Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 127 of 185
Found at i:39641453 original size:35 final size:35
Alignment explanation
Indices: 39641405--39641476 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
39641395 GTCTAAATGC
* * *
39641405 TAACAAATGATGAATTGAACA-ACTAGTTTTTAGAG
1 TAACAAATCATGAACTGAACAGA-TAGTTTTAAGAG
39641440 TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
1 TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
39641475 TA
1 TA
39641477 GAGTAAGTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (35 bp):
TAACAAATCATGAACTGAACAGATAGTTTTAAGAG
Found at i:39644619 original size:6 final size:6
Alignment explanation
Indices: 39644601--39644642 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
39644591 GTTGACAACT
* * *
39644601 AATTAA AAATAA AATT-A AATTAA AATTAA GATTAA GATTAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA A
39644643 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:39644623 original size:17 final size:17
Alignment explanation
Indices: 39644601--39644642 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
39644591 GTTGACAACT
39644601 AATTAAAAATAAAATTA
1 AATTAAAAATAAAATTA
* *
39644618 AATTAAAATTAAGATTA
1 AATTAAAAATAAAATTA
39644635 AGATTAAA
1 A-ATTAAA
39644643 TAAATGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
AATTAAAAATAAAATTA
Found at i:39644626 original size:11 final size:11
Alignment explanation
Indices: 39644610--39644643 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
39644600 TAATTAAAAA
39644610 TAAAATTAAAT
1 TAAAATTAAAT
39644621 TAAAATTAAGAT
1 TAAAATTAA-AT
*
39644633 TAAGATTAAAT
1 TAAAATTAAAT
39644644 AAATGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (11 bp):
TAAAATTAAAT
Found at i:39644669 original size:6 final size:6
Alignment explanation
Indices: 39644660--39644698 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
39644650 AAATAAGATG
* * *
39644660 AAAATA AAAATA AAAATA AACATA AACATA AACATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
39644699 CTTATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:39644684 original size:12 final size:12
Alignment explanation
Indices: 39644660--39644698 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
39644650 AAATAAGATG
*
39644660 AAAATAAAAATA
1 AAAATAAACATA
39644672 AAAATAAACATA
1 AAAATAAACATA
*
39644684 AACATAAACATA
1 AAAATAAACATA
39644696 AAA
1 AAA
39644699 CTTATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAACATA
Found at i:39651330 original size:28 final size:28
Alignment explanation
Indices: 39651270--39651330 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
39651260 ATTAATTAAA
* *
39651270 CTAATTAAATTAATTATCCCAAAATATC
1 CTAATAAAATTAATTATCCCAAAATAAC
*
39651298 CTAATAAAATTAATTAAT-CTAAAATAAC
1 CTAATAAAATTAATT-ATCCCAAAATAAC
*
39651326 TTAAT
1 CTAAT
39651331 GGAAGTTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (28 bp):
CTAATAAAATTAATTATCCCAAAATAAC
Found at i:39651398 original size:19 final size:19
Alignment explanation
Indices: 39651374--39651415 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
39651364 TTCTCGGCCT
*
39651374 ATTATCGATTAAATCACTA
1 ATTATCAATTAAATCACTA
* *
39651393 ATTATCAATTAAGTCGCTA
1 ATTATCAATTAAATCACTA
39651412 ATTA
1 ATTA
39651416 CCCTCAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (19 bp):
ATTATCAATTAAATCACTA
Found at i:39651857 original size:18 final size:17
Alignment explanation
Indices: 39651830--39651867 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
39651820 GTATTATAAA
39651830 ATAAATTCATTTTAATT
1 ATAAATTCATTTTAATT
39651847 ATAATATTCATTTTAATT
1 ATAA-ATTCATTTTAATT
39651865 ATA
1 ATA
39651868 TAAACATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAAATTCATTTTAATT
Found at i:39653860 original size:6 final size:6
Alignment explanation
Indices: 39653849--39653873 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39653839 ACGAATATAT
39653849 GAAATG GAAATG GAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG G
39653874 TTGCATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (6 bp):
GAAATG
Found at i:39654552 original size:17 final size:17
Alignment explanation
Indices: 39654494--39654553 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
39654484 ATCATGTGGT
*
39654494 GGACAGTTTTGCCTAGC
1 GGACAGTATTGCCTAGC
*
39654511 AGACAGT-TTCGCCTAGC
1 GGACAGTATT-GCCTAGC
* * *
39654528 GAATAGTATTGCCTAGT
1 GGACAGTATTGCCTAGC
39654545 GGACAGTAT
1 GGACAGTAT
39654554 CTCCCATGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
16 2 0.06
17 30 0.88
18 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (17 bp):
GGACAGTATTGCCTAGC
Found at i:39660363 original size:19 final size:19
Alignment explanation
Indices: 39660335--39660374 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
39660325 ATTAATTTTT
*
39660335 ATCAAGTAAAGTT-AAATTA
1 ATCAAATAAA-TTAAAATTA
39660354 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
39660373 AT
1 AT
39660375 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:39660858 original size:17 final size:17
Alignment explanation
Indices: 39660792--39660867 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 17
39660782 ATTTTAATAG
* *
39660792 TTTAATATTAAATTAAA
1 TTTAATATTTAATTTAA
39660809 TTTAATATTT-ATCTTAA
1 TTTAATATTTAAT-TTAA
* * *
39660826 --CAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
39660840 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
39660857 TTTAATATTTA
1 TTTAATATTTA
39660868 GCTTGTAGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 4 0.09
15 6 0.13
16 10 0.21
17 27 0.57
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:39663789 original size:110 final size:110
Alignment explanation
Indices: 39663628--39663914 Score: 380
Period size: 110 Copynumber: 2.6 Consensus size: 110
39663618 CACGATGCTG
* ** * * * * *
39663628 CTTACACAAGCTGTAGAGAATCCACAACACATGTAAGATCTCAAGCCATCGTTACAGTTTGTATC
1 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTACAGTCTGTATC
* *
39663693 A-TCGGTACATAGTACCTACTAATTAATCCCCAGCACATGATGATA
66 ACT-AGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
**
39663738 -TTCACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTATGGTCTGTAT
1 CTT-ACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTACAGTCTGTAT
* * *
39663802 CACTAGTGCATAGTACCTACTAATTAATCCCCAGCTCATAATGCTA
65 CACTAGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
* **
39663848 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTTAAGTCATCGTTATGGTCTGTATC
1 CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTACAGTCTGTATC
39663913 AC
66 AC
39663915 CGAATCAAGA
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
109 2 0.01
110 153 0.97
111 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (110 bp):
CTTACACAAGCTGCAGAGAATCTGCAACATATATAGGATCTCAAGTCATCGTTACAGTCTGTATC
ACTAGTACATAGTACCTACTAATTAATCCCCAGCACATAATGATA
Found at i:39663988 original size:23 final size:24
Alignment explanation
Indices: 39663958--39664011 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
39663948 AGCCTGCTAG
39663958 GCACAAAGCCTGATAAACACAC-C
1 GCACAAAGCCTGATAAACACACTC
* *
39663981 GCACAAAGCCTGATAAATACACTG
1 GCACAAAGCCTGATAAACACACTC
39664005 GCACAAA
1 GCACAAA
39664012 TTCTGCTTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.44, C:0.30, G:0.15, T:0.11
Consensus pattern (24 bp):
GCACAAAGCCTGATAAACACACTC
Found at i:39664696 original size:17 final size:17
Alignment explanation
Indices: 39664674--39664711 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
39664664 TCAATTCCTT
39664674 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTC-CTTTA
39664691 ACA-TTTTAGTCCTTTA
1 ACATTTTTAGTCCTTTA
39664707 ACATT
1 ACATT
39664712 AAAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.29, C:0.18, G:0.03, T:0.50
Consensus pattern (17 bp):
ACATTTTTAGTCCTTTA
Found at i:39667131 original size:22 final size:22
Alignment explanation
Indices: 39667092--39667150 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
39667082 GTAGGTATAG
*
39667092 CAAGCTGGGGTTCACCAGTCTAA
1 CAAGTTGGGG-TCACCAGTCTAA
*
39667115 CAAGTTGGGGTCACCAGTCTGA
1 CAAGTTGGGGTCACCAGTCTAA
39667137 CAAGTTGGGGTCAC
1 CAAGTTGGGGTCAC
39667151 TAGTGGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (22 bp):
CAAGTTGGGGTCACCAGTCTAA
Found at i:39667915 original size:25 final size:25
Alignment explanation
Indices: 39667869--39667916 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39667859 ATATGTGTTT
*
39667869 TTATGAACAGTGATATGTGAGCTAA
1 TTATGAACAGTGATATGCGAGCTAA
* *
39667894 TTATGAACAGTGTTTTGCGAGCT
1 TTATGAACAGTGATATGCGAGCT
39667917 CCTCATGACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (25 bp):
TTATGAACAGTGATATGCGAGCTAA
Found at i:39668643 original size:18 final size:18
Alignment explanation
Indices: 39668620--39668658 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
39668610 GGGCTTAGGT
*
39668620 TTTATGTTTCTCTTTATG
1 TTTATGTTCCTCTTTATG
39668638 TTTATGTTCCTCTTTATG
1 TTTATGTTCCTCTTTATG
39668656 TTT
1 TTT
