Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold446
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: 3567220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 22
Found at i:1285686 original size:20 final size:19
Alignment explanation
Indices: 1285653--1285691 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1285643 ATGTAAAAAG
**
1285653 TTATTATTTTATATATTTAT
1 TTATTATTAAATAT-TTTAT
1285673 TTATTATTAAATATTTTAT
1 TTATTATTAAATATTTTAT
1285692 AAATTACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTATTAAATATTTTAT
Found at i:1290283 original size:61 final size:61
Alignment explanation
Indices: 1290188--1290352 Score: 195
Period size: 61 Copynumber: 2.7 Consensus size: 61
1290178 AGTTGTTTAA
* * * * * * *
1290188 TGTTGCTACCTTGCTATTCTTTGATCATTTTTCGTGCTTGCCTACTCGTTGGAGCTACTAT
1 TGTTGCTACCGTGCTATTGTTTCATTACTGTTCGTGCTTGCCTACTCGTTAGAGCTACTAT
* ** * *
1290249 TGTTGCTGCCGTGCTATTGTTTCATTGTTGTTCGTGCTTGCCTACTTGTTAGAGCTACTGT
1 TGTTGCTACCGTGCTATTGTTTCATTACTGTTCGTGCTTGCCTACTCGTTAGAGCTACTAT
* **
1290310 TGTTGCTACCGTGCTGTTGTTTGGTTACTGTTCGTGCTTGCCT
1 TGTTGCTACCGTGCTATTGTTTCATTACTGTTCGTGCTTGCCT
1290353 GCCTCATCCA
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 88 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (61 bp):
TGTTGCTACCGTGCTATTGTTTCATTACTGTTCGTGCTTGCCTACTCGTTAGAGCTACTAT
Found at i:1291372 original size:17 final size:17
Alignment explanation
Indices: 1291352--1291398 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
1291342 TTGTATTATT
1291352 ATTTTTTTAATTTTTT-A
1 ATTTTTTT-ATTTTTTGA
*
1291369 ATTTTTTGATTTTTTGA
1 ATTTTTTTATTTTTTGA
1291386 ATTTTTTTATTTT
1 ATTTTTTTATTTT
1291399 GTGTCGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (17 bp):
ATTTTTTTATTTTTTGA
Found at i:1291373 original size:7 final size:8
Alignment explanation
Indices: 1291354--1291398 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
1291344 GTATTATTAT
1291354 TTTTTTAA
1 TTTTTTAA
1291362 TTTTTTAA
1 TTTTTTAA
*
1291370 TTTTTTGA
1 TTTTTTAA
1291378 TTTTTTGAA
1 TTTTTT-AA
*
1291387 TTTTTTTA
1 TTTTTTAA
1291395 TTTT
1 TTTT
1291399 GTGTCGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (8 bp):
TTTTTTAA
Found at i:1291399 original size:23 final size:23
Alignment explanation
Indices: 1291329--1291399 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
1291319 CATCATCATC
* *
1291329 ATTTTTTTACTTTTTGTATTATT-
1 ATTTTTTTAATTTTTTTATT-TTG
*
1291352 ATTTTTTTAATTTTTTAATTTTTTG
1 ATTTTTTTAATTTTTT--TATTTTG
*
1291377 ATTTTTTGAATTTTTTTATTTTG
1 ATTTTTTTAATTTTTTTATTTTG
1291400 TGTCGAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
23 20 0.50
24 2 0.05
25 18 0.45
ACGTcount: A:0.18, C:0.01, G:0.06, T:0.75
Consensus pattern (23 bp):
ATTTTTTTAATTTTTTTATTTTG
Found at i:1292185 original size:62 final size:62
Alignment explanation
Indices: 1292056--1292309 Score: 241
Period size: 62 Copynumber: 4.1 Consensus size: 62
1292046 ATAAAGATAA
* * * * * **
1292056 AAAGAGTGCTAATGTGCTGATTCAAGGTCAGCGACATTGGACTT-AAAGATGCGAAGAATGAT
1 AAAG-GTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGAAAGATGAGAAGAACAAT
* * *
1292118 AAAGGTGCCAATATGCTGATTCACGACCAGCGATATTGGGCTTGAAAGATGAGAAGAACAAT
1 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGAAAGATGAGAAGAACAAT
* * * **
1292180 AAAGGTGCTAATATGCTGATTCAAGGCTAGCGATATTAGGCTTGAAAGA-AAGAAG-A-TTT
1 AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGAAAGATGAGAAGAACAAT
* * ** * * *
1292239 GAAAAGTGCTAATGTATTGATTCAAGGCCAACGATATTAGGCTT-AAAGATGAGAA-AACTGAT
1 -AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGAAAGATGAGAAGAAC-AAT
1292301 AAAGGTGCT
1 AAAGGTGCT
1292310 GTAGACACCT
Statistics
Matches: 158, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
59 6 0.04
60 43 0.27
61 45 0.28
62 64 0.41
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (62 bp):
AAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGAAAGATGAGAAGAACAAT
Found at i:1292657 original size:19 final size:19
Alignment explanation
Indices: 1292633--1292727 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
1292623 AAACAGTAAC
1292633 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1292652 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
1292665 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1292684 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
1292697 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1292716 TGTATCGCTACA
1 TGTATCGATACA
1292728 AAGCTACTGC
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 22 0.35
15 4 0.06
17 4 0.06
19 33 0.52
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1292670 original size:13 final size:13
Alignment explanation
Indices: 1292652--1292708 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1292642 ACATAAGTGT
1292652 TGTATCGATACAA
1 TGTATCGATACAA
1292665 TGTATCGATACATAA
1 TGTATCGATAC--AA
1292680 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1292697 TGTATCGATACA
1 TGTATCGATACA
1292709 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1292674 original size:32 final size:32
Alignment explanation
Indices: 1292633--1292728 Score: 183
Period size: 32 Copynumber: 3.0 Consensus size: 32
1292623 AAACAGTAAC
1292633 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1292665 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1292697 TGTATCGATACATAAGTGTTGTATCGCTACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1292729 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1292784 original size:13 final size:13
Alignment explanation
Indices: 1292766--1292791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1292756 CATTACTCAA
1292766 TGTATCGATACAT
1 TGTATCGATACAT
1292779 TGTATCGATACAT
1 TGTATCGATACAT
1292792 GGATCTTTGT
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:1296060 original size:31 final size:31
Alignment explanation
Indices: 1296021--1296689 Score: 537
Period size: 31 Copynumber: 21.3 Consensus size: 31
1296011 AGAAGGGTTA
* * *
1296021 TGTGGGCTTTAGAAGGATTGCCACTGACTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
*
1296052 TGTAGGCTTTGAGAAA-GGTTGCCACC-AGCTTG
1 TGTGGGCTTT-A-AAAGGGTTGCCACCGA-CTTG
** * *
1296084 AATGGGCTTTGAAAGGGTTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* * *
1296115 TGT-GGCTTTAAAAGGAGATGCCACCAATTTG
1 TGTGGGCTTTAAAAGG-GTTGCCACCGACTTG
* * *
1296146 TGTGGGCTTTTGAGAGGGTTGCCACTGACTTG
1 TGTGGGC-TTTAAAAGGGTTGCCACCGACTTG
* *
1296178 TGTGGGCTTTAAAAAGGGTTGCC-GCTAGCTTG
1 TGTGGGCTTT-AAAAGGGTTGCCACCGA-CTTG
* * * *
1296210 TGTGGGCTTTAGAAGGAGATGCCACCAACTTA
1 TGTGGGCTTTAAAAGG-GTTGCCACCGACTTG
* ***
1296242 TGTGGGCTTTTGAAAGGGTTGCCTTTGACTTG
1 TGTGGGC-TTTAAAAGGGTTGCCACCGACTTG
**
1296274 TGTGGGCTTTAAAAATAGTTGCCACCGACTTG
1 TGTGGGCTTT-AAAAGGGTTGCCACCGACTTG
* * *
1296306 TGTGGACTTTAGAAAAGGTTTGCCATCGACTTG
1 TGTGGGCTTT--AAAAGGGTTGCCACCGACTTG
* * * * *
1296339 TGTGGGCTTCAAAAGGGTTTCCACTGAATTA
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
** *
1296370 TGTAAGCTTCAAAAGGGTTGCCACCGACTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* * *
1296401 TGTGGACTTTAGAAAAGGTTTGCCATCGACTTG
1 TGTGGGCTTT--AAAAGGGTTGCCACCGACTTG
* * * * *
1296434 TGTGGGCTTCAAAAGGGTTTCCACTGAATTA
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
** * *
1296465 TGTAAGCTTCAAAAGGGTTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* *
1296496 TGTGGGCTTTAAAAGGG-TGTCACCGACTTA
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* *
1296526 TGTGGGCTTTAAAAGGGTTACCATC-AGCTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGA-CTTG
* * * *
1296557 TGTGGACTTTAAAAAGAG-TGCCACCAACTTA
1 TGTGGGCTTT-AAAAGGGTTGCCACCGACTTG
*
1296588 TGTGGGCTTTAAAAGGGTTGCCACCAACTTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* *
1296619 TATGGGCTTTAAAA-GGTTGCCACCGAATTG
1 TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
* ** * *
1296649 TGTAGGCTTTGACTATGG-TGCCACCAACTTG
1 TGTGGGCTTT-AAAAGGGTTGCCACCGACTTG
1296680 TGTGGGCTTT
1 TGTGGGCTTT
1296690 GCCTAGGGTG
Statistics
Matches: 502, Mismatches: 112, Indels: 48
0.76 0.17 0.07
Matches are distributed among these distances:
30 70 0.14
31 232 0.46
32 130 0.26
33 70 0.14
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (31 bp):
TGTGGGCTTTAAAAGGGTTGCCACCGACTTG
Found at i:1296406 original size:95 final size:95
Alignment explanation
Indices: 1296291--1296544 Score: 424
Period size: 95 Copynumber: 2.7 Consensus size: 95
1296281 TTTAAAAATA
1296291 GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
1 GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
1296356 TTTCCACTGAATTATGTAAGCTTCAAAAGG
66 TTTCCACTGAATTATGTAAGCTTCAAAAGG
1296386 GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
1 GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
1296451 TTTCCACTGAATTATGTAAGCTTCAAAAGG
66 TTTCCACTGAATTATGTAAGCTTCAAAAGG
* * * * * * *
1296481 GTTGCCACCAACTTGTGTGGGCTTT--AAAAGG-GTGTCACCGACTTATGTGGGCTTTAAAAGGG
1 GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
1296543 TT
66 TT
1296545 ACCATCAGCT
Statistics
Matches: 152, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
92 28 0.18
93 6 0.04
95 118 0.78
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (95 bp):
GTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGG
TTTCCACTGAATTATGTAAGCTTCAAAAGG
Found at i:1296671 original size:61 final size:60
Alignment explanation
Indices: 1296018--1296689 Score: 388
Period size: 64 Copynumber: 10.7 Consensus size: 60
1296008 CTTAGAAGGG
* * ** * *
1296018 TTATGTGGGCTTTAGAAGGATTGCCACTGACTTGTGTAGGCTTTGAGAAAGGTTGCCACC-AGC
1 TTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTT-A-AAAGG-TGCCACCGA-A
* *
1296081 TTGA-ATGGGCTTTGAAAGGGTTGCCACCAACTTGTGT-GGCTTTAAAAGGAGATGCCACC-AA
1 TT-ATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAA-G-G-TGCCACCGAA
* * * ** * *
1296142 TTTGTGTGGGCTTTTGAGAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAGGGTTGCC-GCTAG
1 -TTATGTGGGC-TTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTT-AAAA-GG-TGCCACCGA-
*
1296206 C
60 A
* * * * * *** *
1296207 TTGTGTGGGCTTTAGAAGGAGATGCCACCAACTTATGTGGGCTTTTGAAAGGGTTGCCTTTGAC
1 TTATGTGGGCTTTAAAAGG-GTTGCCACCAACTTGTGTGGGC-TTT-AAAAGG-TGCCACCGAA
* ** * * * *
1296271 TTGTGTGGGCTTTAAAAATAGTTGCCACCGACTTGTGTGGACTTTAGAAAAGGTTTGCCATCGAC
1 TTATGTGGGCTTT-AAAAGGGTTGCCACCAACTTGTGTGGGCTTT--AAAAGG--TGCCACCGAA
* * * * * ** * *
1296336 TTGTGTGGGCTTCAAAAGGGTTTCCACTGAA-TTATGTAAGCTTCAAAAGGGTTGCCACCGAC
1 TTATGTGGGCTTTAAAAGGGTTGCCAC-CAACTTGTGTGGGCTTTAAAA-GG-TGCCACCGAA
* * * * * * * *
1296398 TTGTGTGGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGCTTCAAAAGGGTTTCCACTGAA
1 TTATGTGGGCTTT--AAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAA-GG-TGCCACCGAA
** * * *
1296462 TTATGTAAGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAGGGTGTCACCGAC
1 TTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAA-GGTGCCACCGAA
* * * *
1296523 TTATGTGGGCTTTAAAAGGGTTACCATCAGCTTGTGTGGACTTTAAAAAGAGTGCCACC-AA
1 TTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTT-AAAAG-GTGCCACCGAA
*
1296584 CTTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGGTTGCCACCGAA
1 -TTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAGG-TGCCACCGAA
* * ** *
1296646 TTGTGTAGGCTTTGACTATGG-TGCCACCAACTTGTGTGGGCTTT
1 TTATGTGGGCTTT-AAAAGGGTTGCCACCAACTTGTGTGGGCTTT
1296690 GCCTAGGGTG
Statistics
Matches: 486, Mismatches: 96, Indels: 56
0.76 0.15 0.09
Matches are distributed among these distances:
60 4 0.01
61 92 0.19
62 137 0.28
63 66 0.14
64 149 0.31
65 38 0.08
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (60 bp):
TTATGTGGGCTTTAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAGGTGCCACCGAA
Found at i:1296690 original size:31 final size:31
Alignment explanation
Indices: 1296478--1296874 Score: 236
Period size: 31 Copynumber: 12.9 Consensus size: 31
1296468 AAGCTTCAAA
**
1296478 AGGGTTGCCACCAACTTGTGTGGGCTTT-AAA
1 AGGG-TGCCACCAACTTGTGTGGGCTTTGACT
* * * **
1296509 AGGGTGTCACCGACTTATGTGGGCTTT-AAA
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
* * * * * **
1296539 AGGGTTACCATCAGCTTGTGTGGACTTTAAAA
1 AGGG-TGCCACCAACTTGTGTGGGCTTTGACT
* * **
1296571 AGAGTGCCACCAACTTATGTGGGCTTT-AAA
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
* **
1296601 AGGGTTGCCACCAACTTGTATGGGCTTT-AAA
1 AGGG-TGCCACCAACTTGTGTGGGCTTTGACT
* *
1296632 AGGTTGCCACCGAA-TTGTGTAGGCTTTGACT
1 AGGGTGCCACC-AACTTGTGTGGGCTTTGACT
* *
1296663 ATGGTGCCACCAACTTGTGTGGGCTTTGCCT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
* **
1296694 AGGGTGCCGCCAACTTGTGCAGGCTTTGACT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
* ** * ** *
1296725 AGGGTACTGCCAACTCGTGCAGGCTTCGACT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
