Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 9 of 11
Found at i:1537645 original size:163 final size:163
Alignment explanation
Indices: 1537276--1537647 Score: 430
Period size: 163 Copynumber: 2.3 Consensus size: 163
1537266 AATATTTAAC
* * * * * * *
1537276 TCATCGTAAATCAATTTTGAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTTTTAAATTC
1 TCATAGTAAATTAATTTTCAAAATTTAATTTATTTTCATGAGTTTTTCATTTTTCTTTAAAATTC
* * * * *
1537341 TCTTGTTTTTGAAAATCAAAGTTTTTACTCCATAAATGTTTATGGGGAGATTTTTCTCGGTCCAA
66 TCTTATTCTCGAAAATCAAAGTTTCTACTCCATAAATATTTATGGGGAGATTTTTCTCGGTCCAA
* *
1537406 AATTTTAATATTCATCAAATATCGTCATTTAAT
131 AATTTTAAAATTCATCAAATATCGTCATTAAAT
* *
1537439 TCATAGTAAATTAATTTTGAAAATTTCATTTATTTTCATGAGTTTTTCATTTTTCTTTAAAATTC
1 TCATAGTAAATTAATTTTCAAAATTTAATTTATTTTCATGAGTTTTTCATTTTTCTTTAAAATTC
* * * * *
1537504 -CTCTATTCTCGAAAAATC-GAGTTTCTATTCCATAAATATTTTTGAGGG-GATTTTTCTGGGTT
66 TCT-TATTCTCG-AAAATCAAAGTTTCTACTCCATAAATATTTATG-GGGAGATTTTTCTCGGTC
* * *
1537566 TAAAATTTTCAAAATTCATCTAATATTGTCATTAAAT
128 CAAAATTTT-AAAATTCATCAAATATCGTCATTAAAT
* *
1537603 TCATATTAAATTAGTTTTACAAAATTTAATTTA-TTT-ATGAGTTTT
1 TCATAGTAAATTAATTTT-CAAAATTTAATTTATTTTCATGAGTTTT
1537648 AAATTTTTTT
Statistics
Matches: 180, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
162 2 0.01
163 115 0.64
164 51 0.28
165 12 0.07
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.48
Consensus pattern (163 bp):
TCATAGTAAATTAATTTTCAAAATTTAATTTATTTTCATGAGTTTTTCATTTTTCTTTAAAATTC
TCTTATTCTCGAAAATCAAAGTTTCTACTCCATAAATATTTATGGGGAGATTTTTCTCGGTCCAA
AATTTTAAAATTCATCAAATATCGTCATTAAAT
Found at i:1538029 original size:12 final size:12
Alignment explanation
Indices: 1538014--1538039 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1538004 AAGAAAAATG
1538014 AAAAAAAGAAAA
1 AAAAAAAGAAAA
1538026 AAAAAAAGAAAA
1 AAAAAAAGAAAA
1538038 AA
1 AA
1538040 CAAGGTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:1540102 original size:150 final size:148
Alignment explanation
Indices: 1539807--1540252 Score: 486
Period size: 151 Copynumber: 3.0 Consensus size: 148
1539797 TTTGCAACAT
* ** * *
1539807 TTTTCAAGTCCCTTAGGATCATTG-GGCACTTCTAAGTCGATGGTAAACCTTAAAGATATTTTAG
1 TTTTCAAGTCCTTTAGGATCACCGAGGCACTTCTAAGTCGATGGTAAACCTTAGAGATCTTTTAG
* * * *
1539871 CATTTTCCTCGAAACCTAGTCCTAGAAAACTACTAGGTCTGCTTCTACGCCAAAGGTATGA-ATT
66 CATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTC-GCTTCTATGCC-AAGGTA-CATATT
* **
1539935 AGAAATAGGTT-TTTTTTATCC
128 AGGAATAGGTTCGATTTTA-CC
* * *
1539956 TTTTCAAGTCCTTTAGGATCACCGAGACACTTTTAAGTCGATTGTAAACCTTAGAGATCTTTTAG
1 TTTTCAAGTCCTTTAGGATCACCGAGGCACTTCTAAGTCGATGGTAAACCTTAGAGATCTTTTAG
* * * * * *
1540021 CATTTTTCACGAAACCTAGCCCTATAAAACTACTAAGTCACTTCCATGCTCAAGGTACATTTTAG
66 CATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTCGCTTCTATGC-CAAGGTACATATTAG
* * *
1540086 GTATAGGTTCGCTTTTACT
130 GAATAGGTTCGATTTTACC
* * * *
1540105 TTTTCAAGTCCTCTAGGATCACCACCAGGCACTTCTAAGTCGATGGTAGACCTTAGGGA-CTTTT
1 TTTTCAAGTCCTTTAGGATCA-C-CGAGGCACTTCTAAGTCGATGGTAAACCTTAGAGATC-TTT
* * * *
1540169 TAGCATTTTTTTCGAAACCTAGTCCTATGAAACTACCAGGTCGCTTCTATGCCAAGGGTACGTAT
63 TAGCATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTCGCTTCTATGCCAA-GGTACATAT
*
1540234 TAGGGATAGGTTCGATTTT
127 TAGGAATAGGTTCGATTTT
1540253 TTCTTTATTT
Statistics
Matches: 247, Mismatches: 42, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
148 1 0.00
149 66 0.27
150 80 0.32
151 100 0.40
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (148 bp):
TTTTCAAGTCCTTTAGGATCACCGAGGCACTTCTAAGTCGATGGTAAACCTTAGAGATCTTTTAG
CATTTTTCTCGAAACCTAGTCCTATAAAACTACTAGGTCGCTTCTATGCCAAGGTACATATTAGG
AATAGGTTCGATTTTACC
Found at i:1541493 original size:26 final size:26
Alignment explanation
Indices: 1541462--1541512 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
1541452 TCAAGAAAGG
1541462 ATGATTACAATGCTATAATACAATGA
1 ATGATTACAATGCTATAATACAATGA
*
1541488 ATGATTGCAATGCTATAATACAATG
1 ATGATTACAATGCTATAATACAATG
1541513 GATGCAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (26 bp):
ATGATTACAATGCTATAATACAATGA
Found at i:1543959 original size:20 final size:22
Alignment explanation
Indices: 1543934--1543973 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1543924 CCACTAGAAG
1543934 ATTTTTCC-AAA-TTTTTCAAT
1 ATTTTTCCTAAACTTTTTCAAT
1543954 ATTTTTCCTAAACTTTTTCA
1 ATTTTTCCTAAACTTTTTCA
1543974 TGAAATTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTCCTAAACTTTTTCAAT
Found at i:1555108 original size:19 final size:17
Alignment explanation
Indices: 1555079--1555128 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
1555069 TATCGATACA
* *
1555079 ATGTATGGATAGATGTTC
1 ATGTATCGATACAT-TTC
1555097 ATTGTATCGATACATTTC
1 A-TGTATCGATACATTTC
1555115 ATGTATCGATACAT
1 ATGTATCGATACAT
1555129 AAAACTGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (17 bp):
ATGTATCGATACATTTC
Found at i:1561406 original size:32 final size:31
Alignment explanation
Indices: 1561370--1561451 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 31
1561360 CCATTAACTT
*
1561370 GTGTGGGCTTTGAAAAGAGTTATCACCGA-CTC
1 GTGTGGGCTTTGAAAAGAGTTACCA-CGAGC-C
*
1561402 GTGTGGGCTTTGAAAAGAGTTACCACTAGCC
1 GTGTGGGCTTTGAAAAGAGTTACCACGAGCC
1561433 -TGTGGGCTTTGAAAAGAGT
1 GTGTGGGCTTTGAAAAGAGT
1561452 GCCACTAACT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
30 19 0.40
31 3 0.06
32 25 0.53
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (31 bp):
GTGTGGGCTTTGAAAAGAGTTACCACGAGCC
Found at i:1561485 original size:28 final size:28
Alignment explanation
Indices: 1561433--1562073 Score: 787
Period size: 28 Copynumber: 22.5 Consensus size: 28
1561423 ACCACTAGCC
* *
1561433 TGTGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1561462 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561490 TGTGGGCTTTGAAAGGGTGCTACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561518 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561546 TGTGGGCTTTGAAAAGAGTGTCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1561575 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1561603 TATGGGCTTTGAAAAGAGTGCCATTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * *
1561632 TGTGGGCTTTGAAAGAGTGCCACTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1561660 TGCATGGGCTTCGAAAGGGTGCCACTGACT
1 TG--TGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1561690 TATGGGTTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1561719 TATGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* * * *
1561748 TGTGGGCTTTGAAAGGGTACCATTAATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561776 TGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561804 TGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1561833 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561861 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1561890 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1561918 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
*
1561947 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1561975 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1562003 TGTGGGCTTTGAAAAGAGTTACCACTGACT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGACT
* * *
1562033 CGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1562061 TATGGGCTTTGAA
1 TGTGGGCTTTGAA
1562074 GAGATGAATG
Statistics
Matches: 533, Mismatches: 69, Indels: 21
0.86 0.11 0.03
Matches are distributed among these distances:
28 294 0.55
29 195 0.37
30 44 0.08
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1561503 original size:57 final size:57
Alignment explanation
Indices: 1561371--1562073 Score: 808
Period size: 57 Copynumber: 12.2 Consensus size: 57
1561361 CATTAACTTG
** * * * *
1561371 TGTGGGCTTTGAAAAGAGTTATCACCGACTCGTGTGGGCTTTGAAAAGAGTTACCACT-AGCC
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAG-GGTGCCACTGA-CT
*
1561433 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1561490 TGTGGGCTTTG-AAAGGGTGCTACTAACTTGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
1561546 TGTGGGCTTTGAAAAGAGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
1561603 TATGGGCTTTGAAAAGAGTGCCATTGATTTGTGGGCTTTGAAAGAGTGCCACTAATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
1561660 TGCATGGGCTTCG-AAAGGGTGCCACTGACTTATGGGTTTTGAAAAGAGTGCCACTAACT
1 TG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
* * * * *
1561719 TATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCATTAATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1561776 TGTGGGCTTTGAAAAG-GTACCACTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
* * * *
1561833 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
1561890 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTGACT
* * * *
1561947 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1562003 TGTGGGCTTTGAAAAGAGTTACCACTGACTCGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
1562061 TATGGGCTTTGAA
1 TGTGGGCTTTGAA
1562074 GAGATGAATG
Statistics
Matches: 568, Mismatches: 62, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
56 104 0.18
57 304 0.54
58 99 0.17
59 36 0.06
61 7 0.01
62 18 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1561585 original size:85 final size:86
Alignment explanation
Indices: 1561371--1562073 Score: 875
Period size: 85 Copynumber: 8.2 Consensus size: 86
1561361 CATTAACTTG
** * * * * *
1561371 TGTGGGCTTTGAAAAGAGTTATCACCGACTCGTGTGGGCTTTGAAAAGAGTTACCACTAGCCTGT
1 TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG-AAAG-GGTGCCACTAACTTGT
1561436 GGGCTTTGAAAAGAGTGCCACTAACT
61 GGGCTTTGAAAAGAGTGCCACTAACT
* *
1561462 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCTACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
*
1561526 TT-AAAAG-GATGCCACTGACT
66 TTGAAAAGAG-TGCCACTAACT
* * *
1561546 TGTGGGCTTTGAAAAGAGTGTCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
* * *
1561611 TTGAAAAGAGTGCCATTGATT
66 TTGAAAAGAGTGCCACTAACT
* * * * *
1561632 TGTGGGCTTTG-AAAGAGTGCCACTAATTTGCATGGGCTTCGAAAGGGTGCCACTGACTTATGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAGGGTGCCACTAACTTGTGGG
*
1561696 TTTTGAAAAGAGTGCCACTAACT
64 CTTTGAAAAGAGTGCCACTAACT
* * * *
1561719 TATGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCATTAATTTGTGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
* *
1561784 TTGAAAAG-GTACCACTGACT
66 TTGAAAAGAGTGCCACTAACT
*
1561804 TGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
* *
1561869 TTGAAAAGAGTGCCACTGATT
66 TTGAAAAGAGTGCCACTAACT
* * *
1561890 TGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTAACTTGTGGGC
*
1561954 TTTG-AAAGGGTGCCACTAACT
65 TTTGAAAAGAGTGCCACTAACT
* * * *
1561975 TGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACTGACTCGTGGG
1 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTAACTTGTGGG
*
1562039 CTTTGAAAGGA-TGCCACTAACT
64 CTTTGAAAAGAGTGCCACTAACT
*
1562061 TATGGGCTTTGAA
1 TGTGGGCTTTGAA
1562074 GAGATGAATG
Statistics
Matches: 540, Mismatches: 59, Indels: 31
0.86 0.09 0.05
Matches are distributed among these distances:
83 1 0.00
84 26 0.05
85 238 0.44
86 158 0.29
87 76 0.14
88 17 0.03
89 8 0.01
90 5 0.01
91 11 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (86 bp):
TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
TTGAAAAGAGTGCCACTAACT
Found at i:1563332 original size:7 final size:7
Alignment explanation
Indices: 1563315--1563378 Score: 71
Period size: 7 Copynumber: 9.1 Consensus size: 7
1563305 TTTTTTCTTG
1563315 GTTTTTT
1 GTTTTTT
1563322 -TTTTTT
1 GTTTTTT
1563328 GTTTTTT
1 GTTTTTT
1563335 GTTTGTTT
1 GTTT-TTT
1563343 -TTTGTTT
1 GTTT-TTT
*
1563350 TTTTTTT
1 GTTTTTT
1563357 GTTTTTT
1 GTTTTTT
1563364 -TTTTTT
1 GTTTTTT
1563370 GTATTTTT
1 GT-TTTTT
1563378 G
1 G
1563379 GGTGTAAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
6 12 0.24
7 27 0.53
8 12 0.24
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (7 bp):
GTTTTTT
Found at i:1563332 original size:11 final size:11
Alignment explanation
Indices: 1563293--1563367 Score: 89
Period size: 11 Copynumber: 6.6 Consensus size: 11
1563283 CCCCTTTCTG
1563293 TTTTTTTGCTATT
1 TTTTTTTG-T-TT
*
1563306 TTTTTCTTGGTT
1 TTTTT-TTGTTT
1563318 TTTTTTT-TTT
1 TTTTTTTGTTT
*
1563328 GTTTTTTGTTT
1 TTTTTTTGTTT
*
1563339 GTTTTTTGTTT
1 TTTTTTTGTTT
1563350 TTTTTTTGTTT
1 TTTTTTTGTTT
1563361 TTTTTTT
1 TTTTTTT
1563368 TTGTATTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
10 8 0.14
11 33 0.59
12 7 0.12
13 5 0.09
14 3 0.05
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1563338 original size:43 final size:43
Alignment explanation
Indices: 1563291--1563378 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
1563281 GACCCCTTTC
1563291 TGTTT-TTTTGCTATTTTTTTCTTGGTTTTTTTTTTTTGT-TTTT
1 TGTTTGTTTT-CTATTTTTTT-TTGGTTTTTTTTTTTTGTATTTT
* * *
1563334 TGTTTGTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTGTATTTT
1 TGTTTGTTTTCTATTTTTTTTTGGTTTTTTTTTTTTGTATTTT
1563377 TG
1 TG
1563379 GGTGTAAAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 17 0.43
43 19 0.47
44 4 0.10
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.83
Consensus pattern (43 bp):
TGTTTGTTTTCTATTTTTTTTTGGTTTTTTTTTTTTGTATTTT
Found at i:1563343 original size:18 final size:18
Alignment explanation
Indices: 1563322--1563371 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
1563312 TTGGTTTTTT
1563322 TTTTTTGTTTTTTGTTTG
1 TTTTTTGTTTTTTGTTTG
*
1563340 TTTTTTGTTTTTTTTTTG
1 TTTTTTGTTTTTTGTTTG
1563358 TTTTTT-TTTTTTGT
1 TTTTTTGTTTTTTGT
1563372 ATTTTTGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 7 0.23
18 23 0.77
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (18 bp):
TTTTTTGTTTTTTGTTTG
Found at i:1563367 original size:24 final size:25
Alignment explanation
Indices: 1563315--1563377 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1563305 TTTTTTCTTG
*
1563315 GTTTTTT-TTTTTTGTTTT-TTGTTT
1 GTTTTTTGTTTTTT-TTTTGTTTTTT
1563339 GTTTTTTGTTTTTTTTTTGTTTTTT
1 GTTTTTTGTTTTTTTTTTGTTTTTT
*
1563364 -TTTTTTGTATTTTT
1 GTTTTTTGTTTTTTT
1563378 GGGTGTAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 24 0.69
25 11 0.31
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (25 bp):
GTTTTTTGTTTTTTTTTTGTTTTTT
Found at i:1563377 original size:1 final size:1
Alignment explanation
Indices: 1563316--1563369 Score: 63
Period size: 1 Copynumber: 54.0 Consensus size: 1
1563306 TTTTTCTTGG
* * * * *
1563316 TTTTTTTTTTTTGTTTTTTGTTTGTTTTTTGTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1563370 GTATTTTTGG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:1568569 original size:19 final size:19
Alignment explanation
Indices: 1568545--1568617 Score: 92
Period size: 19 Copynumber: 3.7 Consensus size: 19
1568535 AGCGATACAT
1568545 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1568564 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1568583 TGTATCGATACAGTTACTGTT
1 TGTATCGATACA-AAACT-TA
1568604 TGTATCGATACAAA
1 TGTATCGATACAAA
1568618 TTGTTGAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 30 0.65
20 3 0.07
21 13 0.28
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1573092 original size:13 final size:13
Alignment explanation
Indices: 1573074--1573099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1573064 CAATTTTTTG
1573074 TGTATCGATACAT
1 TGTATCGATACAT
1573087 TGTATCGATACAT
1 TGTATCGATACAT
1573100 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1573848 original size:21 final size:21
Alignment explanation
Indices: 1573807--1573850 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1573797 CTCCCCTTTA
* *
1573807 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1573828 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1573849 TC
1 TC
1573851 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1575670 original size:13 final size:13
Alignment explanation
Indices: 1575652--1575690 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1575642 ATAATCACCC
*
1575652 TGTATCGATACAG
1 TGTATCGATACAA
1575665 TGTATCGATACAA
1 TGTATCGATACAA
1575678 TGTATCGATACAA
1 TGTATCGATACAA
1575691 AGAACAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1575699 original size:20 final size:21
Alignment explanation
Indices: 1575677--1575754 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 21
1575667 TATCGATACA
1575677 ATGTATCGATACAAAGAACA-
1 ATGTATCGATACAAAGAACAC
** *
1575697 ATGTATCGATACATTGAATTTCCAG
1 ATGTATCGATACAAAGAA----CAC
*
1575722 ATGTATCGATACACAGAA-AC
1 ATGTATCGATACAAAGAACAC
1575742 ATGTATCGATACA
1 ATGTATCGATACA
1575755 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 30 0.62
24 2 0.04
25 16 0.33
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (21 bp):
ATGTATCGATACAAAGAACAC
Found at i:1577798 original size:15 final size:15
Alignment explanation
Indices: 1577762--1577799 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
1577752 TTCATCAATT
* *
1577762 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
1577777 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
1577792 TCATTTTG
1 TCATTTTG
1577800 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:1579631 original size:21 final size:21
Alignment explanation
Indices: 1579602--1579646 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1579592 AAGTTTTCAT
*
1579602 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1579622 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1579644 TTT
1 TTT
1579647 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1581879 original size:13 final size:13
Alignment explanation
Indices: 1581861--1581886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1581851 CAATTTTTTG
1581861 TGTATCGATACAT
1 TGTATCGATACAT
1581874 TGTATCGATACAT
1 TGTATCGATACAT
1581887 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1581951 original size:21 final size:21
Alignment explanation
Indices: 1581925--1581980 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1581915 CTGCCAAGAA
1581925 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1581946 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1581967 ATGTATCGATACAT
1 ATGTATCGATACAT
1581981 TGCAACATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.45
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1590812 original size:20 final size:19
Alignment explanation
Indices: 1590787--1590942 Score: 125
Period size: 20 Copynumber: 7.7 Consensus size: 19
1590777 TTTTAACTAG
1590787 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
* *
1590807 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
1590827 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
1590847 ATGTATCGATACATTTGGGTAAA
1 ATGTATCGATACA-TT--G-AAA
* * ** * *
1590870 AAG-ATAGAATGTATCGATA
1 ATGTATCG-ATACATTGAAA
* *
1590889 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGA-AA
1590909 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAA-A
1590929 ATGTATCGATACAT
1 ATGTATCGATACAT
1590943 CTAGGTACTT
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
19 11 0.10
20 79 0.75
21 3 0.03
22 4 0.04
23 7 0.07
24 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (19 bp):
ATGTATCGATACATTGAAA
Found at i:1590842 original size:40 final size:40
Alignment explanation
Indices: 1590787--1590942 Score: 181
Period size: 40 Copynumber: 3.9 Consensus size: 40
1590777 TTTTAACTAG
1590787 ATGTATCGATACATTGAAGAATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAGAATGTATCGATACATTCATAC
** *
1590827 ATGTATCGATACATTGAAGAATGTATCGATACATTTGGGTAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACA-TT-CAT-AC
* * ** * *
1590870 AAG-ATAGAATGTATCG-ATAATGTATCGATACATTCATAC
1 ATGTATCG-ATACATTGAAGAATGTATCGATACATTCATAC
1590909 ATGTATCGATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
1590943 CTAGGTACTT
Statistics
Matches: 92, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
39 8 0.09
40 53 0.58
41 4 0.04
42 19 0.21
43 8 0.09
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (40 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATTCATAC
Found at i:1594589 original size:28 final size:28
Alignment explanation
Indices: 1594557--1594623 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
1594547 ATCGGAGTTA
* * *
1594557 GAGTATCTCCTCGAAAAGAATGGGGTTG
1 GAGTATCCCCGCGAAAAGAACGGGGTTG
*
1594585 GAGTATCCCCGCGAAAATAACGGGGTTG
1 GAGTATCCCCGCGAAAAGAACGGGGTTG
1594613 GAGTATCCCCG
1 GAGTATCCCCG
1594624 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (28 bp):
GAGTATCCCCGCGAAAAGAACGGGGTTG
Found at i:1594663 original size:51 final size:51
Alignment explanation
Indices: 1594606--1594724 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 51
1594596 CGAAAATAAC
*** * *
1594606 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
* * * * *
1594657 GGGGTTGAAGTTTCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
*
1594708 GAGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1594725 TCGAAAAGAA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
Found at i:1594821 original size:131 final size:131
Alignment explanation
Indices: 1594580--1595065 Score: 728
Period size: 131 Copynumber: 3.7 Consensus size: 131
1594570 AAAAGAATGG
* *
1594580 GGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAA-ATTGGTGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
* * *
1594644 TAGAAATAAAATAGGGGTTGAAGTTTCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
66 TAGAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
1594709 A
131 A
*
1594710 GGTTGGAGTATCCCCTCGAAAAGAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
*
1594775 TAGAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTAAGAAATAAAGCCG
66 TAGAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
1594840 A
131 A
* * * * *
1594841 GGTTAGAGTATCCCCTCGGAAATAATGGGATTGGAGTATCCCCAATTGTGAAAAGATTAGTGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
* *
1594906 TAGAAATAAAATTGGTGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTCG
66 TAGAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
1594971 -
131 A
* * * * * * *
1594971 GATTGGAGTAT-CCCTCAAAAATAAAGGGATTGAAGTATCCCCGATTAT-AAAAAATTGATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
* **
1595034 TGGAAATAAAACCGGGGTTGGAGTATCCCCGA
66 TAGAAATAAAATTGGGGTTGGAGTATCCCCGA
1595066 GATGAAAAAT
Statistics
Matches: 324, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
128 40 0.12
129 31 0.10
130 60 0.19
131 193 0.60