39668659 TTTTAATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTATGTTCCTCTTTATG
Found at i:39673274 original size:22 final size:22
Alignment explanation
Indices: 39673246--39673293 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
39673236 ATACCACATG
*
39673246 AACTTACCTAGTCAAAATAACA
1 AACTTACCTAGTCAAAACAACA
39673268 AACTTACCTAGTCAAAACAACA
1 AACTTACCTAGTCAAAACAACA
39673290 AACT
1 AACT
39673294 ACCAAATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21
Consensus pattern (22 bp):
AACTTACCTAGTCAAAACAACA
Found at i:39674227 original size:14 final size:16
Alignment explanation
Indices: 39674200--39674231 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
39674190 ACTTTAATAC
39674200 TAATATTTTAAATATT
1 TAATATTTTAAATATT
39674216 TAATA-TTT-AATATT
1 TAATATTTTAAATATT
39674230 TA
1 TA
39674232 TGGGCTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATATTTTAAATATT
Found at i:39675157 original size:9 final size:9
Alignment explanation
Indices: 39675145--39675180 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
39675135 AATAATTTAA
39675145 AAAATTATT
1 AAAATTATT
39675154 AAAATTATT
1 AAAATTATT
*
39675163 AAAAGATATT
1 AAAA-TTATT
39675173 AAAATTAT
1 AAAATTAT
39675181 AATAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAAATTATT
Found at i:39675340 original size:17 final size:16
Alignment explanation
Indices: 39675318--39675360 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
39675308 ATATAACTTC
*
39675318 AAAATTAAAAAGAATGA
1 AAAATTAAAAAAAAT-A
39675335 AAAATTAAATAAAAATA
1 AAAATTAAA-AAAAATA
39675352 AAAA-TAAAA
1 AAAATTAAAA
39675361 TTATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 4 0.17
17 14 0.58
18 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAATTAAAAAAAATA
Found at i:39691316 original size:32 final size:32
Alignment explanation
Indices: 39691280--39691811 Score: 660
Period size: 32 Copynumber: 16.6 Consensus size: 32
39691270 AAATATATAA
* *
39691280 ATACATATACAAATCAATTCGACAACATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
39691312 ATACATATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
***
39691344 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
39691376 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
39691408 ATACATATACAACTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* ****
39691440 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
39691472 ATACCTATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* * *
39691504 ACACATATACAATTCAATTCGGCAATATAAAT
1 ATACATATACAATTCAATTCGACAATATAAGT
***
39691536 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
39691568 ATACCTATACAATTCAATTC-AGCAATATAAGT
1 ATACATATACAATTCAATTCGA-CAATATAAGT
*
39691600 ATACATATACAATTTAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
39691632 ATACATATACAATTCAATTC-AGAA-ATAGGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* *
39691662 GCATACCTATACAATTCAATTAGACAATATAAGT
1 --ATACATATACAATTCAATTCGACAATATAAGT
* * *
39691696 ATAAATATAAAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGACAATATAAGT
* ***
39691728 ATGCATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGACAATATAAGT
*
39691760 ATATC-TATACAATTCAATTCGGA-TATATAAGT
1 ATA-CATATACAATTCAATTC-GACAATATAAGT
39691792 ATACATATACAATTCAATTC
1 ATACATATACAATTCAATTC
39691812 AGCAATACAT
Statistics
Matches: 422, Mismatches: 69, Indels: 18
0.83 0.14 0.04
Matches are distributed among these distances:
30 5 0.01
31 5 0.01
32 400 0.95
33 7 0.02
34 5 0.01
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGACAATATAAGT
Found at i:39691395 original size:96 final size:96
Alignment explanation
Indices: 39691280--39691818 Score: 841
Period size: 96 Copynumber: 5.6 Consensus size: 96
39691270 AAATATATAA
* * * *
39691280 ATACATATACAAATCAATTCGACAACATAAGTATACATATACAATTCAATTTGGCAATATAAGTA
1 ATACCTATACAATTCAATTCGACAATATAAGTATACATATACAATTCAATTCGGCAATATAAGTA
39691345 TACATATACAATTCAATTCGACAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
* * *
39691376 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAACTCAATTCGACAATATAAGTA
1 ATACCTATACAATTCAATTCGACAATATAAGTATACATATACAATTCAATTCGGCAATATAAGTA
* *
39691441 TACATATACAATTCAATTCGGCAATAGGTTT
66 TACATATACAATTCAATTCGACAATAGGTGT
* *
39691472 ATACCTATACAATTCAATTCGACAATATAAGTACACATATACAATTCAATTCGGCAATATAAATA
1 ATACCTATACAATTCAATTCGACAATATAAGTATACATATACAATTCAATTCGGCAATATAAGTA
39691537 TACATATACAATTCAATTCGACAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
* *
39691568 ATACCTATACAATTCAATTC-AGCAATATAAGTATACATATACAATTTAATTCGACAATATAAGT
1 ATACCTATACAATTCAATTCGA-CAATATAAGTATACATATACAATTCAATTCGGCAATATAAGT
*
39691632 ATACATATACAATTCAATTCAGA-AATAGGTGC
65 ATACATATACAATTCAATTC-GACAATAGGTGT
* * *
39691664 ATACCTATACAATTCAATTAGACAATATAAGTATAAATATAAAATTCAATTCGGCAATATAAGTA
1 ATACCTATACAATTCAATTCGACAATATAAGTATACATATACAATTCAATTCGGCAATATAAGTA
*
39691729 TGCATATACAATTCAATTCGACAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
* * *
39691760 ATATCTATACAATTCAATTCGGA-TATATAAGTATACATATACAATTCAATTCAGCAATA
1 ATACCTATACAATTCAATTC-GACAATATAAGTATACATATACAATTCAATTCGGCAATA
39691819 CATAAAATAT
Statistics
Matches: 404, Mismatches: 34, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
95 3 0.01
96 396 0.98
97 5 0.01
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (96 bp):
ATACCTATACAATTCAATTCGACAATATAAGTATACATATACAATTCAATTCGGCAATATAAGTA
TACATATACAATTCAATTCGACAATAGGTGT
Found at i:39697958 original size:49 final size:49
Alignment explanation
Indices: 39697900--39697998 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
39697890 TGCACATTTC
39697900 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
1 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
39697949 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
1 ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
39697998 A
1 A
39697999 ACTCAAAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.38
Consensus pattern (49 bp):
ATACTATTTTATAACCATTCATTTACCACTCATTTCATGTCCACAAACT
Found at i:39699952 original size:32 final size:32
Alignment explanation
Indices: 39699032--39699953 Score: 1085
Period size: 32 Copynumber: 28.8 Consensus size: 32
39699022 CAATATATAA
* * *
39699032 ATACATATACAAATCAATTCGACAACATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699064 ATACATATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
39699096 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
39699128 ATACCTATACAATTCAATTCGGGAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
39699160 ATACGTATACAATTCAATTCAGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
****
39699192 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
39699224 ATACCTATACAATTCAATTCGACAATACAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
** *
39699256 ATACATATACAATTCAATTCGAAAATAGT-TGT
1 ATACATATACAATTCAATTCGGCAATA-TAAGT
* ****
39699288 ATACCTATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
39699320 ATACCTATACAATTCAATTTGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
***
39699352 ATACATATACAATTCAATTCAAAAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * ***
39699384 ATACATATACAATTCAATTTGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699416 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
39699448 ATACATATACAACTCAATTTGGTAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699480 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
***
39699512 ATACATATACAATTCAATTCGGC-ATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
39699543 ATACCTATACAATTCAATTCGGAAATATAACT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699575 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
39699607 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * ***
39699639 ATACCTATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
39699671 ATACCTATACAATTCAATTCGGGAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699703 ATACGTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
****
39699735 ATACATATACAATTCAATTCGGCAATAGGTTT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * * *
39699767 ATACCTATGCAATTCAATTCGACAATACAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*** *
39699799 ATACATATACAATTCAATTCAAAAATAGT-TGT
1 ATACATATACAATTCAATTCGGCAATA-TAAGT
*
39699831 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
39699863 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699895 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
39699927 ATACATATACAATTCAATTCAGCAATA
1 ATACATATACAATTCAATTCGGCAATA
39699954 CATGAAATAT
Statistics
Matches: 756, Mismatches: 129, Indels: 10
0.84 0.14 0.01
Matches are distributed among these distances:
31 27 0.04
32 729 0.96
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATATAAGT
Found at i:39709353 original size:23 final size:25
Alignment explanation
Indices: 39709322--39709369 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
39709312 TATTGTATTA
*
39709322 TTAATAAAATTT-AAAT-TTAAAAT
1 TTAAAAAAATTTAAAATATTAAAAT
39709345 TTAAAAAAATTTAAAATATTAAAAT
1 TTAAAAAAATTTAAAATATTAAAAT