** * * ** * *
1296756 AGGGTTTCGCCAGCTCATGCGGGCTTCGACT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
** *
1296787 AGGGTGCCACCAACTTGTCCGGGCCTTGACT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGACT
* *
1296818 AGGGTGCCACCAACTTATGTGAGCTTT-AGCT
1 AGGGTGCCACCAACTTGTGTGGGCTTTGA-CT
* *
1296849 A-GATGCCACTAAC-T-TGTGGGCTTTGA
1 AGGGTGCCACCAACTTGTGTGGGCTTTGA
1296875 AAGGATGCCA
Statistics
Matches: 298, Mismatches: 60, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
28 9 0.03
29 2 0.01
30 64 0.21
31 217 0.73
32 6 0.02
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (31 bp):
AGGGTGCCACCAACTTGTGTGGGCTTTGACT
Found at i:1296709 original size:123 final size:123
Alignment explanation
Indices: 1296086--1296689 Score: 353
Period size: 123 Copynumber: 4.8 Consensus size: 123
1296076 CCAGCTTGAA
** * *
1296086 TGGGCTTTGAAAGGGTTGCCACCAACTTGTGT-GGCTTTAAAAGGAGATGCCACC-AATTTGTGT
1 TGGGCTTCAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGG-G-TGCCACCGAA-TTATGT
* * * * ** * * * * * *
1296149 GGGCTTTTGAGAGGGTTGCCACTGACTTGTGTGGGCTTTAAAAAGGGTTGCCGCTAGCTTGTG
63 AGGC-TTTAAAAGGGTTACCACCAACTTGTGTGGACTTTAAAAAGAG-TGCCACCAACTTATG
* * * * * * *** * *
1296212 TGGGCTTTAGAAGGAGATGCCACCAACTTATGTGGGCTTTTGAAAGGGTTGCCTTTGACTTGTGT
1 TGGGCTTCAAAAGG-GTTGCCACCAACTTGTATGGGC-TTTAAAAGGG-TGCCACCGAATTATGT
* ** * * * * *
1296277 GGGCTTTAAAAATAGTTGCCACCGACTTGTGTGGACTTTAGAAAAG-GTTTGCCATCGACTTGTG
63 AGGCTTT-AAAAGGGTTACCACCAACTTGTGTGGACTTTA-AAAAGAG--TGCCACCAACTTATG
* * * * * * *
1296341 TGGGCTTCAAAAGGGTTTCCACTGAATTATGTA--AGCTTCAAAAGGGTTGCCACCGACTTGTGT
1 TGGGCTTCAAAAGGGTTGCCAC-CAACT-TGTATGGGCTTTAAAAGGG-TGCCACCGAATTATGT
* * * * * * * * *
1296404 -GGACTTTAGAAAAGGTTTGCCATCGACTTGTGTGGGC-TTCAAAAGGGTTTCCACTGAA-TTAT
63 AGG-CTTT--AAAAGGGTTACCACCAACTTGTGTGGACTTTAAAAAGAG-TGCCAC-CAACTTAT
1296466 G
123 G
** * * * *
1296467 TAAGCTTCAAAAGGGTTGCCACCAACTTGTGTGGGCTTTAAAAGGGTGTCACCGACTTATGTGGG
1 TGGGCTTCAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGGGTGCCACCGAATTATGTAGG
* *
1296532 CTTTAAAAGGGTTACCATCAGCTTGTGTGGACTTTAAAAAGAGTGCCACCAACTTATG
66 CTTTAAAAGGGTTACCACCAACTTGTGTGGACTTTAAAAAGAGTGCCACCAACTTATG
* * *
1296590 TGGGCTTTAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGGTTGCCACCGAATTGTGTAGG
1 TGGGCTTCAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGGGTGCCACCGAATTATGTAGG
** * * *
1296655 CTTTGACTATGG-TGCCACCAACTTGTGTGGGCTTT
66 CTTT-AAAAGGGTTACCACCAACTTGTGTGGACTTT
1296690 GCCTAGGGTG
Statistics
Matches: 377, Mismatches: 82, Indels: 41
0.75 0.16 0.08
Matches are distributed among these distances:
122 2 0.01
123 112 0.30
124 15 0.04
125 21 0.06
126 60 0.16
127 49 0.13
128 76 0.20
129 40 0.11
130 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (123 bp):
TGGGCTTCAAAAGGGTTGCCACCAACTTGTATGGGCTTTAAAAGGGTGCCACCGAATTATGTAGG
CTTTAAAAGGGTTACCACCAACTTGTGTGGACTTTAAAAAGAGTGCCACCAACTTATG
Found at i:1296918 original size:56 final size:56
Alignment explanation
Indices: 1296852--1298073 Score: 1204
Period size: 56 Copynumber: 22.0 Consensus size: 56
1296842 TTTAGCTAGA
* *
1296852 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTTACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
** * * * * *
1296908 TGGTACTAACTCGTGGGC-TTGAAAAGGGTGCCACTAACTCATGGGTTTTGAAAGAG
1 TGCCACTAACTCGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * ** **
1296964 TACCACTGACTCGTGAGCTTTGAAAGGATGGCACCAACTTATGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
** * * * * * *
1297020 TGCCACCGACTCGTGAGCTTTGAAAGGGTACCACTGACTCGTGGGCTTGGAGATGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* *
1297076 TGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * *
1297132 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCTACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * * * *
1297188 TGCCACTGACTCGTGGGTTTTGAAAGGATGCCACTCACTTGTAGGTTTTGAAAAGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * *
1297244 TACCACTAAC-CTGGGGGCTTTGAAAAGG-TGCCACTGACTCGTAGGCTTTGAAAAGA
1 TGCCACTAACTC-GTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * ** *
1297300 TGCCACTAACTCATGGGCTTCGAAAGGGTGCCACTAACTTTTGGGCTTTCAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* *
1297356 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAA---
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * *
1297408 ----A--AGA-T-GCGAGCTTTGAAAGGATGCCACTGACTCGTGGGTTTTGAAAGGA
1 TGCCACTA-ACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * *
1297457 TGCCACTGACTCGTGGGTTTTGAAAGGGTGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* ** * * * * *
1297513 TGCCACTATCTTATGGGCTTTGAAAGGGTGCCACCGGCTTGTGGGTTTTGGAAA-GG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTT-GAAAGGG
* *
1297569 TGCCACTAACTCATAGGCTTTGAAAAGG-TGCCACTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * *
1297625 TGCCACTGACTCGTTGGCTTTCAAAGGGTGCCACTGACTCGTGGGCTTTCAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * ** *
1297681 TGCCACTGACTTGTGGGCTTTGAAAATATGCCACTGACTCGTGGGCTTTGAAAAGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * * * *
1297737 TGCCACTGACTAGTGGGCTTTGAAA-GAGTGCCATTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGC-TTTGAAAGGG
** * * * * * * *
1297794 TGCCACTGCCTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGAGGGCTTTAAAAAGA
1 TGCCACTAACTCGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* *
1297850 TGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
** * * * * * *
1297906 TGCCACTAACTTATGGGTTTTTAAAAGTATGCCACTGCCTCATGGGCTTTGAAAAGG
1 TGCCACTAACTCGTGGG-CTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * **
1297963 TGCCACTAACTCATGGGCTTTGAAAGGGTGCCACTGACTCGTGGGCTTTGAAATTG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
* * * *
1298019 TGCCACTAACTCATGCGCTTTGAAAGGATGCCACTCACTCATGGGCTTTGAAAGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGG
1298074 AGGAAAAGGA
Statistics
Matches: 976, Mismatches: 161, Indels: 58
0.82 0.13 0.05
Matches are distributed among these distances:
45 33 0.03
46 5 0.01
47 1 0.00
48 1 0.00
53 1 0.00
54 1 0.00
55 27 0.03
56 793 0.81
57 110 0.11
58 3 0.00
59 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (56 bp):
TGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGG
Found at i:1296958 original size:84 final size:84
Alignment explanation
Indices: 1296852--1298073 Score: 1283
Period size: 84 Copynumber: 14.7 Consensus size: 84
1296842 TTTAGCTAGA
* * * **
1296852 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTTACTCGTGGGCTTTGAAAGGGTGGTACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
1296917 CTCGTGGGC-TTGAAAAGGG
66 CTCGTGGGCTTTG-AAAGGG
* * * * * * * *
1296936 TGCCACTAACTCATGGGTTTTGAAA-GAGTACCACTGACTCGTGAGCTTTGAAAGGATGGCACCA
1 TGCCACTGACTCGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTA
**
1297000 ACTTATGGGCTTTGAAAGGG
65 ACTCGTGGGCTTTGAAAGGG
* * * * * * *
1297020 TGCCACCGACTCGTGAGCTTTGAAAGGGTACCACTGACTCGTGGGCTTGGAGATGGTGCCACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
1297085 CTCGTGGGCTTTGAAAGGG
66 CTCGTGGGCTTTGAAAGGG
* * * * *
1297104 TGCCACTAACTCGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCTACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
1297169 CTCGTGGGCTTTGAAAGGG
66 CTCGTGGGCTTTGAAAGGG
* * * * * * *
1297188 TGCCACTGACTCGTGGGTTTTGAAAGGATGCCACTCACTTGTAGGTTTTGAAAAGGTACCACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
* *
1297253 C-CTGGGGGCTTTGAAAAGG
66 CTC-GTGGGCTTTGAAAGGG
* * * * *
1297272 TGCCACTGACTCGTAGGCTTTGAAAAGATGCCACTAACTCATGGGCTTCGAAAGGGTGCCACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
** *
1297337 CTTTTGGGCTTTCAAAGGG
66 CTCGTGGGCTTTGAAAGGG
* * *
1297356 TGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-AAA-------A--AG
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTA-
* * *
1297411 A-T-GCGAGCTTTGAAAGGA
65 ACTCGTGGGCTTTGAAAGGG
* *
1297429 TGCCACTGACTCGTGGGTTTTGAAAGGATGCCACTGACTCGTGGGTTTTGAAAGGGTGCCACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
1297494 CTCGTGGGCTTTGAAAGGG
66 CTCGTGGGCTTTGAAAGGG
** * * * * *
1297513 TGCCACT-ATCTTATGGGCTTTGAAAGGGTGCCACCGGCTTGTGGGTTTTGGAAA-GGTGCCACT
1 TGCCACTGA-CTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTT-GAAAGGGTGCCACT
* * *
1297576 AACTCATAGGCTTTGAAAAGG
64 AACTCGTGGGCTTTGAAAGGG
* * * *
1297597 TGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTGACTCGTTGGCTTTCAAAGGGTGCCACTGA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
*
1297662 CTCGTGGGCTTTCAAAGGG
66 CTCGTGGGCTTTGAAAGGG
* ** * *
1297681 TGCCACTGACTTGTGGGCTTTGAAAATATGCCACTGACTCGTGGGCTTTGAAAAGGTGCCACTGA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
* *
1297746 CTAGTGGGCTTTGAAAGAG
66 CTCGTGGGCTTTGAAAGGG
* * * * * *
1297765 TGCCATTGACTTGTGGGCTTTTGAAAAGATGCCACTGCCTTGTGGGCTTTGAAAAGGTGCCACTA
1 TGCCACTGACTCGTGGGC-TTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTA
* * * * *
1297830 ACTTGAGGGCTTTAAAAAGA
65 ACTCGTGGGCTTTGAAAGGG
* * *
1297850 TGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
** * * **
1297915 CTTATGGGTTTTTAAAAGTA
66 CTCGTGGG-CTTTGAAAGGG
* * * * *
1297935 TGCCACTGCCTCATGGGCTTTGAAAAGG-TGCCACTAACTCATGGGCTTTGAAAGGGTGCCACTG
1 TGCCACTGACTCGTGGGCTTTG-AAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTA
**
1297999 ACTCGTGGGCTTTGAAATTG
65 ACTCGTGGGCTTTGAAAGGG
* * * * *
1298019 TGCCACTAACTCATGCGCTTTGAAAGGATGCCACTCACTCATGGGCTTTGAAAGG
1 TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGG
1298074 AGGAAAAGGA
Statistics
Matches: 956, Mismatches: 156, Indels: 52
0.82 0.13 0.04
Matches are distributed among these distances:
73 55 0.06
74 5 0.01
75 1 0.00
76 1 0.00
81 1 0.00
82 1 0.00
83 17 0.02
84 724 0.76
85 147 0.15
86 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (84 bp):
TGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTAA
CTCGTGGGCTTTGAAAGGG
Found at i:1297414 original size:28 final size:28
Alignment explanation
Indices: 1296852--1297404 Score: 624
Period size: 28 Copynumber: 19.8 Consensus size: 28
1296842 TTTAGCTAGA
* *
1296852 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
*
1296880 TGCCACTTACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
**
1296908 TGGTACTAACTCGTGGGC-TTGAAAAGGG
1 TGCCACTAACTCGTGGGCTTTG-AAAGGG
* * *
1296936 TGCCACTAACTCATGGGTTTTGAAAGAG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * * *
1296964 TACCACTGACTCGTGAGCTTTGAAAGGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * **
1296992 TGGCACCAACTTATGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
** *
1297020 TGCCACCGACTCGTGAGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * * * *
1297048 TACCACTGACTCGTGGGCTTGGAGATGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
1297076 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
1297104 TGCCACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
*
1297132 TGCCACTAACTTGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
*
1297160 TGCTACTAACTCGTGGGCTTTGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * *
1297188 TGCCACTGACTCGTGGGTTTTGAAAGGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * * * *
1297216 TGCCACTCACTTGTAGGTTTTGAAAAGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* * *
1297244 TACCACTAAC-CTGGGGGCTTTGAAAAGG
1 TGCCACTAACTC-GTGGGCTTTGAAAGGG
* * * *
1297272 TGCCACTGACTCGTAGGCTTTGAAAAGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* *
1297300 TGCCACTAACTCATGGGCTTCGAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
** *
1297328 TGCCACTAACTTTTGGGCTTTCAAAGGG
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* *
1297356 TGCCACTAACTTGTGGGCTTTGAAAGGA
1 TGCCACTAACTCGTGGGCTTTGAAAGGG
* *
1297384 TGCCACTGACTTGTGGGCTTT
1 TGCCACTAACTCGTGGGCTTT
1297405 AAAAAGATGC
Statistics
Matches: 442, Mismatches: 79, Indels: 8
0.84 0.15 0.02
Matches are distributed among these distances:
27 3 0.01
28 435 0.98
29 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (28 bp):
TGCCACTAACTCGTGGGCTTTGAAAGGG
Found at i:1297436 original size:45 final size:45
Alignment explanation
Indices: 1297372--1297459 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
1297362 TAACTTGTGG
*
1297372 GCTTTGAAAGGATGCCACTGACTTGTGGGCTTTAAAAAGATGCGA
1 GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAAGATGCGA
* * *
1297417 GCTTTGAAAGGATGCCACTGACTCGTGGGTTTTGAAAGGATGC
1 GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAAGATGC
1297460 CACTGACTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (45 bp):
GCTTTGAAAGGATGCCACTGACTCGTGGGCTTTAAAAAGATGCGA
Found at i:1297459 original size:28 final size:28
Alignment explanation
Indices: 1297417--1298074 Score: 666
Period size: 28 Copynumber: 23.4 Consensus size: 28
1297407 AAAGATGCGA
1297417 GCTTTGAAAGGATGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
