAA-AATATT-GATGA
1 -TAAATTAAAAATAATATTAGAT-T
* *
19153919 TAAATTTAAAAGTAATATTA-AGCT
1 TAAA-TTAAAAATAATATTAGA-TT
19153943 TAAATATAAAAATAATATTAGATT
1 TAAAT-TAAAAATAATATTAGATT
19153967 TAAAATTAAA
1 T-AAATTAAA
19153977 TATATAATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
22 6 0.10
23 12 0.19
24 40 0.63
25 5 0.08
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (23 bp):
TAAATTAAAAATAATATTAGATT
Found at i:19155050 original size:17 final size:17
Alignment explanation
Indices: 19155028--19155063 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19155018 CTGTTAGGTT
19155028 TTAGGCTAGGCTTTGTA
1 TTAGGCTAGGCTTTGTA
* *
19155045 TTAGGCTTGGGTTTGTA
1 TTAGGCTAGGCTTTGTA
19155062 TT
1 TT
19155064 GGGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.08, G:0.31, T:0.47
Consensus pattern (17 bp):
TTAGGCTAGGCTTTGTA
Found at i:19156347 original size:4 final size:4
Alignment explanation
Indices: 19156338--19156364 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19156328 ACTCATTTTG
19156338 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
19156365 TTTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:19162975 original size:50 final size:50
Alignment explanation
Indices: 19162914--19163015 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
19162904 TTCATTAGTT
* * *
19162914 CTCCTATTTTTTGTCGGAGGCATTTTCGATAAGATTTCAATCTAGAGAGA
1 CTCCTAATTTTTGTCGGAGCCATTTCCGATAAGATTTCAATCTAGAGAGA
19162964 CTCCTAATTTTTGTCGGAGCCATTTCCGATAAGATTTCAATCTAGAGAGA
1 CTCCTAATTTTTGTCGGAGCCATTTCCGATAAGATTTCAATCTAGAGAGA
19163014 CT
1 CT
19163016 AACTTAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (50 bp):
CTCCTAATTTTTGTCGGAGCCATTTCCGATAAGATTTCAATCTAGAGAGA
Found at i:19168703 original size:47 final size:47
Alignment explanation
Indices: 19168647--19169155 Score: 803
Period size: 47 Copynumber: 10.9 Consensus size: 47
19168637 GAAATGATAG
19168647 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
* *
19168694 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
19168741 TAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
19168788 TAATGACCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
19168835 AAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
19168882 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
19168929 TAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
* *
19168976 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
*
19169022 TAAT---CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
* * *
19169066 TAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
* * * * * * **
19169112 GAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
19169156 TCCCGAAGGG
Statistics
Matches: 434, Mismatches: 23, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
43 31 0.07
44 12 0.03
46 52 0.12
47 339 0.78
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
Found at i:19169329 original size:36 final size:37
Alignment explanation
Indices: 19169274--19169351 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
19169264 CCGAGCTCTA
* *
19169274 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19169310 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19169347 AAGAC
1 AAGAC
19169352 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19171824 original size:40 final size:40
Alignment explanation
Indices: 19171630--19171812 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
19171620 TTGAATGATG
* *
19171630 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
** * *
19171670 TCCGAACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
19171710 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
19171750 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
19171790 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
19171813 ATCATGCTGG
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 108 0.89
41 7 0.06
42 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:19175211 original size:47 final size:47
Alignment explanation
Indices: 19175152--19175664 Score: 794
Period size: 47 Copynumber: 10.9 Consensus size: 47
19175142 GAAATGATAG
* *
19175152 TAATGGCCGATGTGATGAATGCGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
19175199 TAATAGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
19175246 TAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGACAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
19175293 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGACAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