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (131 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAGATTGGTGTTT
TAGAAATAAAATTGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
A
Found at i:1594934 original size:52 final size:50
Alignment explanation
Indices: 1594868--1594984 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 50
1594858 GGAAATAATG
* * * *
1594868 GGATTGGAGTATCCCCAATTGTGAAAAGATTAGTGTTTTAGAAATAAAATT
1 GGATTGGAGTATCCCCAATTGTGAAAA-ATCAATATTTTAGAAATAAAATC
* * * *
1594919 GGTGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGTC
1 GG-ATTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATC
1594970 GGATTGGAGTATCCC
1 GGATTGGAGTATCCC
1594985 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
50 12 0.21
51 22 0.39
52 22 0.39
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (50 bp):
GGATTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATC
Found at i:1600382 original size:20 final size:19
Alignment explanation
Indices: 1600339--1600430 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 19
1600329 AACCCTTGTA
*
1600339 TGTATCGATACACT-TTCAGA
1 TGTATCGATACA-TGTTCA-T
*
1600359 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1600379 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
** *
1600398 TGTATCGATACATGAACAAA
1 TGTATCGATACATGTTC-AT
1600418 TGTATCGATACAT
1 TGTATCGATACAT
1600431 AAAACTGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
19 19 0.31
20 41 0.66
21 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1601555 original size:18 final size:18
Alignment explanation
Indices: 1601529--1601607 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
1601519 TTCTCTAATT
* *
1601529 GATATATTTGAGGTGGAG
1 GATACATTTGAGGTAGAG
* *
1601547 GATAAATTTGA-G--GAT
1 GATACATTTGAGGTAGAG
*
1601562 GATACATTTGAGGTAGAT
1 GATACATTTGAGGTAGAG
*
1601580 GATACATTTGTGGTAGAG
1 GATACATTTGAGGTAGAG
*
1601598 GATATATTTG
1 GATACATTTG
1601608 GGGTTGATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
15 12 0.23
16 1 0.02
17 1 0.02
18 38 0.73
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (18 bp):
GATACATTTGAGGTAGAG
Found at i:1606504 original size:52 final size:52
Alignment explanation
Indices: 1606434--1606554 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
1606424 GAAAATTTAT
*
1606434 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1606486 CTGCATGTATCGATACATTTTATAATGTATCGATAGATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1606538 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1606555 AAGATCAGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1606567 original size:52 final size:51
Alignment explanation
Indices: 1606434--1606574 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
1606424 GAAAATTTAT
1606434 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* * *
1606486 CTGCATGTATCGATACATTTTATAATGTATCGATAGATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1606538 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1606575 ATGTATCGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1606581 original size:13 final size:13
Alignment explanation
Indices: 1606563--1606587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1606553 CAAAGATCAG
1606563 TGTATCGATACAA
1 TGTATCGATACAA
1606576 TGTATCGATACA
1 TGTATCGATACA
1606588 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1606670 original size:13 final size:13
Alignment explanation
Indices: 1606652--1606676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1606642 CAAAAAAATA
1606652 TGTATCGATACAT
1 TGTATCGATACAT
1606665 TGTATCGATACA
1 TGTATCGATACA
1606677 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1606672 original size:33 final size:33
Alignment explanation
Indices: 1606630--1606696 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1606620 AGTAGCTTAA
1606630 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1606663 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1606696 A
1 A
1606697 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1608754 original size:3 final size:3
Alignment explanation
Indices: 1608746--1608773 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1608736 TATGTATTAT
1608746 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1608774 ATCTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1609117 original size:23 final size:22
Alignment explanation
Indices: 1609090--1609142 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
1609080 TACAAATACC
*
1609090 AAAATAAAAATTATTACAA-AAT
1 AAAATAAAAATTA-TAAAATAAT
*
1609112 ACAAATATAAATTATAAAATAAT
1 A-AAATAAAAATTATAAAATAAT
1609135 AAAATAAA
1 AAAATAAA
1609143 TATATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATAAAAATTATAAAATAAT
Found at i:1609131 original size:31 final size:30
Alignment explanation
Indices: 1609060--1609138 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
1609050 TTTAATTATT
1609060 TAAATTAAAAA-TAATAAAAATACAAATAC
1 TAAATTAAAAATTAATAAAAATACAAATAC
* * *
1609089 CAAAATAAAAATTATTACAAAATACAAATA-
1 TAAATTAAAAATTAATA-AAAATACAAATAC
1609119 TAAATTATAAAA-TAATAAAA
1 TAAATTA-AAAATTAATAAAA
1609139 TAAATATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 12 0.29
30 13 0.32
31 16 0.39
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.25
Consensus pattern (30 bp):
TAAATTAAAAATTAATAAAAATACAAATAC
Found at i:1609159 original size:24 final size:20
Alignment explanation
Indices: 1609118--1609159 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1609108 AAATACAAAT
1609118 ATAAATTATAAAATAATAAA
1 ATAAATTATAAAATAATAAA
* *
1609138 ATAAA-TATATAATAATTAA
1 ATAAATTATAAAATAATAAA
1609157 ATA
1 ATA
1609160 CATCTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAATTATAAAATAATAAA
Found at i:1609309 original size:23 final size:24
Alignment explanation
Indices: 1609269--1609337 Score: 113
Period size: 23 Copynumber: 2.8 Consensus size: 24
1609259 GCCTATCACT
1609269 ATTATTTATAAAAAAATTAATAAA
1 ATTATTTATAAAAAAATTAATAAA
1609293 ATTATTTAT-AAAAAATTAATAAA
1 ATTATTTATAAAAAAATTAATAAA
1609316 ATTTTATTTATAAAAAAATTAA
1 A--TTATTTATAAAAAAATTAA
1609338 AATTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.36
24 9 0.21
25 8 0.19
26 10 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATTTATAAAAAAATTAATAAA
Found at i:1609338 original size:23 final size:23
Alignment explanation
Indices: 1609270--1609349 Score: 106
Period size: 23 Copynumber: 3.3 Consensus size: 23
1609260 CCTATCACTA
**
1609270 TTATTTATAAAAAAATTAATAAAA
1 TTATTTATAAAAAAATTAA-AATT
*
1609294 TTATTTATAAAAAATTAATAAAATT
1 TTATTTATAAAAAA--ATTAAAATT
1609319 TTATTTATAAAAAAATTAAAATT
1 TTATTTATAAAAAAATTAAAATT
1609342 TTATTTAT
1 TTATTTAT
1609350 TCACCCTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 16 0.32
24 14 0.28
25 16 0.32
26 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTATTTATAAAAAAATTAAAATT
Found at i:1609566 original size:106 final size:106
Alignment explanation
Indices: 1609376--1609578 Score: 361
Period size: 106 Copynumber: 1.9 Consensus size: 106
1609366 TAACTAAACT
* * *
1609376 TATAACCTATCACTATTTACCTAATGTCCTAAACCAACCTTCACCCCTACCTTACCCATCGTCAC
1 TATAACCTATCACTATTTACCTAAAGTCCTAAACCAACCCTCACCCCTACCCTACCCATCGTCAC
*
1609441 TCGTCTCCCACCCAACCATCTCTTCTTCCTCAGTTCCAACA
66 TCGTCTCCCACCCAACCATCTCTTATTCCTCAGTTCCAACA
1609482 TATAACCTATCACTATTTACCTAAAGTCCTAAACCAACCCTCACCCCTACCCTACCCATCGTCAC
1 TATAACCTATCACTATTTACCTAAAGTCCTAAACCAACCCTCACCCCTACCCTACCCATCGTCAC
*
1609547 TCGTCTCCCACCCAGCCATCTCTTATTCCTCA
66 TCGTCTCCCACCCAACCATCTCTTATTCCTCA
1609579 TTTTTCTCTG
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.26, C:0.42, G:0.04, T:0.28
Consensus pattern (106 bp):
TATAACCTATCACTATTTACCTAAAGTCCTAAACCAACCCTCACCCCTACCCTACCCATCGTCAC
TCGTCTCCCACCCAACCATCTCTTATTCCTCAGTTCCAACA
Found at i:1610076 original size:11 final size:11
Alignment explanation
Indices: 1610055--1610091 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
1610045 GCTTTTCAGA
1610055 TTTGATTTTGTT
1 TTTG-TTTTGTT
1610067 TTTGTTTTGTT
1 TTTGTTTTGTT
1610078 TTTGTTCTTGTT
1 TTTGTT-TTGTT
1610090 TT
1 TT
1610092 AGATTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.03, C:0.03, G:0.16, T:0.78
Consensus pattern (11 bp):
TTTGTTTTGTT
Found at i:1610080 original size:17 final size:17
Alignment explanation
Indices: 1610055--1610097 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1610045 GCTTTTCAGA
*
1610055 TTTGATTTTGTTTTTGT
1 TTTGATTTTGTTCTTGT
*
1610072 TTTGTTTTTGTTCTTGT
1 TTTGATTTTGTTCTTGT
1610089 TTTAGATTT
1 TTT-GATTT
1610098 GAAATTATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.07, C:0.02, G:0.16, T:0.74
Consensus pattern (17 bp):
TTTGATTTTGTTCTTGT
Found at i:1613362 original size:13 final size:13
Alignment explanation
Indices: 1613344--1613371 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1613334 ATACAAAGAT
1613344 CAATGTATCGATA
1 CAATGTATCGATA
1613357 CAATGTATCGATA
1 CAATGTATCGATA
1613370 CA
1 CA
1613372 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1613448 original size:19 final size:21
Alignment explanation
Indices: 1613424--1613476 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
1613414 AGCGATACAT
1613424 TGTATCGATACAA-CAC-TTA
1 TGTATCGATACAATCACTTTA
* *
1613443 TGTATCGATACAATTACTTTT
1 TGTATCGATACAATCACTTTA
1613464 TGTATCGATACAA
1 TGTATCGATACAA
1613477 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 2 0.07
21 15 0.50
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACAATCACTTTA
Found at i:1614467 original size:49 final size:48
Alignment explanation
Indices: 1614197--1614740 Score: 363
Period size: 39 Copynumber: 11.9 Consensus size: 48
1614187 ATGACAATGC
* * * *
1614197 GCTGATTCATGGCCAGCGACATTAGACTTAAAG--AAGAATGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAG-ATGCCAATAT
** * *
1614244 GCTGAGACAAGGCTAGCGATATTGGGCTTAGGAATGTTA-AAGATGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTA--AA-G--ACAAGATGCCAATAT
* * ** * * *
1614296 CCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATACCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-CAAGATGCCAATAT
* * * *
1614345 GCT-ATTCAAGGGCGGCGACATTGGACTTAAAG----G-TGTCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* *
1614387 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-CAAGATGCCAATAT
* * *** *
1614436 GCTGATTCAAGGCTAGCGACATTGTTTTTAAAGACAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* *
1614484 GCTGATTCAAGGCCAGCGATATTGGACTT--------G-TGCCACTGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* * *
1614523 GCTGATTCAAGGCCAGCGACATTGGTCTT--------G-TGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* * *
1614562 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* * *
1614610 ACTGATTCAAGGCCAGCGATATTGGGCTT---------ATGCCAATGT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
* * *
1614649 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATAT
1 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGAC-AAGATGCCAATAT
1614698 GCTGATTCAAGGCCAGCGATATTGGACTTAGAA-A-AAGATGCCA
1 GCTGATTCAAGGCCAGCGATATTGGACTTA-AAGACAAGATGCCA
1614741 CCAACTTGTG
Statistics
Matches: 397, Mismatches: 65, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
39 106 0.27