*
1297445 GTTTTGAAAGGATGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * *
1297473 GTTTTGAAAGGGTGCCACTAACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* **
1297501 GCTTTGAAAGGGTGCCACT-ATCTTATGG
1 GCTTTGAAAGGATGCCACTGA-CTCGTGG
* * * *
1297529 GCTTTGAAAGGGTGCCACCGGCTTGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * * *
1297557 GTTTTGGAAAGG-TGCCACTAACTCATAG
1 GCTTT-GAAAGGATGCCACTGACTCGTGG
1297585 GCTTTGAAAAGG-TGCCACTGACTCGTGG
1 GCTTTG-AAAGGATGCCACTGACTCGTGG
* *
1297613 GCTTTGAAAGGGTGCCACTGACTCGTTG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* *
1297641 GCTTTCAAAGGGTGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * *
1297669 GCTTTCAAAGGGTGCCACTGACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
**
1297697 GCTTTGAAAATATGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
*
1297725 GCTTTGAAAAGG-TGCCACTGACTAGTGG
1 GCTTTG-AAAGGATGCCACTGACTCGTGG
* *
1297753 GCTTTGAAA-GAGTGCCATTGACTTGTGG
1 GCTTTGAAAGGA-TGCCACTGACTCGTGG
* * *
1297781 GCTTTTGAAAAGATGCCACTGCCTTGTGG
1 GC-TTTGAAAGGATGCCACTGACTCGTGG
* * *
1297810 GCTTTGAAAAGG-TGCCACTAACTTGAGG
1 GCTTTG-AAAGGATGCCACTGACTCGTGG
* * * *
1297838 GCTTTAAAAAGATGCCACTAACTTGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
*
1297866 GCTTTGAAAAGATGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * **
1297894 GCTTTGAAAGGGTGCCACTAACTTATGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * * * *
1297922 GTTTTTAAAAGTATGCCACTGCCTCATGG
1 G-CTTTGAAAGGATGCCACTGACTCGTGG
* *
1297951 GCTTTGAAAAGG-TGCCACTAACTCATGG
1 GCTTTG-AAAGGATGCCACTGACTCGTGG
*
1297979 GCTTTGAAAGGGTGCCACTGACTCGTGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
* * * *
1298007 GCTTTGAAATTG-TGCCACTAACTCATGC
1 GCTTTGAAA-GGATGCCACTGACTCGTGG
* *
1298035 GCTTTGAAAGGATGCCACTCACTCATGG
1 GCTTTGAAAGGATGCCACTGACTCGTGG
1298063 GCTTTGAAAGGA
1 GCTTTGAAAGGA
1298075 GGAAAAGGAT
Statistics
Matches: 541, Mismatches: 72, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.00
27 20 0.04
28 456 0.84
29 62 0.11
30 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (28 bp):
GCTTTGAAAGGATGCCACTGACTCGTGG
Found at i:1299277 original size:23 final size:25
Alignment explanation
Indices: 1299237--1299296 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 25
1299227 GCATTCATGT
1299237 CCTTGTTTTTTTAAATTTTG-TTGTT-C
1 CCTT-TTTTTTT-AATTTTGCTT-TTGC
1299263 CCTTTTTTTTT-ATTTTGCTTTTGC
1 CCTTTTTTTTTAATTTTGCTTTTGC
*
1299287 ACTTTTTTTT
1 CCTTTTTTTT
1299297 GTTTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 8 0.26
24 12 0.39
25 7 0.23
26 4 0.13
ACGTcount: A:0.08, C:0.13, G:0.08, T:0.70
Consensus pattern (25 bp):
CCTTTTTTTTTAATTTTGCTTTTGC
Found at i:1299291 original size:24 final size:24
Alignment explanation
Indices: 1299264--1299348 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
1299254 TTGTTGTTCC
1299264 CTTTTTTTTTATTTTGCTTTTGCA
1 CTTTTTTTTTATTTTGCTTTTGCA
1299288 CTTTTTTTTGT-TTTT-CTTTT-CA
1 CTTTTTTTT-TATTTTGCTTTTGCA
* **
1299310 -TTTTTTGTGCTTTTGCTTTTG-A
1 CTTTTTTTTTATTTTGCTTTTGCA
*
1299332 CTTTTTTTGTCATTTTG
1 CTTTTTTT-TTATTTTG
1299349 AAAGGAACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 11 0.22
22 8 0.16
23 11 0.22
24 19 0.38
25 1 0.02
ACGTcount: A:0.06, C:0.12, G:0.11, T:0.72
Consensus pattern (24 bp):
CTTTTTTTTTATTTTGCTTTTGCA
Found at i:1299301 original size:23 final size:23
Alignment explanation
Indices: 1299266--1299339 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
1299256 GTTGTTCCCT
*
1299266 TTTTTTTTATTTTGCTTTTGCAC
1 TTTTTTTTGTTTTGCTTTTGCAC
*
1299289 TTTTTTTTGTTTTTCTTTT-CA-
1 TTTTTTTTGTTTTGCTTTTGCAC
*
1299310 TTTTTTGTGCTTTTGCTTTTG-AC
1 TTTTTTTTG-TTTTGCTTTTGCAC
1299333 TTTTTTT
1 TTTTTTT
1299340 GTCATTTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.19
22 12 0.28
23 23 0.53
ACGTcount: A:0.05, C:0.11, G:0.09, T:0.74
Consensus pattern (23 bp):
TTTTTTTTGTTTTGCTTTTGCAC
Found at i:1304848 original size:56 final size:56
Alignment explanation
Indices: 1304776--1304890 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
1304766 AGCAGCTTCC
1304776 AACTAAAACTGATTGCTTTCTTCTCCTCATTGTCATGCTTATTTGCTAAATTGGAG
1 AACTAAAACTGATTGCTTTCTTCTCCTCATTGTCATGCTTATTTGCTAAATTGGAG
1304832 AACTAAAACTGATTGCTTTCTTCTCCTCATTGTCATGCTTATTTGCTAAATTGGAG
1 AACTAAAACTGATTGCTTTCTTCTCCTCATTGTCATGCTTATTTGCTAAATTGGAG
1304888 AAC
1 AAC
1304891 CTTCCTTGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (56 bp):
AACTAAAACTGATTGCTTTCTTCTCCTCATTGTCATGCTTATTTGCTAAATTGGAG
Found at i:1305548 original size:17 final size:17
Alignment explanation
Indices: 1305528--1305583 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
1305518 TTTTTTTATT
*
1305528 ATTTTTTTAATTTTTTG
1 ATTTTTATAATTTTTTG
1305545 ATTTTTGA-AATTTTTTG
1 ATTTTT-ATAATTTTTTG
* *
1305562 ATTTTTATACTTTTTTT
1 ATTTTTATAATTTTTTG
1305579 ATTTT
1 ATTTT
1305584 GTGTCGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.03
17 33 0.97
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (17 bp):
ATTTTTATAATTTTTTG
Found at i:1306141 original size:59 final size:58
Alignment explanation
Indices: 1306038--1306163 Score: 153
Period size: 59 Copynumber: 2.2 Consensus size: 58
1306028 GTCCATTTAA
* * * * *
1306038 GTTATTTTACATAGTCTAGGCCATTTTAGTATTTTTCAAGCATTTTAAGGCTATCTAG
1 GTTATTTTACAAAATCTAGGCCATTTAAGTAATTTTCAAGCATTTTAAAGCTATCTAG
* * * *
1306096 GTTATTTTACAAAATCTAGGATCATTTAAGTAATTTTCATGCATTTTAAAGTTATGTAG
1 GTTATTTTACAAAATCTAGG-CCATTTAAGTAATTTTCAAGCATTTTAAAGCTATCTAG
*
1306155 GTCATTTTA
1 GTTATTTTA
1306164 GAATTTTCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
58 18 0.32
59 39 0.68
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.45
Consensus pattern (58 bp):
GTTATTTTACAAAATCTAGGCCATTTAAGTAATTTTCAAGCATTTTAAAGCTATCTAG
Found at i:1306438 original size:79 final size:79
Alignment explanation
Indices: 1306308--1306595 Score: 317
Period size: 79 Copynumber: 3.6 Consensus size: 79
1306298 GAGCATCTTG
** * * *
1306308 GTATTTTCATATTGAGACATATGCATTAAGGCCATTTTAATGAGTTTCATGAGAAATCCGAGTCT
1 GTATTTTCATATCAAGACATATGCATTAAGGTCATTTTAGTGAGTTTCATGAGAAATTCGAGTCT
* * *
1306373 TTAAAAGTATATTG
66 TTAGAAGAATATTA
* * * * *
1306387 GTATTTTCATATAAAGACATGTGTATTAAGGTCGTTTTAGTGA-TTTCCATGAAAAATTCGAGTC
1 GTATTTTCATATCAAGACATATGCATTAAGGTCATTTTAGTGAGTTT-CATGAGAAATTCGAGTC
* * *
1306451 GTTAGAAGCATACTA
65 TTTAGAAGAATATTA
* * * * * * *
1306466 GTATTTTCATATCAAGAAATGTTCATTAAGGACATTTTAGTAAGTTTAATGAGAAATTCGAGTTT
1 GTATTTTCATATCAAGACATATGCATTAAGGTCATTTTAGTGAGTTTCATGAGAAATTCGAGTCT
*
1306531 TTAGGAGAATATTA
66 TTAGAAGAATATTA
* * *
1306545 GTATTTTCACATCAAGACGTATGCATTAAGGTTATTTTAGTGAGTTTCATG
1 GTATTTTCATATCAAGACATATGCATTAAGGTCATTTTAGTGAGTTTCATG
1306596 TTAAACCCAA
Statistics
Matches: 170, Mismatches: 37, Indels: 4
0.81 0.18 0.02
Matches are distributed among these distances:
78 3 0.02
79 164 0.96
80 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (79 bp):
GTATTTTCATATCAAGACATATGCATTAAGGTCATTTTAGTGAGTTTCATGAGAAATTCGAGTCT
TTAGAAGAATATTA
Found at i:1307091 original size:19 final size:18
Alignment explanation
Indices: 1307066--1307162 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
1307056 ATTTCAACGA
1307066 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1307084 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1307100 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1307116 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1307132 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1307148 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1307163 ATGTACAGTT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 35 0.53
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1307104 original size:32 final size:32
Alignment explanation
Indices: 1307068--1307167 Score: 191
Period size: 32 Copynumber: 3.1 Consensus size: 32
1307058 TTCAACGATT
1307068 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1307100 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1307132 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1307164 TGTA
1 TGTA
1307168 CAGTTACGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1307105 original size:13 final size:13
Alignment explanation
Indices: 1307087--1307143 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1307077 ACATAAGTGT
1307087 TGTATCGATACAA
1 TGTATCGATACAA
1307100 TGTATCGATACATAA
1 TGTATCGATAC--AA
1307115 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1307132 TGTATCGATACA
1 TGTATCGATACA
1307144 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1307233 original size:13 final size:13
Alignment explanation
Indices: 1307215--1307240 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1307205 ATCACTCAAA
1307215 TGTATCGATACAT
1 TGTATCGATACAT
1307228 TGTATCGATACAT
1 TGTATCGATACAT
1307241 GCAGGCAAAT
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:1307306 original size:52 final size:52
Alignment explanation
Indices: 1307228--1307356 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1307218 ATCGATACAT
*
1307228 TGTATCGATACATGCAGGCAAATTTGCTCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* *
1307280 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1307332 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1307357 TTATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1310671 original size:20 final size:19
Alignment explanation
Indices: 1310633--1310671 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1310623 GATAATTTCA
* *
1310633 AAATACTATAATTATAATT
1 AAATACTAAAATTAAAATT
1310652 AAATACTGAAAATTAAAATT
1 AAATACT-AAAATTAAAATT
1310672 GACTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (19 bp):
AAATACTAAAATTAAAATT
Found at i:1312678 original size:18 final size:19
Alignment explanation
Indices: 1312633--1312685 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
1312623 AGTCATTAAA
* *
1312633 ATAAGTTAATAATTTATATT
1 ATAA-TTAATTATTTTTATT
1312653 ATAA-TAATTATTTTTATT
1 ATAATTAATTATTTTTATT
1312671 A-AATTAA-TATTTTTA
1 ATAATTAATTATTTTTA
1312686 AAATAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.33
18 16 0.53
20 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATAATTAATTATTTTTATT
Found at i:1312844 original size:2 final size:2
Alignment explanation
Indices: 1312839--1312897 Score: 109
Period size: 2 Copynumber: 29.0 Consensus size: 2
1312829 TTTTTTATCC
1312839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1312881 AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT A-T AT AT
1312898 TTTTGTAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 54 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1314522 original size:2 final size:2
Alignment explanation
Indices: 1314515--1314553 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1314505 GATATCTAGG
1314515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1314554 CATGCCATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1319172 original size:161 final size:162
Alignment explanation
Indices: 1318773--1319180 Score: 556
Period size: 164 Copynumber: 2.5 Consensus size: 162
1318763 CAGAAGCCTG
* * *
1318773 AAAAGATATA-AAAAGTTTTTTGAAATCTTTTATACCCGTACGAATGCCCATAAGAATATAAAAG
1 AAAAGA-ATACAAAAGATTTTTGAAATCTTTTATACCCTTACG-ATGCCCATAGGAATATAAAAG
*** *
1318837 ATTAGAAAAAATAAATATTAGAATTTATCTCAATAATATTGATTTAATTTAATTTTATTTATGTT
64 ATTAGAAAAAATAAATATTAGAATTTATCTCAATAATACCAATTTAAGTTAATTTTATTTATGTT
* *
1318902 TGAAAAAATACTATTTCATACCTTAATGGAAGACC
129 TG-AAAAATACGATTTCATACCCTAATGGAAGACC
* * *
1318937 GAAAGAATACAAAAGGTTTTTGAAATCTTTTATACTCTTACGGATGCCCATAGGAATATAAAAGA
1 AAAAGAATACAAAAGATTTTTGAAATCTTTTATACCCTTAC-GATGCCCATAGGAATATAAAAGA
*
1319002 TTAGAAAAAATAAATATTAGAATTTATC-CTAATAATACCAATTTAAGTTAATTTTATTTATTTT
65 TTAGAAAAAATAAATATTAGAATTTATCTC-AATAATACCAATTTAAGTTAATTTTATTTATGTT
** *
1319066 TG-AAAATA-GATTTTGTACCCTAATGGAAGCCC
129 TGAAAAATACGATTTCATACCCTAATGGAAGACC
* *
1319098 AAAAGAATACGAAAA-ATTTTTGAAAACTTTTATACCCTTATTGATGCCCATAGGAATATAAAAG
1 AAAAGAATAC-AAAAGATTTTTGAAATCTTTTATACCCTTA-CGATGCCCATAGGAATATAAAAG
1319162 ATTAGAAAAAATAAATATT
64 ATTAGAAAAAATAAATATT
1319181 GTTTAATTTT
Statistics
Matches: 219, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
161 91 0.42
162 10 0.05
163 4 0.02
164 113 0.52
165 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (162 bp):
AAAAGAATACAAAAGATTTTTGAAATCTTTTATACCCTTACGATGCCCATAGGAATATAAAAGAT
TAGAAAAAATAAATATTAGAATTTATCTCAATAATACCAATTTAAGTTAATTTTATTTATGTTTG
AAAAATACGATTTCATACCCTAATGGAAGACC
Found at i:1319963 original size:22 final size:22
Alignment explanation
Indices: 1319935--1319978 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1319925 CAAGCCTAAA
1319935 TATCTACACATCCATTCATCAC