19175340 TAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
19175387 AAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
19175434 TAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
19175481 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
19175528 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
19175575 TAATGGCCGATGTG-TGAATGTGAATGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
19175621 GAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19175665 TCCCGAAGGG
Statistics
Matches: 434, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 0.09
47 395 0.91
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:19175376 original size:23 final size:23
Alignment explanation
Indices: 19175349--19175423 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
19175339 CTAATGGCCG
19175349 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* ***
19175372 ATGTG-TGATAAG-GCCAAA-TGGCCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
19175396 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
19175419 ATGTG
1 ATGTG
19175424 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 17 0.46
24 12 0.32
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:19175839 original size:37 final size:37
Alignment explanation
Indices: 19175783--19175861 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19175773 CCGAGCTCTA
* * *
19175783 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19175820 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19175857 AAGAC
1 AAGAC
19175862 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19180305 original size:22 final size:23
Alignment explanation
Indices: 19180262--19180305 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
19180252 TATGTATGAT
* * *
19180262 TTGATTTGATTTTAATATGTTTA
1 TTGATATGATTTTAAAAAGTTTA
19180285 TTGATATGA-TTTAAAAAGTTT
1 TTGATATGATTTTAAAAAGTTT
19180306 GAAATTTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (23 bp):
TTGATATGATTTTAAAAAGTTTA
Found at i:19191752 original size:40 final size:40
Alignment explanation
Indices: 19191697--19191779 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
19191687 AAAAGATAAG
**
19191697 AAAGATTAGCCTAGAGACAAGCCATGAAAATGGACCTTGA
1 AAAGATTAGCCTAGAGACAAGCCACAAAAATGGACCTTGA
*
19191737 AAAGATTAGCCTAGAGACAAGCGACAAAAATGGACCTTGA
1 AAAGATTAGCCTAGAGACAAGCCACAAAAATGGACCTTGA
19191777 AAA
1 AAA
19191780 TCAAAATGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (40 bp):
AAAGATTAGCCTAGAGACAAGCCACAAAAATGGACCTTGA
Found at i:19192090 original size:27 final size:27
Alignment explanation
Indices: 19192052--19192104 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
19192042 AAGATAGCCA
19192052 GTGTACTTGAAGACT-CATTGAGGTTGG
1 GTGTACTTGAAGA-TGCATTGAGGTTGG
19192079 GTGTACTTGAAGATGCATTGAGGTTG
1 GTGTACTTGAAGATGCATTGAGGTTG
19192105 AAGTCTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.23, C:0.09, G:0.34, T:0.34
Consensus pattern (27 bp):
GTGTACTTGAAGATGCATTGAGGTTGG
Found at i:19200676 original size:47 final size:47
Alignment explanation
Indices: 19200605--19201009 Score: 684
Period size: 47 Copynumber: 8.6 Consensus size: 47
19200595 CCCTTCGGGA
* * * * * *
19200605 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
19200652 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19200699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19200746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19200793 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19200840 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19200887 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19200936 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19200983 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
19201010 TATTCAAATA
Statistics
Matches: 342, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 297 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19200683 original size:25 final size:25
Alignment explanation
Indices: 19200655--19200733 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
19200645 ACTCGGCCCT
19200655 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
19200680 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
19200702 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
19200727 ATCACAT
1 ATCACAT
19200734 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:19203577 original size:15 final size:15
Alignment explanation
Indices: 19203557--19203634 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
19203547 TTTATGGAAA
