Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 66 of 207
Found at i:19090236 original size:27 final size:27
Alignment explanation
Indices: 19090206--19090284 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
19090196 TTGCCAATTA
* * * *
19090206 GTTTGGCAAGCTGGAGTTCACTAGTTG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
* *
19090233 GTTTGGCGAGTTGGGGTTCGCCAGTAG
1 GTTTGGCGAGCTGGGGTTCACCAGTAG
*
19090260 GTTTTGCGAGCTGGGGTTCACCAGT
1 GTTTGGCGAGCTGGGGTTCACCAGT
19090285 CTAAGTCGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.14, C:0.16, G:0.38, T:0.32
Consensus pattern (27 bp):
GTTTGGCGAGCTGGGGTTCACCAGTAG
Found at i:19090875 original size:14 final size:16
Alignment explanation
Indices: 19090858--19090889 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
19090848 TCAAGTTGTG
19090858 TTTTT-AAGTTAT-TT
1 TTTTTAAAGTTATGTT
19090872 TTTTTAAAGTTATGTT
1 TTTTTAAAGTTATGTT
19090888 TT
1 TT
19090890 ATGCGTGCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 7 0.44
16 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTTTAAAGTTATGTT
Found at i:19093921 original size:25 final size:25
Alignment explanation
Indices: 19093873--19093921 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19093863 CATAATTGAA
* * *
19093873 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
19093898 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
19093922 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:19094386 original size:43 final size:43
Alignment explanation
Indices: 19094317--19094398 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
19094307 TATGTGATTG
* *
19094317 ATATTGAAATGAAAAAGATTAGAAATGAATATGAGATGAAAAA
1 ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAAAAA
* *
19094360 ATATTGAAATGAAAAATATGAAAAATGATTATGAGATGA
1 ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGA
19094399 GAAATGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAAAAATGAATATGAGATGAAAAA
Found at i:19095322 original size:30 final size:30
Alignment explanation
Indices: 19095288--19095362 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
19095278 CACGGCTTGG
*
19095288 ACACACA--GGCGTGTGTCACACACGGGCA
1 ACACACATGGGCGTGTGTCACACACAGGCA
*
19095316 ACACACATGGGCATGTGTCACACACAGGCA
1 ACACACATGGGCGTGTGTCACACACAGGCA
19095346 ACACACATGGGCGTGTG
1 ACACACATGGGCGTGTG
19095363 ACCCAAGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 7 0.17
30 35 0.83
ACGTcount: A:0.29, C:0.29, G:0.28, T:0.13
Consensus pattern (30 bp):
ACACACATGGGCGTGTGTCACACACAGGCA
Found at i:19100655 original size:2 final size:2
Alignment explanation
Indices: 19100648--19100703 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
19100638 CAAGGCTCAC
19100648 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19100690 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
19100704 GAGATGATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19110041 original size:166 final size:166
Alignment explanation
Indices: 19109767--19110101 Score: 580
Period size: 166 Copynumber: 2.0 Consensus size: 166
19109757 AAGTTTTGAG
19109767 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
1 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
*
19109832 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTGAGCATTTTCATGTAATCATT
66 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
19109897 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
131 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
* * **
19109933 TAAGGAACTGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTTATTTTTGATGACTTT
1 TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
* * *
19109998 GAGGATCTTATGACTCTGTTGTGTTCTTCTTTTAGGAAATCTTTCTGCATTTTCATGTAATCATT
66 CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
* *
19110063 GTGATTGTCTAGTTGTCTTCTCTAATTTCTTTTAAT
131 GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
19110099 TAA
1 TAA
19110102 TATTAATTTT
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
166 159 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (166 bp):
TAAGGAAATGGTCATAACTTGATGTTTAATGGTGTGGGAATAAAATCTTCATTTCAGATGACTTT
CAGGATCTTATGACTCTCTTGTGTTCTTCTTTTAGGAAATCTTTCAGCATTTTCATGTAATCATT
GCGATTGTCTAGTTGTCTTCCCTAATTTCTTTTAAT
Found at i:19119972 original size:81 final size:81
Alignment explanation
Indices: 19119837--19120006 Score: 331
Period size: 81 Copynumber: 2.1 Consensus size: 81
19119827 ACTGAAAACG
19119837 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
1 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
19119902 CGCATCCTGGCGCACA
66 CGCATCCTGGCGCACA
*
19119918 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTGGCATGTAAGTGCATACTAGCGCATACAA
1 AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
19119983 CGCATCCTGGCGCACA
66 CGCATCCTGGCGCACA
19119999 AAGTGCAT
1 AAGTGCAT
19120007 ATTTGGCACA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (81 bp):
AAGTGCATTACCAGATAAATCGAAATAGGGTAAACTAGCATGTAAGTGCATACTAGCGCATACAA
CGCATCCTGGCGCACA
Found at i:19120267 original size:21 final size:21
Alignment explanation
Indices: 19120235--19120285 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
19120225 TATTCTCACT
19120235 CAATTCCATAACATATTTCAGA
1 CAATT-CATAACATATTTCAGA
19120257 CAATTCATAACATATTTCAGA
1 CAATTCATAACATATTTCAGA
19120278 CAATTCAT
1 CAATTCAT
19120286 GCTATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
CAATTCATAACATATTTCAGA
Found at i:19123427 original size:68 final size:64
Alignment explanation
Indices: 19123276--19123433 Score: 174
Period size: 64 Copynumber: 2.4 Consensus size: 64
19123266 TATATATTTT
* * * *
19123276 AAAGTTCTTGAGCTGAAATTAATGTACGAATTTTATATACATATGTGATTCAAATATAGGTTAT
1 AAAGTTATTGAGCTGAATTTAATGTACGAATTTTACATACATATGTGATTCAAATATAGGTTAC
* * *
19123340 AAAGTTATTGAGCTGAATTTAATTTATGAATTTTACATACATATGTGTATGGTTCGAATATAGGT
1 AAAGTTATTGAGCTGAATTTAATGTACGAATTTTACATACATATGTG-A---TTCAAATATAGGT
19123405 TAC
62 TAC
* *
19123408 AAA-TTCTTTGAACTGAATTTTAATGT
1 AAAGTT-ATTGAGCTGAA-TTTAATGT
19123434 TGTAAATTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
64 42 0.54
65 1 0.01
67 2 0.03
68 26 0.33
69 7 0.09
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (64 bp):
AAAGTTATTGAGCTGAATTTAATGTACGAATTTTACATACATATGTGATTCAAATATAGGTTAC
Found at i:19123536 original size:41 final size:41
Alignment explanation
Indices: 19123472--19123584 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 41
19123462 ATTTGAAATT
*
19123472 TTCAGGCTTAATGCCTAGCAGGC-TTGATGCCGGTGAATTAA
1 TTCAGACTTAATGCCTAGCAGGCTTTG-TGCCGGTGAATTAA
* * *
19123513 TTCAGACTTTATGTCTAGGAGGCTTTGTGCCGGTGAAATGT-A
1 TTCAGACTTAATGCCTAGCAGGCTTTGTGCCGGTG-AAT-TAA
* **
19123555 -TCAGGCTTTGTGCCTAGCAGGCTTTGTGCC
1 TTCAGACTTAATGCCTAGCAGGCTTTGTGCC
19123585 TAGCAGGCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 53 0.87
42 7 0.11
43 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTCAGACTTAATGCCTAGCAGGCTTTGTGCCGGTGAATTAA
Found at i:19123577 original size:16 final size:16
Alignment explanation
Indices: 19123556--19123595 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
19123546 TGAAATGTAT
19123556 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
19123572 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
19123588 CAGGCTTT
1 CAGGCTTT
19123596 ACGCCGGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.25, G:0.30, T:0.33
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:19127030 original size:21 final size:20
Alignment explanation
Indices: 19127005--19127043 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19126995 TAGAAATAAG
19127005 TATATAAATTAAATGCTAACA
1 TATATAAATTAAAT-CTAACA
* *
19127026 TATATCAATTGAATCTAA
1 TATATAAATTAAATCTAA
19127044 TCATGGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (20 bp):
TATATAAATTAAATCTAACA
Found at i:19128206 original size:20 final size:20
Alignment explanation
Indices: 19128181--19128318 Score: 77
Period size: 20 Copynumber: 6.9 Consensus size: 20
19128171 ATAGATGCGT
19128181 AACAGAGGCACCGAAGTGCA
1 AACAGAGGCACCGAAGTGCA
*
19128201 AACAGAGGCA-C-AATTTTGCA
1 AACAGAGGCACCGAA--GTGCA
* * *
19128221 ATCAAAGGCA-CGATTGTGCA
1 AACAGAGGCACCGA-AGTGCA
** * **
19128241 ATGAGAGGCACTGCTGTGCA
1 AACAGAGGCACCGAAGTGCA
** *
19128261 AACAGAAACACCGAAGTGTA
1 AACAGAGGCACCGAAGTGCA
* *
19128281 AATAGAGGCACTGAAGTGCGA
1 AACAGAGGCACCGAAGTGC-A
*
19128302 AA-AGAGGCACTGAAGTG
1 AACAGAGGCACCGAAGTG
19128319 TAATCCCGTA
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 82 0.91
21 5 0.06
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.14
Consensus pattern (20 bp):
AACAGAGGCACCGAAGTGCA
Found at i:19130001 original size:42 final size:42
Alignment explanation
Indices: 19129954--19130034 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
19129944 TTTCGAACAG
19129954 ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
1 ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
19129996 ATTGGTTATTAAAACAATTCATTAATTACATTAATATAC
1 ATTGGTTATTAAAACAATTCATTAATTACATTAATATAC
19130035 TTTGTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (42 bp):
ATTGGTTATTAAAACAATTCATTAATTACATTAATATACATT
Found at i:19131590 original size:11 final size:11
Alignment explanation
Indices: 19131576--19131651 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