1 TATCTACACATCCATTCATCAC
1319957 TATCTACACATCCATTCATCAC
1 TATCTACACATCCATTCATCAC
1319979 ACCATCAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (22 bp):
TATCTACACATCCATTCATCAC
Found at i:1320168 original size:18 final size:18
Alignment explanation
Indices: 1320147--1320185 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1320137 CTTCTATTTT
*
1320147 TCTCTTTTTTTC-TCTCTC
1 TCTCCTTTTTTCATCTC-C
1320165 TCTCCTTTTTTCATCTCC
1 TCTCCTTTTTTCATCTCC
1320183 TCT
1 TCT
1320186 TTCATCTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTCCTTTTTTCATCTCC
Found at i:1320475 original size:4 final size:4
Alignment explanation
Indices: 1320468--1320505 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
1320458 GATGAATGAC
1320468 TAAA TAAAA TAAA TAAA TAAA TAAAA TAAA TAAA -AAA T
1 TAAA T-AAA TAAA TAAA TAAA T-AAA TAAA TAAA TAAA T
1320506 GCTGAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
4 20 0.65
5 8 0.26
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:1320482 original size:9 final size:9
Alignment explanation
Indices: 1320468--1320502 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
1320458 GATGAATGAC
1320468 TAAATAAAA
1 TAAATAAAA
1320477 TAAAT-AAA
1 TAAATAAAA
1320485 TAAATAAAA
1 TAAATAAAA
1320494 TAAATAAAA
1 TAAATAAAA
1320503 AATGCTGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TAAATAAAA
Found at i:1320490 original size:17 final size:17
Alignment explanation
Indices: 1320468--1320505 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
1320458 GATGAATGAC
1320468 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
1320485 TAAATAAAATAAATAAA
1 TAAATAAAATAAATAAA
1320502 -AAAT
1 TAAAT
1320506 GCTGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAATAAATAAA
Found at i:1321188 original size:164 final size:163
Alignment explanation
Indices: 1320630--1321190 Score: 598
Period size: 163 Copynumber: 3.4 Consensus size: 163
1320620 CTATATACAA
* * * * ** * * *
1320630 AAAAATTCAAAATTAAT-GAAATAAATTAAAATTTTCAAAACTGAATTAATGAGAGTTTAATGAC
1 AAAAATTCAAAATTTATGGAAATAAA-TGAATTTTTCAAAACTGAATTAATAAGAAATAAATAAT
* * *** * * * * * **
1320694 AATATTAGATAAATTTT-AAAATTTTAAATCGAGAAAAATTCTTTCGAAAAAATTTATAGAGTAG
65 AATATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCTT-GAAAAAAATTACGGAGTAG
* * *
1320758 AAAACT-CGATTTTTCAAAGAAAAG-GGATTTCAAGG
129 AAAACTCCG-TATTTCAAAAAAAAGAGAATTTCAA-G
* * * *
1320793 AAAAATTCAAAATTCATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATA
1 AAAAATTCAAAATTTATGGAAATAAATGAATTTTTCAAAACTGAATTAATAAGAAATAAATAATA
* *
1320858 ATATTTGATGAATTTTAAAAATAAAAAACCAA-AAAAATCCCTCGAAAAAAATTACGGAGTAAAA
66 ATATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCTTGAAAAAAATTACGGAGT-AGA
* *
1320922 AAACTCCATATTTCGAAAAAAA-AGAATTTCAAGG
130 AAACTCCGTATTTCAAAAAAAAGAGAATTTCAA-G
* * * *
1320956 AAAAATTCAAAATTTATGGAAATGAATGAATTTTTCAAAACTGATTTGATATGAAATAAATAATA
1 AAAAATTCAAAATTTATGGAAATAAATGAATTTTTCAAAACTGAATTAATAAGAAATAAATAATA
*
1321021 ATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCTTGAAAAAAATTACGGAGTAGA
66 ATATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAAT-CCCTTGAAAAAAATTACGGAGTAGA
1321086 AAACTCCGTATTTCAAAAAAAAGAGAATTTCAA-
130 AAACTCCGTATTTCAAAAAAAAGAGAATTTCAAG
* * * * * *
1321119 AAAAATTCAAAAATTTATGAAAATAAAT-AAGTTTTTTAGAACTGATTTAATAAGAATTAAATGA
1 AAAAATTC-AAAATTTATGGAAATAAATGAA-TTTTTCAAAACTGAATTAATAAGAAATAAATAA
1321183 TAATATTT
64 TAATATTT
1321191 AAGAAATTTT
Statistics
Matches: 340, Mismatches: 48, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
162 14 0.04
163 197 0.58
164 98 0.29
165 31 0.09
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (163 bp):
AAAAATTCAAAATTTATGGAAATAAATGAATTTTTCAAAACTGAATTAATAAGAAATAAATAATA
ATATTTGATGAATTTTAAAAATAAAAAACCAAGAAAAATCCCTTGAAAAAAATTACGGAGTAGAA
AACTCCGTATTTCAAAAAAAAGAGAATTTCAAG
Found at i:1321202 original size:164 final size:162
Alignment explanation
Indices: 1320737--1321190 Score: 603
Period size: 163 Copynumber: 2.8 Consensus size: 162
1320727 AAAAATTCTT
* ** * * *
1320737 TCGAAAAAATTTATAGAGTAGAAAACT-CGATTTTTCAAAGAAAAG-GGATTTCAAGGAAAAATT
1 TCGAAAAAAATTACGGAGTAGAAAACTCCG-TATTTCAAAAAAAAGAGAATTTCAA-GAAAAATT
* * *
1320800 CAAAATTCATGGAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAATAATATTTG
64 CAAAATTTATGGAAATGAATGAATTTTTCAAAACTGATTTAATATGAAATAAATAATAATATTTG
1320865 ATGAATTTTAAAAATAAAAAACCAAAAAAATCCC
129 ATGAATTTTAAAAATAAAAAACCAAAAAAATCCC
* * *
1320899 TCGAAAAAAATTACGGAGTAAAAAAACTCCATATTTCGAAAAAAA-AGAATTTCAAGGAAAAATT
1 TCGAAAAAAATTACGGAGT-AGAAAACTCCGTATTTCAAAAAAAAGAGAATTTCAA-GAAAAATT
*
1320963 CAAAATTTATGGAAATGAATGAATTTTTCAAAACTGATTTGATATGAAATAAATAATAATATTTG
64 CAAAATTTATGGAAATGAATGAATTTTTCAAAACTGATTTAATATGAAATAAATAATAATATTTG
*
1321028 ATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCC
129 ATGAATTTTAAAAATAAAAAACCAA-AAAAAT-CCC
*
1321064 TTGAAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGAGAATTTCAA-AAAAATTCA
1 TCGAAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGAGAATTTCAAGAAAAATTC-
* * * * * * *
1321128 AAAATTTATGAAAATAAAT-AAGTTTTTTAGAACTGATTTAATAAGAATTAAATGATAATATTT
65 AAAATTTATGGAAATGAATGAA-TTTTTCAAAACTGATTTAATATGAAATAAATAATAATATTT
1321191 AAGAAATTTT
Statistics
Matches: 258, Mismatches: 26, Indels: 14
0.87 0.09 0.05
Matches are distributed among these distances:
162 16 0.06
163 130 0.50
164 81 0.31
165 31 0.12
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (162 bp):
TCGAAAAAAATTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGAGAATTTCAAGAAAAATTCA
AAATTTATGGAAATGAATGAATTTTTCAAAACTGATTTAATATGAAATAAATAATAATATTTGAT
GAATTTTAAAAATAAAAAACCAAAAAAATCCC
Found at i:1322270 original size:43 final size:43
Alignment explanation
Indices: 1322141--1322283 Score: 128
Period size: 43 Copynumber: 3.3 Consensus size: 43
1322131 TTGACCAGGA
* *
1322141 ACTAAGCTGACAGGTCACCGAGGGGATAAGAGTTTTACCGGGG
1 ACTAAGCCGACAGGTCACCGAGGGGATAAGAGATTTACCGGGG
* * * * * * ** *
1322184 ACCAAGCCAATAGGTAAAC-AAGGGATGAAG-GATTGCCCAGGG
1 ACTAAGCCGACAGGTCACCGAGGGGAT-AAGAGATTTACCGGGG
* *
1322226 ACTAAGCCGACAAGTCACCGAGGGGATAAGAGGTTTACCGGGG
1 ACTAAGCCGACAGGTCACCGAGGGGATAAGAGATTTACCGGGG
**
1322269 ACTAAGTTGACAGGT
1 ACTAAGCCGACAGGT
1322284 AAACAACAGA
Statistics
Matches: 72, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
42 30 0.42
43 42 0.58
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (43 bp):
ACTAAGCCGACAGGTCACCGAGGGGATAAGAGATTTACCGGGG
Found at i:1322284 original size:85 final size:85
Alignment explanation
Indices: 1322076--1322373 Score: 269
Period size: 85 Copynumber: 3.5 Consensus size: 85
1322066 ATTCAACAAA
* * * * * * *
1322076 GGATAAAGAGGATTTACCTGGAACTAAGTCGATGGGTAAACACGGGGATGAA-AAGTTGACCAGG
1 GGAT-AAGAGG-TTTACCGGGGACTAAGCCGATAGGTAAACA-AGGGATGAAGGA-TTGCCCAGG
* *
1322140 AACTAAGCTGACAGGTCACCGAGG
62 GACTAAGCTGACAAGTCACCGAGG
* * *
1322164 GGATAAGAGTTTTACCGGGGACCAAGCCAATAGGTAAACAAGGGATGAAGGATTGCCCAGGGACT
1 GGATAAGAGGTTTACCGGGGACTAAGCCGATAGGTAAACAAGGGATGAAGGATTGCCCAGGGACT
*
1322229 AAGCCGACAAGTCACCGAGG
66 AAGCTGACAAGTCACCGAGG
** * ** * * *
1322249 GGATAAGAGGTTTACCGGGGACTAAGTTGACAGGTAAACAACAGATAAAGGGTTGCTC-GAGGAC
1 GGATAAGAGGTTTACCGGGGACTAAGCCGATAGGTAAACAAGGGATGAAGGATTGCCCAG-GGAC
** *
1322313 TAATTTGACAAGTCACTGAGG
65 TAAGCTGACAAGTCACCGAGG
* * * * *
1322334 GGA-AAAATGTTTACTGGGGACTGAGCTGATAGGTAAACAA
1 GGATAAGAGGTTTACCGGGGACTAAGCCGATAGGTAAACAA
1322374 CTAGATGAAA
Statistics
Matches: 174, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
84 32 0.18
85 108 0.62
86 25 0.14
87 5 0.03
88 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (85 bp):
GGATAAGAGGTTTACCGGGGACTAAGCCGATAGGTAAACAAGGGATGAAGGATTGCCCAGGGACT
AAGCTGACAAGTCACCGAGG
Found at i:1323322 original size:19 final size:19
Alignment explanation
Indices: 1323278--1323333 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1323268 CTGCCAGTTT
**
1323278 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1323298 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1323317 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1323334 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1323336 original size:13 final size:13
Alignment explanation
Indices: 1323318--1323344 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1323308 TACAATGAAC
1323318 ATGTATCGATACA
1 ATGTATCGATACA
1323331 ATGTATCGATACA
1 ATGTATCGATACA
1323344 A
1 A
1323345 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1326759 original size:20 final size:21
Alignment explanation
Indices: 1326712--1326764 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1326702 GCCAATGACC
*
1326712 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
1326733 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
1326753 TGTATCGATACA
1 TGTATCGATACA
1326765 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:1326770 original size:13 final size:13
Alignment explanation
Indices: 1326752--1326776 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1326742 ACATTTGGTC
1326752 ATGTATCGATACA
1 ATGTATCGATACA
1326765 ATGTATCGATAC
1 ATGTATCGATAC
1326777 TATGCAATCT
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):
ATGTATCGATACA
Found at i:1327359 original size:22 final size:22
Alignment explanation
Indices: 1327332--1327376 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1327322 TTTTCTTTTC
1327332 TCTCCCACTTAATCAAAA-AATT
1 TCTCCCACTTAAT-AAAATAATT
*
1327354 TCTCCCTCTTAATAAAATAATT
1 TCTCCCACTTAATAAAATAATT
1327376 T
1 T
1327377 AACAATTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTCCCACTTAATAAAATAATT
Found at i:1329258 original size:13 final size:13
Alignment explanation
Indices: 1329240--1329264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1329230 ATAAAACCTT
1329240 TGTATCGATACAC
1 TGTATCGATACAC
1329253 TGTATCGATACA
1 TGTATCGATACA
1329265 AAGAATGCTG
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1329480 original size:8 final size:8
Alignment explanation
Indices: 1329467--1329492 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1329457 AACATCATTC
1329467 ATCACAAA
1 ATCACAAA
1329475 ATCACAAA
1 ATCACAAA
1329483 ATCACAAA
1 ATCACAAA
1329491 AT
1 AT
1329493 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1335472 original size:32 final size:33
Alignment explanation
Indices: 1335411--1335474 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1335401 TACAAGCCAA
*
1335411 TGTATCGATACATTTTGGGATGTATTGATACAT
1 TGTATCGATACATCTTGGGATGTATTGATACAT
*
1335444 TGTATCGATACATCTTGTG-TGTATTGATACA
1 TGTATCGATACATCTTGGGATGTATTGATACA
1335475 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATCTTGGGATGTATTGATACAT
Found at i:1335537 original size:21 final size:21
Alignment explanation
Indices: 1335506--1335560 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1335496 CCAATGACCT
1335506 GTATCGATACATTCTTTACAA
1 GTATCGATACATTCTTTACAA
* *
1335527 TTATTGATACATTCTTTACAA
1 GTATCGATACATTCTTTACAA
1335548 GTATCGATACATT
1 GTATCGATACATT
1335561 TGGTCATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (21 bp):
GTATCGATACATTCTTTACAA
Found at i:1337787 original size:13 final size:13
Alignment explanation
Indices: 1337746--1337794 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1337736 CGTTACAAGC
1337746 CAATGTATCGATA
1 CAATGTATCGATA
*
1337759 CAAT-T-TAG-T-
1 CAATGTATCGATA
1337768 C-ATGTATCGATA
1 CAATGTATCGATA
1337780 CAATGTATCGATA
1 CAATGTATCGATA
1337793 CA
1 CA
1337795 TCTTATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1337789 original size:34 final size:32
Alignment explanation
Indices: 1337746--1337814 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1337736 CGTTACAAGC
1337746 CAATGTATCGATACAAT-TTAGTCATGTATCGATA
1 CAATGTATCGATAC-ATCTTA-T-ATGTATCGATA
1337780 CAATGTATCGATACATCTTATATGTATCGATA
1 CAATGTATCGATACATCTTATATGTATCGATA
1337812 CAA
1 CAA
1337815 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 14 0.41
33 3 0.09
34 17 0.50
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTATATGTATCGATA
Found at i:1337874 original size:21 final size:19
Alignment explanation
Indices: 1337849--1337897 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1337839 TCACCTGTAC
*
1337849 CGATACAATCTTTGCAGGTAT
1 CGATACAAT-TGT-CAGGTAT
* *
1337870 CGATACAGTTGTCATGTAT
1 CGATACAATTGTCAGGTAT
1337889 CGATACAAT
1 CGATACAAT
1337898 GTATCGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 14 0.58
20 2 0.08
21 8 0.33
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
CGATACAATTGTCAGGTAT
Found at i:1337901 original size:13 final size:13
Alignment explanation
Indices: 1337883--1337907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1337873 TACAGTTGTC
1337883 ATGTATCGATACA
1 ATGTATCGATACA
1337896 ATGTATCGATAC
1 ATGTATCGATAC