19203557 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
19203572 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
19203586 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
19203602 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
19203616 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
19203632 ATC
1 ATC
19203635 GAGATATTGG
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
14 7 0.16
15 29 0.67
16 7 0.16
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:19203594 original size:30 final size:30
Alignment explanation
Indices: 19203553--19203634 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
19203543 CATATTTATG
*
19203553 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
*
19203583 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
19203613 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
19203635 GAGATATTGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:19208321 original size:30 final size:29
Alignment explanation
Indices: 19208203--19208322 Score: 186
Period size: 30 Copynumber: 4.0 Consensus size: 29
19208193 CATATTTATG
* *
19208203 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAAT-ATT
19208233 GAAAGTCAAAGATATGGGTATCAAATATT
1 GAAAGTCAAAGATATGGGTATCAAATATT
19208262 GGAAAGTCAAAGATATGGGTATCAAATATT
1 -GAAAGTCAAAGATATGGGTATCAAATATT
*
19208292 GAAAGTCAAAGATATGGGTATCGAGATATT
1 GAAAGTCAAAGATATGGGTATC-AAATATT
19208322 G
1 G
19208323 GCATAATAAA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
29 24 0.28
30 61 0.72
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.26
Consensus pattern (29 bp):
GAAAGTCAAAGATATGGGTATCAAATATT
Found at i:19211562 original size:61 final size:61
Alignment explanation
Indices: 19211464--19211580 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
19211454 AAGAACAAAC
* * * *
19211464 TGCCACCAAAACTAAAAGATCTAGGGCGTTTCACTATACCTTGTTCGATTGGAAAGAAAAT
1 TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAGAAAAT
* * *
19211525 TGCCACCAAAATTAGAAGATCCAAGGAGTTTCGCTATACCATGTTCGATTGGAAAG
1 TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAG
19211581 CATTATGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (61 bp):
TGCCACCAAAACTAAAAGATCCAAGGAGTTTCACTATACCATGTTCGATTGGAAAGAAAAT
Found at i:19224836 original size:22 final size:22
Alignment explanation
Indices: 19224811--19224852 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
19224801 ATATACACAT
19224811 TTTTTAACTCAAATTCATGCCC
1 TTTTTAACTCAAATTCATGCCC
*
19224833 TTTTTCACTCAAATTCATGC
1 TTTTTAACTCAAATTCATGC
19224853 AGTTTCGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.43
Consensus pattern (22 bp):
TTTTTAACTCAAATTCATGCCC
Found at i:19226599 original size:137 final size:137
Alignment explanation
Indices: 19226166--19226571 Score: 767
Period size: 137 Copynumber: 3.0 Consensus size: 137
19226156 CATGTAATAT
* *
19226166 TTTATTTGCTTATGAGATTAAATTAATTGTTTGAATTGACATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
19226231 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
19226296 TTAATTG
131 TTAATTG
19226303 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
19226368 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
19226433 TTAATTG
131 TTAATTG
19226440 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
1 TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
* * *
19226505 TTAATTTCATAAGTATGTATGTGCAGTAACTCTTTTTCTTATTAAAATTTGTTTAATCGGTTGAA
66 TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
19226570 TT
131 TT
19226572 GACATAGAGA
Statistics
Matches: 264, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 264 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.45
Consensus pattern (137 bp):
TTTATGTGCTTATGAGATTAAATTAATTGTTTGAATTGGCATAGAGATATGTACAAGAGATTATT
TTAATTTCATAAGTATGTATGTGCATTAACACATTTTCTTATTAAAATTTGTTTAATCGGTTGAA
TTAATTG
Found at i:19242703 original size:40 final size:40
Alignment explanation
Indices: 19242619--19242842 Score: 251
Period size: 40 Copynumber: 5.6 Consensus size: 40
19242609 TTGAATGCTG
* *
19242619 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
** * * *
19242658 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
19242699 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19242739 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
19242779 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
19242819 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
19242843 GAATGAGTTA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 3 0.02
40 147 0.91