19131566 GATAATCATT
19131576 TTAATATTAAA
1 TTAATATTAAA
19131587 TTAATA--AAA
1 TTAATATTAAA
*
19131596 -TACTATTAAGA
1 TTAATATTAA-A
* *
19131607 TAAATAGTAAA
1 TTAATATTAAA
*
19131618 TTAAAATTAATA
1 TTAATATTAA-A
19131630 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
19131643 GTAATATTA
1 TTAATATTA
19131652 TTTTTGGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 20 0.41
12 11 0.22
13 4 0.08
14 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:19131591 original size:20 final size:18
Alignment explanation
Indices: 19131544--19131650 Score: 51
Period size: 19 Copynumber: 5.8 Consensus size: 18
19131534 CAAGATAAAC
19131544 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
*
19131561 ATTCAGA-TAATCATTTTAAT
1 ATT-AAATTAAT-A-TTTAAT
** *
19131581 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
* *
19131600 ATTAAGATAAATA-GTAA-
1 ATTAA-ATTAATATTTAAT
*
19131617 ATTAAAATTAATATTAAACT
1 ATT-AAATTAATATTTAA-T
*
19131637 ATTAAAGTAATATT
1 ATTAAATTAATATT
19131651 ATTTTTGGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 18
0.68 0.13 0.18
Matches are distributed among these distances:
17 15 0.22
18 8 0.12
19 22 0.33
20 22 0.33
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:19136396 original size:38 final size:38
Alignment explanation
Indices: 19136328--19136424 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 38
19136318 CAGTAGGCCA
* ** *
19136328 AAGG-CCAGTAGATAACTGTTCGTACGGTGTTGCCTCG
1 AAGGACCAGTAGATAACCGTTCACACAGTGTTGCCTCG
*
19136365 AAGGACCAGTGGATAACCGTTCACACAGTGTTGCCTCG
1 AAGGACCAGTAGATAACCGTTCACACAGTGTTGCCTCG
* *
19136403 AAGGACGAGTAGATAGCCGTTC
1 AAGGACCAGTAGATAACCGTTC
19136425 CATGATTTCC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 4 0.08
38 47 0.92
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (38 bp):
AAGGACCAGTAGATAACCGTTCACACAGTGTTGCCTCG
Found at i:19142416 original size:23 final size:24
Alignment explanation
Indices: 19142364--19142434 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 24
19142354 ATATAAATCC
* *
19142364 AGAAAAGAAGAAAAACAAATAACA
1 AGAAAAAAAGAAAAACAAATAAAA
* *
19142388 A-TAAAAAAGAAAAAGAAA-AAAA
1 AGAAAAAAAGAAAAACAAATAAAA
**
19142410 AGAAAAAAATGAAAATTAAATAAAA
1 AGAAAAAAA-GAAAAACAAATAAAA
19142435 GATAATTGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 4 0.11
23 20 0.54
24 9 0.24
25 4 0.11
ACGTcount: A:0.79, C:0.03, G:0.10, T:0.08
Consensus pattern (24 bp):
AGAAAAAAAGAAAAACAAATAAAA
Found at i:19144290 original size:9 final size:9
Alignment explanation
Indices: 19144276--19144311 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
19144266 ATATTTATAA
19144276 CTCATAAAC
1 CTCATAAAC
19144285 CTCATAAAC
1 CTCATAAAC
19144294 CTCATAAAC
1 CTCATAAAC
19144303 CTCATAAAC
1 CTCATAAAC
19144312 AAAAGCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.22
Consensus pattern (9 bp):
CTCATAAAC
Found at i:19148304 original size:20 final size:20
Alignment explanation
Indices: 19148279--19148318 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19148269 AACATTCAAA
19148279 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
19148299 ATACCATAACACAAGCCAAG
1 ATACCATAACACAAGCCAAG
19148319 CCATATGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.12
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:19149445 original size:25 final size:25
Alignment explanation
Indices: 19149417--19149513 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 25
19149407 GTATGCGCAT
* * *
19149417 ACGAGTTATGAATCGGTATGCTCTC
1 ACGAGCTATAAATCGGTAAGCTCTC
19149442 ACGAGCTATAAATCGGTAAGCTCAT-
1 ACGAGCTATAAATCGGTAAGCTC-TC
* * *
19149467 ACGAGCTGA-GAATCGATAAGCTCTA
1 ACGAGCT-ATAAATCGGTAAGCTCTC
**
19149492 ACGAGCT-GCAATCGGTAAGCTC
1 ACGAGCTATAAATCGGTAAGCTC
19149514 ATATGAACCG
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
24 13 0.21
25 46 0.75
26 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (25 bp):
ACGAGCTATAAATCGGTAAGCTCTC
Found at i:19152385 original size:34 final size:35
Alignment explanation
Indices: 19152341--19152407 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19152331 CAGTAAAATA
*
19152341 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
19152375 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
19152408 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:19152809 original size:21 final size:21
Alignment explanation
Indices: 19152780--19152821 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19152770 ACGGAAATTG
*
19152780 AAAAGGTAAGACATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
* *
19152801 AAAATGTAACCCATTTTCCCT
1 AAAAGGTAACACATTTTCCCT
19152822 TATTTTGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAAGGTAACACATTTTCCCT
Found at i:19155678 original size:9 final size:9
Alignment explanation
Indices: 19155664--19155712 Score: 71
Period size: 9 Copynumber: 5.4 Consensus size: 9
19155654 GTAGTGATTC
19155664 AATTCGGTT
1 AATTCGGTT
*
19155673 AATTCGGGT
1 AATTCGGTT
19155682 AATTCGGTT
1 AATTCGGTT
* *
19155691 AATTTGTTT
1 AATTCGGTT
19155700 AATTCGGTT
1 AATTCGGTT
19155709 AATT
1 AATT
19155713 TTAAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.47
Consensus pattern (9 bp):
AATTCGGTT
Found at i:19156066 original size:18 final size:19
Alignment explanation
Indices: 19156035--19156070 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
19156025 TTAATTAATT
19156035 TGATTTTGATTTTTGTTCC
1 TGATTTTGATTTTTGTTCC
19156054 TGATTTT-ATTTTTGTTC
1 TGATTTTGATTTTTGTTC
19156071 AAATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.11, C:0.08, G:0.14, T:0.67
Consensus pattern (19 bp):
TGATTTTGATTTTTGTTCC
Found at i:19157898 original size:7 final size:7
Alignment explanation
Indices: 19157888--19157912 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19157878 TATAATGATA
19157888 ATTATTT
1 ATTATTT
19157895 ATTATTT
1 ATTATTT
19157902 ATTATTT
1 ATTATTT
19157909 ATTA
1 ATTA
19157913 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTATTT
Found at i:19164655 original size:27 final size:27
Alignment explanation
Indices: 19164617--19164670 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
19164607 ATAAAAATCC
19164617 TTGTCTAAACCCCATCCAAGTCGGGTT
1 TTGTCTAAACCCCATCCAAGTCGGGTT
*
19164644 TTGTCTAAACCCCATTCAAGTCGGGTT
1 TTGTCTAAACCCCATCCAAGTCGGGTT
19164671 GGGCGGGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (27 bp):
TTGTCTAAACCCCATCCAAGTCGGGTT
Found at i:19165649 original size:21 final size:19
Alignment explanation
Indices: 19165625--19165667 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
19165615 AAAATAAAAT
19165625 AATTAAGATAAAAATATTACA
1 AATTAA-ATAAAAATATTA-A
* *
19165646 AATTAATTTAAAATATTAA
1 AATTAAATAAAAATATTAA
19165665 AAT
1 AAT
19165668 ATTGTACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 10 0.50
21 6 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AATTAAATAAAAATATTAA
Found at i:19166070 original size:18 final size:18
Alignment explanation
Indices: 19166024--19166086 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 18
19166014 TCGAGATAAT
19166024 GAAAAAT-ATTAAATTTAAA
1 GAAAAATAATT-AA-TTAAA
19166043 -AATAAA-AATTAATTAAA
1 GAA-AAATAATTAATTAAA
19166060 GAAAAATAATTTAA-TAAA
1 GAAAAATAA-TTAATTAAA
*
19166078 TAAAAATAA
1 GAAAAATAA
19166087 ACTAGAAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 8 0.21
18 20 0.53
19 10 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
GAAAAATAATTAATTAAA
Found at i:19166073 original size:19 final size:18
Alignment explanation
Indices: 19166051--19166086 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19166041 AAAATAAAAA
19166051 TTAATTAAAGAAAAATAAT
1 TTAA-TAAAGAAAAATAAT
*
19166070 TTAATAAATAAAAATAA
1 TTAATAAAGAAAAATAA
19166087 ACTAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TTAATAAAGAAAAATAAT
Found at i:19168796 original size:13 final size:13
Alignment explanation
Indices: 19168778--19168802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19168768 TAATTTATAT
19168778 GTGTGAAAATTTC
1 GTGTGAAAATTTC
19168791 GTGTGAAAATTT
1 GTGTGAAAATTT
19168803 GATAGTTTGA
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:19170241 original size:41 final size:41
Alignment explanation
Indices: 19170181--19170293 Score: 181
Period size: 41 Copynumber: 2.8 Consensus size: 41
19170171 TATAATTGGT
* * *
19170181 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
19170222 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
* *
19170263 CTTCAGACTTTATGTCTAGCAGGCTTCATGC
1 TTTCAGACTTTATGTCTAGCAGGCTTGATGC
19170294 TAGTGTACTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTA
Found at i:19170315 original size:41 final size:39
Alignment explanation
Indices: 19170182--19170306 Score: 126
Period size: 41 Copynumber: 3.1 Consensus size: 39
19170172 ATAATTGGTT
* * * * * *
19170182 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTG-A-TAC
* *
19170223 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTG-A-TAC
*
19170264 TTCAGACTTTATGTCTAGCAGGCTTCATGCTAGTG-TAC
1 TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTGATAC
19170302 TTCAG
1 TTCAG
19170307 TAAGCTTTAG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
38 8 0.10
41 69 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (39 bp):
TTCAGACTTTATGTCTAGCAGGCTTCATGCCAGTGATAC