1337908 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:1340500 original size:13 final size:13
Alignment explanation
Indices: 1340482--1340507 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1340472 CAATTTAGTC
1340482 ATGTATCGATACA
1 ATGTATCGATACA
1340495 ATGTATCGATACA
1 ATGTATCGATACA
1340508 TCTTGTATGT
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:1340507 original size:34 final size:32
Alignment explanation
Indices: 1340459--1340527 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
1340449 CGTTACAAGC
1340459 CAATGTATCAATACAAT-TTAGTCATGTATCGATA
1 CAATGTATCAATAC-ATCTT-GT-ATGTATCGATA
* *
1340493 CAATGTATCGATACATCTTGTATGTATTGATA
1 CAATGTATCAATACATCTTGTATGTATCGATA
1340525 CAA
1 CAA
1340528 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 13 0.41
33 4 0.12
34 15 0.47
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (32 bp):
CAATGTATCAATACATCTTGTATGTATCGATA
Found at i:1345981 original size:19 final size:19
Alignment explanation
Indices: 1345937--1345992 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1345927 CTTCCAGTTT
**
1345937 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1345957 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
1345976 CATGTATTGATATAATG
1 CATGTATCGATACAATG
1345993 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1346518 original size:45 final size:45
Alignment explanation
Indices: 1346376--1347017 Score: 410
Period size: 45 Copynumber: 14.4 Consensus size: 45
1346366 AGTAGATTTA
* * * * * * *
1346376 ACCAGGGTGGTAACCATACGTTAAATC-GAAATGAAAAGAATCTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * * * * * *
1346420 ACCAAGGTGGTAACCATACATTAAATC-AAAATG-GAAAGAATGTA
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* *
1346464 ATCAGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * * * * * * *
1346509 ACTAGGGTGGTAACTATACATCAAATCAAAAATG-GAAAGAATCTA
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* * * * *
1346554 ACCAGGGTGGTAACCATATGTCAGACTTGAAATGAAAAGAGTTTA
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * * *
1346599 ACCAGGGTGGTAACCATATGTTAAATC-AAAATG-GAAAGAATTTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* * * * *
1346643 ACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTC
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * *
1346688 ACTAGGGTGGTAACCATACGTCAAACTTGAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * *** * * * * *
1346733 ACTAAGGTAAAAACCATATGTCAAATC-AAAATG-GAAAGAATCTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* * *
1346777 GCCAAGGTGGTAACCATATGTCAGACCTAAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * * * * **
1346822 ACTAGGGTGGTAAACATATGTCAAATC-AAAATG-GAAAGAATCAG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* * *
1346866 ACCAGGGTGGCAACAATACGTCAGACCTGAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
* * * * * * *
1346911 ACCAGGGTGGTAACCATATGTCAAATC-AAAA-GGGAAATAATCTG
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAG-AAGAGTTTG
* * * * *
1346955 ACTAGGGTGGTAATCATACGT-AGACCTAAAGTAAGAAGAGTTTA
1 ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
1346999 ACCAGGGTGGTAACCATAC
1 ACCAGGGTGGTAACCATAC
1347018 ATCAAACAAA
Statistics
Matches: 454, Mismatches: 127, Indels: 34
0.74 0.21 0.06
Matches are distributed among these distances:
43 7 0.02
44 209 0.46
45 235 0.52
46 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (45 bp):
ACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTG
Found at i:1346528 original size:89 final size:89
Alignment explanation
Indices: 1346374--1346706 Score: 443
Period size: 89 Copynumber: 3.7 Consensus size: 89
1346364 AAAGTAGATT
* * * * * *
1346374 TAACCAGGGTGGTAACCATACGTTAAATC-GAAATGAAAAGAATCTGACCAAGGTGGTAACCATA
1 TAACCAGGGTGGTAACCATACGTCAGACCTGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATA
*
1346438 CATTAAATCAAAATGGAAAGAATG
66 CATTAAATCAAAATGGAAAGAATC
* * * *
1346462 TAATCAGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGTGGTAACTATA
1 TAACCAGGGTGGTAACCATACGTCAGACCTGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATA
*
1346527 CATCAAATCAAAAATGGAAAGAATC
66 CATTAAATC-AAAATGGAAAGAATC
* * *
1346552 TAACCAGGGTGGTAACCATATGTCAGACTTGAAATGAAAAGAGTTTAACCAGGGTGGTAACCATA
1 TAACCAGGGTGGTAACCATACGTCAGACCTGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATA
** *
1346617 TGTTAAATCAAAATGGAAAGAATT
66 CATTAAATCAAAATGGAAAGAATC
* * * * *
1346641 TGACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTCACTAGGGTGGTAACCATA
1 TAACCAGGGTGGTAACCATACGTCAGACCTGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATA
1346706 C
66 C
1346707 GTCAAACTTG
Statistics
Matches: 212, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
88 25 0.12
89 109 0.51
90 78 0.37
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (89 bp):
TAACCAGGGTGGTAACCATACGTCAGACCTGAAATGAAAAGAGTTTGACCAGGGTGGTAACCATA
CATTAAATCAAAATGGAAAGAATC
Found at i:1346631 original size:134 final size:133
Alignment explanation
Indices: 1346371--1347024 Score: 498
Period size: 134 Copynumber: 4.9 Consensus size: 133
1346361 GAGAAAGTAG
* * * * * *
1346371 ATTTAACCAGGGTGGTAACCATACGTTAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACTAGGGTGGTAACCA
* * * * * * * * * *
1346436 TACATTAAATCAAAATGGAAAGAATGTAATCAGGGTGGTAACCATACGTCAGACCTGAAAT-GAG
66 TACGTCAACTTAAAATGAAAAGAGTTTAACCAGGGTGGTAACCATACGTCAAACCTAAAATGGA-
1346500 AAGA
130 AAGA
* * * * * *
1346504 GTTTGACTAGGGTGGTAACTATACATCAAATCAAAAATGGAAAGAATCTAACCAGGGTGGTAACC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGGAAAGAATCTGACTAGGGTGGTAACC
* * * * *
1346569 ATATGTCAGACTTGAAATGAAAAGAGTTTAACCAGGGTGGTAACCATATGTTAAATC-AAAATGG
65 ATACGTCA-ACTTAAAATGAAAAGAGTTTAACCAGGGTGGTAACCATACGTCAAACCTAAAATGG
1346633 AAAGA
129 AAAGA
* * * * * * *
1346638 ATTTGACCAGGGTGGTAACCATACATCAGACCTGAAAT-GAAAAAAGTTTCACTAGGGTGGTAAC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGGAAAGAA-TCTGACTAGGGTGGTAAC
* * * * * *** * *
1346702 CATACGTCAAACTTGAAATGAGAAGAGTTTGACTAAGGTAAAAACCATATGTCAAATC-AAAATG
64 CATACGTC-AACTTAAAATGAAAAGAGTTTAACCAGGGTGGTAACCATACGTCAAACCTAAAATG
1346766 GAAAGA
128 GAAAGA
* * * * * * * * *
1346772 ATCTGGCCAAGGTGGTAACCATATGTCAGACCTAAAAT-GAGAAGAGTTTGACTAGGGTGGTAAA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGGA-AAGAATCTGACTAGGGTGGTAAC
* * * * * * * * * *
1346836 CATATGTCAAATCAAAATGGAAAGA-ATCAGACCAGGGTGGCAACAATACGTCAGACCTGAAAT-
64 CATACGTCAACTTAAAATGAAAAGAGTTTA-ACCAGGGTGGTAACCATACGTCAAACCTAAAATG
1346899 GAGAAGA
128 GA-AAGA
* * * * *
1346906 GTTTGACCAGGGTGGTAACCATATGTCAAATCAAAAGGGAAATAATCTGACTAGGGTGGTAATCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACTAGGGTGGTAACCA
* * *
1346971 TACGT-AGACCTAAAGT-AAGAAGAGTTTAACCAGGGTGGTAACCATACATCAAAC
66 TACGTCA-ACTTAAAATGAA-AAGAGTTTAACCAGGGTGGTAACCATACGTCAAAC
1347025 AAAAAGGAAA
Statistics
Matches: 411, Mismatches: 97, Indels: 26
0.77 0.18 0.05
Matches are distributed among these distances:
132 3 0.01
133 124 0.30
134 241 0.59
135 43 0.10
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (133 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGGAAAGAATCTGACTAGGGTGGTAACCA
TACGTCAACTTAAAATGAAAAGAGTTTAACCAGGGTGGTAACCATACGTCAAACCTAAAATGGAA
AGA
Found at i:1346750 original size:179 final size:178
Alignment explanation
Indices: 1346387--1346839 Score: 498
Period size: 179 Copynumber: 2.5 Consensus size: 178
1346377 CCAGGGTGGT
* * **
1346387 AACCATACGTTAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCATACATTAAATCAAAAT
1 AACCATATGTCAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTTAAATCAAAAT
* * * * * * *
1346452 GGAAAGAATGTAATCAGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGT
66 GGAAAGAATTTGACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTCACTAGGGT
* * ***
1346517 GGTAACTATACATCAAATCAAAAATGGAAAGAATCTAACCAGGGTGGT
131 GGTAACCATACATCAAATCAAAAATGGAAAGAATCTAACCAAGGTAAA
* * * * * *
1346565 AACCATATGTCAGACTTGAAATGAAAAGAGTTTAACCAGGGTGGTAACCATATGTTAAATCAAAA
1 AACCATATGTCA-AATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTTAAATCAAAA
1346630 TGGAAAGAATTTGACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTCACTAGGG
65 TGGAAAGAATTTGACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTCACTAGGG
* ** * * * *
1346695 TGGTAACCATACGTCAAA-CTTGAAAT-GAGAAGAGTTTGACTAAGGTAAA
130 TGGTAACCATACATCAAATC-AAAAATGGA-AAGAATCTAACCAAGGTAAA
* * * * * *
1346744 AACCATATGTCAAATCAAAATGGAAAGAATCTGGCCAAGGTGGTAACCATATGTCAGACCTAAAA
1 AACCATATGTCAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTTAAATC-AAAA
* * *
1346809 T-GAGAAGAGTTTGACTAGGGTGGTAAACATA
65 TGGA-AAGAATTTGACCAGGGTGGTAACCATA
1346840 TGTCAAATCA
Statistics
Matches: 226, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
178 51 0.23
179 175 0.77
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (178 bp):
AACCATATGTCAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCATATGTTAAATCAAAAT
GGAAAGAATTTGACCAGGGTGGTAACCATACATCAGACCTGAAATGAAAAAAGTTTCACTAGGGT
GGTAACCATACATCAAATCAAAAATGGAAAGAATCTAACCAAGGTAAA
Found at i:1346765 original size:89 final size:89
Alignment explanation
Indices: 1346691--1347034 Score: 399
Period size: 89 Copynumber: 3.9 Consensus size: 89
1346681 AAGTTTCACT
* * * *
1346691 AGGGTGGTAACCATACGTCAAACTTGAAATGAGAAGAGTTTGACTAAGGTAAAAACCATATGTCA
1 AGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGTGAAAACCATATGTCA
*
1346756 AATCAAAATGGAAAGAATCTGGCC
66 AATCAAAATGGAAAGAATCTGACC
* * * *
1346780 AAGGTGGTAACCATATGTCAGACCTAAAATGAGAAGAGTTTGACTAGGGTGGTAAA-CATATGTC
1 AGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGT-GAAAACCATATGTC
*
1346844 AAATCAAAATGGAAAGAATCAGACC
65 AAATCAAAATGGAAAGAATCTGACC
* * * **
1346869 AGGGTGGCAACAATACGTCAGACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCA
1 AGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGTGAAAACCATATGTCA
* * *
1346934 AATCAAAAGGGAAATAATCTGACT
66 AATCAAAATGGAAAGAATCTGACC
* * * * ** **
1346958 AGGGTGGTAATCATACGT-AGACCT-AAAGTAAGAAGAGTTTAACCAGGGTGGTAACCATACATC
1 AGGGTGGTAACCATACGTCAGACCTGAAA-TGAGAAGAGTTTGACTAGGGTGAAAACCATATGTC
*
1347021 AAA-CAAAAAGGAAA
65 AAATCAAAATGGAAA
1347035 AGACACTTGG
Statistics
Matches: 222, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
87 13 0.06
88 43 0.19
89 163 0.73
90 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (89 bp):
AGGGTGGTAACCATACGTCAGACCTGAAATGAGAAGAGTTTGACTAGGGTGAAAACCATATGTCA
AATCAAAATGGAAAGAATCTGACC
Found at i:1346766 original size:223 final size:223
Alignment explanation
Indices: 1346372--1346935 Score: 720
Period size: 223 Copynumber: 2.5 Consensus size: 223
1346362 AGAAAGTAGA
* * * *
1346372 TTTAACCAGGGTGGTAACCATACGTTAAATCGAAATGAAAAGAATCTGACCAAGGTGGTAACCAT
1 TTTAACCAGGGTGGTAACCATATGTTAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCAT
* * * * * * * *
1346437 ACATTAAATC-AAAATGGAAAGAA-TGTAATCAGGGTGGTAACCATACGTCAGACCTGAAATGAG
66 ACATCAGACCTGAAAT-GAAAAAAGTTTACT-AGGGTGGTAACCATACGTCAAACCTGAAATGAG
* *** * *
1346500 AAGAGTTTGACTAGGGTGGTAACTATACATCAAATCAAAAATGGAAAGAATCTAACCAGGGTGGT
129 AAGAGTTTGACTAAGGTAAAAACCATACATCAAATCAAAAATGGAAAGAATCTAACCAAGGTGGT
* *
1346565 AACCATATGTCAGACTTGAAATGAAAAGAG
194 AACCATATGTCAGACCTAAAATGAAAAGAG
*
1346595 TTTAACCAGGGTGGTAACCATATGTTAAATCAAAATGGAAAGAATTTGACCAGGGTGGTAACCAT
1 TTTAACCAGGGTGGTAACCATATGTTAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCAT
*
1346660 ACATCAGACCTGAAATGAAAAAAGTTTCACTAGGGTGGTAACCATACGTCAAACTTGAAATGAGA
66 ACATCAGACCTGAAATGAAAAAAGTTT-ACTAGGGTGGTAACCATACGTCAAACCTGAAATGAGA
** **
1346725 AGAGTTTGACTAAGGTAAAAACCATATGTCAAATC-AAAATGGAAAGAATCTGGCCAAGGTGGTA
130 AGAGTTTGACTAAGGTAAAAACCATACATCAAATCAAAAATGGAAAGAATCTAACCAAGGTGGTA
*
1346789 ACCATATGTCAGACCTAAAATGAGAAGAG
195 ACCATATGTCAGACCTAAAATGAAAAGAG
* * * * * * *
1346818 TTTGACTAGGGTGGTAAACATATGTCAAATCAAAATGGAAAGAATCAGACCAGGGTGGCAACAAT
1 TTTAACCAGGGTGGTAACCATATGTTAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCAT
* * * * *
1346883 ACGTCAGACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCAAA
66 ACATCAGACCTGAAATGAAAAAAGTTT-ACTAGGGTGGTAACCATACGTCAAA
1346936 TCAAAAGGGA
Statistics
Matches: 297, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
223 229 0.77
224 66 0.22
225 2 0.01
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (223 bp):
TTTAACCAGGGTGGTAACCATATGTTAAATCAAAATGGAAAGAATCTGACCAGGGTGGTAACCAT
ACATCAGACCTGAAATGAAAAAAGTTTACTAGGGTGGTAACCATACGTCAAACCTGAAATGAGAA
GAGTTTGACTAAGGTAAAAACCATACATCAAATCAAAAATGGAAAGAATCTAACCAAGGTGGTAA
CCATATGTCAGACCTAAAATGAAAAGAG
Found at i:1346887 original size:178 final size:176
Alignment explanation
Indices: 1346691--1347034 Score: 454
Period size: 178 Copynumber: 1.9 Consensus size: 176
1346681 AAGTTTCACT
* * * *