41 12 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19242832 original size:120 final size:120
Alignment explanation
Indices: 19242619--19242839 Score: 299
Period size: 120 Copynumber: 1.8 Consensus size: 120
19242609 TTGAATGCTG
* * *
19242619 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
*
19242684 GTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
66 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
* **
19242739 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
19242800 ATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGGC
62 ATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGC
19242840 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
119 4 0.04
120 76 0.85
121 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
Found at i:19242863 original size:39 final size:39
Alignment explanation
Indices: 19242687--19242889 Score: 151
Period size: 40 Copynumber: 5.1 Consensus size: 39
19242677 GGTATTTGTG
* * * **
19242687 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * * **
19242727 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGG-CATTGAA
* * **
19242767 CGAGATACT-AATTCCGGGTTAAGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGTTAAGTCCCGAAGGCATT-GAA
*
19242807 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
* * * *
19242846 TGAGTTAATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTT-ATAAAATCCGGGTTAAGTCCCGAAGGCA-TTGAA
19242886 CGAG
1 CGAG
19242890 GAGCTAAATC
Statistics
Matches: 145, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
39 29 0.20
40 115 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
Found at i:19257910 original size:40 final size:40
Alignment explanation
Indices: 19257724--19257946 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
19257714 TTGAATGATG
* * * *
19257724 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
19257764 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
19257803 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
19257842 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
19257881 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
19257922 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19257947 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 33 0.20
39 43 0.27
40 75 0.47
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19257928 original size:79 final size:79
Alignment explanation
Indices: 19257724--19257946 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 79
19257714 TTGAATGATG
* * * * *
19257724 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAGACCCGAAGGCATT
19257788 TGTGCGAGATACTAA
65 TGTGCGAGATACTAA
*
19257803 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGACCCGAAGGCA
*
19257863 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACT-AA
* * * * *
19257881 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACTGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
19257946 G
66 G
19257947 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
77 24 0.20
78 34 0.28
79 48 0.39
80 16 0.13
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:19257968 original size:79 final size:79
Alignment explanation
Indices: 19257815--19257979 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
19257805 CGACTAAGAT
* ** *
19257815 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
19257880 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19257894 CCGAAGGCATTTGTGCGA-ATTACT-ATAACTGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
19257956 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
19257973 CCGAAGG
1 CCGAAGG
19257980 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:19260073 original size:24 final size:23
Alignment explanation
Indices: 19260037--19260104 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
19260027 CCAATCCTCA
*
19260037 CTTTTTCCTTTCTTTTTATCAAT
1 CTTTTTTCTTTCTTTTTATCAAT
*
19260060 TTTCTTTTCTTTCTCTTTT-TCAAT
1 CTT-TTTTCTTTCT-TTTTATCAAT
19260084 CTTTTTTCTTGTACTTTTTAT
1 CTTTTTTCTT-T-CTTTTTAT
19260105 TTCTTTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 9 0.24
24 21 0.57
25 7 0.19
ACGTcount: A:0.10, C:0.19, G:0.01, T:0.69
Consensus pattern (23 bp):
CTTTTTTCTTTCTTTTTATCAAT
Found at i:19267652 original size:20 final size:20
Alignment explanation
Indices: 19267629--19267680 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
19267619 AATAAAGTGC
*
19267629 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACAAAGTCA
* * *
19267649 AAATGATTTCAATAAAGTTA