Found at i:19172685 original size:11 final size:12
Alignment explanation
Indices: 19172662--19172709 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
19172652 AGTTCAAGTA
19172662 AGATGTAGA-AC
1 AGATGTAGATAC
19172673 AGAT-TAGATAC
1 AGATGTAGATAC
* *
19172684 AGATGCAGATGC
1 AGATGTAGATAC
19172696 AGA-GTAGAT-C
1 AGATGTAGATAC
19172706 AGAT
1 AGAT
19172710 ACAGATGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.26
11 15 0.48
12 8 0.26
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (12 bp):
AGATGTAGATAC
Found at i:19172708 original size:22 final size:23
Alignment explanation
Indices: 19172672--19172718 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
19172662 AGATGTAGAA
* *
19172672 CAGATTAGATACAGATGCAGATG
1 CAGAGTAGATACAGATACAGATG
19172695 CAGAGTAGAT-CAGATACAGATG
1 CAGAGTAGATACAGATACAGATG
19172717 CA
1 CA
19172719 AAACAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (23 bp):
CAGAGTAGATACAGATACAGATG
Found at i:19173511 original size:62 final size:63
Alignment explanation
Indices: 19173373--19173542 Score: 193
Period size: 62 Copynumber: 2.7 Consensus size: 63
19173363 TCCTTCACAT
* * * * *
19173373 GGCCTAGACACACGCCCGTGTCACTGTCCCGTGTGACCTTAAATCCAAAACAGTAAGTTACAC
1 GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAATCAAAAACAATAAGTTACAC
* * * * * *
19173436 AGCCTGGACACACGCCTGTGTCCCTGACCTGTGTGACC-T-AATGTAAAAACAATGAGTTATAC
1 GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAAT-CAAAAACAATAAGTTACAC
*
19173498 GGCCTGGACACACGCCCGTGTCCCTCG-CTCGTGTGACCTTAAATC
1 GGCCTGGACACACGCCCGTGTCCCT-GACCCGTGTGACCTTAAATC
19173543 CATAAACAGT
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
61 3 0.03
62 47 0.54
63 34 0.39
64 3 0.03
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (63 bp):
GGCCTGGACACACGCCCGTGTCCCTGACCCGTGTGACCTTAAATCAAAAACAATAAGTTACAC
Found at i:19174800 original size:20 final size:19
Alignment explanation
Indices: 19174775--19174820 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
19174765 TTGTAACTTT
19174775 TAAAAAGTCAAAATAATAT-A
1 TAAAAA-TCAAAA-AATATCA
*
19174795 TAAAAATTAAAAAATATCA
1 TAAAAATCAAAAAATATCA
19174814 TAAAAAT
1 TAAAAAT
19174821 TTGAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 13 0.54
20 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATCAAAAAATATCA
Found at i:19174806 original size:19 final size:19
Alignment explanation
Indices: 19174784--19174821 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
19174774 TTAAAAAGTC
19174784 AAAATAATAT-ATAAAAATT
1 AAAA-AATATCATAAAAATT
19174803 AAAAAATATCATAAAAATT
1 AAAAAATATCATAAAAATT
19174822 TGAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAAATATCATAAAAATT
Found at i:19174905 original size:15 final size:15
Alignment explanation
Indices: 19174885--19174915 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19174875 ACTTTTTAGA
19174885 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
19174900 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
19174915 A
1 A
19174916 AAAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:19174927 original size:23 final size:22
Alignment explanation
Indices: 19174871--19174928 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
19174861 CTTGAAATTT
*
19174871 AAATACTTTTTAGAATTTTAGAA
1 AAATA-TTTTTAGAATTTTAAAA
**
19174894 TTATATATTTTAGAATTTTATAAA
1 AAATAT-TTTTAGAATTTTA-AAA
19174918 AAATATTTTTA
1 AAATATTTTTA
19174929 AACCTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
22 1 0.04
23 21 0.75
24 6 0.21
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
AAATATTTTTAGAATTTTAAAA
Found at i:19174955 original size:19 final size:19
Alignment explanation
Indices: 19174933--19174970 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19174923 TTTTTAAACC
* *
19174933 TTTTTTTTTATTTTTTACA
1 TTTTTTTTCAATTTTTACA
19174952 TTTTTTTTCAATTTTTACA
1 TTTTTTTTCAATTTTTACA
19174971 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTTCAATTTTTACA
Found at i:19175680 original size:12 final size:11
Alignment explanation
Indices: 19175647--19175686 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
19175637 GATATATTAT
*
19175647 ATAATTTAAAA
1 ATAATATAAAA
*
19175658 ATTATATAAAA
1 ATAATATAAAA
19175669 ATAATATAAAA
1 ATAATATAAAA
19175680 ATTAATA
1 A-TAATA
19175687 CGGGCGTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:19176602 original size:19 final size:21
Alignment explanation
Indices: 19176566--19176621 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
19176556 AAAAAAAGAA
19176566 TCAAAATAATTTTCAAAAA-T
1 TCAAAATAATTTTCAAAAATT
19176586 TCAAAAT-ATTTAT-AAAAATT
1 TCAAAATAATTT-TCAAAAATT
*
19176606 TCAAAA-AAATTTCAAA
1 TCAAAATAATTTTCAAA
19176622 TTTTATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (21 bp):
TCAAAATAATTTTCAAAAATT
Found at i:19180702 original size:40 final size:41
Alignment explanation
Indices: 19180657--19180765 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
19180647 AATAAATATA
19180657 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
1 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
19180698 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATAC-T
1 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
* *
19180738 TTTTTTAATTTTTTTTATTTTTAAAATA
1 TTTTTTTA-TTTTTTTAATTTTAAAATA
19180766 AATTTTTGGT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 8 0.12
41 57 0.88
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (41 bp):
TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACTT
Found at i:19185020 original size:25 final size:25
Alignment explanation
Indices: 19184984--19185123 Score: 120
Period size: 25 Copynumber: 5.6 Consensus size: 25
19184974 GTTTTGACCC
*
19184984 ACAGCTCATGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * *
19185009 ATAGCTCGTGTGAGCATATCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
* ** *
19185034 ACAGATCGTGTGAGCATATAGGTTT
1 ACAGCTCGTGTGAGCATACCGATTT
* * * *
19185059 ATAGCTTGTGAGAGCATACCGATCT
1 ACAGCTCGTGTGAGCATACCGATTT
** *
19185084 ACAGCTCAAGTGAACATACCG-TTT
1 ACAGCTCGTGTGAGCATACCGATTT
*
19185108 CACAGCTCGTATGAGC
1 -ACAGCTCGTGTGAGC
19185124 GTACATGTAC
Statistics
Matches: 86, Mismatches: 28, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
24 2 0.02
25 84 0.98
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:19185050 original size:50 final size:49
Alignment explanation
Indices: 19184984--19185123 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 49
19184974 GTTTTGACCC
* *
19184984 ACAGCTCATGTGAGCATACCGATTTATAGCTCGTGTGAGCATATCGATCT
1 ACAGATCATGTGAGCATACCG-TTTATAGCTCGTGTGAGCATACCGATCT
* ** * *
19185034 ACAGATCGTGTGAGCATATAGGTTTATAGCTTGTGAGAGCATACCGATCT
1 ACAGATCATGTGAGCATA-CCGTTTATAGCTCGTGTGAGCATACCGATCT
* * * * *
19185084 ACAGCTCAAGTGAACATACCGTTTCACAGCTCGTATGAGC
1 ACAGATCATGTGAGCATACCGTTT-ATAGCTCGTGTGAGC
19185124 GTACATGTAC
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
49 4 0.06
50 66 0.93
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
ACAGATCATGTGAGCATACCGTTTATAGCTCGTGTGAGCATACCGATCT
Found at i:19188038 original size:41 final size:41
Alignment explanation
Indices: 19187981--19188064 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
19187971 CCAAGGTATA
19187981 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
1 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
19188022 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
1 AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
19188063 AA
1 AA
19188065 CTTAAGTATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (41 bp):
AAGGCTAAAAGTGTAAATAAACCTAAGCTACATTGATAACT
Found at i:19188051 original size:23 final size:23
Alignment explanation
Indices: 19187984--19188051 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
19187974 AGGTATAAAG
19187984 GCTAAAAGTGTAAATAAACCTAA
1 GCTAAAAGTGTAAATAAACCTAA
* *
19188007 GCT-ACA-T-T-GAT-AA-CTAA
1 GCTAAAAGTGTAAATAAACCTAA
19188024 GGCTAAAAGTGTAAATAAACCTAA
1 -GCTAAAAGTGTAAATAAACCTAA
19188048 GCTA
1 GCTA
19188052 CATTGATAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 4 0.12
18 5 0.15
19 4 0.12
20 2 0.06
21 2 0.06
22 4 0.12
23 9 0.26
24 4 0.12
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (23 bp):
GCTAAAAGTGTAAATAAACCTAA
Found at i:19192307 original size:37 final size:37
Alignment explanation
Indices: 19192265--19192414 Score: 115
Period size: 37 Copynumber: 4.1 Consensus size: 37
19192255 GGCTGATGTA
* *
19192265 TAGCTCTTCAAAGCATTTGTCATGTTATTGGTTGGAC
1 TAGCTCTTCAAAGCATTTGGCATGTTATCGGTTGGAC
* ** * *
19192302 TAGCTCTACGGAGCATTTGGCGTGTTATCGGTTGGAT
1 TAGCTCTTCAAAGCATTTGGCATGTTATCGGTTGGAC
** * ** *
19192339 TAGCTCTTTGGAA-CATATGGTGTGTTATCGGTTGGAT
1 TAGCTC-TTCAAAGCATTTGGCATGTTATCGGTTGGAC
* * * *
19192376 TAGCTC-TCATGAGCATTTGACGTGTTTTCGGTTGGAC
1 TAGCTCTTCA-AAGCATTTGGCATGTTATCGGTTGGAC
19192413 TA
1 TA
19192415 TTGTGCTCGT
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 85 0.94
38 3 0.03
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.39
Consensus pattern (37 bp):
TAGCTCTTCAAAGCATTTGGCATGTTATCGGTTGGAC
Found at i:19192345 original size:74 final size:74
Alignment explanation
Indices: 19192265--19192411 Score: 165
Period size: 74 Copynumber: 2.0 Consensus size: 74
19192255 GGCTGATGTA
* * *