39709370 ACGAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.50
24 4 0.18
25 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TTAAAAAAATTTAAAATATTAAAAT
Found at i:39709356 original size:17 final size:18
Alignment explanation
Indices: 39709334--39709368 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
39709324 AATAAAATTT
39709334 AAATTTAAAAT-TTAAAA
1 AAATTTAAAATATTAAAA
39709351 AAATTTAAAATATTAAAA
1 AAATTTAAAATATTAAAA
39709369 TACGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTAAAATATTAAAA
Found at i:39709473 original size:15 final size:17
Alignment explanation
Indices: 39709439--39709477 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
39709429 AATATAATAA
*
39709439 AATTTTATTTGAATAAT
1 AATTTTATTTGAAAAAT
39709456 AATTTT-TTT-AAAAAT
1 AATTTTATTTGAAAAAT
39709471 AATTTTA
1 AATTTTA
39709478 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 11 0.55
16 3 0.15
17 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTTATTTGAAAAAT
Found at i:39709687 original size:17 final size:18
Alignment explanation
Indices: 39709655--39709690 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39709645 AAAAATACTC
*
39709655 ACTATTGTTTTTTTATTA
1 ACTATTGTTTTATTATTA
39709673 ACTATT-TTTTATTATTA
1 ACTATTGTTTTATTATTA
39709690 A
1 A
39709691 ATTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.64
Consensus pattern (18 bp):
ACTATTGTTTTATTATTA
Found at i:39709722 original size:17 final size:18
Alignment explanation
Indices: 39709702--39709739 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
39709692 TTTATATATT
39709702 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
39709719 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
39709737 ATA
1 ATA
39709740 AATTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:39710307 original size:3 final size:3
Alignment explanation
Indices: 39710295--39710326 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
39710285 TTAATAACAC
39710295 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
39710327 TATTTGATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:39716613 original size:13 final size:13
Alignment explanation
Indices: 39716595--39716621 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39716585 GTTTGGTTCA
39716595 GTGTATCTATTAC
1 GTGTATCTATTAC
39716608 GTGTATCTATTAC
1 GTGTATCTATTAC
39716621 G
1 G
39716622 GATCTAATAC
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:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (13 bp):
GTGTATCTATTAC
Found at i:39716833 original size:50 final size:51
Alignment explanation
Indices: 39716767--39716870 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 51
39716757 CTTCTGATTC
39716767 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
1 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
39716818 CATAA-TTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
1 CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
39716868 CAT
1 CAT
39716871 CAGCAGACTG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 48 0.91
51 5 0.09
ACGTcount: A:0.18, C:0.37, G:0.06, T:0.39
Consensus pattern (51 bp):
CATAACTTTTTCCTTCCTTTCGGCCACCACAACTGCTTCTTCTTCATCACT
Found at i:39720166 original size:26 final size:25
Alignment explanation
Indices: 39720128--39720186 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
39720118 ATTAAATTAT
*
39720128 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
39720154 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
39720180 ATATTAT
1 ATATTAT
39720187 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:39720185 original size:15 final size:15
Alignment explanation
Indices: 39720141--39720196 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
39720131 TTTTTGTTAA
*
39720141 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
39720156 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
39720167 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
39720182 ATTATATATTATAAT
1 ATTATATTTTATAAT
39720197 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:39720185 original size:120 final size:120
Alignment explanation
Indices: 39719971--39720209 Score: 451
Period size: 120 Copynumber: 2.0 Consensus size: 120
39719961 TGATACAATC
*
39719971 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
39720036 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
39720091 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
39720156 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
39720210 CATATTTTAT
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATATTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:39720245 original size:18 final size:17
Alignment explanation
Indices: 39720116--39720247 Score: 80
Period size: 18 Copynumber: 7.8 Consensus size: 17
39720106 ACTAAGAATA
39720116 TTATTAAATTATATATTT
1 TTATTAAATTATATA-TT
*
39720134 TTGTTAAA-T-TATA-T
1 TTATTAAATTATATATT
* *
39720148 TTAAT-AATAAT-TATT
1 TTATTAAATTATATATT
* * *
39720163 TTAAATTATATTTTATAATA
1 TT--ATTAAATTATAT-ATT
*
39720183 TTA-TATATTATA-ATT
1 TTATTAAATTATATATT
* *
39720198 TTAGTAAATTCACATATT
1 TTATTAAATT-ATATATT
39720216 TTATTAAATTATATATTT
1 TTATTAAATTATATA-TT
39720234 TTATTAAATTATAT
1 TTATTAAATTATAT
39720248 TTAATAATAA
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 17 0.20
18 39 0.45
19 1 0.01
20 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATTAAATTATATATT
Found at i:39722124 original size:24 final size:24
Alignment explanation
Indices: 39722071--39722132 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
39722061 AATTAATAAA
39722071 AAAT-GGCCGTTTTTTAATTAGGC
1 AAATAGGCCGTTTTTTAATTAGGC
*** * *
39722094 CTTTAGGCCATTTTTTAATTAGGG
1 AAATAGGCCGTTTTTTAATTAGGC
39722118 AAATAGGCCGTTTTT
1 AAATAGGCCGTTTTT
39722133 AGGAGAGAGA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (24 bp):
AAATAGGCCGTTTTTTAATTAGGC
Found at i:39726192 original size:19 final size:20
Alignment explanation
Indices: 39726155--39726193 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39726145 TATTTATAAC
*
39726155 ATAAAAAAATATTTCAAATT
1 ATAAAAAAATAATTCAAATT
39726175 ATAAAAAAATAATT-AAATT
1 ATAAAAAAATAATTCAAATT
39726194 TAACATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAAAAAAATAATTCAAATT
Found at i:39726809 original size:23 final size:21
Alignment explanation
Indices: 39726777--39726829 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
39726767 CGTATTTTCA
39726777 TTTTTAATTTATTGAAAACAAAT
1 TTTTTAATTTA-TG-AAACAAAT
* *
39726800 TTTTTTATTTATGAAACATA-
1 TTTTTAATTTATGAAACAAAT
39726820 TTTTTAATTT
1 TTTTTAATTT
39726830 CTAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.33
21 6 0.22
22 2 0.07
23 10 0.37
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTTAATTTATGAAACAAAT
Found at i:39738000 original size:25 final size:25
Alignment explanation
Indices: 39737967--39738075 Score: 83
Period size: 25 Copynumber: 4.4 Consensus size: 25
39737957 GCATGTAAAT
* * *
39737967 GGGAGGCTCTTCCGAGCTATATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * *
39737992 TGGAAGCTCATGTGAGCTAGATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * *
39738017 GGGAAGCTCTTGCGAGCCAAATATC
1 GGGAAGCTCTTGCGAGCTAGATAAC
* * * * *
39738042 GGGAACCTCATACAAGCTATATAAC
1 GGGAAGCTCTTGCGAGCTAGATAAC
*
39738067 GAGAAGCTC
1 GGGAAGCTC
39738076 AAGAGAGCCA
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCTTGCGAGCTAGATAAC
Found at i:39738076 original size:25 final size:25
Alignment explanation
Indices: 39737979--39738076 Score: 97
Period size: 25 Copynumber: 3.9 Consensus size: 25
39737969 GAGGCTCTTC
*
39737979 CGAGCTATATAACTGGAAGCTCATG
1 CGAGCTATATAACGGGAAGCTCATG
* * *
39738004 TGAGCTAGATAACGGGAAGCTCTTG
1 CGAGCTATATAACGGGAAGCTCATG
* * * * *
39738029 CGAGCCAAATATCGGGAACCTCATA
1 CGAGCTATATAACGGGAAGCTCATG
* *
39738054 CAAGCTATATAACGAGAAGCTCA
1 CGAGCTATATAACGGGAAGCTCA
39738077 AGAGAGCCAT
Statistics
Matches: 56, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTCATG
Found at i:39740805 original size:9 final size:10
Alignment explanation
Indices: 39740787--39740811 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
39740777 CCCGACTTAG
39740787 AAATTTTTTT
1 AAATTTTTTT
39740797 AAATTTTTTT
1 AAATTTTTTT
39740807 AAATT
1 AAATT
39740812 ATACTAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
AAATTTTTTT
Found at i:39741167 original size:25 final size:24
Alignment explanation
Indices: 39741059--39741252 Score: 83
Period size: 23 Copynumber: 8.3 Consensus size: 24
39741049 TGGACAACAT
*
39741059 TTATATACC-AAATTAGA-CAGCA
1 TTATATACCAAAATTTGAGCAGCA
* * *
39741081 TTTTCACACCAAAATTTGGGCAGCA
1 TTAT-ATACCAAAATTTGAGCAGCA
* *
39741106 -TAAATA-CAACAATTTGGGCAGCA
1 TTATATACCAA-AATTTGAGCAGCA
39741129 -TATATA-CAACAATTTGAGCAGCA
1 TTATATACCAA-AATTTGAGCAGCA
* *
39741152 TTGTTATACCAAAATTGGA-CAGCA
1 TT-ATATACCAAAATTTGAGCAGCA
* *
39741176 -TAAAT-TCAACAATTT-AGGCAGCA
1 TTATATACCAA-AATTTGA-GCAGCA
* *
39741199 -TATATA-CAACAATTTGAACAACA
1 TTATATACCAA-AATTTGAGCAGCA
* * *
39741222 TTTTTACACCAAAATTGGA-CAGCA