40 1 0.00
42 9 0.02
43 27 0.07
47 33 0.08
48 93 0.23
49 89 0.22
50 5 0.01
52 31 0.08
53 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (48 bp):
GCTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGATGCCAATAT
Found at i:1614498 original size:97 final size:96
Alignment explanation
Indices: 1614197--1614740 Score: 368
Period size: 87 Copynumber: 6.0 Consensus size: 96
1614187 ATGACAATGC
* * * **
1614197 GCTGATTCATGGCCAGCGACATTAGACTTAAAGAAG-A-ATGCCAATGTGCTGAGACAAGGCTAG
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
* * *
1614260 CGATATTGGGCTTAGGAATGTTAAAGATGCCAATAT
66 CGACATTGGACTTA--AA-G--AAAGGTGCCAATAT
* * * * *
1614296 CCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGATACCAATGTGCT-ATTCAAGGGC-G
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAA-GGCTA
*
1614359 GCGACATTGGACTT----AAAGGTGTCAATAT
65 GCGACATTGGACTTAAAGAAAGGTGCCAATAT
*
1614387 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
***
1614452 CGACATTGTTTTTAAAGACAAGGTGCCAATAT
66 CGACATTGGACTTAAAGA-AAGGTGCCAATAT
* * *
1614484 GCTGATTCAAGGCCAGCGATATTGGAC-T-----T---G-TGCCACTGTGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
* *
1614539 CGACATTGGTCTT--------GTGCCAATGT
66 CGACATTGGACTTAAAGAAAGGTGCCAATAT
* * * * * * * *
1614562 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATACTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
* * *
1614626 CGATATTGGGCTT------A--TGCCAATGT
66 CGACATTGGACTTAAAGAAAGGTGCCAATAT
* * * ** * * *
1614649 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
* *
1614714 CGATATTGGACTTAGAA-AAAGATGCCA
66 CGACATTGGACTTA-AAGAAAGGTGCCA
1614741 CCAACTTGTG
Statistics
Matches: 376, Mismatches: 39, Indels: 63
0.79 0.08 0.13
Matches are distributed among these distances:
78 34 0.09
79 1 0.00
86 1 0.00
87 110 0.29
88 41 0.11
91 63 0.17
92 17 0.05
94 1 0.00
96 7 0.02
97 39 0.10
99 30 0.08
100 17 0.05
101 15 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (96 bp):
GCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCTAG
CGACATTGGACTTAAAGAAAGGTGCCAATAT
Found at i:1614652 original size:126 final size:126
Alignment explanation
Indices: 1614427--1614677 Score: 439
Period size: 126 Copynumber: 2.0 Consensus size: 126
1614417 AAGATGAAGA
* * * *
1614427 TGCCAATGTGCTGATTCAAGGCTAGCGACATTGTTTTTAAAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
* *
1614492 AAGGCCAGCGATATTGGACTTGTGCCACTGTGCTGATTCAAGGCCAGCGACATTGGTCTTG
66 AAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTG
1614553 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
*
1614618 AAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
66 AAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1614678 AAAGACAAAG
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (126 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATACTGATTC
AAGGCCAGCGATATTGGACTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTG
Found at i:1614838 original size:57 final size:58
Alignment explanation
Indices: 1614775--1615113 Score: 420
Period size: 57 Copynumber: 5.8 Consensus size: 58
1614765 GGTTGCACCA
* * *
1614775 ACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTATT-GAAAAGATACCACTG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCT-TTGGAAAGGATGCCACTG
* * * *
1614832 ACTTGTGGGCTTTTGAAAAGGGTGTCATTGACTTGTGGGCTTTGGAATAGGGTGCCACTG
1 ACTTGTGGGCTTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTGGAA-AGGATGCCACTG
* * * *
1614892 ACTTGTGGGCTTTTG-AAGGTTTCCATTGACTTGTGGGCTTTGGAAAAGATGCCACGG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTG
1614949 ACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCA-TGG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACT-G
* * * *
1615006 ACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTG
1 ACTTGTGGGCTTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTG
* * *
1615064 ACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGGAAAGG
1 ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTT-GGAAAGG
1615114 GTGATGAATG
Statistics
Matches: 248, Mismatches: 24, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
57 114 0.46
58 55 0.22
59 55 0.22
60 24 0.10
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.32
Consensus pattern (58 bp):
ACTTGTGGGCTTTTGAAAGGTTGCCACTGACTTGTGGGCTTTGGAAAGGATGCCACTG
Found at i:1615033 original size:144 final size:146
Alignment explanation
Indices: 1614795--1615105 Score: 500
Period size: 144 Copynumber: 2.1 Consensus size: 146
1614785 TTTTGAAGGT
* * *
1614795 TGCCACTGACTTGTGGGCTATTGAAAAGATACCACTGACTTGTGGGCTTTTGAAAAGGGTGTCAT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTTGAAAAGGATGCCAT
* * * *
1614860 TGACTTGTGGGCTTTGGAATAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTTCCATTGACTTG
66 GGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTG
1614925 TGGGCTTTGGAAAAGA
131 TGGGCTTTGGAAAAGA
* * * * *
1614941 TGCCACGGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGC-TTTGGAAAGGATGCCAT
1 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTTGAAAAGGATGCCAT
1615004 GGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTG
66 GGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTG
1615069 TGGGCTTTGGAAAAGA
131 TGGGCTTTGGAAAAGA
1615085 TGCCACTGACTTGTGGGCTTT
1 TGCCACTGACTTGTGGGCTTT
1615106 GGGAAAGGGT
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
144 111 0.73
145 20 0.13
146 21 0.14
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.32
Consensus pattern (146 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTTGAAAAGGATGCCAT
GGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTG
TGGGCTTTGGAAAAGA
Found at i:1615039 original size:87 final size:87
Alignment explanation
Indices: 1614730--1615116 Score: 480
Period size: 87 Copynumber: 4.4 Consensus size: 87
1614720 TGGACTTAGA
** * ** *
1614730 AAAAGATGCCACCAACTTGTGTAGGCTTTTG-AAAGGGTTG-CACCAACTTGTGTGCTTTTGAAG
1 AAAAGATGCCACTGACTTGTG--GGCTTTGGAAAAGGG-TGCCACTGACTTGTGGGCTTTTGAAG
1614793 GTTGCCACTGACTTGTGGGCTATT-G
63 GTTGCCACTGACTTGTGGGCT-TTGG
* * * * *
1614818 AAAAGATACCACTGACTTGTGGGCTTTTGAAAAGGGTGTCATTGACTTGTGGGCTTTGGAATAGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-A-AGG
* *
1614883 GTGCCACTGACTTGTGGGCTTTTG
64 TTGCCACTGACTTGTGGGCTTTGG
* * * * * *
1614907 -AAGGTTTCCATTGACTTGTGGGCTTTGGAAAA-GATGCCACGGACTTGTGGGCTTTTGAAGGTT
1 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTT
1614970 GCCACTGACTTGTGGGCTTTGG
66 GCCACTGACTTGTGGGCTTTGG
*
1614992 AAAGGATGCCA-TGGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGT
1 AAAAGATGCCACT-GACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGT
1615056 TGCCACTGACTTGTGGGCTTTGG
65 TGCCACTGACTTGTGGGCTTTGG
*
1615079 AAAAGATGCCACTGACTTGTGGGCTTTGGGAAAGGGTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTG
1615117 ATGAATGTTT
Statistics
Matches: 263, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
85 26 0.10
86 39 0.15
87 126 0.48
88 49 0.19
89 23 0.09
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (87 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAGGTT
GCCACTGACTTGTGGGCTTTGG
Found at i:1615104 original size:29 final size:29
Alignment explanation
Indices: 1614795--1615112 Score: 358
Period size: 29 Copynumber: 11.0 Consensus size: 29
1614785 TTTTGAAGGT
1614795 TGCCACTGACTTGTGGGCTATT-GAAAAGA
1 TGCCACTGACTTGTGGGCT-TTGGAAAAGA
* * *
1614824 TACCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GA
* * * *
1614854 TGTCATTGACTTGTGGGCTTTGGAATAGGG
1 TGCCACTGACTTGTGGGCTTTGGAA-AAGA
* * *
1614884 TGCCACTGACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
1614912 TTCCATTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
* * * *
1614941 TGCCACGGACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
1614969 TGCCACTGACTTGTGGGCTTTGGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
1614998 TGCCA-TGGACTTGTGGGCTTTGGAAAAGGG
1 TGCCACT-GACTTGTGGGCTTTGGAAAA-GA
* * *
1615028 TGCCACTGACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1615056 TGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
*
1615085 TGCCACTGACTTGTGGGCTTTGGGAAAG
1 TGCCACTGACTTGTGGGCTTTGGAAAAG
1615113 GGTGATGAAT
Statistics
Matches: 246, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
28 73 0.30
29 106 0.43
30 65 0.26
31 2 0.01
ACGTcount: A:0.20, C:0.16, G:0.33, T:0.31
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:1616538 original size:1 final size:1
Alignment explanation
Indices: 1616534--1616614 Score: 54
Period size: 1 Copynumber: 81.0 Consensus size: 1
1616524 TTTGTTGTTA
* * * * * * * * * *
1616534 TTTTTTTGTTTTTTTGTTTGTTTTTTTATTTTGTTTTGTTTTGTGTTTTTTTTCTTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1616599 TTGTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTT
1616615 GTTTGCGGAG
Statistics
Matches: 56, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.02, C:0.01, G:0.11, T:0.85
Consensus pattern (1 bp):
T
Found at i:1616565 original size:18 final size:17
Alignment explanation
Indices: 1616522--1616619 Score: 85
Period size: 18 Copynumber: 5.8 Consensus size: 17
1616512 ATCCGGACCC
* *
1616522 TTTTTGTTGTTATTTTTT
1 TTTTTTTTGTT-TGTTTT
1616540 TGTTTTTTTGTTTGTTTT
1 T-TTTTTTTGTTTGTTTT
* *
1616558 TTTATTTTGTTT-TGTT
1 TTTTTTTTGTTTGTTTT
* * *
1616574 TTGTGTTT-TTT-TTCT
1 TTTTTTTTGTTTGTTTT
1616589 TTTTTTTTGTTTGTTTAT
1 TTTTTTTTGTTTGTTT-T
1616607 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
1616620 CGGAGGATGC
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
15 11 0.17
16 11 0.17
17 12 0.19
18 21 0.33
19 9 0.14
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (17 bp):
TTTTTTTTGTTTGTTTT
Found at i:1616580 original size:25 final size:24
Alignment explanation
Indices: 1616534--1616618 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 24
1616524 TTTGTTGTTA
*
1616534 TTTTTTTGTTTT-TTTGTTTGTTTT
1 TTTTTTTGTTTTGTTT-TGTGTTTT
1616558 TTTATTTTGTTTTGTTTTGTGTTTT
1 TTT-TTTTGTTTTGTTTTGTGTTTT
*
1616583 TTTTCTTT-TTTTTTGTTTGT-TTATT
1 TTTT-TTTGTTTTGT-TTTGTGTT-TT
1616608 TTTTTTTGTTT
1 TTTTTTTGTTT
1616619 GCGGAGGATG
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
24 14 0.26
25 36 0.68
26 3 0.06
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (24 bp):
TTTTTTTGTTTTGTTTTGTGTTTT
Found at i:1616583 original size:44 final size:44
Alignment explanation
Indices: 1616534--1616618 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
1616524 TTTGTTGTTA
* *
1616534 TTTTTTTGTTTTTTTGTTTGTTTTTTTATTTTGTTTTGTTTTGTG
1 TTTTTTT-TCTTTTTGTTTGTTTGTTTATTTTGTTTTGTTTTGTG
* *
1616579 TTTTTTTTCTTTTTTTTTGTTTGTTTATTTTTTTTTGTTT
1 TTTTTTTTCTTTTTGTTTGTTTGTTTATTTTGTTTTGTTT
1616619 GCGGAGGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 29 0.81
45 7 0.19
ACGTcount: A:0.02, C:0.01, G:0.12, T:0.85
Consensus pattern (44 bp):
TTTTTTTTCTTTTTGTTTGTTTGTTTATTTTGTTTTGTTTTGTG
Found at i:1616613 original size:22 final size:23
Alignment explanation
Indices: 1616522--1616619 Score: 87
Period size: 23 Copynumber: 4.3 Consensus size: 23
1616512 ATCCGGACCC
*
1616522 TTTTTG-TTG-TTATTTTTTTGTT
1 TTTTTGTTTGTTTATTTTATT-TT
1616544 TTTTTGTTTGTTT-TTTTATTTT
1 TTTTTGTTTGTTTATTTTATTTT
* * *
1616566 GTTTTGTTTTGTGTTTTTTTTCTTTT
1 -TTTT-TGTT-TGTTTATTTTATTTT