1346691 AGGGTGGTAACCATACGTCAAACTTGAAATGAGAAGAGTTTGACTAAGGTAAAAACCATATGTCA
1 AGGGTGGCAACAATACGTCAAACCTGAAATGAGAAGAGTTTGACCAAGGTAAAAACCATATGTCA
* * * *
1346756 AATCAAAATGGAAAGAATCTGGCCAAGGTGGTAACCATATGTCAGACCTAAAATGAGAAGAGTTT
66 AATCAAAAGGGAAAGAATCTGACCAAGGTGGTAACCATACGT-AGACCTAAAATAAGAAGAGTTT
* * ** *
1346821 GACTAGGGTGGTAAACATATGTCAAATCAAAATGGAAAGAATCAGACC
130 AACCAGGGTGGTAAACATACATCAAA-CAAAAAGGAAAGAATCAGACC
* * ***
1346869 AGGGTGGCAACAATACGTCAGACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATATGTCA
1 AGGGTGGCAACAATACGTCAAACCTGAAATGAGAAGAGTTTGACCAAGGTAAAAACCATATGTCA
* * * * *
1346934 AATCAAAAGGGAAATAATCTGACTAGGGTGGTAATCATACGTAGACCTAAAGTAAGAAGAGTTTA
66 AATCAAAAGGGAAAGAATCTGACCAAGGTGGTAACCATACGTAGACCTAAAATAAGAAGAGTTTA
*
1346999 ACCAGGGTGGTAACCATACATCAAACAAAAAGGAAA
131 ACCAGGGTGGTAAACATACATCAAACAAAAAGGAAA
1347035 AGACACTTGG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
176 10 0.07
177 41 0.29
178 91 0.64
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (176 bp):
AGGGTGGCAACAATACGTCAAACCTGAAATGAGAAGAGTTTGACCAAGGTAAAAACCATATGTCA
AATCAAAAGGGAAAGAATCTGACCAAGGTGGTAACCATACGTAGACCTAAAATAAGAAGAGTTTA
ACCAGGGTGGTAAACATACATCAAACAAAAAGGAAAGAATCAGACC
Found at i:1352641 original size:20 final size:20
Alignment explanation
Indices: 1352581--1352651 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1352571 TTAACTAGAT
* *
1352581 TATCGATACATTGAAGAATC
1 TATCGATACATTGAAAAATG
* * * * *
1352601 TATTGATATATTCATACATG
1 TATCGATACATTGAAAAATG
1352621 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
1352641 TATCGATACAT
1 TATCGATACAT
1352652 CTGGGTATTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:1353602 original size:28 final size:28
Alignment explanation
Indices: 1353535--1353875 Score: 430
Period size: 28 Copynumber: 11.9 Consensus size: 28
1353525 TTTTTAAAAA
* *
1353535 GGTGCCACTAACTTGTGTGGGCTTCGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
*
1353566 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
1353594 GGTGCCACTAACTTGTGAGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1353622 GGTGCCACTGACTCGTGGGCTTTGATAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
1353650 GATGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1353678 GGTGCTACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** *
1353707 AATGCTACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1353735 GGTGCCACTGACTTGCGTAGGCTTTGAAAG
1 GGTGCCACTGACTT--GTGGGCTTTGAAAG
*
1353765 GGTGCCACTGACTTGTGGGCTTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-GAAAG
* **
1353794 AGTGCCACTGACTCATGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1353822 GGTGCCACTAACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
1353850 GGTGCCACTAACTTGTGGGCTTTGAA
1 GGTGCCACTGACTTGTGGGCTTTGAA
1353876 GAGATGAATG
Statistics
Matches: 271, Mismatches: 35, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
28 173 0.64
29 60 0.22
30 28 0.10
31 10 0.04
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:1355118 original size:34 final size:35
Alignment explanation
Indices: 1355080--1355152 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
1355070 TTTTGCTATT
1355080 TTTTTCTT-G-GTTTTTTCGTTTTTTTTATTTTTTG
1 TTTTTCTTCGAGTTTTTTC-TTTTTTTTATTTTTTG
* * *
1355114 TTTTTGTTCGATTTTTTTCTTTTTTTTGTTTTTTG
1 TTTTTCTTCGAGTTTTTTCTTTTTTTTATTTTTTG
1355149 TTTT
1 TTTT
1355153 AATTTTTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 7 0.21
35 20 0.59
36 7 0.21
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.81
Consensus pattern (35 bp):
TTTTTCTTCGAGTTTTTTCTTTTTTTTATTTTTTG
Found at i:1355159 original size:29 final size:28
Alignment explanation
Indices: 1355098--1355161 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
1355088 GGTTTTTTCG
1355098 TTTTTTTTATTTTTTGTTTTTGTTCG-A
1 TTTTTTTTATTTTTTGTTTTTGTTCGAA
* **
1355125 TTTTTTTCTTTTTTTTGTTTTTTGTTTTAA
1 TTTTTTT-TATTTTTTG-TTTTTGTTCGAA
1355155 TTTTTTT
1 TTTTTTT
1355162 GGGTATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 7 0.23
28 8 0.26
29 8 0.26
30 8 0.26
ACGTcount: A:0.06, C:0.03, G:0.08, T:0.83
Consensus pattern (28 bp):
TTTTTTTTATTTTTTGTTTTTGTTCGAA
Found at i:1370428 original size:79 final size:78
Alignment explanation
Indices: 1370251--1370650 Score: 421
Period size: 79 Copynumber: 5.1 Consensus size: 78
1370241 TAGTTTGGAG
* * * * * * * * *
1370251 ATAAAAATGGGATTGGAGTATCTCCTCAAAAATAACGGGGTTAGAATACCCCTAATGGTGGAAGA
1 ATAAAACTGGG-TTGGAGTATCTCCTCAGAAATAACGAGGTTGGAGTATCCCTGATTGTGGAAAA
1370316 T-GGTGTTTTAGAA
65 TCGGTGTTTTAGAA
* * * *
1370329 ATAAAATCGGGGTTAGAGTATCTCCTC-GAAAATAACGAGGTTGGAGTATCCCTGACTGTGAAAA
1 ATAAAA-CTGGGTTGGAGTATCTCCTCAG-AAATAACGAGGTTGGAGTATCCCTGATTGTGGAAA
* *
1370393 ATCGATGTTTTGGAA
64 ATCGGTGTTTTAGAA
* * * * *
1370408 ATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATTATGGAAAA
1 ATAAAACTG-GGTTGGAGTATCTCCTCAGAAATAACGAGGTTGGAGTATCCCTGATTGTGGAAAA
* *
1370473 TTGGTGTTTTGGAA
65 TCGGTGTTTTAGAA
* * * * *
1370487 ATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACCGA-GTTGGAGTATCCCCGATGGTGGAAA
1 ATAAAA-CTGGGTTGGAGTATCTCCTCAGAAATAA-CGAGGTTGGAGTATCCCTGATTGTGGAAA
*
1370551 ATCAGTGTTTTAGAA
64 ATCGGTGTTTTAGAA
* * *
1370566 ATAAAACCTGGGTTGGAGTATCTCCTTAGAAATAAC-AGGGTTGGAGTATCCCTAATTGTGAAAA
1 ATAAAA-CTGGGTTGGAGTATCTCCTCAGAAATAACGA-GGTTGGAGTATCCCTGATTGTGGAAA
1370630 ATCGGTGTTTTAGAA
64 ATCGGTGTTTTAGAA
1370645 ATAAAA
1 ATAAAA
1370651 ACATGAGTGA
Statistics
Matches: 269, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
77 1 0.00
78 51 0.19
79 212 0.79
80 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
ATAAAACTGGGTTGGAGTATCTCCTCAGAAATAACGAGGTTGGAGTATCCCTGATTGTGGAAAAT
CGGTGTTTTAGAA
Found at i:1370505 original size:158 final size:157
Alignment explanation
Indices: 1370244--1370650 Score: 511
Period size: 158 Copynumber: 2.6 Consensus size: 157
1370234 AATTTAATAG
* * * * *
1370244 TTTGGAGATAAAAATGGGATTGGAGTATCTCCTCAAAAATAACGGGGTTAGAATA-CCCCTAATG
1 TTTGGAAATAAAACTGGG-TTGGAGTATCTCCTCAGAAATAACGGGGTTAGAGTATCCCC-AATT
* * *
1370308 GTGGAAGA-TGGTGTTTTAGAAATAAAATCGGGGTTAGAGTATCTCCTC-GAAAATAA-CGAGGT
64 GTGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAG-AAATAACCGA-GT
*
1370370 TGGAGTATCCCTGACT-GTGAAAAATC-GATGT
127 TGGAGTATCCCCGA-TGGTGAAAAATCAG-TGT
* * *
1370401 TTTGGAAATAAAACTGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTAGAGTATCCCCGATTA
1 TTTGGAAATAAAACTG-GGTTGGAGTATCTCCTCAGAAATAACGGGGTTAGAGTATCCCCAATTG
*
1370466 TGGAAAATTGGTGTTTTGGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACCGAGTTGG
65 TGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACCGAGTTGG
*
1370531 AGTATCCCCGATGGTGGAAAATCAGTGT
130 AGTATCCCCGATGGTGAAAAATCAGTGT
* * * * *
1370559 TTTAGAAATAAAACCTGGGTTGGAGTATCTCCTTAGAAATAACAGGGTTGGAGTATCCCTAATTG
1 TTTGGAAATAAAA-CTGGGTTGGAGTATCTCCTCAGAAATAACGGGGTTAGAGTATCCCCAATTG
* *
1370624 TGAAAAATCGGTGTTTTAGAAATAAAA
65 TGGAAAATTGGTGTTTTAGAAATAAAA
1370651 ACATGAGTGA
Statistics
Matches: 217, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
157 56 0.26
158 153 0.71
159 8 0.04
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (157 bp):
TTTGGAAATAAAACTGGGTTGGAGTATCTCCTCAGAAATAACGGGGTTAGAGTATCCCCAATTGT
GGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAACCGAGTTGGA
GTATCCCCGATGGTGAAAAATCAGTGT
Found at i:1374657 original size:162 final size:162
Alignment explanation
Indices: 1374386--1374772 Score: 536
Period size: 162 Copynumber: 2.4 Consensus size: 162
1374376 TATGAATTTT
* * * * *
1374386 TTTTTGAAATCTTTTATATCTCTAGGGATGCCCATAAGAATATAAAAGA-TA-AAAAAATAAATA
1 TTTTTAAAATCTTTTATACCCCTAGGAATGCCCATAGGAATATAAAAGATTAGAAAAAATAAATA
1374449 TTAGAATTTATCCCAATAATACCAATTGAATTGAATTTTATTTATTTTTG-AAAATACCATTTCA
66 TTAGAATTTATCCCAATAATACCAATTGAATTGAATTTTATTTA-TTTTGAAAAATACCATTTCA
* *
1374513 TACCCTAATTGAAGCTCGCAAGAATATGAAAAG
130 TACCCTAATGGAAGCTCGAAAGAATATGAAAAG
**
1374546 TTTTTAAAATCTTTTATACCCCTACAAATGCCCATAGGAATATAAAAGATTAGAAAAAATAAATA
1 TTTTTAAAATCTTTTATACCCCTAGGAATGCCCATAGGAATATAAAAGATTAGAAAAAATAAATA
* * * **
1374611 TTAGAATTTATCCCAATAATACTAATTTAAGTT-AATTTTGTTTATTTTGAAAAATACCATTTTG
66 TTAGAATTTATCCCAATAATACCAATTGAA-TTGAATTTTATTTATTTTGAAAAATACCATTTCA
*
1374675 TACCCTAATGGAAGCTCGAAAGAATATGAAAGG
130 TACCCTAATGGAAGCTCGAAAGAATATGAAAAG
* * *
1374708 TTTTTGAAAA-CTTTTATACCCCTAGGAATG-CTATAGGAATAAAAAAGATT-GGAAAAATAAAT
1 TTTTT-AAAATCTTTTATACCCCTAGGAATGCCCATAGGAATATAAAAGATTAGAAAAAATAAAT
1374770 ATT
65 ATT
1374773 GTTTAATTTT
Statistics
Matches: 202, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
160 56 0.28
161 25 0.12
162 115 0.57
163 6 0.03
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (162 bp):
TTTTTAAAATCTTTTATACCCCTAGGAATGCCCATAGGAATATAAAAGATTAGAAAAAATAAATA
TTAGAATTTATCCCAATAATACCAATTGAATTGAATTTTATTTATTTTGAAAAATACCATTTCAT
ACCCTAATGGAAGCTCGAAAGAATATGAAAAG
Found at i:1375750 original size:17 final size:16
Alignment explanation
Indices: 1375728--1375763 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1375718 TTTTTCTCTA
*
1375728 TTTTTCTCTCTCTTTCT
1 TTTTTCTCTATC-TTCT
1375745 TTTTTCTCTATCTTCT
1 TTTTTCTCTATCTTCT
1375761 TTT
1 TTT
1375764 AGCTGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTCTCTATCTTCT
Found at i:1376575 original size:161 final size:163
Alignment explanation
Indices: 1376333--1376751 Score: 512
Period size: 161 Copynumber: 2.5 Consensus size: 163
1376323 AAGAGAAGGG
* *
1376333 ATTTCGAGGAAAAAATTTCAAAATTCATGGAAATGAATAAATTTTTGAAAACTGAATTAATATGA
1 ATTTCAAGGAAAAAA-TTCAAAATT-ATGGAAATGAATGAATTTTTGAAAACTG-ATTAATATGA
*
1376398 AATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACTAAGAAAAATCCCCT-AAAAAA-TA
63 AATAAATAATAATATTTGATGAATTTTAAAAATAAAAAACTAAGAAAAATCCCCTAAAAAAATTA
*
1376461 CGAAGTAGAAAAA-T-TTGTATTTAAGAAAAAAAAG-A
128 CGAAGTA-AAAAACTCCT-TATTTAAGAAAAAAAAGAA
1376496 ATTTCAAGGAAAAAATTCAAAATATATGGAAATGAATGAATTTTTG-AAACTGATTCAATATGAA
1 ATTTCAAGGAAAAAATTCAAAAT-TATGGAAATGAATGAATTTTTGAAAACTGATT-AATATGAA
1376560 ATAAATAATAATATTTGATGAATTTTAAAAATAAAAAACTAAGAAAAATCCCCTCGAAAAAAATT
64 ATAAATAATAATATTTGATGAATTTTAAAAATAAAAAACTAAGAAAAATCCCCT--AAAAAAATT
* ** **
1376625 ACGGAGTAAAAAACTCCTTATTTTGGAAAAAAGGGAA
127 ACGAAGTAAAAAACTCCTTATTTAAGAAAAAAAAGAA
* * ** * *
1376662 ATTT-AA-AAAAAAATACAAAAATTTATGGAAATGAATGAATTTTTGCGAATTGATTTAATAGGA
1 ATTTCAAGGAAAAAATTC-AAAA-TTATGGAAATGAATGAATTTTTGAAAACTGA-TTAATATGA
* * *
1376725 ATTAAATGATAATATTTGAGGAATTTT
63 AATAAATAATAATATTTGATGAATTTT
1376752 GATGTTTAAA
Statistics
Matches: 226, Mismatches: 17, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
160 3 0.01
161 67 0.30
162 28 0.12
163 15 0.07
164 19 0.08
165 50 0.22
166 42 0.19
167 2 0.01
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.30
Consensus pattern (163 bp):
ATTTCAAGGAAAAAATTCAAAATTATGGAAATGAATGAATTTTTGAAAACTGATTAATATGAAAT
AAATAATAATATTTGATGAATTTTAAAAATAAAAAACTAAGAAAAATCCCCTAAAAAAATTACGA
AGTAAAAAACTCCTTATTTAAGAAAAAAAAGAA
Found at i:1378338 original size:97 final size:98
Alignment explanation
Indices: 1378205--1378445 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 98
1378195 AAAAAAAGAC
*
1378205 GGGGTTTGG-GTAT-CCCTTGGAAGCATGGGGTTGGAGTATCCCCAATGATGATGATTTAAGCAA
1 GGGG-TTGGAGTATCCCCTCGGAAGCATGGGGTTGGAGTATCCCCAATGATGATGATTTAAGC-A
* *
1378268 AAATAAGGTTTAAATTTTGATAA-CTTT-AAAAAT
64 AAATAAGATTTAAATATTGATAATCTTTAAAAAAT
* * * *
1378301 GGGGTTGGAGTATCCCCTCGGAAGCATGGGATTGGAGTATCCCCACTGATGGTGATTTAGGCAAA
1 GGGGTTGGAGTATCCCCTCGGAAGCATGGGGTTGGAGTATCCCCAATGATGATGATTTAAGCAAA
* *
1378366 TTAAGATTTAAATATTGATAATTTTTTAAAAAAAAT
66 ATAAGATTTAAATATTGATAA-TCTTT--AAAAAAT
* * * *
1378402 AGGGTTAGAGTATCCCCTCAGAAGAATGGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCCTCGGAAGCATGGGGTTGGAGTATCCCC
1378446 GGTGAATAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
95 4 0.03
96 29 0.23
97 43 0.35
98 3 0.02
101 45 0.36
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (98 bp):
GGGGTTGGAGTATCCCCTCGGAAGCATGGGGTTGGAGTATCCCCAATGATGATGATTTAAGCAAA
ATAAGATTTAAATATTGATAATCTTTAAAAAAT
Found at i:1380888 original size:20 final size:20
Alignment explanation
Indices: 1380863--1380922 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
1380853 ATACAATGAG
1380863 AAATGTATCAATACAATTTC
1 AAATGTATCAATACAATTTC
** * * *
1380883 TTATGTATTAAGAC-ATTTAA
1 AAATGTATCAATACAATTT-C
1380903 AAATGTATCAATACAATTTC
1 AAATGTATCAATACAATTTC
1380923 CTTCCAGAAT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
19 4 0.14
20 20 0.71
21 4 0.14
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (20 bp):
AAATGTATCAATACAATTTC
Found at i:1380890 original size:40 final size:40
Alignment explanation
Indices: 1380845--1380922 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
1380835 ACAACCCAGA
* * *
1380845 ATGTATTGATACAATGAGAAATGTATCAATACAATTTCTT