1 -TTATATACCAAAATTTGAGCAGCA
39741246 -TATATAC
1 TTATATAC
39741253 AACAAATTGG
Statistics
Matches: 133, Mismatches: 24, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
21 4 0.03
22 17 0.13
23 63 0.47
24 18 0.14
25 25 0.19
26 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (24 bp):
TTATATACCAAAATTTGAGCAGCA
Found at i:39741196 original size:70 final size:70
Alignment explanation
Indices: 39741086--39741337 Score: 317
Period size: 70 Copynumber: 3.6 Consensus size: 70
39741076 CAGCATTTTC
* * *
39741086 ACACCAAAATTTGGGCAGCATAAATACAACAATTTGGGCAGCATATATACAACAATTTGAGCAGC
1 ACACCAAAA-TTGGACAGCATAAATACAACAATTTGGGCAGCATATATACAACAATTTGAACAAC
39741151 ATTGTT
65 ATTGTT
* * *
39741157 ATACCAAAATTGGACAGCATAAATTCAACAATTTAGGCAGCATATATACAACAATTTGAACAACA
1 ACACCAAAATTGGACAGCATAAATACAACAATTTGGGCAGCATATATACAACAATTTGAACAACA
*
39741222 TTTTT
66 TTGTT
* * * * *
39741227 ACACCAAAATTGGACAGCATATATACAACAAATTGGGCAACATATATACAACAAATTGGACAACA
1 ACACCAAAATTGGACAGCATAAATACAACAATTTGGGCAGCATATATACAACAATTTGAACAACA
*
39741292 TT-TA
66 TTGTT
* * * * *
39741296 AGCATCAAAATTGGACAGCATATATGCATCAAATTGGGCAGC
1 A-CACCAAAATTGGACAGCATAAATACAACAATTTGGGCAGC
39741338 GTTTAAGCAC
Statistics
Matches: 160, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
69 2 0.01
70 150 0.94
71 8 0.05
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (70 bp):
ACACCAAAATTGGACAGCATAAATACAACAATTTGGGCAGCATATATACAACAATTTGAACAACA
TTGTT
Found at i:39741245 original size:47 final size:46
Alignment explanation
Indices: 39741096--39741337 Score: 141
Period size: 47 Copynumber: 5.2 Consensus size: 46
39741086 ACACCAAAAT
* * * ** *
39741096 TTGGGCAGCATAAATACAACAATTTGGGCAGCATATATACAAC-AA
1 TTGGACAGCATATATACAACAAATTGAACAACATATATACAACAAA
* * * * * * * *
39741141 TTTGAGCAGCATTGTTATACCA-AAATTGGACAGCATAAATTCAACAAT
1 TTGGA-CAGCA-T-ATATACAACAAATTGAACAACATATATACAACAAA
* * * *
39741189 TTAGG-CAGCATATATACAACAATTTGAACAACATTTTTACACCAAAA
1 TT-GGACAGCATATATACAACAAATTGAACAACATATATACAAC-AAA
**
39741236 TTGGACAGCATATATACAACAAATTGGGCAACATATATACAACAAA
1 TTGGACAGCATATATACAACAAATTGAACAACATATATACAACAAA
* * * * * * *
39741282 TTGGACAACATTTA-AGCATCAAAATTGGACAGCATATATGCATCAAA
1 TTGGACAGCATATATA-CAAC-AAATTGAACAACATATATACAACAAA
*
39741329 TTGGGCAGC
1 TTGGACAGC
39741338 GTTTAAGCAC
Statistics
Matches: 150, Mismatches: 37, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
45 10 0.07
46 41 0.27
47 90 0.60
48 8 0.05
49 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (46 bp):
TTGGACAGCATATATACAACAAATTGAACAACATATATACAACAAA
Found at i:39741290 original size:23 final size:23
Alignment explanation
Indices: 39741096--39741337 Score: 177
Period size: 23 Copynumber: 10.4 Consensus size: 23
39741086 ACACCAAAAT
* * *
39741096 TTGGGCAGCATAAATACAACAAT
1 TTGGACAGCATATATACAACAAA
*
39741119 TTGGGCAGCATATATACAAC-AA
1 TTGGACAGCATATATACAACAAA
* * *
39741141 TTTGAGCAGCATTGTTATACCA-AAA
1 TTGGA-CAGCA-T-ATATACAACAAA
* * *
39741166 TTGGACAGCATAAATTCAACAAT
1 TTGGACAGCATATATACAACAAA
*
39741189 TTAGG-CAGCATATATACAACAAT
1 TT-GGACAGCATATATACAACAAA
* * * * *
39741212 TTGAACAACATTTTTACACCAAAA
1 TTGGACAGCATATATACAAC-AAA
39741236 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* *
39741259 TTGGGCAACATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * *
39741282 TTGGACAACATTTA-AGCATCAAAA
1 TTGGACAGCATATATA-CAAC-AAA
* *
39741306 TTGGACAGCATATATGCATCAAA
1 TTGGACAGCATATATACAACAAA
*
39741329 TTGGGCAGC
1 TTGGACAGC
39741338 GTTTAAGCAC
Statistics
Matches: 174, Mismatches: 34, Indels: 22
0.76 0.15 0.10
Matches are distributed among these distances:
22 10 0.06
23 108 0.62
24 44 0.25
25 12 0.07
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:39742448 original size:43 final size:42
Alignment explanation
Indices: 39742339--39742452 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 42
39742329 AACTAGTACA
* * *
39742339 ATGCCAACGTCCCAGACTTGGTCTTACATGTAATCTCATATCG
1 ATGCCAACGTCCCAGA-TTGGTCTTACACGTAAACGCATATCG
**
39742382 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAACGCA-AGTCG
1 ATGCCAAC-GTCCCAGA-TTGGTCTTACACGTAAACGCATA-TCG
*
39742425 ATGCCAACGTACCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGAT-TGGTCTTACA
39742453 TGATAACACA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 3 0.05
43 54 0.92
44 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATTGGTCTTACACGTAAACGCATATCG
Found at i:39747437 original size:26 final size:26
Alignment explanation
Indices: 39747394--39747455 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
39747384 AAAGATCCAT
*
39747394 TCAAACTCAAGGAACCTCCGACCAAC
1 TCAAACTCAAGGAACCTCAGACCAAC
* * *
39747420 TCAAACTCAA-GAGTCCTCAGACCCAG
1 TCAAACTCAAGGA-ACCTCAGACCAAC
39747446 TCAAACTCAA
1 TCAAACTCAA
39747456 AGGATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.15
Consensus pattern (26 bp):
TCAAACTCAAGGAACCTCAGACCAAC
Found at i:39755572 original size:20 final size:21
Alignment explanation
Indices: 39755542--39755581 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
39755532 GGTTATTTTG
39755542 AGTTGATAGTT-TAAATTTATA
1 AGTTGATAGTTGT-AATTTATA
39755563 AGTTGA-AGTTGTAATTTAT
1 AGTTGATAGTTGTAATTTAT
39755582 TATAATGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AGTTGATAGTTGTAATTTATA
Found at i:39762561 original size:24 final size:24
Alignment explanation
Indices: 39762511--39762562 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
39762501 TTTCTAGAAA
* *
39762511 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
39762535 ATTTAGCATTTATTAGCATTATTT
1 ATTTAGCATTTATTAGCATAATAT
39762559 ATTT
1 ATTT
39762563 GACCTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:39763640 original size:18 final size:18
Alignment explanation
Indices: 39763617--39763653 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39763607 TGAAGCTATG
39763617 TGGACCAAAATTTAAAAT
1 TGGACCAAAATTTAAAAT
39763635 TGGACCAAAATTTAAAAT
1 TGGACCAAAATTTAAAAT
39763653 T
1 T
39763654 TCATCAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
TGGACCAAAATTTAAAAT
Found at i:39769847 original size:245 final size:245
Alignment explanation
Indices: 39769411--39769870 Score: 699
Period size: 245 Copynumber: 1.9 Consensus size: 245
39769401 GATCCACTCT
* * *
39769411 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTTGACATCGACTCAAGATTAATGACAATA
1 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTTGACACCGACTCAAGATTAATAACAACA
* * *
39769476 CATTGACAAACAATTTAATCTAATTTTTTCATTTTAATAACATACATATTTCATGTGTTATTATC
66 CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
39769541 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
* * *
39769606 TAAATTTTTGGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
196 AAAATTTATAGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
* * * * *
39769656 ATAATGTATTTGATTGAGTTGGTGTCACAAGTTAGCTTGACCCCGATTCAAGATTGATAACAACA
1 ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTTGACACCGACTCAAGATTAATAACAACA
* * ** *
39769721 CCGTGATAAACAATTTAATCCAATTTCTTCATTTTAATAATGTACATATTTCATGTGTTATTATT
66 CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
* *
39769786 AATTGGTTTCAAACTATAAGTTTCATTATTTATTGTATGTTATT-TTAAA-ACACGTATTTGTGT
131 AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACAC--ATTTGTGT
39769849 TCAAAATTTATAGTTTCCATAT
194 TCAAAATTTATAGTTTCCATAT
39769871 ATATTCGTAT
Statistics
Matches: 192, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
243 4 0.02
244 5 0.03
245 183 0.95
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (245 bp):
ATAATGTATTTGATTGAGTTGGCGTCACAAGTTAACTTGACACCGACTCAAGATTAATAACAACA
CAGTGACAAACAATTTAATCCAATTTCTTCATTTTAATAACATACATATTTCATGTGTTATTATC
AATTAGTTTCAAACCATAAGTTTCATTATTTATTGTATGTTATTCTTAAACACACATTTGTGTTC
AAAATTTATAGTTTCCATATGCATACATGTGTGATTGTATTTCTATATTA
Found at i:39791741 original size:13 final size:13
Alignment explanation
Indices: 39791725--39791775 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
39791715 TTAACCTATT
39791725 TATTTAAAATATA
1 TATTTAAAATATA
*
39791738 TATTTAAAAAATA
1 TATTTAAAATATA
39791751 TATATTATAAA-ATA
1 TAT-TTA-AAATATA
39791765 TATTTAAAATA
1 TATTTAAAATA
39791776 ATGAAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
12 3 0.09
13 19 0.56
14 9 0.26
15 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTTAAAATATA
Found at i:39791750 original size:15 final size:14
Alignment explanation
Indices: 39791730--39791773 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
39791720 CTATTTATTT
39791730 AAAATATATATTTAA
1 AAAATATATA-TTAA
*
39791745 AAAATATATATTAT
1 AAAATATATATTAA
39791759 AAAATATAT-TTAA
1 AAAATATATATTAA
39791772 AA
1 AA
39791774 TAATGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 10 0.37
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATATATTAA
Found at i:39791789 original size:26 final size:27
Alignment explanation
Indices: 39791735--39791797 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
39791725 TATTTAAAAT
*
39791735 ATATATTTAAAAAATATATATTATAAA
1 ATATATTTAAAAAATATATAATATAAA
39791762 ATATATTTAAAATAATGA-A-AATAT-AA