1616592 TTTTTGTTTGTTTATTTT-TTTT
1 TTTTTGTTTGTTTATTTTATTTT
*
1616614 TGTTTG
1 TTTTTG
1616620 CGGAGGATGC
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
22 17 0.27
23 22 0.34
24 8 0.12
25 9 0.14
26 8 0.12
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (23 bp):
TTTTTGTTTGTTTATTTTATTTT
Found at i:1616615 original size:49 final size:49
Alignment explanation
Indices: 1616523--1616618 Score: 142
Period size: 48 Copynumber: 2.0 Consensus size: 49
1616513 TCCGGACCCT
1616523 TTTTGTTGTTATTTTTTTGTTTTTTTGTTTGTTTTTTTATTTTGTTTTG
1 TTTTGTTGTTATTTTTTTGTTTTTTTGTTTGTTTTTTTATTTTGTTTTG
* *
1616572 TTTTG-TGTT-TTTTTTCTTTTTTTTTGTTTGTTTATTTTTTTTTGTTT
1 TTTTGTTGTTATTTTTT-TGTTTTTTTGTTTGTTT-TTTTATTTTGTTT
1616619 GCGGAGGATG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 6 0.14
48 20 0.47
49 17 0.40
ACGTcount: A:0.03, C:0.01, G:0.12, T:0.83
Consensus pattern (49 bp):
TTTTGTTGTTATTTTTTTGTTTTTTTGTTTGTTTTTTTATTTTGTTTTG
Found at i:1625087 original size:30 final size:28
Alignment explanation
Indices: 1625053--1625108 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
1625043 TCGATGATTA
*
1625053 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAAT-AA-CGAGATTAGAGTATCCCCTC
*
1625083 GAAAATAACGGGATTAGAGTATCCCC
1 GAAAATAACGAGATTAGAGTATCCCC
1625109 AATTATGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 16 0.67
29 2 0.08
30 6 0.25
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (28 bp):
GAAAATAACGAGATTAGAGTATCCCCTC
Found at i:1625182 original size:28 final size:28
Alignment explanation
Indices: 1625142--1625218 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
1625132 GGAATAAAGC
* *
1625142 CGGGGTTGGAGTATCCCC-TTAGAAGTAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
1625170 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
1625198 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1625219 TATGAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1625356 original size:52 final size:49
Alignment explanation
Indices: 1625201--1625387 Score: 185
Period size: 52 Copynumber: 3.6 Consensus size: 49
1625191 GAAATAACGA
* *
1625201 GGTTGGAGTATCCTCGATTATGAAAAATTGGTATGTTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGG--TG-TTTT-GAAATAAAACCG
* *
1625254 GAGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCG
1 G-GTTGGAGTATCCCCGATT--ATGAAAAATTGGTGTTTTG-AAATAAAACCG
* * * *
1625307 AGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCG
1 -GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTT-GAAATAAAACCG
*
1625359 GGATTGGAGTATCCTCGATTATGAAAAAT
1 GG-TTGGAGTATCCCCGATTATGAAAAAT
1625388 CAATATTTTG
Statistics
Matches: 113, Mismatches: 13, Indels: 18
0.78 0.09 0.12
Matches are distributed among these distances:
51 9 0.08
52 41 0.36
53 33 0.29
54 20 0.18
56 10 0.09
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (49 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAATAAAACCG
Found at i:1625448 original size:266 final size:262
Alignment explanation
Indices: 1625091--1625593 Score: 715
Period size: 266 Copynumber: 1.9 Consensus size: 262
1625081 TCGAAAATAA
**
1625091 CGGGATTAGAGTATCCCCAATTATGGGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTAGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
* * *
1625156 CCCCTTAGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG-GTTGGAGTATCCTCGATT
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACG-GCGTTGGAGTATCCCCGATT
1625220 ATGAAAAATTGGTATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAAT
129 ATGAAAAATTGGTAT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA--GAAAAT
* * * *
1625285 TGGTGTTTTGAAAATAAAACC-GAGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
191 TAGTGTCTTGAAAATAAAACCGGA-GTTAGAATATCCCCAATTGTGGAAAAATTAGTGTTTTAGC
1625349 AATAAAAC
255 AATAAAAC
* * * *
1625357 CGGGATTGGAGTATCCTCGATTATGAAAAATCAATATTTT-GGAGATAAAGTCGGGGTTGGAGTA
1 CGGGATTAGAGTATCCCCAATTATGAAAAATCAATATTTTGGGA-ATAAAGCCGGGGTTGGAGTA
* ** * *
1625421 TCCCCTCGGAAATATTGGGGTTGGAGTATCCCCGATGATTAACGGCGTTGGAGTATCCCCGATTG
65 TCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGGCGTTGGAGTATCCCCGATTA
* * *
1625486 TGAAAATTTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
130 TGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
* *
1625551 GTCTTGAAAATAAAATCGGAGTTGGAATATCCCCAATTGTGGA
195 GTCTTGAAAATAAAACCGGAGTTAGAATATCCCCAATTGTGGA
1625594 GAATTGAGAA
Statistics
Matches: 211, Mismatches: 23, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
262 44 0.21
263 2 0.01
264 41 0.19
265 38 0.18
266 86 0.41
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (262 bp):
CGGGATTAGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGGCGTTGGAGTATCCCCGATTAT
GAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TCTTGAAAATAAAACCGGAGTTAGAATATCCCCAATTGTGGAAAAATTAGTGTTTTAGCAATAAA
AC
Found at i:1625533 original size:53 final size:51
Alignment explanation
Indices: 1625202--1625591 Score: 208
Period size: 51 Copynumber: 7.4 Consensus size: 51
1625192 AAATAACGAG
* *
1625202 GTTGGAGTATCCTCGATTATGAAAAATTGGTATGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AAAATTGG--TGTTTTTGGAAATAAAATCGGA
* * *
1625256 GTTGGAGTATCCCCGATTAAAGGGAAAATTGGTG-TTTTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT---GTGAAAATTGGTGTTTTTGGAAATAAAATCGGA
* * * * *
1625308 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTG-TTTTAGCAATAAAACCGG-
1 -GTTGGAGTATCCCCGATTGT-G-AAAATTGGTGTTTTTGGAAATAAAATCGGA
* * *** * * * *
1625360 GATTGGAGTATCCTCGATTATGAAAAATCAAT-ATTTTGGAGATAAAGTCGGG
1 G-TTGGAGTATCCCCGATTGTG-AAAATTGGTGTTTTTGGAAATAAAATCGGA
* * ** * * *
1625412 GTTGGAGTATCCCC--TCG-GAAATATTGGGGTTGGAGTATCCCCGATGAT-TAA-CGGC
1 GTTGGAGTATCCCCGATTGTGAAA-ATTGGTGTT----T-T--TGGA-AATAAAATCGGA
1625467 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAA-TTGGTG-TTTTTGGAAATAAAATCGGA
* * * *
1625520 GTTGGAGTATCCCCGATTATAGAAAATTAGTG-TCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTTGGAAATAAAATCGGA
* *
1625571 GTTGGAATATCCCCAATTGTG
1 GTTGGAGTATCCCCGATTGTG
1625592 GAGAATTGAG
Statistics
Matches: 259, Mismatches: 49, Indels: 60
0.70 0.13 0.16
Matches are distributed among these distances:
47 3 0.01
48 3 0.01
49 2 0.01
50 2 0.01
51 72 0.28
52 44 0.17
53 60 0.23
54 26 0.10
55 18 0.07
56 11 0.04
57 7 0.03
58 9 0.03
59 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTTGGAAATAAAATCGGA
Found at i:1627963 original size:13 final size:13
Alignment explanation
Indices: 1627945--1627970 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1627935 ACAAAGATCC
1627945 ATGTATCGATACA
1 ATGTATCGATACA
1627958 ATGTATCGATACA
1 ATGTATCGATACA
1627971 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1627966 original size:33 final size:33
Alignment explanation
Indices: 1627924--1627990 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1627914 AAAATTTCCA
***
1627924 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1627957 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1627990 A
1 A
1627991 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1628050 original size:13 final size:13
Alignment explanation
Indices: 1628032--1628056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1628022 ACAATACTTA
1628032 TGTATCGATACAT
1 TGTATCGATACAT
1628045 TGTATCGATACA
1 TGTATCGATACA
1628057 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1628055 original size:32 final size:32
Alignment explanation
Indices: 1628013--1628075 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1628003 TAGCTAATTA
* *
1628013 TGTATTGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1628045 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1628076 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1628069 original size:19 final size:19
Alignment explanation
Indices: 1628010--1628077 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1628000 CAGTAGCTAA
* *
1628010 TTATGTATTGATACAATAC
1 TTATGTATCGATACAAAAC
1628029 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
1628044 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1628061 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1628078 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1628157 original size:21 final size:21
Alignment explanation
Indices: 1628133--1628210 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
1628123 CATTTGTAGG
1628133 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
1628154 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1628175 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1628196 ATGTATCGATACATT
1 ATGTATCGATACATT
1628211 TGGATAATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1628240 original size:13 final size:13
Alignment explanation
Indices: 1628222--1628247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1628212 GGATAATTTT
1628222 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
1628235 TTTTTTTTTTCAA
1 TTTTTTTTTTCAA
1628248 ACACTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTTCAA
Found at i:1628924 original size:55 final size:55
Alignment explanation
Indices: 1628840--1630617 Score: 2725
Period size: 55 Copynumber: 32.3 Consensus size: 55
1628830 ATAAACTGTA
* * * * * *
1628840 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1628895 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1628950 TCCTGCTCTTT-AGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGA-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629005 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1629060 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1629115 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629170 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
1629225 TCCTTCTCTTTGGGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
1629280 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1629335 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1629390 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629445 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1629500 TCCTGCTCTTT-AGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGA-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629555 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1629610 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* **
1629665 TCCTGCTCTTTGAGGACTGGAAGGCACCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629720 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629775 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
1629830 TCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1629885 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAAATTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1629940 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1629995 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
1630050 TCCTGCTCTTT-AGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGA-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
**
1630105 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1630160 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* *