19192265 TAGCTC-TTCAAAGCAT-TTGTCATGTTATTGGTTGGACTAGCTCT-ACGGAGCATTTGGCGTGT
1 TAGCTCTTTCAAA-CATATGGT-ATGTTATCGGTTGGACTAGCTCTCA-GGAGCATTTGACGTGT
19192327 TATCGGTTGGAT
63 TATCGGTTGGAT
** * * * *
19192339 TAGCTCTTTGGAACATATGGTGTGTTATCGGTTGGATTAGCTCTCATGAGCATTTGACGTGTTTT
1 TAGCTCTTTCAAACATATGGTATGTTATCGGTTGGACTAGCTCTCAGGAGCATTTGACGTGTTAT
19192404 CGGTTGGA
66 CGGTTGGA
19192412 CTATTGTGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
74 53 0.87
75 8 0.13
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (74 bp):
TAGCTCTTTCAAACATATGGTATGTTATCGGTTGGACTAGCTCTCAGGAGCATTTGACGTGTTAT
CGGTTGGAT
Found at i:19198853 original size:40 final size:40
Alignment explanation
Indices: 19198777--19198860 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
19198767 TGTATAAGCC
*
19198777 TTCAGGAGTACCGAAGTACAAACAGAGACATATATGTGCA
1 TTCAGGAGTACCGAAGTACAAACAGAGACACATATGTGCA
* * * *
19198817 TTCAGGGGTACTGAAGTACAAACATG-GGCACGTATGTGCA
1 TTCAGGAGTACCGAAGTACAAACA-GAGACACATATGTGCA
19198857 TTCA
1 TTCA
19198861 TAGAACAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
TTCAGGAGTACCGAAGTACAAACAGAGACACATATGTGCA
Found at i:19200861 original size:14 final size:14
Alignment explanation
Indices: 19200842--19200869 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19200832 GATAATGTTT
19200842 TTGAATTTGATAAA
1 TTGAATTTGATAAA
19200856 TTGAATTTGATAAA
1 TTGAATTTGATAAA
19200870 CGAAGGAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TTGAATTTGATAAA
Found at i:19207483 original size:50 final size:50
Alignment explanation
Indices: 19207407--19207746 Score: 233
Period size: 50 Copynumber: 6.8 Consensus size: 50
19207397 GTGATGTCAG
* *
19207407 GGAAGCAAGATTCGCCGCTGTGGCTTTAATCTGTTCCACTGCACTATTTA
1 GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACTGCACTATCTA
* * * * ** * * * *
19207457 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCT-TCTTAACTACAATGTCGA
1 GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGT-TCCACTGCACTATCTA
* *
19207507 GGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTT-CACTGCACTGTCT-
1 GGAAGCAAGATTCGCCGATGTGGCTTTAATCTG-TTCCACTGCACTATCTA
* * * * ** * *
19207556 GGAAGGTAAGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCAATGTC-A
1 GGAA-GCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACTGCACTATCTA
* * ** *
19207606 GGGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCACTGCA-TCGCCTG
1 -GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACTGCACT-ATCTA
* * * ** * * ** * *
19207657 GGAGGTAAGATTCACTAATGTAGCTTTAATCTTTTGAACTGCAATGTC-A
1 GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACTGCACTATCTA
*
19207706 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACT
1 -GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACT
19207747 ACATCGCTTG
Statistics
Matches: 223, Mismatches: 56, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
49 8 0.04
50 208 0.93
51 6 0.03
52 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (50 bp):
GGAAGCAAGATTCGCCGATGTGGCTTTAATCTGTTCCACTGCACTATCTA
Found at i:19207565 original size:100 final size:100
Alignment explanation
Indices: 19207400--19207746 Score: 515
Period size: 100 Copynumber: 3.5 Consensus size: 100
19207390 CATAACTGTG
* * * *
19207400 ATGTCAGGGAAGCAAGATTCGCCGCTGTGGCTTTAATCTGTTCCACTGCACTATTTAGGAA-GTA
1 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGTCT-GGAAGGTA
* *
19207464 AGATTCGCTGTTGTAGCTTTAATCTTCTT-AACTACA
65 AGATTCGCTGATGTAGCTTTAATCTT-TTGAACTGCA
19207500 ATGTC-GAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTT-CACTGCACTGTCTGGAAGGT
1 ATGTCAG-GGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCACTGCACTGTCTGGAAGGT
19207563 AAGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
64 AAGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
* * *
19207600 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATTTGTTCCACTGCA-TCGCCTGGGAGGTA
1 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACT-GTCTGGAAGGTA
* *
19207664 AGATTCACTAATGTAGCTTTAATCTTTTGAACTGCA
65 AGATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
19207700 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACT
1 ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACT
19207747 ACATCGCTTG
Statistics
Matches: 228, Mismatches: 12, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
99 10 0.04
100 215 0.94
101 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
ATGTCAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACTGTCTGGAAGGTAA
GATTCGCTGATGTAGCTTTAATCTTTTGAACTGCA
Found at i:19209352 original size:7 final size:8
Alignment explanation
Indices: 19209317--19209351 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
19209307 TCATTTTCCA
19209317 TTTTCATT
1 TTTTCATT
*
19209325 TTTTTATT
1 TTTTCATT
19209333 TTTTCATT
1 TTTTCATT
19209341 TTTTCATT
1 TTTTCATT
19209349 TTT
1 TTT
19209352 CGTCTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCATT
Found at i:19209792 original size:6 final size:6
Alignment explanation
Indices: 19209783--19209810 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
19209773 CTTTTTTCGT
19209783 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
19209811 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:19212248 original size:20 final size:21
Alignment explanation
Indices: 19212206--19212249 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
19212196 ATCTTTTGCA
19212206 TTTGCTCCAGTTTCTCTAATC
1 TTTGCTCCAGTTTCTCTAATC
* * *
19212227 TTTGGTCCA-TTTCTTTAGTC
1 TTTGCTCCAGTTTCTCTAATC
19212247 TTT
1 TTT
19212250 CGACGAGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.55
Consensus pattern (21 bp):
TTTGCTCCAGTTTCTCTAATC
Found at i:19222670 original size:28 final size:29
Alignment explanation
Indices: 19222634--19222694 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
19222624 ATCAAAAAAA
*
19222634 TTTTCTTCTCTCAATTTCT-CCAACATCT
1 TTTTCTTCTCTCAATTTCTCCCAACATAT
* *
19222662 TTTTCTTCTCTTATTTTCTCCCAACATAT
1 TTTTCTTCTCTCAATTTCTCCCAACATAT
19222691 TTTT
1 TTTT
19222695 TTTTCACTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.59
29 12 0.41
ACGTcount: A:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTCTTCTCTCAATTTCTCCCAACATAT
Found at i:19225567 original size:16 final size:16
Alignment explanation
Indices: 19225543--19225581 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19225533 ATGAAATAAC
* *
19225543 TAAAGTAAATAAACAA
1 TAAAATAAACAAACAA
19225559 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
*
19225575 TTAAATA
1 TAAAATA
19225582 GGTTAAACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.21
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:19232314 original size:25 final size:25
Alignment explanation
Indices: 19232285--19232346 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
19232275 AAACCAAACC
*
19232285 AAGCCTTTGTGGTGAATTATATAG-A
1 AAGCCTTTGTGGTGAATAATAT-GTA
* * *
19232310 AAGCCTTCGTGGTGAGTAATCTGTA
1 AAGCCTTTGTGGTGAATAATATGTA
19232335 AAGCCTTTGTGG
1 AAGCCTTTGTGG
19232347 CAAATCATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (25 bp):
AAGCCTTTGTGGTGAATAATATGTA
Found at i:19232393 original size:25 final size:25
Alignment explanation
Indices: 19232309--19232492 Score: 90
Period size: 25 Copynumber: 7.4 Consensus size: 25
19232299 AATTATATAG
* * * * *
19232309 AAAGCCTTCGTGGTGAGTAATCTGT
1 AAAGCCTTTGTGGCGAGTCATTTCT
* * **
19232334 AAAGCCTTTGTGGCAAATCATTTGG
1 AAAGCCTTTGTGGCGAGTCATTTCT
***
19232359 AAATTTTTTGTGGCGAGTCATTTCT
1 AAAGCCTTTGTGGCGAGTCATTTCT
* *
19232384 AAAGCCTTTGTGTCGAAT--TTTCT
1 AAAGCCTTTGTGGCGAGTCATTTCT
* * * *
19232407 GGGAAGCCTTTGTGGCAAGTCATCTAT
1 --AAAGCCTTTGTGGCGAGTCATTTCT
19232434 AAAGCCTTTGTGGCGA---ATTGTCT
1 AAAGCCTTTGTGGCGAGTCATT-TCT
* * * *
19232457 GGGAAGCCTTTGCGGCGAGTCATCTGT
1 --AAAGCCTTTGTGGCGAGTCATTTCT
19232484 AAAGCCTTT
1 AAAGCCTTT
19232493 TTAGCAAATT
Statistics
Matches: 115, Mismatches: 34, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
22 2 0.02
23 7 0.06
25 99 0.86
27 5 0.04
28 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (25 bp):
AAAGCCTTTGTGGCGAGTCATTTCT
Found at i:19232419 original size:50 final size:50
Alignment explanation
Indices: 19232285--19232731 Score: 285
Period size: 50 Copynumber: 8.9 Consensus size: 50
19232275 AAACCAAACC
* * * * * * * *
19232285 AAGCCTTTGTGGTGAATTATATAGAAAGCCTTCGTGGTGAGTAATCTGTA
1 AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * *** * *
19232335 AAGCCTTTGTGGCAAATCATT-TGGAAATTTTTTGTGGCGAGTCATTTCTA
1 AAGCCTTTGTGGCGAAT-TTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * *
19232385 AAGCCTTTGTGTCGAATTTTCTGGGAAGCCTTTGTGGCAAGTCATCTATA
1 AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* *
19232435 AAGCCTTTGTGGCGAATTGTCTGGGAAGCCTTTGCGGCGAGTCATCTGTA
1 AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * * * * *
19232485 AAGCCTTTTTAGCAAATTGTTC-AGGAAGCTTTTGTGGCAATTCATATGTA
1 AAGCCTTTGTGGCGAATT-TTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * * * *
19232535 AATCCTTTGTGCCTAATTGTCTGGGAAGCTTTTGCGACGAGTCATCTGTA
1 AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * * * *
19232585 AGGCATTTGGGGCGAATTGTT-TGGGAAGCCTTTGTGGTGAAT-ATTTTGGT-
1 AAGCCTTTGTGGCGAATT-TTCTGGGAAGCCTTTGTGGCGAGTCA-TCT-GTA
* * * ** *** * **
19232635 ATGCCTTTGTGTCGAGTCATCTATAAAGCCTTTATGATGAGTCATCTGTA