1 ATATATTTAAAA-AAT-ATATAATATAAA
39791788 ATATATTTAA
1 ATATATTTAA
39791798 CTGACTTAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 12 0.36
27 16 0.48
28 4 0.12
29 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATATATTTAAAAAATATATAATATAAA
Found at i:39795305 original size:3 final size:3
Alignment explanation
Indices: 39795252--39795285 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
39795242 CTTGTTAACT
* *
39795252 TTA TTA TTA TTA TTA TTA TCA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
39795286 ATTTTCATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:39795929 original size:108 final size:108
Alignment explanation
Indices: 39795734--39796140 Score: 656
Period size: 108 Copynumber: 3.7 Consensus size: 108
39795724 TCAAAAAAGG
* *
39795734 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATTG
1 AAAAT-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTG
* *
39795799 GGTTTCAATTTCTCGTTCGACCAAATGACTTAATATCATTTTCA
65 GGTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCA
39795843 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
39795908 GTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCA
66 GTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCA
* *
39795951 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTG
* * *
39796016 GGTGTCGATTTTTCTCGTTCAACCAAAT-AGCTAAATATCCTTTTCA
65 GGTTTCGA--TTTCTCGTTCGACCAAATGA-CTTAATATCCTTTTCA
* *
39796062 AAAA-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTGG
1 AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
39796126 GTTTCGATTTCTCGT
66 GTTTCGATTTCTCGT
39796141 CTAGCCAAAT
Statistics
Matches: 280, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
107 8 0.03
108 143 0.51
109 53 0.19
110 40 0.14
111 36 0.13
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (108 bp):
AAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGG
GTTTCGATTTCTCGTTCGACCAAATGACTTAATATCCTTTTCA
Found at i:39796120 original size:218 final size:217
Alignment explanation
Indices: 39795734--39796140 Score: 658
Period size: 218 Copynumber: 1.9 Consensus size: 217
39795724 TCAAAAAAGG
* * *
39795734 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTATTG
1 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTACTG
* * *
39795799 GGTTTCAATTTCTCGTTCGACCAAATGACTTAATATCATTTTCAAAAATTTTCAAAATAAGGCAA
66 GGTGTCAATTTCTCGTTCAACCAAATGACTAAATATCATTTTCAAAAATTTTCAAAATAAGGCAA
39795864 TGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
131 TGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
39795929 AAATGACTTAATATCCTTTTCA
196 AAATGACTTAATATCCTTTTCA
*
39795951 AAAAT-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACT
1 AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTACT
* *
39796015 GGGTGTCGATTTTTCTCGTTCAACCAAAT-AGCTAAATATCCTTTTCAAAAA-TTTCAAAATAAG
65 GGGTGTC-A-ATTTCTCGTTCAACCAAATGA-CTAAATATCATTTTCAAAAATTTTCAAAATAAG
* *
39796078 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGCTGGGTTTCGATTTCTCGT
127 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGT
39796141 CTAGCCAAAT
Statistics
Matches: 175, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
216 38 0.22
217 27 0.15
218 75 0.43
219 35 0.20
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (217 bp):
AAAATATTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTACTG
GGTGTCAATTTCTCGTTCAACCAAATGACTAAATATCATTTTCAAAAATTTTCAAAATAAGGCAA
TGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTTCTCGTTCGACC
AAATGACTTAATATCCTTTTCA
Found at i:39796664 original size:24 final size:27
Alignment explanation
Indices: 39796637--39796689 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
39796627 TGCATTTCAT
*
39796637 TTGTTTTG-AG-TTATATTTTT-TATC
1 TTGTTTTGTAGTTTAAATTTTTATATC
39796661 TTGTTTTGTAGTTTAAATTTTTATATC
1 TTGTTTTGTAGTTTAAATTTTTATATC
39796688 TT
1 TT
39796690 TCTGCATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 2 0.08
26 9 0.36
27 6 0.24
ACGTcount: A:0.19, C:0.04, G:0.11, T:0.66
Consensus pattern (27 bp):
TTGTTTTGTAGTTTAAATTTTTATATC
Found at i:39796681 original size:25 final size:24
Alignment explanation
Indices: 39796637--39796684 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
39796627 TGCATTTCAT
*
39796637 TTGTTTTGAGTTATATTTTTTATC
1 TTGTTTTGAGTTATAATTTTTATC
39796661 TTGTTTTGTAGTT-TAAATTTTTAT
1 TTGTTTTG-AGTTAT-AATTTTTAT
39796685 ATCTTTCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (24 bp):
TTGTTTTGAGTTATAATTTTTATC
Found at i:39799903 original size:21 final size:21
Alignment explanation
Indices: 39799877--39799916 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
39799867 TGAGTCAAAC
39799877 AAAAAA-AATAAAAAATGAATG
1 AAAAAATAA-AAAAAATGAATG
*
39799898 AAAAAATGAAAAAAATGAA
1 AAAAAATAAAAAAAATGAA
39799917 AGAGTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAAAATAAAAAAAATGAATG
Found at i:39802144 original size:18 final size:17
Alignment explanation
Indices: 39802111--39802149 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
39802101 TTGTATAAAT
39802111 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
39802129 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
39802146 TGTG
1 TGTG
39802150 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:39802402 original size:23 final size:23
Alignment explanation
Indices: 39802375--39802472 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
39802365 AGTGTTATTG
39802375 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
39802398 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
39802421 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
39802443 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
39802466 ATCAGTG
1 ATCAGTG
39802473 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:39802441 original size:45 final size:45
Alignment explanation
Indices: 39802377--39802465 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
39802367 TGTTATTGAT
* *
39802377 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
39802422 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
39802466 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:39819288 original size:18 final size:18
Alignment explanation
Indices: 39819265--39819301 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
39819255 GCCAGGTGCA
*
39819265 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
39819283 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
39819301 T
1 T
39819302 TTCATTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.08, T:0.41
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:39819579 original size:21 final size:21
Alignment explanation
Indices: 39819555--39819630 Score: 118
Period size: 21 Copynumber: 3.6 Consensus size: 21
39819545 ACAACCAGAA
39819555 CAACCACAACCCCTGTCGGAG
1 CAACCACAACCCCTGTCGGAG
*
39819576 CAACCATAACCCCTGTCGGAG
1 CAACCACAACCCCTGTCGGAG
*
39819597 CAACCATAA-CCCTCGTCGGAG
1 CAACCACAACCCCT-GTCGGAG
39819618 CAACCACAACCCC
1 CAACCACAACCCC
39819631 CGCCAGAAGC
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
20 4 0.08
21 44 0.86
22 3 0.06
ACGTcount: A:0.30, C:0.43, G:0.16, T:0.11
Consensus pattern (21 bp):
CAACCACAACCCCTGTCGGAG
Found at i:39819856 original size:62 final size:59
Alignment explanation
Indices: 39819736--39819860 Score: 162
Period size: 62 Copynumber: 2.1 Consensus size: 59
39819726 ATATTTGTAC
* * * **
39819736 AAATTGTTTTTATATTGTTTCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAG
1 AAATTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAATGCAATAG
39819795 TAAATTATTTTTATATT-TTGTCTTATTTAATAAAATAAAAGTTCTTTTGAATAATGCAATAG
1 -AAATTATTTTTATATTGTT-TC--ATTTAATAAAATAAAAGTTCTTTTGAATAATGCAATAG
39819857 AAAT
1 AAAT
39819861 AATGCAACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
59 2 0.04
60 17 0.30
61 4 0.07
62 34 0.60
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (59 bp):
AAATTATTTTTATATTGTTTCATTTAATAAAATAAAAGTTCTTTTGAATAATGCAATAG
Found at i:39823142 original size:125 final size:124
Alignment explanation
Indices: 39822841--39823213 Score: 470
Period size: 125 Copynumber: 3.0 Consensus size: 124
39822831 TAAGGTCAAA
*
39822841 CAGGAACTACTGTAGAAAAA-A-AGTCCACGTGGGAGCTTTCTCG--GTAATTTTGCTGACAATG
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTT-T-GTAGTAATTTTGCTGACAGTG
*
39822902 CATCCTACTTGAAGTGTTTTTGACACTATTTTTT-AGAACCGTCTTCTCAAAATTATTTTT
64 CATCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTT
* * * * *
39822962 CAGGAACTATTGTAGAAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTAACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTGT-AGTAATTTTGCTGACAGTGC
* * *
39823027 ATCCTGCTTGAAGCGTTTTTG-CAACTATTTTTTCAGAACCGTATTTTCAAAATTATTTTTT
65 ATCCTACTTGAAGCGTTTTTGAC-ACTATTTTTTCAGAACCGTCTTCTCAAAATTA-TTTTT
* * * *
39823088 TAGGAACTACTGTAGAAAAAGAGTGTCCACGTGGGAACTTTTGTAGTAATTTTGCTGATAGTGCA
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTGTAGTAATTTTGCTGACAGTGCA
* * * * * *
39823153 TCTTACTTGAAGCATTTTTGACATTATCTTTTCAGAATCGTCTCCTCAAAATTAATTTTT
66 TCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATT-ATTTTT