1630215 TCCTGCTCTTTGAGGACTGGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1630270 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1630325 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * * *
1630380 TCCTGCTCTTTGTGGATTGGAAA-ATGCCACCAACTTGGGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
1630435 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1630490 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1630545 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
1630600 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1630618 AAAAAGCGGA
Statistics
Matches: 1603, Mismatches: 85, Indels: 70
0.91 0.05 0.04
Matches are distributed among these distances:
54 42 0.03
55 1518 0.95
56 43 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:1629249 original size:26 final size:26
Alignment explanation
Indices: 1629165--1629525 Score: 72
Period size: 26 Copynumber: 13.2 Consensus size: 26
1629155 GGGCTTTAAG
* *
1629165 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTCCTCTTTGGGGATTGAA
* * * *
1629191 AGGTG-CCACCAACTTGTGTGGGCTTTAA
1 AGGTGTCCTCC-TCTT-TG-GGGATTGAA
*
1629219 GAGGTGTCCTTCTCTTTGGGGATTGAA
1 -AGGTGTCCTCCTCTTTGGGGATTGAA
* * * *
1629246 AGGTG-CCACCAACTTGTGTGGGCTTTAA
1 AGGTGTCCTCC-TCTT-TG-GGGATTGAA
* *
1629274 GAGGTGTCCTGCTCTTTGAGGATTGGAA
1 -AGGTGTCCTCCTCTTTGGGGATT-GAA
* * * **
1629302 A-ATG-CCACCAACTTGGGTGGGCTTTGAA
1 AGGTGTCCTCC-TCTT---TGGGGATTGAA
* *
1629330 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTCCTCTTTGGGGATTGAA
* * *
1629356 AGGTG-CCACCAAT-TTGTGTGGGCTTTAA
1 AGGTGTCCTCC--TCTT-TG-GGGATTGAA
* * *
1629384 GAGGTGTCCTGCTCTTTGAGGACTGAA
1 -AGGTGTCCTCCTCTTTGGGGATTGAA
* * * *
1629411 AGGTG-CCACCAACTTGTGTGGGCTTTAA
1 AGGTGTCCTCC-TCTT-TG-GGGATTGAA
* * *
1629439 GAGGTGTCCTGCTCTTTGAGGACTGAA
1 -AGGTGTCCTCCTCTTTGGGGATTGAA
* * *
1629466 AGGTG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTCC-TCTT-TG-GGG-ATTGAA
* * * *
1629495 AAGTGTCCTGCTCTTTAGGGAATGAA
1 AGGTGTCCTCCTCTTTGGGGATTGAA
1629521 AGGTG
1 AGGTG
1629526 CCACCAACTT
Statistics
Matches: 226, Mismatches: 75, Indels: 68
0.61 0.20 0.18
Matches are distributed among these distances:
25 18 0.08
26 60 0.27
27 36 0.16
28 42 0.19
29 52 0.23
30 18 0.08
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (26 bp):
AGGTGTCCTCCTCTTTGGGGATTGAA
Found at i:1629744 original size:26 final size:26
Alignment explanation
Indices: 1629715--1629800 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
1629705 GGGCTTTAAG
1629715 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
** * *
1629741 AGGTG-CCACCAACTTGTGTGGG-CTTTAA
1 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA
1629769 GAGGTGTCCTGCTCTTTGGGGACTGAA
1 -AGGTGTCCTGCTCTTTGGGGACTGAA
1629796 AGGTG
1 AGGTG
1629801 CCACCAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 13 0.29
27 9 0.20
28 9 0.20
29 8 0.18
30 3 0.07
ACGTcount: A:0.17, C:0.19, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:1629905 original size:26 final size:26
Alignment explanation
Indices: 1629876--1630020 Score: 73
Period size: 26 Copynumber: 5.3 Consensus size: 26
1629866 GGGTGGGCTT
1629876 TGAAAGGTGTCCTGCTCTTTGGGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** **
1629902 TGAAAGGTG-CCACCAAATTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
1629929 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
** *
1629957 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
* *
1629984 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
1630012 TGAAAGGTG
1 TGAAAGGTG
1630021 CCACCAACTT
Statistics
Matches: 84, Mismatches: 21, Indels: 28
0.63 0.16 0.21
Matches are distributed among these distances:
25 6 0.07
26 24 0.29
27 16 0.19
28 17 0.20
29 15 0.18
30 6 0.07
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1631638 original size:34 final size:37
Alignment explanation
Indices: 1631586--1631656 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 37
1631576 TAAGTAGGTT
1631586 TTTTCTTTTCTCTCTTTTTCTTTG-TTTTGTTTTTTTG
1 TTTTCTTTTCTCTCTTTTTCTTTGCTTTT-TTTTTTTG
*
1631623 TTTT-TTTTC-CT-TTTTTTTTTGCTTTTTTTTTTTG
1 TTTTCTTTTCTCTCTTTTTCTTTGCTTTTTTTTTTTG
1631657 AAGAGAAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 17 0.53
35 6 0.19
36 5 0.16
37 4 0.12
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (37 bp):
TTTTCTTTTCTCTCTTTTTCTTTGCTTTTTTTTTTTG
Found at i:1631639 original size:13 final size:12
Alignment explanation
Indices: 1631623--1631654 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1631613 TGTTTTTTTG
1631623 TTTTTTTTCCTT
1 TTTTTTTTCCTT
*
1631635 TTTTTTTTGCTT
1 TTTTTTTTCCTT
1631647 TTTTTTTT
1 TTTTTTTT
1631655 TGAAGAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCCTT
Found at i:1631655 original size:13 final size:13
Alignment explanation
Indices: 1631623--1631656 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1631613 TGTTTTTTTG
1631623 TTTTTTTT-CCTT
1 TTTTTTTTGCCTT
*
1631635 TTTTTTTTGCTTT
1 TTTTTTTTGCCTT
1631648 TTTTTTTTG
1 TTTTTTTTG
1631657 AAGAGAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (13 bp):
TTTTTTTTGCCTT
Found at i:1637344 original size:17 final size:17
Alignment explanation
Indices: 1637322--1637355 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1637312 ACATCGATTC
* *
1637322 TTGACTTTGGCTTCCTT
1 TTGACTTCGCCTTCCTT
1637339 TTGACTTCGCCTTCCTT
1 TTGACTTCGCCTTCCTT
1637356 CTTACCTCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.29, G:0.15, T:0.50
Consensus pattern (17 bp):
TTGACTTCGCCTTCCTT
Found at i:1644176 original size:30 final size:28
Alignment explanation
Indices: 1644142--1644197 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
1644132 TTGATGATTA
1644142 GAAAATAAATCGAGATTGGAGTATCCCCTC
1 GAAAAT-AA-CGAGATTGGAGTATCCCCTC
*
1644172 GAAAATAACGGGATTGGAGTATCCCC
1 GAAAATAACGAGATTGGAGTATCCCC
1644198 AATTATGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 17 0.68
29 2 0.08
30 6 0.24
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (28 bp):
GAAAATAACGAGATTGGAGTATCCCCTC
Found at i:1644293 original size:28 final size:29
Alignment explanation
Indices: 1644234--1644307 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
1644224 ATAAAGCCGG
* * * *
1644234 GGTTGGAGTATCCCC-TTGGAAGTAATGG
1 GGTTGGAGTATCCCCGATGGAAATAACGA
1644262 GGTTGGAGTATCCCCGAT-GAAATAACGA
1 GGTTGGAGTATCCCCGATGGAAATAACGA
* *
1644290 GGTTGGAGAATCCTCGAT
1 GGTTGGAGTATCCCCGAT
1644308 TATGAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GGTTGGAGTATCCCCGATGGAAATAACGA
Found at i:1644406 original size:53 final size:52
Alignment explanation
Indices: 1644326--1644468 Score: 164
Period size: 52 Copynumber: 2.7 Consensus size: 52
1644316 ATTGGTATGT
* * * *
1644326 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTG
1 TTTTGAAAATAAAACCGG-GTTGGAGTATCCCCGATTAAAGGAAAAATTAGTG
* **
1644379 TTTTGAAAATAAAACCGAGGTTAGAGTATCCCCGATT-GTGGAAAAATTAGTG
1 TTTTGAAAATAAAACCG-GGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTG
*
1644431 TTTT-AGCAATAAAACCGGGATTGGAGTATCCCCGATTA
1 TTTTGA-AAATAAAACCGGG-TTGGAGTATCCCCGATTA
1644469 TGAAAAATCA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
51 3 0.04
52 41 0.53
53 32 0.42
54 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (52 bp):
TTTTGAAAATAAAACCGGGTTGGAGTATCCCCGATTAAAGGAAAAATTAGTG
Found at i:1644445 original size:52 final size:52
Alignment explanation
Indices: 1644299--1644476 Score: 159
Period size: 52 Copynumber: 3.4 Consensus size: 52
1644289 AGGTTGGAGA
* * * * *
1644299 ATCCTCGATTAT-GAAAAATTGGTATGTTTTTGGAAATAAAATC-GGAGTTGGAGT
1 ATCCCCGATTATGGAAAAATTAG--TG-TTTTGAAAATAAAACCGGGA-TTAGAGT
* * *
1644353 ATCCCCGATTAAAGGGAAAATTGGTGTTTTGAAAATAAAACCGAGG-TTAGAGT
1 ATCCCCGATT-ATGGAAAAATTAGTGTTTTGAAAATAAAACCG-GGATTAGAGT
* * *
1644406 ATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGGGATTGGAGT
1 ATCCCCGATTATGGAAAAATTAGTGTTTTGA-AAATAAAACCGGGATTAGAGT
1644458 ATCCCCGATTAT-GAAAAAT
1 ATCCCCGATTATGGAAAAAT
1644477 CAATATTTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
51 10 0.10
52 42 0.40
53 30 0.29
54 11 0.10
55 3 0.03
56 9 0.09
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (52 bp):
ATCCCCGATTATGGAAAAATTAGTGTTTTGAAAATAAAACCGGGATTAGAGT
Found at i:1644506 original size:51 final size:52
Alignment explanation
Indices: 1644333--1644514 Score: 145
Period size: 52 Copynumber: 3.5 Consensus size: 52
1644323 TGTTTTTGGA
* * * * *** * *
1644333 AATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAATTGGTGTTTT-GAA
1 AATAAAACCGGGGTTGGAGTATCCCCGATT-ATGGAAAAATCAATATTTTAG-C
* * * * * *
1644386 AATAAAACCGAGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
* *
1644438 AATAAAACCGGGATTGGAGTATCCCCGATTAT-GAAAAATCAATATTTT-GG
1 AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
**
1644488 AGATAAAGTCGGGGTTGGAGTATCCCC
1 A-ATAAAACCGGGGTTGGAGTATCCCC
1644515 TCAGAAATAA
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 2 0.02
51 35 0.33
52 43 0.40
53 27 0.25
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (52 bp):
AATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
Found at i:1644530 original size:266 final size:262
Alignment explanation
Indices: 1644180--1644682 Score: 760
Period size: 266 Copynumber: 1.9 Consensus size: 262
1644170 TCGAAAATAA
*
1644180 CGGGATTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
** * *
1644245 CCCCTTGGAAGTAATGGGGTTGGAGTATCCCCGATGAAATAACGAG-GTTGGAGAATCCTCGATT
66 CCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATG-AATAACG-GCGTTGGAGAATCCCCGATT
1644309 ATGAAAAATTGGTATGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGGAAAAT
129 ATGAAAAATTGGTAT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA--GAAAAT
* * *
1644374 TGGTGTTTTGAAAATAAAACC-GAGGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
191 TAGTGTCTTGAAAATAAAACCGGA-GTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
1644438 AATAAAAC
255 AATAAAAC
* *
1644446 CGGGATTGGAGTATCCCCGATTATGAAAAATCAATATTTT-GGAGATAAAGTCGGGGTTGGAGTA
1 CGGGATTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGA-ATAAAGCCGGGGTTGGAGTA
* * *
1644510 TCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATGATTAACGGCGTTGGAGTATCCCCGATTG
65 TCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATGAATAACGGCGTTGGAGAATCCCCGATTA
* * *
1644575 TGAAAATTTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGT
130 TGAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGT
* *
1644640 GTCTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
195 GTCTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGA
1644683 GAATTGAGAA
Statistics
Matches: 216, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
262 45 0.21
263 2 0.01
264 41 0.19
265 37 0.17
266 91 0.42
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (262 bp):
CGGGATTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
CCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATGAATAACGGCGTTGGAGAATCCCCGATTAT
GAAAAATTGGTATTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TCTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAA
AC
Found at i:1644664 original size:51 final size:52
Alignment explanation
Indices: 1644291--1644677 Score: 183
Period size: 51 Copynumber: 7.3 Consensus size: 52
1644281 AAATAACGAG
* * * *