1 AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
* * * *
19232685 AAGCCTTTATGGTGAATTATT-TGGGAAGCCCTTATGGCGAGTCATCT
1 AAGCCTTTGTGGCGAATT-TTCTGGGAAGCCTTTGTGGCGAGTCATCT
19232732 TGGAAGCCTG
Statistics
Matches: 296, Mismatches: 90, Indels: 22
0.73 0.22 0.05
Matches are distributed among these distances:
49 8 0.03
50 280 0.95
51 8 0.03
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (50 bp):
AAGCCTTTGTGGCGAATTTTCTGGGAAGCCTTTGTGGCGAGTCATCTGTA
Found at i:19232665 original size:25 final size:25
Alignment explanation
Indices: 19232648--19232695 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
19232638 CCTTTGTGTC
19232648 GAGTCATCTATAAAGCCTTTATGAT
1 GAGTCATCTATAAAGCCTTTATGAT
*
19232673 GAGTCATCTGTAAAGCCTTTATG
1 GAGTCATCTATAAAGCCTTTATG
19232696 GTGAATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGTCATCTATAAAGCCTTTATGAT
Found at i:19233987 original size:27 final size:26
Alignment explanation
Indices: 19233954--19234011 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
19233944 TTTCATTCCT
*
19233954 AAAAGAAGGAAAATAATACAAACTAA
1 AAAAGAAAGAAAATAATACAAACTAA
**
19233980 ACAAAGAAATTAAATAATACAAACTAA
1 A-AAAGAAAGAAAATAATACAAACTAA
19234007 AAAAG
1 AAAAG
19234012 GCATTCAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.14
Consensus pattern (26 bp):
AAAAGAAAGAAAATAATACAAACTAA
Found at i:19237783 original size:5 final size:5
Alignment explanation
Indices: 19237765--19237797 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
19237755 TTTATTTAAT
*
19237765 ATATA ATAAA ATATA ATATA AT-TA ATATA ATAT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT
19237798 GTATAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:19239050 original size:15 final size:15
Alignment explanation
Indices: 19239030--19239060 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19239020 AAATCTACTG
19239030 AAATAGATGAATTAC
1 AAATAGATGAATTAC
19239045 AAATAGATGAATTAC
1 AAATAGATGAATTAC
19239060 A
1 A
19239061 TACAACATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.13, T:0.26
Consensus pattern (15 bp):
AAATAGATGAATTAC
Found at i:19239981 original size:21 final size:23
Alignment explanation
Indices: 19239939--19239981 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
19239929 TAATTAATTA
*
19239939 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
19239962 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
19239982 AAAAGATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:19240026 original size:21 final size:21
Alignment explanation
Indices: 19240002--19240057 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
19239992 CGGAACAATT
*
19240002 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
19240023 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
19240043 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
19240058 CAATTTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Found at i:19240043 original size:20 final size:23
Alignment explanation
Indices: 19240013--19240057 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
19240003 AGAAAAAGAG
19240013 AAATACAAAAAAG-AATAG-ATC
1 AAATACAAAAAAGAAATAGAATC
19240034 AAAT-CAAAAAAGAAATAGAATC
1 AAATACAAAAAAGAAATAGAATC
19240056 AA
1 AA
19240058 CAATTTGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (23 bp):
AAATACAAAAAAGAAATAGAATC
Found at i:19242961 original size:69 final size:69
Alignment explanation
Indices: 19242875--19243012 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
19242865 GAAAAGATGT
*
19242875 GTGAACAGGAAAGATTCCTTGCAA-AGAATGATGCATGAATAGAAAAGT-TTCCCTGCAAGAAAA
1 GTGAACAGGAAAGATTCCTTGCAAGA-AATGATGCATGAACAGAAAA-TATTCCCTGCAAGAAAA
19242938 GACAAG
64 GACAAG
* ** *
19242944 GTGAACAGGAAATATTCCTTGCAAGAAATGATGTGTGAACAGAAAATATTCCCTGCAAGAAAGGA
1 GTGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGAAAATATTCCCTGCAAGAAAAGA
19243009 CAAG
66 CAAG
19243013 AAAAAGAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 1 0.02
69 60 0.97
70 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (69 bp):
GTGAACAGGAAAGATTCCTTGCAAGAAATGATGCATGAACAGAAAATATTCCCTGCAAGAAAAGA
CAAG
Found at i:19242991 original size:34 final size:34
Alignment explanation
Indices: 19242862--19243005 Score: 132
Period size: 34 Copynumber: 4.2 Consensus size: 34
19242852 AGAAATGATA
* * *
19242862 CAAGAAAAGATGTGTGAACAGGAAAGATTCCTTG
1 CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
* ** *
19242896 CAA-AGAATGATGCATGAATAGAAAAGT-TTCCCTG
1 CAAGA-AAAGATGTGTGAACAGAAAA-TATTCCCTG
* * *
19242930 CAAGAAAAGACAAG-GTGAACAGGAAATATTCCTTG
1 CAAGAAAAG--ATGTGTGAACAGAAAATATTCCCTG
*
19242965 CAAGAAATGATGTGTGAACAGAAAATATTCCCTG
1 CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
19242999 CAAGAAA
1 CAAGAAA
19243006 GGACAAGAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
33 3 0.03
34 57 0.66
35 24 0.28
36 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (34 bp):
CAAGAAAAGATGTGTGAACAGAAAATATTCCCTG
Found at i:19243072 original size:19 final size:19
Alignment explanation
Indices: 19243048--19243088 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
19243038 CTGTAATTTG
*
19243048 TATTTTTGTAATTAGAGAA
1 TATTTTTGTAATGAGAGAA
19243067 TATTTTTGTAATGAGAGAA
1 TATTTTTGTAATGAGAGAA
19243086 TAT
1 TAT
19243089 ATTCTCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (19 bp):
TATTTTTGTAATGAGAGAA
Found at i:19243248 original size:22 final size:22
Alignment explanation
Indices: 19243223--19243264 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19243213 ATTTGAGTTA
*
19243223 TTTCTCCAAATTTTC-CAAAAAG
1 TTTCT-CAAAGTTTCTCAAAAAG
19243245 TTTCTCAAAGTTTCTCAAAA
1 TTTCTCAAAGTTTCTCAAAA
19243265 TTTTTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (22 bp):
TTTCTCAAAGTTTCTCAAAAAG
Found at i:19245020 original size:35 final size:34
Alignment explanation
Indices: 19244969--19245083 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 34
19244959 AATGTTTACA
* *
19244969 CATCATTTCTTACAGGGAATCTTTCCTGTTCACCT
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCA-CT
* *
19245004 CGTCTTTTCTTGCAGGGAATCTTTCATGTTCA-T
1 CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
* * *
19245037 GCATC-ATTCTTTGCAGGGAATCTTTCCTATTCACA
1 -CATCTTTTC-TTGCAGGGAATCTTTCCTGTTCACT
19245072 CATCTTTTCTTG
1 CATCTTTTCTTG
19245084 TATCATTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
33 4 0.06
34 31 0.47
35 31 0.47
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (34 bp):
CATCTTTTCTTGCAGGGAATCTTTCCTGTTCACT
Found at i:19246215 original size:69 final size:68
Alignment explanation
Indices: 19246139--19246286 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 68
19246129 TCTTTTTCTT
*
19246139 GTCTTTTCTTGCAAGGAATATTTCATGTTCACACATCATT-TCTTGCAGGGAATCTTTCCTGTTC
1 GTCTTTTCTTGCAAGGAATATTTCATGTTCACACATCATTCT-TTGCAGGGAATCTTTCCTATTC
*
19246203 ACCTC
65 A-CAC
* * **
19246208 GTCTTTTCTTGCAGGGAATCTTTCATGTTCATGCATCATTCTTTGCAGGGAATCTTTCCTATTCA
1 GTCTTTTCTTGCAAGGAATATTTCATGTTCACACATCATTCTTTGCAGGGAATCTTTCCTATTCA
19246273 CAC
66 CAC
*
19246276 ATCTTTTCTTG
1 GTCTTTTCTTG
19246287 TATCATTTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
68 12 0.17
69 58 0.82
70 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (68 bp):
GTCTTTTCTTGCAAGGAATATTTCATGTTCACACATCATTCTTTGCAGGGAATCTTTCCTATTCA
CAC
Found at i:19246223 original size:35 final size:34
Alignment explanation
Indices: 19246140--19246286 Score: 170
Period size: 34 Copynumber: 4.3 Consensus size: 34
19246130 CTTTTTCTTG
* *
19246140 TCTTTTCTTGCAAGGAATATTTCATGTTCACACA
1 TCTTTTCTTGCAGGGAATCTTTCATGTTCACACA
* * * *
19246174 TCATTTCTTGCAGGGAATCTTTCCTGTTCACCTCG
1 TCTTTTCTTGCAGGGAATCTTTCATGTTCA-CACA
**
19246209 TCTTTTCTTGCAGGGAATCTTTCATGTTCATGCA
1 TCTTTTCTTGCAGGGAATCTTTCATGTTCACACA
* * *
19246243 TC-ATTCTTTGCAGGGAATCTTTCCTATTCACACA
1 TCTTTTC-TTGCAGGGAATCTTTCATGTTCACACA
19246277 TCTTTTCTTG
1 TCTTTTCTTG
19246287 TATCATTTCT
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
33 3 0.03
34 57 0.61
35 33 0.35
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (34 bp):
TCTTTTCTTGCAGGGAATCTTTCATGTTCACACA
Found at i:19249126 original size:21 final size:22
Alignment explanation
Indices: 19249089--19249133 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
19249079 GAACAAATTG
*
19249089 TTGATTCTATTTCTTTTTTTAT
1 TTGATTCTATTTCTTTTTGTAT
19249111 TTGATT-TA-TTCTTTTTTGTAT
1 TTGATTCTATTTC-TTTTTGTAT
19249132 TT
1 TT
19249134 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.57
22 6 0.29
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (22 bp):
TTGATTCTATTTCTTTTTGTAT
Found at i:19249140 original size:20 final size:20
Alignment explanation
Indices: 19249089--19249133 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
19249079 GAACAAATTG
19249089 TTGATTCTATTTCTTTTTTTAT
1 TTGA-TCTA-TTCTTTTTTTAT
*
19249111 TTGATTTATTCTTTTTTGTAT
1 TTGATCTATTCTTTTTT-TAT
19249132 TT
1 TT
19249134 CTCTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (20 bp):
TTGATCTATTCTTTTTTTAT
Found at i:19253453 original size:14 final size:14
Alignment explanation
Indices: 19253429--19253467 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
19253419 TGAAATATTT
19253429 TTAAG-TTGAAAAC
1 TTAAGTTTGAAAAC
19253442 TTAAGTTTGAAAAC
1 TTAAGTTTGAAAAC
19253456 TTAA-TTTGAAAA