39823213 C
1 C
39823214 TAAAACTACT
Statistics
Matches: 214, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
121 19 0.09
122 2 0.01
123 17 0.08
124 46 0.21
125 85 0.40
126 45 0.21
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (124 bp):
CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTGTAGTAATTTTGCTGACAGTGCA
TCCTACTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTT
Found at i:39823331 original size:34 final size:33
Alignment explanation
Indices: 39823290--39823403 Score: 115
Period size: 34 Copynumber: 3.4 Consensus size: 33
39823280 CAAAAAATTA
39823290 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
*
39823323 TTTCTT--AAAAACTAGAAACCTTAATTTAATTAAT
1 TTT-TTAAAAAAACT--AAACCCTAATTTAATTAAT
* *** *
39823357 TAATTTAAAACCCCTAAAACCTAATTTAATTAAT
1 T-TTTTAAAAAAACTAAACCCTAATTTAATTAAT
*
39823391 TTTTAAAAAAAAC
1 TTTTTAAAAAAAC
39823404 ACTAAACCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
32 7 0.11
33 10 0.16
34 41 0.65
35 1 0.02
36 4 0.06
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (33 bp):
TTTTTAAAAAAACTAAACCCTAATTTAATTAAT
Found at i:39823411 original size:34 final size:32
Alignment explanation
Indices: 39823285--39823412 Score: 111
Period size: 34 Copynumber: 3.8 Consensus size: 32
39823275 CTAAACAAAA
39823285 AATT-ATTTTTAAAAAA-ACTAAACCCTAATTT
1 AATTAATTTTTAAAAAACACTAAA-CCTAATTT
* *
39823316 AATTAATTTTCTTAAAAACTA-GAAACCTTAATTT
1 AATTAATTTT-TAAAAAAC-ACTAAACC-TAATTT
* *
39823350 AATTAATTAATTT-AAAACCCCTAAAACCTAATTT
1 AATTAATT--TTTAAAAAACACT-AAACCTAATTT
39823384 AATTAATTTTTAAAAAAAACACTAAACCT
1 AATTAATTTTT--AAAAAACACTAAACCT
39823413 TGATTTATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
31 4 0.05
32 8 0.10
33 8 0.10
34 42 0.54
35 14 0.18
36 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.37
Consensus pattern (32 bp):
AATTAATTTTTAAAAAACACTAAACCTAATTT
Found at i:39827415 original size:56 final size:56
Alignment explanation
Indices: 39827329--39827444 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
39827319 GTTATACTAC
*
39827329 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATTATAAATGAATGGATGATCCTCT
1 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
*
39827385 CTAAGAATGTCTCTCATTTGCCTTTAGAATAATAATAAATGAATGGATGATCCTCT
1 CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
39827441 CTAA
1 CTAA
39827445 CTTGGTGATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (56 bp):
CTAAGAATGTCTCTCATTTGCCTTCAGAATAATAATAAATGAATGGATGATCCTCT
Found at i:39827962 original size:11 final size:11
Alignment explanation
Indices: 39827946--39828015 Score: 70
Period size: 11 Copynumber: 6.4 Consensus size: 11
39827936 TTTTTTCCAT
*
39827946 AAAAATGATTA
1 AAAAATCATTA
39827957 AAAAATCATTA
1 AAAAATCATTA
* *
39827968 ATAAAATTAATA
1 A-AAAATCATTA
*
39827980 AAAAATCATAA
1 AAAAATCATTA
* *
39827991 AAAAATTAATA
1 AAAAATCATTA
39828002 AAAAATCA-TA
1 AAAAATCATTA
39828012 AAAA
1 AAAA
39828016 TTACCAAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.12
11 33 0.69
12 9 0.19
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (11 bp):
AAAAATCATTA
Found at i:39827995 original size:22 final size:22
Alignment explanation
Indices: 39827946--39828015 Score: 104
Period size: 22 Copynumber: 3.1 Consensus size: 22
39827936 TTTTTTCCAT
* *
39827946 AAAAATGATTAAAAAATCATTAA
1 AAAAATTAATAAAAAATCA-TAA
*
39827969 TAAAATTAATAAAAAATCATAA
1 AAAAATTAATAAAAAATCATAA
39827991 AAAAATTAATAAAAAATCATAA
1 AAAAATTAATAAAAAATCATAA
39828013 AAA
1 AAA
39828016 TTACCAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 27 0.63
23 16 0.37
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (22 bp):
AAAAATTAATAAAAAATCATAA
Found at i:39828038 original size:20 final size:20
Alignment explanation
Indices: 39827987--39828031 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
39827977 ATAAAAAATC
**
39827987 ATAA-AAAAATTAATAAAAA
1 ATAATAAAAATTACCAAAAA
*
39828006 ATCATAAAAATTACCAAAAA
1 ATAATAAAAATTACCAAAAA
39828026 ATAATA
1 ATAATA
39828032 TATATTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
ATAATAAAAATTACCAAAAA
Found at i:39835245 original size:10 final size:10
Alignment explanation
Indices: 39835225--39835351 Score: 72
Period size: 10 Copynumber: 13.0 Consensus size: 10
39835215 TTTTTATAAG
39835225 TTTACATATTT
1 TTTA-ATATTT
39835236 TTTAATATTT
1 TTTAATATTT
39835246 TTTAATATTT
1 TTTAATATTT
39835256 TTTACA-ATTT
1 TTTA-ATATTT
39835266 TTT-AT-TTT
1 TTTAATATTT
* *
39835274 TTTAACA-AT
1 TTTAATATTT
*
39835283 TCTAATATTT
1 TTTAATATTT
* *
39835293 TTT-TTAATT
1 TTTAATATTT
* **
39835302 TATAATA-AG
1 TTTAATATTT
*
39835311 TTT-ATATCAAT
1 TTTAATAT--TT
39835322 TTTAATA-TT
1 TTTAATATTT
39835331 TTTAATATTTT
1 TTTAATA-TTT
39835342 TTTAATATTT
1 TTTAATATTT
39835352 AATATTTTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
8 10 0.11
9 23 0.26
10 35 0.39
11 18 0.20
12 3 0.03
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTAATATTT
Found at i:39835246 original size:8 final size:9
Alignment explanation
Indices: 39835234--39835361 Score: 64
Period size: 9 Copynumber: 13.7 Consensus size: 9
39835224 GTTTACATAT
39835234 TTTTTAATA
1 TTTTTAATA
39835243 TTTTTTAATA
1 -TTTTTAATA
39835253 TTTTTTACA-A
1 -TTTTTA-ATA
* *
39835263 TTTTTTATT
1 TTTTTAATA
*
39835272 TTTTTAACA
1 TTTTTAATA
* *
39835281 ATTCTAATA
1 TTTTTAATA
**
39835290 TTTTTTTTAA
1 TTTTTAAT-A
*
39835300 TTTATAATA
1 TTTTTAATA
**
39835309 AGTTTATATCA
1 TTTTTA-AT-A
*
39835320 ATTTTAATA
1 TTTTTAATA
39835329 TTTTTAATA
1 TTTTTAATA
39835338 TTTTTTTAATA
1 --TTTTTAATA
39835349 --TTTAATA
1 TTTTTAATA
39835356 TTTTTA
1 TTTTTA
39835362 TAAAAAATCT
Statistics
Matches: 89, Mismatches: 20, Indels: 19
0.70 0.16 0.15
Matches are distributed among these distances:
7 7 0.08
8 1 0.01
9 38 0.43
10 27 0.30
11 16 0.18
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:39835344 original size:86 final size:83
Alignment explanation
Indices: 39835206--39835388 Score: 210
Period size: 86 Copynumber: 2.2 Consensus size: 83
39835196 TCAATTCAAG
* * **
39835206 TTTTTTTAATTTTTATAAGTTTACATATTTTTTAATATTTTTTAATATTTTTTACA-ATTTTTTA
1 TTTTTTTAATTTTAATAAGTTTACATATATTTTAATATTTTTTAATATTTTTTA-ATATTTAATA
* * *
39835270 TTTTTTTAACAATTCTAATAT
65 TTTTTATAAAAAATCT--TAT
*
39835291 TTTTTTTAATTTATAATAAGTTTATATCA-ATTTTAATA-TTTTTAATATTTTTTTAATATTTAA
1 TTTTTTTAATTT-TAATAAGTTTACAT-ATATTTTAATATTTTTTAATA-TTTTTTAATATTTAA
39835354 TATTTTTATAAAAAATCTTAT
63 TATTTTTATAAAAAATCTTAT
39835375 TTTTTTATAATTTT
1 TTTTTT-TAATTTT
39835389 TCTGATTTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
84 10 0.12
85 28 0.33
86 46 0.54
87 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (83 bp):
TTTTTTTAATTTTAATAAGTTTACATATATTTTAATATTTTTTAATATTTTTTAATATTTAATAT
TTTTATAAAAAATCTTAT
Found at i:39835404 original size:17 final size:18
Alignment explanation
Indices: 39835376--39835411 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
39835366 AAATCTTATT
39835376 TTTTTATAATTTTTCTGA
1 TTTTTATAATTTTTCTGA
*
39835394 TTTTTAT-ATTTTTGTGA
1 TTTTTATAATTTTTCTGA
39835411 T
1 T
39835412 ATCATTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTTTTCTGA
Found at i:39839368 original size:18 final size:18
Alignment explanation
Indices: 39839328--39839365 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
39839318 ATGATATTGG
*
39839328 TTATTATAAAATATTTTC
1 TTATTATAAAATAATTTC
39839346 TTATTATAAAATAAATTTC
1 TTATTATAAAAT-AATTTC
39839365 T
1 T
39839366 ATTGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTATAAAATAATTTC
Found at i:39845827 original size:51 final size:50
Alignment explanation
Indices: 39845765--39845862 Score: 142
Period size: 50 Copynumber: 1.9 Consensus size: 50
39845755 CCTCCACCCG
* * *
39845765 TATGATCCTTATTTTGTAATCAGTGAGTTACACGGCCTGGACACATGCCCA
1 TATGATCCTTA-TCTATAATCAGTAAGTTACACGGCCTGGACACATGCCCA
* *
39845816 TATGATGCTTATCTATAATCAGTAAGTTACACGGCCTTGACACATGC
1 TATGATCCTTATCTATAATCAGTAAGTTACACGGCCTGGACACATGC
39845863 TCTTGTCCCT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 32 0.76
51 10 0.24
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (50 bp):
TATGATCCTTATCTATAATCAGTAAGTTACACGGCCTGGACACATGCCCA
Found at i:39846552 original size:24 final size:24
Alignment explanation
Indices: 39846525--39846575 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
39846515 TAAGAAGAAT
*
39846525 AAAAATTAAAAAGA-AAAAGAAAG
1 AAAAAATAAAAAGAGAAAAGAAAG
* *
39846548 AAAAAATGAAAAGAGACAAGAAAG
1 AAAAAATAAAAAGAGAAAAGAAAG
39846572 AAAA
1 AAAA
39846576 TGTTTAATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (24 bp):
AAAAAATAAAAAGAGAAAAGAAAG
Found at i:39849315 original size:50 final size:51
Alignment explanation
Indices: 39849223--39849360 Score: 172
Period size: 50 Copynumber: 2.7 Consensus size: 51
39849213 GTGAAGTTGC
***
39849223 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTAAATGTACCGAA-ATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATA-GCA
* * *
39849273 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCA
* * *