1 AAATGATTTTAACAAAGTCA
*
19267669 AAATTATTTTAA
1 AAATGATTTTAA
19267681 AATTATTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (20 bp):
AAATGATTTTAACAAAGTCA
Found at i:19273064 original size:23 final size:22
Alignment explanation
Indices: 19273012--19273064 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
19273002 TCCACGTCTT
*
19273012 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
19273034 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
19273057 TTTCTTTT
1 TTTCTTTT
19273065 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:19273089 original size:18 final size:18
Alignment explanation
Indices: 19273048--19273089 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
19273038 TTTTCTCTTC
*
19273048 TTTCT-TCAATTTCTTTT
1 TTTCTCTCAATCTCTTTT
**
19273065 TCACTCTCAATCTCTTTT
1 TTTCTCTCAATCTCTTTT
19273083 TTTCTCT
1 TTTCTCT
19273090 TTTTCATTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTCTCTCAATCTCTTTT
Found at i:19273101 original size:12 final size:11
Alignment explanation
Indices: 19273075--19273108 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
19273065 TCACTCTCAA
19273075 TCTCTTTTT-T
1 TCTCTTTTTCT
19273085 TCTCTTTTTCAT
1 TCTCTTTTTC-T
19273097 TCTCTTTTTCT
1 TCTCTTTTTCT
19273108 T
1 T
19273109 TTTCCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 2 0.09
12 11 0.50
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (11 bp):
TCTCTTTTTCT
Found at i:19286212 original size:38 final size:38
Alignment explanation
Indices: 19286138--19286222 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
19286128 ATTTCCTTAT
* *
19286138 TTTCACACACATTGCTTTTAACTCGTTCCATGCTTTTA
1 TTTCACTCACATTGCTTTTAACTCGTTCCATACTTTTA
* *
19286176 TTTCACTCACTTTGCTTTTAAC-C-TTCACAATACTTTTG
1 TTTCACTCACATTGCTTTTAACTCGTTC-C-ATACTTTTA
19286214 TTTC-CTCAC
1 TTTCACTCAC
19286223 CTAATTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.07
37 7 0.17
38 31 0.76
ACGTcount: A:0.20, C:0.28, G:0.06, T:0.46
Consensus pattern (38 bp):
TTTCACTCACATTGCTTTTAACTCGTTCCATACTTTTA
Found at i:19296042 original size:15 final size:15
Alignment explanation
Indices: 19296004--19296042 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19295994 TTGATGACTT
*
19296004 CCTAGGGTGGTCAAC
1 CCTAGGGTTGTCAAC
**
19296019 CCTAGGGTTGTCAGG
1 CCTAGGGTTGTCAAC
19296034 CCTAGGGTT
1 CCTAGGGTT
19296043 TTACGTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.36, T:0.26
Consensus pattern (15 bp):
CCTAGGGTTGTCAAC
Found at i:19299027 original size:13 final size:13
Alignment explanation
Indices: 19299009--19299033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19298999 GAGGAGTTTT
19299009 AGGTGGTGGTTGA
1 AGGTGGTGGTTGA
19299022 AGGTGGTGGTTG
1 AGGTGGTGGTTG
19299034 TTTGTTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (13 bp):
AGGTGGTGGTTGA
Found at i:19310242 original size:22 final size:22
Alignment explanation
Indices: 19310217--19310259 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19310207 TTATGTGACA
19310217 GTTTATCT-GCAATTATGTGGTT
1 GTTTAT-TGGCAATTATGTGGTT
*
19310239 GTTTATTGGCATTTATGTGGT
1 GTTTATTGGCAATTATGTGGT
19310260 GGCTTGTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.16, C:0.07, G:0.26, T:0.51
Consensus pattern (22 bp):
GTTTATTGGCAATTATGTGGTT
Found at i:19319626 original size:19 final size:19
Alignment explanation
Indices: 19319602--19319639 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19319592 CTTCAAAAGA
19319602 AAGGTTGAAGAAGATTATC
1 AAGGTTGAAGAAGATTATC
19319621 AAGGTTGAAGAAGATTATC
1 AAGGTTGAAGAAGATTATC
19319640 CCCAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (19 bp):
AAGGTTGAAGAAGATTATC
Found at i:19328132 original size:21 final size:21
Alignment explanation
Indices: 19328108--19328152 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
19328098 CAATGGAAGT
19328108 ATGCTTATGTTAATGAAAATG
1 ATGCTTATGTTAATGAAAATG
19328129 ATGCTTATGTTAATGAAAATG
1 ATGCTTATGTTAATGAAAATG
19328150 ATG
1 ATG
19328153 AATTTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (21 bp):
ATGCTTATGTTAATGAAAATG
Found at i:19341467 original size:40 final size:40
Alignment explanation
Indices: 19341407--19341517 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 40
19341397 AATTATTGAA
* * *
19341407 TGAATGCACACACGTGCCCCTAATTGTACTTCAGTACCTC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* *
19341447 TGAATGCACATACGTACCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
* *
19341487 TGAATGCACATATGTGCCCCTATTTTTACTT
1 TGAATGCACATACGTGCCCCTATTTGTACTT