1 TTAAGTTTGAAAA
19253468 TTTAGAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (14 bp):
TTAAGTTTGAAAAC
Found at i:19253500 original size:22 final size:21
Alignment explanation
Indices: 19253465--19253507 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
19253455 CTTAATTTGA
*
19253465 AAATTTAGAAACTTGAAAATT
1 AAATTTAGAAACTTAAAAATT
*
19253486 AAATTTTGTAAACTTAAAAATT
1 AAATTTAG-AAACTTAAAAATT
19253508 TTGAGAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (21 bp):
AAATTTAGAAACTTAAAAATT
Found at i:19255633 original size:43 final size:43
Alignment explanation
Indices: 19255580--19255667 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
19255570 TTCCCTAGAT
*
19255580 TAAATCCAACAACCTAATATTATCTTCT-CCTCTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCT-TTTTTAAATTC
*
19255623 TAAATTCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
1 TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
19255666 TA
1 TA
19255668 TTTTTTCTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 39 0.93
44 3 0.07
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (43 bp):
TAAATCCAACAACCCAATATTATCTTCTCCCTTTTTTAAATTC
Found at i:19268147 original size:13 final size:14
Alignment explanation
Indices: 19268129--19268162 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
19268119 GCATGGGAGA
19268129 TTTTCTCTTCTTT-
1 TTTTCTCTTCTTTC
*
19268142 TTTTCTTTTCTTTC
1 TTTTCTCTTCTTTC
19268156 TTTTCTC
1 TTTTCTC
19268163 CCTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTCTTCTTTC
Found at i:19268157 original size:9 final size:9
Alignment explanation
Indices: 19268129--19268161 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
19268119 GCATGGGAGA
19268129 TTTTCTCTTC
1 TTTTCT-TTC
19268139 TTTT-TTTC
1 TTTTCTTTC
19268147 TTTTCTTTC
1 TTTTCTTTC
19268156 TTTTCT
1 TTTTCT
19268162 CCCTTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.32
9 11 0.50
10 4 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:19268175 original size:16 final size:17
Alignment explanation
Indices: 19268156--19268188 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19268146 CTTTTCTTTC
19268156 TTTTC-TCCCTTTATTT
1 TTTTCTTCCCTTTATTT
*
19268172 TTTTCTTTCCTTTATTT
1 TTTTCTTCCCTTTATTT
19268189 CCCTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTTCCCTTTATTT
Found at i:19270961 original size:50 final size:50
Alignment explanation
Indices: 19270897--19271025 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
19270887 AAATTTATGC
* *
19270897 AAAGACTTGCTTTATCATTTCAATCATCAAAAATCCATCAAATCATGCTG
1 AAAGACTTGTTTTATCATTTCAATCATCAAAAATCCATCAAATCATGCAG
* *** *
19270947 AAAGACTTATTTTATCATTTCAATCGA-CGGGATTCCATCAAATCATGCAG
1 AAAGACTTGTTTTATCATTTCAATC-ATCAAAAATCCATCAAATCATGCAG
* * * *
19270997 AGAGTCATGTTTTATCATTTCAGTCATCA
1 AAAGACTTGTTTTATCATTTCAATCATCA
19271026 GGCTTCTGTC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 62 0.97
51 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (50 bp):
AAAGACTTGTTTTATCATTTCAATCATCAAAAATCCATCAAATCATGCAG
Found at i:19277794 original size:17 final size:19
Alignment explanation
Indices: 19277749--19277794 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
19277739 ATGTATTGAC
19277749 AATGAATTAAGATTGATAT
1 AATGAATTAAGATTGATAT
*
19277768 AATGTCAATTGAG-TT-ATAT
1 AATG--AATTAAGATTGATAT
19277787 AATGAATT
1 AATGAATT
19277795 CAGAAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 4 0.17
19 12 0.50
20 2 0.08
21 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.39
Consensus pattern (19 bp):
AATGAATTAAGATTGATAT
Found at i:19281309 original size:25 final size:25
Alignment explanation
Indices: 19281275--19281325 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
19281265 AGAGAGTAAG
*
19281275 CCACTTGTTACTAGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
*
19281300 CCACTAGTTACTGGTCAAAAAGGAA
1 CCACTAGTTACTAGTCAAAAAGGAA
19281325 C
1 C
19281326 TAAGCAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (25 bp):
CCACTAGTTACTAGTCAAAAAGGAA
Found at i:19281812 original size:1 final size:1
Alignment explanation
Indices: 19281806--19281837 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
19281796 ATCAATTCAC
*
19281806 TTTTTTTTTTATTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
19281838 GGGGGGGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:19301875 original size:6 final size:6
Alignment explanation
Indices: 19301866--19301916 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
19301856 GTATATATAT
19301866 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
19301914 ACA
1 ACA
19301917 CCATACTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (6 bp):
ACATAC
Found at i:19304081 original size:13 final size:13
Alignment explanation
Indices: 19304063--19304123 Score: 104
Period size: 13 Copynumber: 4.7 Consensus size: 13
19304053 TCTTCATTGT
19304063 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
19304076 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
*
19304089 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
*
19304102 TTTTCAGAAGTGC
1 TTTTGAGAAGTGC
19304115 TTTTGAGAA
1 TTTTGAGAA
19304124 ATTTGAGTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:19307290 original size:30 final size:30
Alignment explanation
Indices: 19307250--19307309 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
19307240 GGGCAGAACA
*
19307250 AAGAACCAGCAGA-AGGCAGAGATGAGGGCG
1 AAGAACCAGCAGAGA-GCAGAGATAAGGGCG
*
19307280 AAGAAGCAGCAGAGAGCAGAGATAAGGGCG
1 AAGAACCAGCAGAGAGCAGAGATAAGGGCG
19307310 TTCGTGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.40, T:0.03
Consensus pattern (30 bp):
AAGAACCAGCAGAGAGCAGAGATAAGGGCG
Found at i:19307725 original size:14 final size:15
Alignment explanation
Indices: 19307708--19307737 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19307698 AATTACATTT
19307708 TAAATATT-ATTTTA
1 TAAATATTAATTTTA
19307722 TAAATATTAATTTTA
1 TAAATATTAATTTTA
19307737 T
1 T
19307738 TCACAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATATTAATTTTA
Found at i:19318764 original size:44 final size:44
Alignment explanation
Indices: 19318716--19318799 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
19318706 ATGAACTAGT
*
19318716 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAGGATTGTCG
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
* *
19318760 GCTTTAATCTACTCCACTGCAATTTCAGGGAGATAAGATT
1 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATT
19318800 TACTATCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATTGTCG
Found at i:19319089 original size:44 final size:44
Alignment explanation
Indices: 19318727--19319104 Score: 186
Period size: 44 Copynumber: 8.7 Consensus size: 44
19318717 CTTTAATATA
* * * *
19318727 CTCCACTGCAACTTCAGG-GAGATAGGA-TTGTCGGCT-TTAATCTA
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C--TTATTAGTCTG
* * * *
19318771 CTCCACTGCAATTTCAGG-GAGATAAGATTTACTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCT-TATT-AGTCTG
* *
19318816 C-CTCGCTACAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
* * * *
19318860 CTCCACTGTAACTTCAGG-GAGATAAGACTAGATT-TGA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
* * * * * *
19318901 CT-CTCTGCAACTTTA-GAGAGATGAGATCTAAGGTT-TTAATC--
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTATTAGTCTG
* * * *
19318942 CATCCACTGCAACTTCA-GTGAGAT-AGAATTGTCGGCT-TTAATCTG
1 C-TCCACTGCAACTTCAGGAGAGATAAGACTTG-C--TTATTAGTCTG
* * * *
19318987 CTCCACTGCAACTTCAGG-GAAATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTATT-AGTCTG
**
19319032 C-CTCGTTGCAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
19319076 CTCCACTGCAACTTCA-GAGAGATAAGACT
1 CTCCACTGCAACTTCAGGAGAGATAAGACT
19319105 AGATGCGATC
Statistics
Matches: 261, Mismatches: 44, Indels: 58
0.72 0.12 0.16
Matches are distributed among these distances:
39 1 0.00
40 19 0.07
41 10 0.04
42 12 0.05
43 32 0.12
44 112 0.43
45 73 0.28
46 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
Found at i:19319248 original size:147 final size:147
Alignment explanation
Indices: 19318973--19319268 Score: 466
Period size: 147 Copynumber: 2.0 Consensus size: 147
19318963 GATAGAATTG
* * **
19318973 TCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGT
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * *
19319038 TGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
66 TGCAACCTCAAGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGAGAAATAAGA
19319103 CTAGATGCGATCTACTC
131 CTAGATGCGATCTACTC
* * *
19319120 TCGGCTTTAATCTGATCCATTGCAACTTCAGAGAGATAAGATTTGCCATTTTCAGTCTGCCTCAC
1 TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
* * *
19319185 TGCAACCTCAAGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCTGGGAAATAAGA
66 TGCAACCTCAAGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGAGAAATAAGA
*
19319250 CTAGATGCGATCTGCTC
131 CTAGATGCGATCTACTC
19319267 TC
1 TC
19319269 TGCAACTTCA
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
147 135 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (147 bp):
TCGGCTTTAATCTGATCCACTGCAACTTCAGAGAAATAAGATTTGCCATCTTCAGTCTGCCTCAC
TGCAACCTCAAGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGAGAAATAAGA
CTAGATGCGATCTACTC
Found at i:19319320 original size:44 final size:44