1 ATGTATTAAGACAATGAAAAATGTATCAATACAATTTCTT
* *
1380885 ATGTATTAAGACATTTAAAAATGTATCAATACAATTTC
1 ATGTATTAAGACAATGAAAAATGTATCAATACAATTTC
1380923 CTTCCAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (40 bp):
ATGTATTAAGACAATGAAAAATGTATCAATACAATTTCTT
Found at i:1381012 original size:21 final size:20
Alignment explanation
Indices: 1380965--1381018 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
1380955 CATTTTAAGC
1380965 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
1380985 ATGTATCGATACATTGC-CTT
1 ATGTATCGATACATT-CACTT
1381005 ATTGTATCGATACA
1 A-TGTATCGATACA
1381019 AATTGTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:1386129 original size:20 final size:19
Alignment explanation
Indices: 1386104--1386160 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
1386094 GTTGGGCTCA
*
1386104 ATGTATCGATATAATTCAAT
1 ATGTATCGATATAATT-AAC
* *
1386124 ATGTATCGATACAAATAAC
1 ATGTATCGATATAATTAAC
1386143 ATGTATCGATACTAATTA
1 ATGTATCGATA-TAATTA
1386161 TCGATACTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (19 bp):
ATGTATCGATATAATTAAC
Found at i:1386148 original size:19 final size:20
Alignment explanation
Indices: 1386104--1386154 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1386094 GTTGGGCTCA
* * *
1386104 ATGTATCGATATAATTCAAT
1 ATGTATCGATACAAATCAAC
1386124 ATGTATCGATACAAAT-AAC
1 ATGTATCGATACAAATCAAC
1386143 ATGTATCGATAC
1 ATGTATCGATAC
1386155 TAATTATCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAAATCAAC
Found at i:1386164 original size:13 final size:13
Alignment explanation
Indices: 1386146--1386170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1386136 AAATAACATG
1386146 TATCGATACTAAT
1 TATCGATACTAAT
1386159 TATCGATACTAA
1 TATCGATACTAA
1386171 GCAATATGTA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TATCGATACTAAT
Found at i:1388403 original size:21 final size:21
Alignment explanation
Indices: 1388374--1388418 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1388364 AAGTTTTCAT
*
1388374 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1388394 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1388416 TTT
1 TTT
1388419 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:1390644 original size:13 final size:13
Alignment explanation
Indices: 1390626--1390651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1390616 CAATTTTTTG
1390626 TGTATCGATACAT
1 TGTATCGATACAT
1390639 TGTATCGATACAT
1 TGTATCGATACAT
1390652 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:1393698 original size:20 final size:20
Alignment explanation
Indices: 1393673--1393713 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1393663 AAAGGTCAAA
1393673 ACCTTCAGATGTATCGATAC
1 ACCTTCAGATGTATCGATAC
1393693 ACCTTCAGATGTATCGATAC
1 ACCTTCAGATGTATCGATAC
1393713 A
1 A
1393714 TAATGCACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (20 bp):
ACCTTCAGATGTATCGATAC
Found at i:1393741 original size:13 final size:13
Alignment explanation
Indices: 1393723--1393747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1393713 ATAATGCACA
1393723 GTATCGATACATT
1 GTATCGATACATT
1393736 GTATCGATACAT
1 GTATCGATACAT
1393748 GACCACTGTA
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):
GTATCGATACATT
Found at i:1393744 original size:33 final size:32
Alignment explanation
Indices: 1393702--1393764 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1393692 CACCTTCAGA
*
1393702 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
1393735 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
1393765 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:1393877 original size:33 final size:32
Alignment explanation
Indices: 1393819--1393883 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
1393809 TAACTATTTG
1393819 TATCGATACATACAAGATGTATCGATACATTA
1 TATCGATACATACAAGATGTATCGATACATTA
1393851 TATCGATACATGACCAA-ATGTATCGATACATTA
1 TATCGATACAT-A-CAAGATGTATCGATACATTA
1393884 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 11 0.35
33 17 0.55
34 3 0.10
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (32 bp):
TATCGATACATACAAGATGTATCGATACATTA
Found at i:1396073 original size:13 final size:13
Alignment explanation
Indices: 1396055--1396082 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1396045 ATACAAAGAT
1396055 CAATGTATCGATA
1 CAATGTATCGATA
1396068 CAATGTATCGATA
1 CAATGTATCGATA
1396081 CA
1 CA
1396083 TTGAATAATG
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:1396079 original size:33 final size:33
Alignment explanation
Indices: 1396037--1396102 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1396027 AAATTCCCAG
1396037 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
1396070 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
1396103 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:1396549 original size:20 final size:19
Alignment explanation
Indices: 1396524--1396578 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1396514 CTACCAATCT
* **
1396524 CATGTACCGATACAATTGTC
1 CATGTATCGATACAATT-AA
*
1396544 CATGTATCGATACGATTAA
1 CATGTATCGATACAATTAA
1396563 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1396579 GTATCGATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATTAA
Found at i:1396582 original size:13 final size:13
Alignment explanation
Indices: 1396564--1396590 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1396554 TACGATTAAC
1396564 ATGTATCGATACA
1 ATGTATCGATACA
1396577 ATGTATCGATACA
1 ATGTATCGATACA
1396590 A
1 A
1396591 AGCATAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1399956 original size:19 final size:19
Alignment explanation
Indices: 1399911--1399967 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1399901 CTGCCAGTTT
**
1399911 CATGTATCGATACAATTTGGC
1 CATGTATCGATACAA--TGAA
1399932 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1399951 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1399968 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1399970 original size:13 final size:13
Alignment explanation
Indices: 1399952--1399978 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1399942 TACAATGAAC
1399952 ATGTATCGATACA
1 ATGTATCGATACA
1399965 ATGTATCGATACA
1 ATGTATCGATACA
1399978 A
1 A
1399979 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1399993 original size:33 final size:32
Alignment explanation
Indices: 1399933--1399997 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1399923 CAATTTGGCC
*
1399933 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1399965 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1399998 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1400571 original size:37 final size:37
Alignment explanation
Indices: 1400521--1400597 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
1400511 TCATCGTTTT
1400521 TCTCCCCTAAAAAAAAATTCTCCCCATTAAACGATTA
1 TCTCCCCTAAAAAAAAATTCTCCCCATTAAACGATTA
* *
1400558 TCTCCTCTAAAAAAAAATTCTCCCCCTTAAACGATTA
1 TCTCCCCTAAAAAAAAATTCTCCCCATTAAACGATTA
1400595 TCT
1 TCT
1400598 TCTCCCCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.38, C:0.30, G:0.03, T:0.30
Consensus pattern (37 bp):
TCTCCCCTAAAAAAAAATTCTCCCCATTAAACGATTA
Found at i:1402323 original size:21 final size:20
Alignment explanation
Indices: 1402282--1402324 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
1402272 TTCTGTTGAT
*
1402282 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAATAAAA
1402302 GATTTTGAAGTGAAAAA-AAAA
1 GATTTTG-A-TGAAAAATAAAA
1402323 GA
1 GA
1402325 AATTTGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (20 bp):
GATTTTGATGAAAAATAAAA
Found at i:1408553 original size:13 final size:13
Alignment explanation
Indices: 1408535--1408561 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1408525 TACAATGAAC
1408535 ATGTATCGATACA
1 ATGTATCGATACA
1408548 ATGTATCGATACA
1 ATGTATCGATACA
1408561 A
1 A
1408562 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1408576 original size:33 final size:32
Alignment explanation
Indices: 1408516--1408580 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1408506 TAATTTGGCC
*
1408516 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
1408548 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
1408581 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:1409103 original size:49 final size:46
Alignment explanation
Indices: 1408921--1409461 Score: 277
Period size: 39 Copynumber: 11.8 Consensus size: 46
1408911 CGAAGAATGA
* * *
1408921 CAATGTGCTGATTCATGGCCAGCGACATTGGACTTGAAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATGAGTGC
* ** * *
1408968 CAATGTGTTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAG-ATG----AG-TGC
* * * * *
1409020 CAATATGCTGATTCAAGGCCAACGATATCGGACTTAAGGATGCATGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-GATG-A-GTGC
* *
1409069 CAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAA-A-G-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAGTGC
* *
1409112 CAATATGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGGTTGAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGA----TGA-GTGC
* * * *
1409164 CGATGTGCTGATTCAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAGATG-A-GTGC
* * ** * *
1409213 CAATATACTGATTCAAGGCCAGC-A-A-T--A-TTGGGCTCA-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAGTGC
* *
1409252 CAATGTGCTGATTCAAGGCCAGTGACATTGGGC-T----T--GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAGTGC
* * **
1409291 CAATATACTGATTCAAGGCCAGCGACATTGGTA-TTAAAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGG-ACTT-AAGATGA-GTGC
* * * * * *
1409339 CAATATGTTGATTGAAGGCCAGCAATATTGGGC-T----T-A-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAGTGC
* * * **
1409378 CAATGTGCTGATTTAAGGCCAGCAACATTGGCCTTAGAGACAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AGATGA-GTGC
* *
1409426 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
1409462 GAAGAAGATG
Statistics
Matches: 375, Mismatches: 74, Indels: 89
0.70 0.14 0.17
Matches are distributed among these distances:
39 85 0.23
40 4 0.01
41 3 0.01
42 3 0.01
43 36 0.10
44 3 0.01
45 1 0.00
46 4 0.01
47 35 0.09
48 67 0.18
49 59 0.16
50 2 0.01
51 1 0.00
52 71 0.19
53 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (46 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGAGTGC
Found at i:1409176 original size:144 final size:143
Alignment explanation
Indices: 1408921--1409282 Score: 376
Period size: 144 Copynumber: 2.5 Consensus size: 143
1408911 CGAAGAATGA
* * **
1408921 CAATGTGCTGATTCATGGCCAGCGACATTGGACTTGAAGAAGAATGCCAATGTGTTGAGACAAGG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A-AAG--TGCCAATGTGCTGATTCAAGG
* * * *
1408986 CCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGG
61 CCAGTGACATTGGACTTAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGG
* * *
1409051 ACTT-AAGGATGCATGTGT
126 ACTTCAA-GATGAAGGTGC
* * *
1409069 CAATGTGTTGATTCAAGGCCAGCGACATTAGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GTGCCAATGTGCTGATTCAAGGCCAG
* * * * *
1409134 TGACATTGGACTTAA-AGATGGTT-GAGGTGCCGATGTGCTGATTCAAGGCCAACGACATCGGTC
65 TGACATTGGACTTAAGA-AT-GTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGAC
1409197 TTCAAGATGAAGGTGC
128 TTCAAGATGAAGGTGC
* * * * * *
1409213 CAATATACTGATTCAAGGCCAGCAATATTGGGC-T-CA-TGCCAATGTGCTGATTCAAGGCCAGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGCCAATGTGCTGATTCAAGGCCAGT
1409275 GACATTGG
66 GACATTGG
1409283 GCTTGTGCCA
Statistics
Matches: 182, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
140 33 0.18
142 1 0.01
143 2 0.01
144 105 0.58
145 7 0.04
146 2 0.01
148 32 0.18
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (143 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGTGCCAATGTGCTGATTCAAGGCCAGT
GACATTGGACTTAAGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGACATCGGACTTC
AAGATGAAGGTGC
Found at i:1409358 original size:48 final size:47
Alignment explanation
Indices: 1409287--1409448 Score: 160
Period size: 48 Copynumber: 3.6 Consensus size: 47
1409277 CATTGGGCTT
* * **
1409287 GTGCCAATATACTGATTCAAGGCCAGCGACATTGGTATTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGCCTT-AAGACAAG
* * * *
1409335 GTGCCAATATGTTGATTGAAGGCCAGCAATATTGGGCTT------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGCCTTAAGACAAG
* *
1409375 -TGCCAATGTGCTGATTTAAGGCCAGCAACATTGGCCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGCCTTA-AGACAAG
1409422 GTGCCAATATGCTGATTCAAGGCCAGC
1 GTGCCAATATGCTGATTCAAGGCCAGC
1409449 GATATTGGAC
Statistics
Matches: 91, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
39 33 0.36
41 1 0.01
46 1 0.01
48 56 0.62