19341518 TTGTAATCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCAGTACCCC
Found at i:19341529 original size:40 final size:40
Alignment explanation
Indices: 19341407--19341531 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
19341397 AATTATTGAA
* * * *
19341407 TGAATGCACACACGTGCCCCTAATTGTACTTCAGT-ACCTC
1 TGAATGCACATACGTACCCCTATTTGTACTTCGGTAACC-C
*
19341447 TGAATGCACATACGTACCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTACCCCTATTTGTACTTCGGTAACCC
* * * ** *
19341487 TGAATGCACATATGTGCCCCTATTTTTACTTTTGTAATCC
1 TGAATGCACATACGTACCCCTATTTGTACTTCGGTAACCC
19341527 TGAAT
1 TGAAT
19341532 CAAATAATAT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 70 0.97
41 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTACCCCTATTTGTACTTCGGTAACCC
Found at i:19345385 original size:27 final size:26
Alignment explanation
Indices: 19345315--19345422 Score: 153
Period size: 27 Copynumber: 4.1 Consensus size: 26
19345305 TCCCAACGAG
* *
19345315 CTACCCCTGATTACTGTCTCAGTGGA
1 CTACCCGTGATTACTGTCCCAGTGGA
*
19345341 CTACCCGTGATTGCTGTCCCAGTGGA
1 CTACCCGTGATTACTGTCCCAGTGGA
19345367 CTACCCTGTGATTACTGTCCCAGTGGA
1 CTACCC-GTGATTACTGTCCCAGTGGA
* *
19345394 CTACCCCGTGTTTACTGTCCTAGTGGA
1 CTA-CCCGTGATTACTGTCCCAGTGGA
19345421 CT
1 CT
19345423 CTATTGGTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 29 0.39
27 42 0.57
28 3 0.04
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.31
Consensus pattern (26 bp):
CTACCCGTGATTACTGTCCCAGTGGA
Found at i:19348499 original size:50 final size:51
Alignment explanation
Indices: 19348438--19348570 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
19348428 TATCATTCGA
* ** *
19348438 TACACGTAGTAGCCTTCACATAGTACTACACACGTG-ATCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGAAGAAAACCTTCCGG
*
19348488 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGAAGAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGAAGAAAACCTTCCGG
* *
19348539 TACGCATAGTAGCCTGCACATAGTACTACACA
1 TACACGTAGTAGCCTGCACATAGTACTACACA
19348571 TGTAGTACTA
Statistics
Matches: 74, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 34 0.46
51 40 0.54
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGAAGAAAACCTTCCGG
Found at i:19348659 original size:62 final size:62
Alignment explanation
Indices: 19348572--19348695 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
19348562 TACTACACAT
19348572 GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGTGTAGTACTATG
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGTGTAGTACTATG
19348634 GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGTGTAGTACTATG
1 GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGTGTAGTACTATG
19348696 TGCAGGCTAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (62 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGTGTAGTACTATG
Found at i:19348731 original size:51 final size:51
Alignment explanation
Indices: 19348634--19348758 Score: 144
Period size: 51 Copynumber: 2.5 Consensus size: 51
19348624 TAGTACTATG
* * ** * *
19348634 GTAGTACTATGTGCAGGCTACTATGCGTACCGGAAGGTTTTGGTCACGTGT
1 GTAGTACTATGTGCAGGCTACTACGCGTACCGGAAAGTGATAGTCACATGT
* *
19348685 GTAGTACTATGTGCAGGCTACTACGTGTATC-GAATAGTGATAGTCACATGT
1 GTAGTACTATGTGCAGGCTACTACGCGTACCGGAA-AGTGATAGTCACATGT
* *
19348736 GTAGTACTATGTGTACGCTACTA
1 GTAGTACTATGTGCAGGCTACTA
19348759 TGTGAACTGG
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 3 0.05
51 60 0.95
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTACGCGTACCGGAAAGTGATAGTCACATGT
Found at i:19349035 original size:37 final size:38
Alignment explanation
Indices: 19348963--19349035 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
19348953 ATGGGTGGAA
* ** *
19348963 TTGAATTGAATATTGACTTGAAAATGGCAACGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
19349001 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
19349036 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:19359190 original size:51 final size:49
Alignment explanation
Indices: 19359067--19359259 Score: 197
Period size: 51 Copynumber: 3.8 Consensus size: 49
19359057 GAAAGTGATG
* * * *
19359067 GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTA
* * * * * *
19359116 GGTCGCATGTGTAGTACTATGTGCAAGCCACTATGCGTACCGGATAGCTTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TTA
* *
19359167 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT--TA
* * * *
19359219 GTCACATGTGTAGTACTATGTGTACGCTACTATGTGAACCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
19359260 ATATCATTAA
Statistics