Alignment explanation
Indices: 19319269--19319379 Score: 161
Period size: 44 Copynumber: 2.5 Consensus size: 44
19319259 ATCTGCTCTC
* *
19319269 TGCAACTTCAGAGAGATAAGATCTA-AGGTTTTAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGAT-TATAGGCTTTAATCTGCTCCAT
* *
19319313 TGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCTGCTCCAT
*
19319357 TGCAACTTCAGGGAGACAAGATT
1 TGCAACTTCAGGGAGATAAGATT
19319380 TGACATCATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 58 0.97
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTATAGGCTTTAATCTGCTCCAT
Found at i:19336165 original size:140 final size:140
Alignment explanation
Indices: 19335959--19336644 Score: 584
Period size: 140 Copynumber: 5.0 Consensus size: 140
19335949 ATGCTTACTG
* * * * * *** *
19335959 CGACACTTTTGGGGCAACACTTAT-TTAAGTGTTGGGATAGACTTGTTGACATATGTTTTAGCCA
1 CGACACTTTTGGGCCGACACTT-TCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCA
* * * *
19336023 ACTTTTTGTATAAAAGTTGGGATATGCATGCCTAAGGTAACGCTTAAATAAGAGTCAGCTTTATC
65 ACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTC
19336088 CAACACTATGC
130 CAACACTATGC
* * *
19336099 CGACGCTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGCCGATATACACTTTGGTCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * *
19336164 CTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATG-GTCGGCTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCC
19336228 AACACTATGC
131 AACACTATGC
* *
19336238 AGACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * * * * *
19336303 CCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCC
*
19336368 AACACTATGT
131 AACACTATGC
** *** ** * * * * ** * *
19336378 CGACACTTTT---CAAAGTGTTGTGGTAGACTTGTTGGCAT--ACGTTTTGGCCA-ACTCTTTGT
1 CGACACTTTTGGGCCGACACTT-TCCTA-A-GTGTTGGGATAGAC-TTGTCGATATACACTTTGG
** *** * * * *
19336437 ATAAGAGTTGGTAT---A--T-------GCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTT
62 CCAACTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTT
19336490 GTCCAACACTATGC
127 GTCCAACACTATGC
* * * * ** *
19336504 CGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACCAA
1 CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
* * * * * *
19336569 CTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAAATAAGAGCCGGTTTTGTCC
66 CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCC
19336634 AACACTATGC
131 AACACTATGC
19336644 C
1 C
19336645 AACTTGTGTT
Statistics
Matches: 429, Mismatches: 93, Indels: 48
0.75 0.16 0.08
Matches are distributed among these distances:
126 61 0.14
127 6 0.01
128 19 0.04
129 5 0.01
133 1 0.00
135 1 0.00
137 3 0.01
138 20 0.05
139 131 0.31
140 182 0.42
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (140 bp):
CGACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAA
CTCTTTGTATAAGAGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCAGCTTTGTCC
AACACTATGC
Found at i:19336475 original size:126 final size:126
Alignment explanation
Indices: 19336250--19336642 Score: 378
Period size: 126 Copynumber: 3.0 Consensus size: 126
19336240 ACACTTTTGG
* * *
19336250 GTCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGATATACACTTTGGCCAACCCTTTGTATAA
1 GTCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
* *
19336315 GAGTTGGAATATGCATGCCTAAGACAATGATTAAATAAGAGTCAGTTTTGTTCAACACTAT
66 GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * ** *
19336376 GTCGACACTTTTCAAAGTGTTGTGG-TAGACTTGTTGGCATACGTTTTGGCCAACTCTTTGTATA
1 GTCGACACTTTTCAAAGTGTTG-GGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATA
* * *
19336440 AGAGTTGGTATATGCATGCCTAAGGCAA-CACTTAAATAAGAGTCGGTTTTGTCCAACACTAT
65 AGAGTTGGAATATGCATGCCTAAGACAATCA-TTAAATAAGAGTCAGTTTTGTCCAACACTAT
* * * ** *
19336502 GCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCGACATATGCTTTGACC
1 ---G-T-C------G---ACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCC
* * * * * * *
19336567 AACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTC-TTAAATAAGAGCCGGTTTTG
52 AACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TCATTAAATAAGAGTCAGTTTTG
19336631 TCCAACACTAT
116 TCCAACACTAT
19336642 G
1 G
19336643 CCAACTTGTG
Statistics
Matches: 223, Mismatches: 25, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
125 1 0.00
126 108 0.48
127 2 0.01
129 1 0.00
130 1 0.00
131 1 0.00
137 2 0.01
139 2 0.01
140 104 0.47
142 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (126 bp):
GTCGACACTTTTCAAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACCCTTTGTATAA
GAGTTGGAATATGCATGCCTAAGACAATCATTAAATAAGAGTCAGTTTTGTCCAACACTAT
Found at i:19336597 original size:266 final size:265
Alignment explanation
Indices: 19336155--19336642 Score: 744
Period size: 266 Copynumber: 1.8 Consensus size: 265
19336145 CGATATACAC
* *
19336155 TTTGGTCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATATGGTCGG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
* * *
19336220 CTTTGTCCAACACTATGCAGACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAGACTTGTC
66 CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
* * *
19336285 GATATACACTTTGGCCAACCCTTTGTATAAGAGTTGGAATATGCATGCCTAAGACAA-TGATTAA
131 GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACT-ATTAA
* *
19336349 ATAAGAGTCAGTTTTGTTCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
195 ATAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGC
19336414 ATACGT
260 ATACGT
* *
19336420 TTTGGCCAACTCTTTGTATAAGAGTTGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTCG
1 TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAG-GTCG
* * *
19336485 GTTTTGTCCAACACTATGCCGATACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
65 GCTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGC
** * * * * *
19336550 CGACATATGCTTTGACCAACTCTTTGTATAAGGGTCGGGATATGCATGCCTAAGGCAACTCTTAA
130 CGACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAA
*
19336615 ATAAGAGCCGGTTTTGTCCAACACTATG
195 ATAAGAGCCAGTTTTGTCCAACACTATG
19336643 CCAACTTGTG
Statistics
Matches: 198, Mismatches: 23, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
265 56 0.28
266 141 0.71
267 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (265 bp):
TTTGGCCAACTCTTTATATAAGAGTTGGGATATGCATGCCTAAGGCAACACTTAAATAAGGTCGG
CTTTGTCCAACACTATGCAGACACTTTTGGGCCAACACTTTCCTAAGTGTTGGGATAGACTTGCC
GACATACACTTTGACCAACCCTTTGTATAAGAGTCGGAATATGCATGCCTAAGACAACTATTAAA
TAAGAGCCAGTTTTGTCCAACACTATGTCGACACTTTTCAAAGTGTTGTGGTAGACTTGTTGGCA
TACGT
Found at i:19344120 original size:148 final size:145
Alignment explanation
Indices: 19343799--19344226 Score: 565
Period size: 148 Copynumber: 2.9 Consensus size: 145
19343789 CCTTATATGT
* * * *
19343799 GTCTATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * *
19343864 TAAAC-GAGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTTAAA
66 TAGACAG-GTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAA
*
19343928 AGTTGCCTTAGATAAG
130 AGTTGCCTTAGACAAG
* * *
19343944 GTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACT
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* * * *
19344009 TAGACATGGTTTAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTT
66 TAGACA-GGTTTATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTT
* * *
19344073 ATAGGTTGTCTTAGACAAG
127 AAAAGTTGCCTTAGACAAG
* * *
19344092 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCC
1 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCC
*
19344156 TTAGACAAGTTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAA
65 TTAGACAGGTT-TATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAA
*
19344221 AGGTTG
129 AAGTTG
19344227 GTCTTGATTA
Statistics
Matches: 245, Mismatches: 30, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
145 72 0.29
146 44 0.18
147 6 0.02
148 113 0.46
149 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (145 bp):
GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAGGTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAA
GTTGCCTTAGACAAG
Found at i:19344250 original size:73 final size:73
Alignment explanation
Indices: 19343799--19344226 Score: 574
Period size: 73 Copynumber: 5.8 Consensus size: 73
19343789 CCTTATATGT
* * * * *
19343799 GTCTATCTCAACCTTTTTAAGGTTACTTTAGACGAGTTTATCCCAACCTTTTTTAAAGGTTGCCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
* *
19343864 TAAACGA-
66 TAGACAAG
* *
19343871 GTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGGGTCTATCCCAACCTTTTTTAAAAGTTGCCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
*
19343936 TAGATAAG
66 TAGACAAG
* *
19343944 GTTTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGACT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
*
19344009 TAGACATG
66 TAGACAAG
* * * * * *
19344017 GTTTAT-CCAAACTTTTTAAAGGTTACCTTAGACAGGTCTATCCCAACAATTTTTTTATAGGTTG
1 GTCTATCCCAACCTTTTT-AAGGTTGCCTTAGACGGGTCTATCCCAAC--CTTTTTTAAAGGTTG
*
19344081 TCTTAGACAAG
63 CCTTAGACAAG
* * * *
19344092 GTCTATCTCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCTAA-CTATTTTTAAAAGTTGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCC
19344156 TTAGACAAG
65 TTAGACAAG
*
19344165 TTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTG
19344227 GTCTTGATTA
Statistics
Matches: 310, Mismatches: 39, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
72 73 0.24
73 175 0.56
74 2 0.01
75 51 0.16