39849324 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATG
39849361 TGAATCGGGT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 42 0.55
51 34 0.45
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCA
Found at i:39851792 original size:26 final size:26
Alignment explanation
Indices: 39851732--39851810 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
39851722 AATTTTTATA
39851732 AAAATTATATATTTAATTA-AAATTT
1 AAAATTATATATTTAATTATAAATTT
* * * *
39851757 TAAATATATATTTTTTATTATTAATTT
1 AAAAT-TATATATTTAATTATAAATTT
* *
39851784 AAAATTATAAATTTGATTATAAATTT
1 AAAATTATATATTTAATTATAAATTT
39851810 A
1 A
39851811 TTGAGACGGA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
25 4 0.09
26 30 0.70
27 9 0.21
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
AAAATTATATATTTAATTATAAATTT
Found at i:39852424 original size:24 final size:24
Alignment explanation
Indices: 39852397--39852444 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
39852387 GCTCACGAAC
* *
39852397 AAGCTCATTTCTTGGCTCGTTTAT
1 AAGCTCATTTATTGACTCGTTTAT
**
39852421 AAGCTTGTTTATTGACTCGTTTAT
1 AAGCTCATTTATTGACTCGTTTAT
39852445 TTATTAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (24 bp):
AAGCTCATTTATTGACTCGTTTAT
Found at i:39852722 original size:23 final size:23
Alignment explanation
Indices: 39852672--39852733 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
39852662 ATTGTCCGTG
* *
39852672 AACATGCTCAATTATATGTTCATG
1 AACATGCTCGATTA-ATGTTCATA
* * *
39852696 AACATGTTCGTTTAATGTTCGTA
1 AACATGCTCGATTAATGTTCATA
39852719 AACATGCTCGATTAA
1 AACATGCTCGATTAA
39852734 GTTAAATGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 20 0.65
24 11 0.35
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (23 bp):
AACATGCTCGATTAATGTTCATA
Found at i:39861027 original size:21 final size:20
Alignment explanation
Indices: 39860989--39861062 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 20
39860979 AAATAATAAT
* *
39860989 TATAAAAATATATATACATA
1 TATAAAAATAAAAATACATA
39861009 TATAAAAATAAAAATTACATA
1 TATAAAAATAAAAA-TACATA
**
39861030 TA-AAATTTAAAAA-A-ATA
1 TATAAAAATAAAAATACATA
39861047 TATAAATAAATAAAAA
1 TAT-AA-AAATAAAAA
39861063 AATAGTAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 5 0.11
18 1 0.02
19 2 0.05
20 28 0.64
21 8 0.18
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
TATAAAAATAAAAATACATA
Found at i:39862979 original size:44 final size:44
Alignment explanation
Indices: 39862544--39862998 Score: 172
Period size: 44 Copynumber: 10.3 Consensus size: 44
39862534 GACTTTGATT
* * * *
39862544 TGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAATC
* * * * ** *
39862588 TTCTCCGCTACTGCTTAGGGAGACAAG-GCT-TGGTGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--CTTCAATC
* * * * * *
39862632 TACTTCCCACTA-T-CTT-GGAAAAATAAGAT-TCGCCGTCTTCGATC
1 TGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAGTCTTCAATC
* * * *
39862676 TACTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAATC
* * * * ** *
39862720 TTCTCCGCTACTGCTTAGGGAGACAAG-GCT-TGGTGGCTTAAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--CTTCAATC
* * * *
39862764 TGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCCGTCTTCGATC
1 TGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAGTCTTCAATC
* *
39862808 TGCTCCACTACTGCTTAGGGAGATAAGATCTACACTCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAATC
* * * * ** * *
39862852 TTCTCCACTGCTGCTCAGGGAGACAAGA-CT-TGGTGGCTTAAAAC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGT--CTTCAATC
* * *
39862896 TGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCACCGTCTTCGATC
1 TGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAGTCTTCAATC
* * *
39862940 TACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAATC
* *
39862984 TTCTCCACTGCTGCT
1 TGCTCCACTACTGCT
39862999 CAAGGAGACA
Statistics
Matches: 300, Mismatches: 75, Indels: 72
0.67 0.17 0.16
Matches are distributed among these distances:
42 23 0.08
43 18 0.06
44 223 0.74
45 15 0.05
46 21 0.07
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTACAGTCTTCAATC
Found at i:39863031 original size:132 final size:132
Alignment explanation
Indices: 39862485--39863031 Score: 887
Period size: 132 Copynumber: 4.1 Consensus size: 132
39862475 GAGATAAGAT
* * * * * *
39862485 TTGGTGGCTTAAATCTACTTCCCACTGTCTTGGAAAGATAAGATTCGCCGACTTTGATTTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCC
* * * *
39862550 GCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTTAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG
39862615 GC
131 GC
* *
39862617 TTGGTGGCTTAAATCTACTTCCCACTATCTTGGAAAAATAAGATTCGCCGTCTTCGATCTACTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCC
* * *
39862682 ACTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACTGCTTAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG
39862747 GC
131 GC
*
39862749 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTGCTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCC
* *
39862814 ACTACTGCTTAGGGAGATAAGATCTACACTCTTCAACCTTCTCCACTGCTGCTCAGGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG
*
39862879 AC
131 GC
* *
39862881 TTGGTGGCTTAAAACTGCTTCCCACTATCTTGGAAAGATAAGATTCACCGTCTTCGATCTACTCC
1 TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCC
* *
39862946 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTGCTGCTCAAGGAGACAAG
66 ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG
39863011 GC
131 GC
39863013 TTGGTGGCTTAAATCTGCT
1 TTGGTGGCTTAAATCTGCT
39863032 GTCTTATTCA
Statistics
Matches: 392, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 392 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
TTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATCTACTCC
ACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGAGACAAG
GC
Found at i:39868043 original size:16 final size:16
Alignment explanation
Indices: 39868022--39868091 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
39868012 TTTGGTTCGC
* *
39868022 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
* *
39868038 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
39868054 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
39868070 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
39868086 TGTAAT
1 TGTAAT
39868092 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:39868126 original size:45 final size:44
Alignment explanation
Indices: 39868070--39868179 Score: 113
Period size: 45 Copynumber: 2.6 Consensus size: 44
39868060 GGAATAGAGG
39868070 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAAT-GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * * ***
39868115 TGTAATTGAATATAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAA-TGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
39868159 TG----GAATAGAGGTGTAATAGCA
1 TGTAATGAATAGAGGTGTAATAGCA
39868180 TAATGGAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
39 15 0.28
44 18 0.33
45 20 0.37
46 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:39868176 original size:39 final size:40
Alignment explanation
Indices: 39868073--39868179 Score: 108
Period size: 44 Copynumber: 2.6 Consensus size: 40
39868063 ATAGAGGTGT
39868073 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
* * * ***
39868113 AATGTAATTGAATATAGGCGTAATAG-TAATCTTGTGTTTGGTTG
1 AATG-----GAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
39868157 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
39868180 TAATGGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
39 15 0.29
40 4 0.08
44 18 0.35
45 15 0.29
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTG
Found at i:39868366 original size:17 final size:18
Alignment explanation
Indices: 39868325--39868359 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39868315 TTATTATTAA
*
39868325 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
39868343 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
39868360 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:39868564 original size:37 final size:37
Alignment explanation
Indices: 39868343--39868806 Score: 153
Period size: 38 Copynumber: 11.8 Consensus size: 37
39868333 TAATTAAAAT
* **
39868343 ATATAATTTAATAAAATTATT-AATAATCAATA-TTTTT
1 ATATAATTTAATAAAATTATTAAAT-AT-AATACTATAA
* * * *
39868380 ATCTGAATTTACTAAAA-TAATAATATATGATACTATAA
1 ATAT-AATTTAATAAAATTATTAA-ATATAATACTATAA
* * *
39868418 A-ATATATTTAACATAATTATTATTAAATATAATTTAATAAAAA
1 ATATA-ATTT-A-ATAA-AATTATTAAATATAA--TACT-ATAA
* * * *
39868461 TATATAATTTAATAAAATTCTT-AATATTAAATATTCT-T
1 -ATATAATTTAATAAAATTATTAAATA-T-AATACTATAA
** *
39868499 ATATGAATTTTCTAAAATCA-TAATATATAATACTATAA
1 ATAT-AATTTAATAAAATTATTAA-ATATAATACTATAA
* * * *
39868537 ATATAATTTAACATAATTATTAAATATAATTTAATAAAAA
1 ATATAATTTAATAAAATTATTAAATATAA--TACT-ATAA
* * * *
39868577 TATATAATTTAATAAAATTCTT-AATATTAAATATTCT-T
1 -ATATAATTTAATAAAATTATTAAATA-T-AATACTATAA
*
39868615 ATATGAATTTAATAAAATCA-TAATATATAATACTATATA
1 ATAT-AATTTAATAAAATTATTAA-ATATAATACTATA-A
* * *