1644291 GTTGGAGAATCCTCGATTATGAAAAATTGGTA-TGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATG-AAAATT--TAGTGTTCTTGAAAATAAAATCGGA
* * *
1644345 GTTGGAGTATCCCCGATTAAAGGGAAAA-TTGGTGTT-TTGAAAATAAAA-CCGA
1 GTTGGAGTATCCCCGATT--A-TGAAAATTTAGTGTTCTTGAAAATAAAATCGGA
* * * * *
1644397 GGTTAGAGTATCCCCGATTGTGGAAAAATTAGTGTT-TT-AGCAATAAAACCGG-
1 -GTTGGAGTATCCCCGATTAT-GAAAATTTAGTGTTCTTGA-AAATAAAATCGGA
* * * * * * * *
1644449 GATTGGAGTATCCCCGATTATGAAAAATCAATATT-TTGGAGATAAAGTCGGG
1 G-TTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCGGA
* * * ** ** * *
1644501 GTTGGAGTATCCCC--TCA-GAAATAATGGGGTTGGAGTATCCCCGATGAT-TAA-CGGC
1 GTTGGAGTATCCCCGATTATG-AA-AAT----TT--AGTGTTCTTGAAAATAAAATCGGA
* * * *
1644556 GTTGGAGTATCCCCGATTGTGAAAATTTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTG-TTCTTGAAAATAAAATCGGA
1644609 GTTGGAGTATCCCCGATTATAGAAAA-TTAGTG-TCTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTTAGTGTTCTTGAAAATAAAATCGGA
*
1644660 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1644678 GTGGAGAATT
Statistics
Matches: 253, Mismatches: 52, Indels: 59
0.70 0.14 0.16
Matches are distributed among these distances:
48 1 0.00
49 4 0.02
50 4 0.02
51 79 0.31
52 41 0.16
53 58 0.23
54 26 0.10
55 18 0.07
56 13 0.05
57 8 0.03
58 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTCTTGAAAATAAAATCGGA
Found at i:1645665 original size:19 final size:18
Alignment explanation
Indices: 1645641--1645708 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1645631 CAGTAGCTAA
1645641 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1645660 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1645675 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1645692 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1645709 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1645681 original size:13 final size:13
Alignment explanation
Indices: 1645663--1645687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1645653 ACAATACTTA
1645663 TGTATCGATACAT
1 TGTATCGATACAT
1645676 TGTATCGATACA
1 TGTATCGATACA
1645688 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1645685 original size:32 final size:32
Alignment explanation
Indices: 1645644--1645706 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1645634 TAGCTAATTA
*
1645644 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1645676 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1645707 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1645788 original size:21 final size:21
Alignment explanation
Indices: 1645764--1645820 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1645754 CATTTGTAGG
1645764 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
1645785 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
1645806 ATGTATCGATACATT
1 ATGTATCGATACATT
1645821 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:1652471 original size:20 final size:20
Alignment explanation
Indices: 1652446--1652499 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1652436 ATTTGCCTGC
1652446 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
1652466 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
1652486 ATGTATCGATACAT
1 ATGTATCGATACAT
1652500 CTGTGTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:1652627 original size:19 final size:19
Alignment explanation
Indices: 1652603--1652674 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
1652593 AGTGATACAT
1652603 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
1652622 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
* *
1652641 TGTATCGATACAATTACTGTT
1 TGTATCGATACAA-CACT-TA
1652662 TGTATCGATACAA
1 TGTATCGATACAA
1652675 ATTGTTGAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 32 0.65
20 3 0.06
21 14 0.29
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1653924 original size:15 final size:16
Alignment explanation
Indices: 1653900--1653929 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1653890 TTCAATTAAT
1653900 TTTTTCATTTAATTAC
1 TTTTTCATTTAATTAC
1653916 TTTTT-ATTTAATTA
1 TTTTTCATTTAATTA
1653930 AGTTAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTCATTTAATTAC
Found at i:1655074 original size:22 final size:22
Alignment explanation
Indices: 1655039--1655085 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1655029 TTTACAGATT
1655039 AGATCCTTAACATCATGATCCG
1 AGATCCTTAACATCATGATCCG
* * *
1655061 AGATCTTTATCATCATGATCTG
1 AGATCCTTAACATCATGATCCG
1655083 AGA
1 AGA
1655086 ATGCACCCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (22 bp):
AGATCCTTAACATCATGATCCG
Found at i:1663084 original size:79 final size:78
Alignment explanation
Indices: 1662866--1663097 Score: 245
Period size: 78 Copynumber: 2.9 Consensus size: 78
1662856 ATATTTCTCG
* * * * *
1662866 ATGAGAAATTTAATATTTT-GGAGATAATAACGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGC
1 ATGAGAAA-TCAATATTTTAGGA-ATAA-AACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
* *
1662930 TGGAGTATCCTCAGTT
63 TGGAGTATCCCCAATT
* * * * * *
1662946 GTGAGAAATCGATGA--TTAGAAAAAAAATCAGGATTGGAGTATCCCCTCGAAAATAACGGGGTT
1 ATGAGAAATCAAT-ATTTTAGGAATAAAA-CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
1663009 GGAGTATCCCCAATT
64 GGAGTATCCCCAATT
* * *
1663024 ATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTG
1 ATGAGAAATCAATATTTTAGGAATAAA-ACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1663089 GAGTATCCC
65 GAGTATCCC
1663098 TGATGAAATA
Statistics
Matches: 124, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
77 3 0.02
78 58 0.47
79 55 0.44
80 8 0.06
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (78 bp):
ATGAGAAATCAATATTTTAGGAATAAAACGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGG
AGTATCCCCAATT
Found at i:1663093 original size:28 final size:28
Alignment explanation
Indices: 1663053--1663124 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
1663043 GGAATAAAGC
*
1663053 CGGGGTTGGAGTATCCCCTCG-GAAGTAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
1663081 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
*
1663109 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1663125 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 1 0.03
27 4 0.10
28 33 0.85
29 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:1663195 original size:53 final size:52
Alignment explanation
Indices: 1663112--1663295 Score: 189
Period size: 53 Copynumber: 3.5 Consensus size: 52
1663102 GAAATAACGA
* * * *
1663112 GGTTGGAGTAT-CCTCGATTGT-GAAAAATTGGTGTTTTTGAGAATAAAATCAG
1 GGTTGGAGTATCCCT-GATTATAAAAAAATTGGTG-TTTTGAGAATAAAACCGG
* * *
1663164 AGTTAGAGTATCCCTGATTA-AAGGAAAATTGGTGTTTTGTA-AATAAAACCGG
1 GGTTGGAGTATCCCTGATTATAA-AAAAATTGGTGTTTTG-AGAATAAAACCGG
* *
1663216 GGTTGGAGTATCCCCGATTATTAAAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCTGATTA-TAAAAAAATTGGTGTTTTGAG-AATAAAACCGG
*
1663269 GGTTGGAGTATCCCTGATTATGAAAAA
1 GGTTGGAGTATCCCTGATTATAAAAAA
1663296 TCAATATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
51 1 0.01
52 50 0.45
53 57 0.52
54 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (52 bp):
GGTTGGAGTATCCCTGATTATAAAAAAATTGGTGTTTTGAGAATAAAACCGG
Found at i:1663296 original size:104 final size:104
Alignment explanation
Indices: 1663112--1663334 Score: 238
Period size: 104 Copynumber: 2.1 Consensus size: 104
1663102 GAAATAACGA
* * * *
1663112 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGAGAATAAAATCAGAGTTAGAGTATCC
1 GGTTGGAGTATCCCCGATTGTAAAAAATTAGTGTTTTTGAGAATAAAACCAGAGTTAGAGTATCC
* *** *
1663177 CTGATTAAAGGAAAATTGGTGTTTT-GTAAATAAAACCGG
66 CTGATTAAAGAAAAATCAATATTTTAG-AAATAAAACCGG
* * * *
1663216 GGTTGGAGTATCCCCGATTATTAAAAAAATTAGTG-TTTT-AGCAATAAAACCGGGGTTGGAGTA
1 GGTTGGAGTATCCCCGATT-GT-AAAAAATTAGTGTTTTTGAG-AATAAAACCAGAGTTAGAGTA
* *
1663279 TCCCTGATT-ATGAAAAATCAATATTTTAGAAATAAAATCGG
63 TCCCTGATTAAAGAAAAATCAATATTTTAGAAATAAAACCGG
*
1663320 GGTTAGAGTATCCCC
1 GGTTGGAGTATCCCC
1663335 TCGGAAATAA
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
104 57 0.58
105 32 0.32
106 10 0.10
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (104 bp):
GGTTGGAGTATCCCCGATTGTAAAAAATTAGTGTTTTTGAGAATAAAACCAGAGTTAGAGTATCC
CTGATTAAAGAAAAATCAATATTTTAGAAATAAAACCGG
Found at i:1663321 original size:51 final size:53
Alignment explanation
Indices: 1663204--1663334 Score: 176
Period size: 51 Copynumber: 2.5 Consensus size: 53
1663194 GGTGTTTTGT
* * *
1663204 AAATAAAACCGGGGTTGGAGTATCCCCGATTATTAAAAAAATTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATTAAAAAAATCAATATTTTAG
* * *
1663257 CAATAAAACCGGGGTTGGAGTATCCCTGATTA-T-GAAAAATCAATATTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATTAAAAAAATCAATATTTTAG
* *
1663308 AAATAAAATCGGGGTTAGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
1663335 TCGGAAATAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 37 0.54
52 1 0.01
53 30 0.44
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (53 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATTAAAAAAATCAATATTTTAG
Found at i:1663351 original size:28 final size:28
Alignment explanation
Indices: 1663317--1663389 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
1663307 GAAATAAAAT
*
1663317 CGGGGTTAGAGTATCCCCTCG-GAAATAA
1 CGGGGTTGGAGTATCCCCTCGAG-AATAA
* *
1663345 CGGGGTTGGAGCAT--CCTCGATGATTAA
1 CGGGGTTGGAGTATCCCCTCGA-GAATAA
1663372 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1663390 GATTGTGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.14
27 17 0.46
28 13 0.35
29 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCGAGAATAA
Found at i:1663439 original size:54 final size:51
Alignment explanation
Indices: 1663376--1663506 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 51
1663366 GATTAACGGG
* **
1663376 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAGTG--TTTTAAAAATAAAATCGGA
*
1663430 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAGTGTTTTAAAAATAAAATCGGA
* *
1663481 GTTGGAATATCTCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
1663507 TTGAGAAACT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
51 34 0.51
52 4 0.06
53 10 0.15
54 19 0.28
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAGTGTTTTAAAAATAAAATCGGA
Found at i:1663474 original size:264 final size:264
Alignment explanation
Indices: 1663002--1663498 Score: 723
Period size: 264 Copynumber: 1.9 Consensus size: 264
1662992 TCGAAAATAA
* * * *
1663002 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTAT
* * *
1663067 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCTGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAAATAACGGGGTTGGAGCATCCCTGATGAAATAACGAGGTTGGAGTATCCCCGATTG
* *
1663132 TGAAAAATTGGTGTTTTTGAGAATAAAATCAGAGTTAGAGTATCCCTGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGAGAATAAAATCAGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGT
** * *
1663197 GTTTTGTAAATAAAACCGGGGTTGGAGTATCCCCGATTATTAAAAAAATTAGTGTTTTAGCAATA
196 GTTTTAAAAATAAAACCGGAGTTGGAATATCCCCGATTATTAAAAAAATTAGTGTTTTAGCAATA
1663262 AAAC
261 AAAC
** *
1663266 CGGGGTTGGAGTATCCCTGATTATGAAAAATCAATATTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTAT
* *
1663331 CCCCTCGGAAATAACGGGGTTGGAGCAT-CCTCGATG-ATTAACGGGGTTGGAGTATCCCCGATT