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCAACATTGGCCTTAAGACAAG
Found at i:1409386 original size:126 final size:127
Alignment explanation
Indices: 1409171--1409408 Score: 361
Period size: 126 Copynumber: 1.9 Consensus size: 127
1409161 TGCCGATGTG
* * *
1409171 CTGATTCAAGGCCAACGACATCGGTCTTCAAGATGAAGGTGCCAATATACTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAACGACATCGGTATTAAAGATCAAGGTGCCAATATACTGATTCAAGGCCAGC
**
1409236 AATATTGGGCTCATGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGTGCCAATATA
66 AATATTGGGCTCATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTTGTGCCAATATA
* * ** *
1409298 CTGATTCAAGGCCAGCGACATTGGTATTAAAGA-CAAGGTGCCAATATGTTGATTGAAGGCCAGC
1 CTGATTCAAGGCCAACGACATCGGTATTAAAGATCAAGGTGCCAATATACTGATTCAAGGCCAGC
* *
1409362 AATATTGGGCTTATGCCAATGTGCTGATTTAAGGCCAGCAACATTGG
66 AATATTGGGCTCATGCCAATGTGCTGATTCAAGGCCAGCAACATTGG
1409409 CCTTAGAGAC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
126 70 0.71
127 29 0.29
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (127 bp):
CTGATTCAAGGCCAACGACATCGGTATTAAAGATCAAGGTGCCAATATACTGATTCAAGGCCAGC
AATATTGGGCTCATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTTGTGCCAATATA
Found at i:1409396 original size:87 final size:87
Alignment explanation
Indices: 1409249--1409461 Score: 291
Period size: 87 Copynumber: 2.4 Consensus size: 87
1409239 ATTGGGCTCA
* * * *
1409249 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTGTGCCAATATACTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATACTGATTCAAGGCCAGC
* *
1409314 GACATTGGTATTAAAGACAAGG
66 AACATTGGCATTAAAGACAAGG
* * * * * *
1409336 TGCCAATATGTTGATTGAAGGCCAGCAATATTGGGCTTATGCCAATGTGCTGATTTAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATACTGATTCAAGGCCAGC
* *
1409401 AACATTGGCCTTAGAGACAAGG
66 AACATTGGCATTAAAGACAAGG
*
1409423 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1409462 GAAGAAGATG
Statistics
Matches: 108, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 108 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (87 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTATGCCAATATACTGATTCAAGGCCAGC
AACATTGGCATTAAAGACAAGG
Found at i:1409570 original size:57 final size:57
Alignment explanation
Indices: 1409483--1409607 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 57
1409473 CACCAACTTG
* * * * *
1409483 TGTGGGCTTTTGAAAGGGTTGCACCAACTTGTGTGCTTTT-GAAGGTTGCCACTGATT
1 TGTGGGC-TTTGAAAGGGGTGCACCAACTTGTGGGCTTTTAAAAGGGTGCCACTGACT
* *
1409540 TGTGGGCTTTGCAAGGGGTGCCACCGACTTGTGGGCTTTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGGTG-CACCAACTTGTGGGCTTTT-AAAAGGGTGCCACTGACT
1409599 TGTGGGCTT
1 TGTGGGCTT
1409608 AAAAAGAGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 11 0.19
57 24 0.41
59 23 0.40
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.33
Consensus pattern (57 bp):
TGTGGGCTTTGAAAGGGGTGCACCAACTTGTGGGCTTTTAAAAGGGTGCCACTGACT
Found at i:1409571 original size:29 final size:30
Alignment explanation
Indices: 1409483--1409607 Score: 132
Period size: 29 Copynumber: 4.3 Consensus size: 30
1409473 CACCAACTTG
* *
1409483 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* * * *
1409512 TGTGTGCTTTTG-AA-GGTTGCCACTGATT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
*
1409540 TGTGGGC-TTTGCAAGGGGTGCCACCGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
* * *
1409569 TGTGGGCTTTTAAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGGGTGCCACCGACT
1409599 TGTGGGCTT
1 TGTGGGCTT
1409608 AAAAAGAGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
27 9 0.11
28 15 0.19
29 29 0.36
30 27 0.34
ACGTcount: A:0.17, C:0.18, G:0.33, T:0.33
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAGGGGTGCCACCGACT
Found at i:1409661 original size:27 final size:27
Alignment explanation
Indices: 1409616--1409698 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
1409606 TTAAAAAGAG
* * *
1409616 AAAGATGCCATGGACTTGTGGACTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAA
1409643 AAAGGTGCCACGGAGTTGTGGACTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAA
* *
1409670 AAGGGTGCCACGGAGTTATGGACTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAA
1409697 AA
1 AA
1409699 GGAAAAAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAGGTGCCACGGAGTTGTGGACTTAA
Found at i:1409713 original size:34 final size:34
Alignment explanation
Indices: 1409675--1409791 Score: 146
Period size: 34 Copynumber: 3.4 Consensus size: 34
1409665 CTTAAAAGGG
*
1409675 TGCCACGGAGTTATGGACTTAAAAGGAAAAAGAA
1 TGCCACGAAGTTATGGACTTAAAAGGAAAAAGAA
* * * * * *
1409709 TGCCACGGAGTTTTGGGCTTTAAAAAGAAAATG-G
1 TGCCACGAAGTTATGGAC-TTAAAAGGAAAAAGAA
*
1409743 TGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAA
1 TGCCACGAAGTTATGGACTTAAAAGGAAAAAGAA
1409777 TGCCACGAAGTTATG
1 TGCCACGAAGTTATG
1409792 AGCTTTAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 12 0.17
34 45 0.65
35 12 0.17
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (34 bp):
TGCCACGAAGTTATGGACTTAAAAGGAAAAAGAA
Found at i:1409782 original size:68 final size:67
Alignment explanation
Indices: 1409668--1409833 Score: 228
Period size: 68 Copynumber: 2.5 Consensus size: 67
1409658 TTGTGGACTT
* * * * * *
1409668 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAATGCCACGGAGTTTTGGGCTTTAAA
1 AAAATGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGAAGTTATGAGCTTT-AA
1409733 AAG
65 AAG
1409736 AAAATGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGAAGTTATGAGCTTTAAA
1 AAAATGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGAAGTTATGAGCTTTAAA
1409801 AG
66 AG
***
1409803 -GGCT-GTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAATGGTGCCACGAAGTTGTGGACTTAAAAGG
1409834 GTGCCACAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 27 0.30
66 1 0.01
67 5 0.06
68 56 0.63
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (67 bp):
AAAATGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGAAGTTATGAGCTTTAAA
AG
Found at i:1409881 original size:30 final size:30
Alignment explanation
Indices: 1409835--1410112 Score: 236
Period size: 30 Copynumber: 9.0 Consensus size: 30
1409825 CTTAAAAGGG
* *
1409835 TGCCACAGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAGA
* * *
1409865 TGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAGA
* * * * *
1409895 TGCAATTGAGTCATGGACTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTG--GGAAAAGA
*
1409927 TGCCACTAAGTCGTGGAC-TTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGG--GAAAA-GA
* * *
1409959 TGCCACTGAGTCTTGGAC-TTAGAAAATAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAA-AGA
* * *
1409989 TGCCATTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-GGAAAAGA
* *
1410020 TGCCACTGAGTCGTGGACTTTGGGAAGAGG
1 TGCCACTGAGTCGTGGACTTTGGGAAAAGA
* **
1410050 TGCCACTGAGTCATGGACTTTAAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTT---GGGAAAAGA
* *
1410083 TGCCACTAAGTCGTGGACTTTGAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGGGAAAAGA
1410113 GATTTGAAGA
Statistics
Matches: 197, Mismatches: 40, Indels: 22
0.76 0.15 0.08
Matches are distributed among these distances:
29 1 0.01
30 98 0.50
31 33 0.17
32 41 0.21
33 24 0.12
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGGGAAAAGA
Found at i:1409944 original size:62 final size:63
Alignment explanation
Indices: 1409864--1410110 Score: 245
Period size: 61 Copynumber: 4.0 Consensus size: 63
1409854 TTGGGAAGAG
* * *
1409864 ATGCCACTGAGTTGTGGACTTTG-AGAAGAGATGCAATTGAGTCATGGACTTTGAAGAAAA-AA
1 ATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTG-AGAAAATAA
* * * * *
1409926 ATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTGAGTCTTGGAC-TT-AGAAAATAG
1 ATGCCACTGAGTTGTGGACTTTGAAGAAAA-GATGCCACTGAGTCATGGACTTTGAGAAAATAA
* * * * *
1409988 ATGCCATTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTG-G-GAAGAG
1 ATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAGAAAATAA
* ** * * *
1410049 GTGCCACTGAGTCATGGACTTTAAAGAAAAAAGATGCCACTAAGTCGTGGACTTTGAGAAAA
1 ATGCCACTGAGTTGTGGACTTTGAAG--AAAAGATGCCACTGAGTCATGGACTTTGAGAAAA
1410111 GAGATTTGAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
61 50 0.32
62 50 0.32
63 34 0.22
64 18 0.12
65 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (63 bp):
ATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAGAAAATAA
Found at i:1409976 original size:94 final size:92
Alignment explanation
Indices: 1409835--1410110 Score: 303
Period size: 94 Copynumber: 3.0 Consensus size: 92
1409825 CTTAAAAGGG
*
1409835 TGCCAC-AGAGTCGTGGACTTTGGGAAGA-GATGCCACTGAGT-TGTGGACTTTGAGAAGAGATG
1 TGCCACTA-AGTCGTGGACTTTGGGAAGAGGATGCCACTGAGTCT-TGGACTTTGAAAAGAGATG
1409897 CAATTGAGTCATGGACTTTGAAGAAAAAAA
64 CAATTGAGTCATGGACTTTGAAG-AAAAAA
* * *
1409927 TGCCACTAAGTCGTGGAC-TTGGAAGAAAAGGATGCCACTGAGTCTTGGACTTAGAAAATAGATG
1 TGCCACTAAGTCGTGGACTTTGG--GAAGAGGATGCCACTGAGTCTTGGACTTTGAAAAGAGATG
* ** *
1409991 CCATTGAGTTGTGGACTTTGAAGAAAAGA
64 CAATTGAGTCATGGACTTTGAAGAAAAAA
* * *
1410020 TGCCACTGAGTCGTGGACTTTGGGAAGAGG-TGCCACTGAGTCATGGACTTTAAAGAAAAAAGAT
1 TGCCACTAAGTCGTGGACTTTGGGAAGAGGATGCCACTGAGTCTTGGACTTT---GAAAAGAGAT
* * * *
1410084 GCCACTAAGTCGTGGACTTTG-AGAAAA
63 GCAATTGAGTCATGGACTTTGAAGAAAA
1410111 GAGATTTGAA
Statistics
Matches: 159, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
91 23 0.14
92 22 0.14
93 33 0.21
94 80 0.50
95 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (92 bp):
TGCCACTAAGTCGTGGACTTTGGGAAGAGGATGCCACTGAGTCTTGGACTTTGAAAAGAGATGCA
ATTGAGTCATGGACTTTGAAGAAAAAA
Found at i:1409976 original size:124 final size:124
Alignment explanation
Indices: 1409828--1410115 Score: 328
Period size: 124 Copynumber: 2.3 Consensus size: 124
1409818 TTGTGGACTT
* * ** *
1409828 AAAAGGGTGCCACAGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTTGTGGACTTTG-AGAAG
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
* * *
1409892 AGATGCAATTGAGTCATGGACTTTGAAGAAAAAAATGCCACTAAGTCGTGGACTTGGAAG-
66 AGATGCAACTGAGTCATGGACTTTG--GAAAAAAATGCCACTAAGTCATGGACTTGAAAGA
* * * *
1409952 AAAAGGATGCCACTGAGTCTTGGACTTAGAAAATAGATGCCATTGAGTTGTGGACTTTGAAGAAA
1 AAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
* * * * ** * *
1410017 AGATGCCACTGAGTCGTGGACTTTGGGAAGAGGTGCCACTGAGTCATGGACTTTAAAGA
66 AGATGCAACTGAGTCATGGACTTTGGAAAAAAATGCCACTAAGTCATGGACTTGAAAGA
* *
1410076 AAAAAGATGCCACTAAGTCGTGGACTTTGAGAAAAGAGAT
1 AAAAGGATGCCACTGAGTCGTGGACTTT--GAAAAGAGAT
1410116 TTGAAGAATT
Statistics
Matches: 135, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
123 25 0.19
124 75 0.56
125 26 0.19
126 9 0.07
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (124 bp):
AAAAGGATGCCACTGAGTCGTGGACTTTGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAA
AGATGCAACTGAGTCATGGACTTTGGAAAAAAATGCCACTAAGTCATGGACTTGAAAGA
Found at i:1411407 original size:7 final size:7
Alignment explanation
Indices: 1411395--1411444 Score: 70
Period size: 6 Copynumber: 7.4 Consensus size: 7
1411385 TCTTTTTTTG
1411395 TTTGTTT
1 TTTGTTT
1411402 TTTG-TT
1 TTTGTTT
1411408 TTTG-TT
1 TTTGTTT
1411414 TTTGTTT
1 TTTGTTT
1411421 TTTGTTT
1 TTTGTTT
1411428 TTT-TTT
1 TTTGTTT
1411434 TTTGTGTT
1 TTTGT-TT
1411442 TTT
1 TTT
1411445 ACTTTTGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 18 0.45
7 17 0.43
8 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (7 bp):
TTTGTTT
Found at i:1411411 original size:6 final size:6
Alignment explanation
Indices: 1411389--1411434 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
1411379 TTGCACTCTT
*
1411389 TTTTTG TTTGT- TTTTTG TTTTTG TTTTTG TTTTTTG TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -TTTTTG TTTTTG TTTTT
1411435 TTGTGTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 9 0.25
6 21 0.58
7 6 0.17
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTTTG
Found at i:1411435 original size:19 final size:19
Alignment explanation
Indices: 1411387--1411435 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1411377 CTTTGCACTC
*
1411387 TTTTTTTGTTTGTTTTTTG
1 TTTTTTTTTTTGTTTTTTG
*
1411406 TTTTTGTTTTTGTTTTTTG
1 TTTTTTTTTTTGTTTTTTG
1411425 TTTTTTTTTTT
1 TTTTTTTTTTT
1411436 TGTGTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTTTTTTGTTTTTTG
Found at i:1411436 original size:13 final size:13
Alignment explanation
Indices: 1411387--1411444 Score: 80
Period size: 13 Copynumber: 4.4 Consensus size: 13
1411377 CTTTGCACTC
*
1411387 TTTTTTTGTTTGT
1 TTTTTTTTTTTGT
*
1411400 TTTTTGTTTTTGT
1 TTTTTTTTTTTGT
*
1411413 TTTTGTTTTTTGT
1 TTTTTTTTTTTGT
1411426 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
1411439 GTTTTT
1 -TTTTT
1411445 ACTTTTGACT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
13 34 0.87
14 5 0.13
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Done.