76 9 0.03
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (73 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAG
Found at i:19346803 original size:43 final size:40
Alignment explanation
Indices: 19346716--19346808 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 40
19346706 CTAGTTGGTT
*
19346716 GCGTTTTCTTTGTATTTAGTGGGAAATGTGTCCAGCTAGGC
1 GCGTTTTC-TTGTATTTAGTAGGAAATGTGTCCAGCTAGGC
19346757 GCGTTTTCTTGTCATATTAGTAGGAAA-GCTTGTCCAGCT-GGAC
1 GCGTTTTCTTGT-AT-TTAGTAGGAAATG--TGTCCAGCTAGG-C
19346800 GCGTTTTCT
1 GCGTTTTCT
19346809 GTCCACCACC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
40 4 0.09
41 11 0.24
42 12 0.26
43 19 0.41
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (40 bp):
GCGTTTTCTTGTATTTAGTAGGAAATGTGTCCAGCTAGGC
Found at i:19348907 original size:27 final size:27
Alignment explanation
Indices: 19348876--19348929 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
19348866 CTAGTTGGAA
19348876 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
19348903 AATTGCCCAATTTTTTAAATTAGTCTT
1 AATTGCCCAATTTTTTAAATTAGTCTT
19348930 CTACATGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (27 bp):
AATTGCCCAATTTTTTAAATTAGTCTT
Found at i:19355830 original size:70 final size:71
Alignment explanation
Indices: 19355710--19355859 Score: 232
Period size: 70 Copynumber: 2.1 Consensus size: 71
19355700 GGGGAATCAT
* *
19355710 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
19355775 ATATCG
66 ATATCG
***
19355781 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
19355844 GATATCG
65 GATATCG
19355851 CACTTAGCA
1 CACTTAGCA
19355860 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 7 0.10
70 56 0.77
71 10 0.14
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:19355903 original size:101 final size:102
Alignment explanation
Indices: 19355780--19355996 Score: 357
Period size: 101 Copynumber: 2.1 Consensus size: 102
19355770 AATGGATATC
19355780 GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
* *
19355845 AT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 ATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
19355882 GCACTTAGC-ACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
* *
19355946 ATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 ATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
19355983 GCACACAGCAACCC
1 GCACTTAGCAACCC
19355997 CTTTTATATA
Statistics
Matches: 107, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
101 93 0.87
102 14 0.13
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (102 bp):
GCACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
ATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:19356359 original size:29 final size:29
Alignment explanation
Indices: 19356326--19356389 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19356316 TAATCCACCA
19356326 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
19356355 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
19356385 CCCAA
1 CCCAA
19356390 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:19356363 original size:30 final size:30
Alignment explanation
Indices: 19356333--19356389 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19356323 CCACCCAACT
19356333 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
19356362 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
19356390 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:19363296 original size:69 final size:72
Alignment explanation
Indices: 19363183--19363332 Score: 234
Period size: 70 Copynumber: 2.1 Consensus size: 72
19363173 GGGGAATCAT
* *
19363183 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
19363247 GATATCG
66 GATATCG
***
19363254 CACTTAGCAA-CCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
19363317 GATATCG
66 GATATCG
19363324 CACTTAGCA
1 CACTTAGCA
19363333 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 28 0.38
70 35 0.48
71 10 0.14
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
GATATCG
Found at i:19363386 original size:104 final size:101
Alignment explanation
Indices: 19363253--19363470 Score: 341
Period size: 104 Copynumber: 2.1 Consensus size: 101
19363243 AATGGATATC
19363253 GCACTTAGCAA-CCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
19363317 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACC-ATAAACC-GGGAATCA
19363355 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
*
19363420 GGATCACGCACATAGCACCACCATAAATCGGGAATCA
65 GGATCACGCACATAGCACCACCATAAACCGGGAATCA
**
19363457 GCACACAGCAACCC
1 GCACTTAGCAACCC
19363471 TTTATATACA
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
102 31 0.29
103 10 0.09
104 66 0.61
105 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (101 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCATAAACCGGGAATCA
Found at i:19363832 original size:29 final size:29
Alignment explanation
Indices: 19363799--19363862 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
19363789 TAATCCACCA
19363799 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
19363828 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
19363858 CCCAA
1 CCCAA
19363863 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:19363836 original size:30 final size:30
Alignment explanation
Indices: 19363806--19363862 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
19363796 CCACCCAACT
19363806 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
19363835 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
19363863 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:19366517 original size:42 final size:42
Alignment explanation
Indices: 19366458--19366566 Score: 182
Period size: 42 Copynumber: 2.6 Consensus size: 42
19366448 AGTGAGTTAT
* *
19366458 ACGGCCTGGACACACGCCCATGTCCTTGTCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
19366500 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
1 ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
* *
19366542 ACAGCTTGGGCACACGCCCATGTCC
1 ACGGCCTGGGCACACGCCCATGTCC
19366567 CTAGCGCTCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.15, C:0.38, G:0.27, T:0.21
Consensus pattern (42 bp):
ACGGCCTGGGCACACGCCCATGTCCTTGCCTGTGTGGCTCAC
Found at i:19368510 original size:28 final size:28
Alignment explanation
Indices: 19368479--19368535 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
19368469 GTAGATTGTA
19368479 AAAG-GTTTCTAGTTAAGCCACAAAAGCT
1 AAAGTGTTT-TAGTTAAGCCACAAAAGCT
*
19368507 AAAGTGTTTTAGTTAAGCCATAAAAGCT
1 AAAGTGTTTTAGTTAAGCCACAAAAGCT
19368535 A
1 A
19368536 GGAAGAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAGTGTTTTAGTTAAGCCACAAAAGCT
Found at i:19374292 original size:5 final size:5
Alignment explanation
Indices: 19374282--19374310 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19374272 AGAATAAGGA
19374282 AGAAG AGAAG AGAAG AGAAG AGAAG AGAA
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAA
19374311 AGATAGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:19374301 original size:18 final size:18
Alignment explanation
Indices: 19374267--19374307 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 18
19374257 AAAGGAGAAT
*
19374267 AGAGAAGAATAAGGAAGA
1 AGAGAAGAAGAAGGAAGA
19374285 AGAGAAG-AGAA-G-AGA
1 AGAGAAGAAGAAGGAAGA
19374300 AGAGAAGA
1 AGAGAAGA
19374308 GAAAGATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 3 0.14
18 7 0.33
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (18 bp):
AGAGAAGAAGAAGGAAGA
Found at i:19374886 original size:9 final size:9
Alignment explanation
Indices: 19374874--19374917 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
19374864 TAAAAAAATG
19374874 TAACCGAAT
1 TAACCGAAT
* *
19374883 TAACTGACT
1 TAACCGAAT
19374892 TAACCGAAT
1 TAACCGAAT
*
19374901 TAATCGAAT
1 TAACCGAAT
19374910 TAACCGAA
1 TAACCGAA
19374918 ATTTAAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.25
Consensus pattern (9 bp):
TAACCGAAT
Found at i:19385935 original size:16 final size:16
Alignment explanation
Indices: 19385910--19385940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19385900 TAATTTGAGT
19385910 TTTTAAGTTTTGACAA
1 TTTTAAGTTTTGACAA
*
19385926 TTTTAGGTTTTGACA
1 TTTTAAGTTTTGACA
19385941 TTCAAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTTAAGTTTTGACAA
Found at i:19391432 original size:30 final size:29
Alignment explanation
Indices: 19391396--19391467 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
19391386 CAATTAAACT
*
19391396 TAAATTTTCAAATTTGAAAAA-TA-GAGAGAC
1 TAAATTTT-AAATAT-AAAAAGTATGA-AGAC
*
19391426 TAAATTTTTAAAAATAAAAAGTATGAAGAC
1 TAAA-TTTTAAATATAAAAAGTATGAAGAC
19391456 TAAATTTTAAAT
1 TAAATTTTAAAT
19391468 GCATAAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 12 0.33
30 18 0.50
31 6 0.17
ACGTcount: A:0.53, C:0.04, G:0.10, T:0.33
Consensus pattern (29 bp):
TAAATTTTAAATATAAAAAGTATGAAGAC
Found at i:19391777 original size:16 final size:16
Alignment explanation
Indices: 19391756--19391794 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
19391746 TTTTAATAAA
*
19391756 ATTAAAGCTAATTGTT
1 ATTAAAACTAATTGTT
*
19391772 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
*
19391788 AGTAAAA
1 ATTAAAA
19391795 TTATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Done.