66 CCCCTCGGAAATAACGGGGTTGGAGCATCCCT-GATGAAATAACGAGGTTGGAGTATCCCCGATT
* * *
1663394 GTGAAGAAATTGGTGTTTTTTG-GAAATAAAATCGGAGTTGGAGTATCCCCGATTATA-GAAAAT
130 GTGAA-AAATTGGTG-TTTTTGAG-AATAAAATCAGAGTTAGAGTATCCCCGATTAAAGGAAAAT
* *
1663457 TAGTGTTTTAAAAATAAAATCGGAGTTGGAATATCTCCGATT
192 TAGTGTTTTAAAAATAAAACCGGAGTTGGAATATCCCCGATT
1663499 GTGGAGAATT
Statistics
Matches: 206, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
263 32 0.16
264 139 0.67
265 35 0.17
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (264 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTAT
CCCCTCGGAAATAACGGGGTTGGAGCATCCCTGATGAAATAACGAGGTTGGAGTATCCCCGATTG
TGAAAAATTGGTGTTTTTGAGAATAAAATCAGAGTTAGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTAAAAATAAAACCGGAGTTGGAATATCCCCGATTATTAAAAAAATTAGTGTTTTAGCAATA
AAAC
Found at i:1663485 original size:51 final size:51
Alignment explanation
Indices: 1663112--1663498 Score: 180
Period size: 53 Copynumber: 7.4 Consensus size: 51
1663102 GAAATAACGA
* * * * *
1663112 GGTTGGAGTATCCTCGATTGT-GAAAAATTGGTGTTTTTGAGAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATAG-AAAATTAGTG-TTTTGAAAATAAAATCGG
* * * * * * *
1663164 AGTTAGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGTAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGG
* * *
1663216 GGTTGGAGTATCCCCGATTATTAAAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTA-T-AGAAAATTAGTGTTTTGA-AAATAAAATCGG
* * * *
1663269 GGTTGGAGTATCCCTGATTAT-GAAAAATCAATATTTT-AGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAG-AAAATTAGTGTTTTGA-AAATAAAATCGG
* * *** ** * * ** *
1663320 GGTTAGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGCATCCTCGATGAT-TAA-CGG
1 GGTTGGAGTAT-CCC-C-GATTATAGA--AAATT--AGTGT-TTTGAAAATAAAATCGG
* * *
1663375 GGTTGGAGTATCCCCGATTGT-GAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAG-A-AAATTAGTG--TTTTGAAAATAAAATCGG
* *
1663429 AGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGG
* * *
1663480 AGTTGGAATATCTCCGATT
1 GGTTGGAGTATCCCCGATT
1663499 GTGGAGAATT
Statistics
Matches: 250, Mismatches: 61, Indels: 49
0.69 0.17 0.14
Matches are distributed among these distances:
51 67 0.27
52 57 0.23
53 71 0.28
54 32 0.13
55 14 0.06
56 5 0.02
57 3 0.01
58 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATAGAAAATTAGTGTTTTGAAAATAAAATCGG
Found at i:1663856 original size:24 final size:25
Alignment explanation
Indices: 1663820--1663874 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
1663810 GCGCTATTAG
1663820 CAAAGCTTATGAAAAAAACGATATAT
1 CAAA-CTTATGAAAAAAACGATATAT
1663846 CAAACTT-TGAAAAAAACGATATAT
1 CAAACTTATGAAAAAAACGATATAT
1663870 CAAAC
1 CAAAC
1663875 GATATATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 22 0.76
25 3 0.10
26 4 0.14
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.22
Consensus pattern (25 bp):
CAAACTTATGAAAAAAACGATATAT
Found at i:1663874 original size:12 final size:12
Alignment explanation
Indices: 1663859--1663883 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1663849 ACTTTGAAAA
1663859 AAACGATATATC
1 AAACGATATATC
1663871 AAACGATATATC
1 AAACGATATATC
1663883 A
1 A
1663884 TCTGAACGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AAACGATATATC
Found at i:1665794 original size:13 final size:13
Alignment explanation
Indices: 1665776--1665801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1665766 ACAAAGATCC
1665776 ATGTATCGATACA
1 ATGTATCGATACA
1665789 ATGTATCGATACA
1 ATGTATCGATACA
1665802 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1665797 original size:33 final size:33
Alignment explanation
Indices: 1665755--1665821 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1665745 AAAATTTCCA
***
1665755 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1665788 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1665821 A
1 A
1665822 TTTCCATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1665865 original size:19 final size:18
Alignment explanation
Indices: 1665841--1665910 Score: 87
Period size: 19 Copynumber: 4.1 Consensus size: 18
1665831 CAGTTGCTAA
1665841 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1665860 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1665875 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1665892 TTATGTATCGATACAAAC
1 TTATGTATCGATACAAAC
1665910 T
1 T
1665911 GTTGAATTTC
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 6 0.13
19 25 0.56
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1665881 original size:13 final size:13
Alignment explanation
Indices: 1665863--1665887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1665853 ACAATACTTA
1665863 TGTATCGATACAT
1 TGTATCGATACAT
1665876 TGTATCGATACA
1 TGTATCGATACA
1665888 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1665885 original size:32 final size:32
Alignment explanation
Indices: 1665844--1665906 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1665834 TTGCTAATTA
*
1665844 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1665876 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1665907 AACTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1666802 original size:55 final size:55
Alignment explanation
Indices: 1666718--1667275 Score: 635
Period size: 55 Copynumber: 9.9 Consensus size: 55
1666708 AAAGTGTATT
* * * *
1666718 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
*
1666773 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTC
* *
1666828 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
* * * *
1666883 CTGCTCTTCGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCATC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTC
* * * *
1666942 CCGCTCTTTAAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
* * *
1666996 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTCTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
* * * *
1667051 CTGCTCTTCGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGGGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
* *
1667106 CTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCGTC
* *
1667167 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTC
* * *
1667226 CCGCTCTTTGGGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1667276 AAAAGGCATC
Statistics
Matches: 436, Mismatches: 44, Indels: 47
0.83 0.08 0.09
Matches are distributed among these distances:
53 2 0.00
54 54 0.12
55 228 0.52
56 12 0.03
58 1 0.00
59 89 0.20
60 26 0.06
61 18 0.04
64 6 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTC
Found at i:1667011 original size:223 final size:224
Alignment explanation
Indices: 1666720--1667272 Score: 774
Period size: 223 Copynumber: 2.4 Consensus size: 224
1666710 AGTGTATTCT
* * *
1666720 GCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAG
1 GCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
*
1666785 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGGAAA-
65 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTCGAGGACT-GAAAG
* *
1666849 ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTCGAGGACTG-AAGGTGCCACCAA
128 ATGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTCGAGGACTGAAAGGTGCCACCAA
*
1666913 CTCGGGTGGGCTTT-AAAAGAAAAGGCATCCC
193 CTCGGGTGGGCTTTGAAAAGAAAAAGCATCCC
* * * *
1666944 GCTCTTTAAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGG
1 GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* * * *
1667009 ACTGGAAA-ATGCCACCAACTTGTCTGGGCTTTGAAAGGTGTCCTGCTCTTCGGGGACTGAAAGG
66 ACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTCGAGGACTGAAAGA
* *
1667073 TGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAAC
129 TGCCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTCGAGGACTGAAAGGTGCCACCAAC
* * *
1667138 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
194 TCGGGTGGGCTTTGAAAAGAAAAAGCATCCC
* *
1667169 GCTCTTTGAGGACTAAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
1 GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT-----AAAAGGCGTCCTGCTCTT
*
1667234 TGGGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAA
61 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAA
1667273 AGGAAAAGGC
Statistics
Matches: 289, Mismatches: 29, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
222 4 0.01
223 137 0.47
224 44 0.15
225 53 0.18
228 5 0.02
229 23 0.08
230 23 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (224 bp):
GCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTCGAGGACTGAAAGATG
CCACCAACTTGTGTGGGCTTTAAAAGGGGTCCTGCTCTTCGAGGACTGAAAGGTGCCACCAACTC
GGGTGGGCTTTGAAAAGAAAAAGCATCCC
Found at i:1668303 original size:36 final size:36
Alignment explanation
Indices: 1668262--1668334 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
1668252 GTAGGTTCTT
*
1668262 TTTTTTTCTCTTTTTCTCTGTTTTG-TTTTTTGTTTTG
1 TTTTTTTC-CTTTTTCTCTCTTTTGCTTTTTT-TTTTG
* *
1668299 TTTTTTTCCTTTTTTTTTCTTTTGCTTTTTTTTTTG
1 TTTTTTTCCTTTTTCTCTCTTTTGCTTTTTTTTTTG
1668335 AAGAGAAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 18 0.56
37 14 0.44
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81
Consensus pattern (36 bp):
TTTTTTTCCTTTTTCTCTCTTTTGCTTTTTTTTTTG
Found at i:1668313 original size:11 final size:10
Alignment explanation
Indices: 1668257--1668321 Score: 53
Period size: 10 Copynumber: 6.7 Consensus size: 10
1668247 CTTAAGTAGG
1668257 TTCTTTTTTT
1 TTCTTTTTTT
*
1668267 TTCTCTTTTT
1 TTCTTTTTTT
* * *
1668277 CTCTGTTTTG
1 TTCTTTTTTT
*
1668287 TT-TTTTGTT
1 TTCTTTTTTT
*
1668296 TT-GTTTTTT
1 TTCTTTTTTT
*
1668305 TCCTTTTTTT
1 TTCTTTTTTT
1668315 TTCTTTT
1 TTCTTTT
1668322 GCTTTTTTTT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
9 12 0.29
10 29 0.71
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:1668321 original size:16 final size:16
Alignment explanation
Indices: 1668302--1668332 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1668292 TGTTTTGTTT
1668302 TTTTCCTTTTTTTTTC
1 TTTTCCTTTTTTTTTC
*
1668318 TTTTGCTTTTTTTTT
1 TTTTCCTTTTTTTTT
1668333 TGAAGAGAAG
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:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTCCTTTTTTTTTC
Found at i:1668327 original size:12 final size:12
Alignment explanation
Indices: 1668282--1668334 Score: 56
Period size: 13 Copynumber: 4.4 Consensus size: 12
1668272 TTTTTCTCTG
*
1668282 TTTTGTTTTTTG
1 TTTTGTTTTTTC
1668294 TTTTGTTTTTTTC
1 TTTTG-TTTTTTC
*
1668307 CTTT-TTTTTTC
1 TTTTGTTTTTTC
1668318 TTTTGCTTTTTT-
1 TTTTG-TTTTTTC
1668330 TTTTG
1 TTTTG
1668335 AAGAGAAGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 10 0.29
12 10 0.29
13 15 0.43
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (12 bp):
TTTTGTTTTTTC
Found at i:1670234 original size:51 final size:53
Alignment explanation
Indices: 1670135--1670265 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
1670125 GATTAACGGG
* * * *
1670135 GTTGGAGTATCCCTGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
1670189 GTTGGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * *
1670240 GTTGGAATATCCCCAATTATGGAGAA
1 GTTGGAGTATCCCCGATTATGAAGAA
1670266 TTGAGAAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
51 36 0.53
52 4 0.06
53 10 0.15
54 18 0.26
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Done.