Matches: 115, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
50 40 0.35
51 73 0.63
52 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTTA
Found at i:19359497 original size:38 final size:38
Alignment explanation
Indices: 19359455--19359528 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
19359445 ACGTGTGGAA
* *
19359455 TTGAATTGAATATTGACTTGAAA-ATGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TTGAAAGATGAAAAAGTGAATT
*
19359493 TTGAATTGAATAGTGATTGAAAGGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTGAAAGATGAAAAAGTGAA
19359529 ATTATGAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 6 0.19
38 26 0.81
ACGTcount: A:0.43, C:0.01, G:0.24, T:0.31
Consensus pattern (38 bp):
TTGAATTGAATAGTGATTGAAAGATGAAAAAGTGAATT
Found at i:19363762 original size:18 final size:18
Alignment explanation
Indices: 19363739--19363806 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 18
19363729 TGAGAATACA
19363739 TTTTAATTAATCTATTGT
1 TTTTAATTAATCTATTGT
* ***
19363757 TTTTAATTATATAAATACATACA
1 TTTTAATTA-AT--CT--ATTGT
19363780 TTTTAATTAATCTATTGT
1 TTTTAATTAATCTATTGT
19363798 TTTTAATTA
1 TTTTAATTA
19363807 TATAAATACA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
18 20 0.54
19 2 0.05
20 1 0.03
21 1 0.03
22 2 0.05
23 11 0.30
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTAATTAATCTATTGT
Found at i:19363781 original size:41 final size:41
Alignment explanation
Indices: 19363734--19363816 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
19363724 AAGTATGAGA
19363734 ATACATTTTAATTAATCTATTGTTTTTAATTATATAAATAC
1 ATACATTTTAATTAATCTATTGTTTTTAATTATATAAATAC
19363775 ATACATTTTAATTAATCTATTGTTTTTAATTATATAAATAC
1 ATACATTTTAATTAATCTATTGTTTTTAATTATATAAATAC
19363816 A
1 A
19363817 ATATCTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (41 bp):
ATACATTTTAATTAATCTATTGTTTTTAATTATATAAATAC
Found at i:19365951 original size:12 final size:12
Alignment explanation
Indices: 19365936--19365972 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
19365926 GATTTGTAAG
19365936 GTTTTTATTTTT
1 GTTTTTATTTTT
*
19365948 GTTTTGATTTTT
1 GTTTTTATTTTT
19365960 GATTTTTATTTTT
1 G-TTTTTATTTTT
19365973 ATCTTGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (12 bp):
GTTTTTATTTTT
Found at i:19370300 original size:16 final size:16
Alignment explanation
Indices: 19370279--19370309 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19370269 ACTATATTTA
*
19370279 TAAATTTAGGAACATT
1 TAAATTTAGAAACATT
19370295 TAAATTTAGAAACAT
1 TAAATTTAGAAACAT
19370310 GTAATATATT
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:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
TAAATTTAGAAACATT
Found at i:19372513 original size:33 final size:33
Alignment explanation
Indices: 19372475--19372544 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
19372465 GGAGGCTTAC
*
19372475 CTTTAGGAGTAGGAAAACAAAATTCAGTTTTAA
1 CTTTAGGAGAAGGAAAACAAAATTCAGTTTTAA
* * *
19372508 CTTTAGGAGAAGGAAAACAAAGTTCGGTTTTAC
1 CTTTAGGAGAAGGAAAACAAAATTCAGTTTTAA
19372541 CTTT
1 CTTT
19372545 TCCATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (33 bp):
CTTTAGGAGAAGGAAAACAAAATTCAGTTTTAA
Found at i:19374197 original size:68 final size:68
Alignment explanation
Indices: 19374110--19374265 Score: 276
Period size: 68 Copynumber: 2.3 Consensus size: 68
19374100 GAAGAAAACA
*
19374110 TGCATGGAATGCATTAAAGAGAATGGGCTGCTGCAATTAAGAAGCTTTATCTACTTTGGACGGCA
1 TGCATGG-ATGGATTAAAGAGAATGGGCTGCTGCAATTAAGAAGCTTTATCTACTTTGGACGGCA
19374175 AGGG
65 AGGG
19374179 TGCATGGATGGATTAAAGAGAATGGGCTGCTGCAATTAAGAAGCTTTATCTACTTTGGACGGCAA
1 TGCATGGATGGATTAAAGAGAATGGGCTGCTGCAATTAAGAAGCTTTATCTACTTTGGACGGCAA
19374244 GGG
66 GGG
* *
19374247 TGCATGGCTGGATTTAAGA
1 TGCATGGATGGATTAAAGA
19374266 TGGTGTTCCG
Statistics
Matches: 84, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
68 77 0.92
69 7 0.08
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.27
Consensus pattern (68 bp):
TGCATGGATGGATTAAAGAGAATGGGCTGCTGCAATTAAGAAGCTTTATCTACTTTGGACGGCAA
GGG
Found at i:19375331 original size:12 final size:12
Alignment explanation
Indices: 19375314--19375365 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
19375304 TCACTCTCAT
*
19375314 TTTCTTTTTCAA
1 TTTCTTTTTCTA
* *
19375326 TTTCTTGTTCTC
1 TTTCTTTTTCTA
*
19375338 TTTCTTTTTCTT
1 TTTCTTTTTCTA
*
19375350 TTTCATTTTC-A
1 TTTCTTTTTCTA
19375361 TTTCT
1 TTTCT
19375366 CGTTTTTTCT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
11 4 0.12
12 28 0.88
ACGTcount: A:0.08, C:0.19, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCTA
Done.