39868654 ATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 ATATAATTT--AATAA-AATTATTAAATATAA--TACT-ATAA
* * * *
39868697 TATATAATTTAATAAAATTCTT-AATATTAAATATTCT-T
1 -ATATAATTTAATAAAATTATTAAATA-T-AATACTATAA
*
39868735 ATATGAATTTAATAAAATCA-TAATATATAATACTATAAA
1 ATAT-AATTTAATAAAATTATTAA-ATATAATACTAT-AA
* *
39868774 ATACAATTTAAAATAATTATTATTAAATATAAT
1 ATATAATTT--AATAA-AATTATTAAATATAAT
39868807 TTAATAAAAA
Statistics
Matches: 312, Mismatches: 64, Indels: 98
0.66 0.14 0.21
Matches are distributed among these distances:
36 1 0.00
37 63 0.20
38 78 0.25
39 24 0.08
40 40 0.13
41 55 0.18
42 24 0.08
43 8 0.03
44 16 0.05
45 3 0.01
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (37 bp):
ATATAATTTAATAAAATTATTAAATATAATACTATAA
Found at i:39868726 original size:18 final size:18
Alignment explanation
Indices: 39868560--39868713 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
39868550 TAATTATTAA
39868560 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
39868578 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
39868596 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
39868615 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
39868633 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
39868649 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
39868668 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
39868680 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
39868698 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
39868714 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:39868729 original size:236 final size:238
Alignment explanation
Indices: 39868303--39868829 Score: 853
Period size: 236 Copynumber: 2.2 Consensus size: 238
39868293 ATTTAATCAT
* *
39868303 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTTAAA-ATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA
* * * * * *
39868368 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATATATTTAACATA
64 ATAAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATATTTAAAATA
39868433 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
129 ATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCT
** *
39868498 TATATGAATTTTCTAAAATCATAATATATAATACTAT-AAATATA
194 TATATGAATTTAATAAAATCATAATATATAATACTATAAAATACA
* * *
39868542 ATTTAACAT-A-ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAAT
* *
39868605 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTTAAAATAA
66 AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATAT-ATTTAAAATAA
39868670 TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
130 TTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
39868735 ATATGAATTTAATAAAATCATAATATATAATACTATAAAATACA
195 ATATGAATTTAATAAAATCATAATATATAATACTATAAAATACA
39868779 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAAAATAA-TATTATTAAATATAATTTAATAAAAATATATAATTTAAT
39868830 CTAAAGTTTG
Statistics
Matches: 266, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
235 95 0.36
236 109 0.41
237 15 0.06
238 3 0.01
239 6 0.02
240 38 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (238 bp):
ATTTAAAATAATATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAAT
AAATATTCTTATATGAATTTAATAAAATAATAATATATAATACTATAAAATATATTTAAAATAAT
TATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTA
TATGAATTTAATAAAATCATAATATATAATACTATAAAATACA
Found at i:39868740 original size:120 final size:120
Alignment explanation
Indices: 39868303--39868829 Score: 866
Period size: 120 Copynumber: 4.4 Consensus size: 120
39868293 ATTTAATCAT
* * *
39868303 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTATTAATA
1 ATTTAAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
* * * * * * *
39868368 ATCAATATTTTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAATAT-
65 TTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
39868423 ATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
**
39868488 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTAT-AAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
*
39868542 ATTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
39868604 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
39868659 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
*
39868724 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATACA
66 TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
39868779 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAAT
39868830 CTAAAGTTTG
Statistics
Matches: 385, Mismatches: 17, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
116 97 0.25
117 14 0.04
118 8 0.02
119 104 0.27
120 162 0.42
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:39888682 original size:13 final size:12
Alignment explanation
Indices: 39888659--39888696 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
39888649 CATTAATGGC
39888659 ATAAA-AAATAA
1 ATAAACAAATAA
39888670 TATAAACAAATAA
1 -ATAAACAAATAA
39888683 ATAAACGAAATAA
1 ATAAAC-AAATAA
39888696 A
1 A
39888697 AACAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (12 bp):
ATAAACAAATAA
Found at i:39889102 original size:21 final size:20
Alignment explanation
Indices: 39889064--39889106 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39889054 AAATAATAAT
* *
39889064 TATAAAAATATATATACATA
1 TATAAAAATAAAAATACATA
39889084 TATAAAAATAAAAATTACATA
1 TATAAAAATAAAAA-TACATA
39889105 TA
1 TA
39889107 AAAGTTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATAAAAATACATA
Found at i:39893052 original size:30 final size:30
Alignment explanation
Indices: 39893003--39893063 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39892993 GATGGAGACA
* ** * *
39893003 AAGATGAAGTCGAGGGTGGAGATGAATATG
1 AAGATGAAGACGACAGTGGAGACGAAGATG
39893033 AAGATGAAGACGACAGTGGAGACGAAGATG
1 AAGATGAAGACGACAGTGGAGACGAAGATG
39893063 A
1 A
39893064 GCATGAGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.38, T:0.15
Consensus pattern (30 bp):
AAGATGAAGACGACAGTGGAGACGAAGATG
Found at i:39897756 original size:14 final size:15
Alignment explanation
Indices: 39897739--39897769 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
39897729 TGTAATTAAC
39897739 TTTTATATA-TAATA
1 TTTTATATATTAATA
39897753 TTTTATATATTAATA
1 TTTTATATATTAATA
39897768 TT
1 TT
39897770 ATTTTCAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTATATATTAATA
Found at i:39898205 original size:41 final size:44
Alignment explanation
Indices: 39898160--39898248 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
39898150 ACTTTTAACC
*
39898160 CAAATCTAAACA-AT-AATAA-T-GATTATTACAAAAAAATATTA
1 CAAATCTAAA-ATATAAATAATTCGAATATTACAAAAAAATATTA
*
39898201 CAAATCTAAAATATAAATAATTCTAATATTACAAAAAAATATTA
1 CAAATCTAAAATATAAATAATTCGAATATTACAAAAAAATATTA
39898245 -AAAT
1 CAAAT
39898249 ACCTTTTCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
40 1 0.02
41 12 0.29
42 5 0.12
43 5 0.12
44 19 0.45
ACGTcount: A:0.60, C:0.09, G:0.01, T:0.30
Consensus pattern (44 bp):
CAAATCTAAAATATAAATAATTCGAATATTACAAAAAAATATTA
Found at i:39899251 original size:17 final size:18
Alignment explanation
Indices: 39899229--39899268 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
39899219 TTATAAAAAA
39899229 TTATAAAAA-AAATGT-TT
1 TTATAAAAATAAAT-TATT
39899246 TTATAAAAATAAATTATT
1 TTATAAAAATAAATTATT
39899264 TTATA
1 TTATA
39899269 TTTTATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TTATAAAAATAAATTATT
Found at i:39899302 original size:21 final size:22
Alignment explanation
Indices: 39899268--39899310 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
39899258 ATTATTTTAT
*
39899268 ATTTTATAATAAAAATTAAAAA
1 ATTTTATAATAAAAAATAAAAA
39899290 ATTTTAT-ATAAAAAATAAAAA
1 ATTTTATAATAAAAAATAAAAA
39899311 TTTATAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTTTATAATAAAAAATAAAAA
Found at i:39901442 original size:40 final size:41
Alignment explanation
Indices: 39901342--39901444 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 41
39901332 AAAAATGCCT
* *
39901342 CTAAAAATCGAGCCATTAGC-GTGCATTTAGAAAAACGCCAA
1 CTAAAAATAGAG-CATTAGCGGCGCATTTAGAAAAACGCCAA
* * * *
39901383 CT-AAAATAAAGCATTAGCGGCGCTTTTTGAGAAACGCC-A
1 CTAAAAATAGAGCATTAGCGGCGCATTTAGAAAAACGCCAA
39901422 CTAAAAATAGAGCATTAGCGGCG
1 CTAAAAATAGAGCATTAGCGGCG
39901445 TTATAAGGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
39 10 0.19
40 41 0.77
41 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (41 bp):
CTAAAAATAGAGCATTAGCGGCGCATTTAGAAAAACGCCAA
Found at i:39901597 original size:41 final size:41
Alignment explanation
Indices: 39901525--39901751 Score: 201
Period size: 41 Copynumber: 5.5 Consensus size: 41
39901515 TTCAAAAAGT
*** * * *
39901525 GCCGCTAATGCTGGGGGATTTAGCGACGTTTTTGAAGAAGA
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
* * * * *
39901566 GCCACTAATGATCTAGGCTTTAACGGTG-TTTTGAAGATGC
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
* *
39901606 GCCGCTAATGATCT-GAGCTTTAGCGGCGATTTTGAAGAAGC
1 GCCGCTAATGCTCTAG-GCTTTAGCGGCGTTTTTGAAGAAGC
** *
39901647 TACGCTAATGCTCTAGGCTTTAGCGGCATTTTTTAGAA-AA-C
1 GCCGCTAATGCTCTAGGCTTTAGCGGC-GTTTTT-GAAGAAGC
* *
39901688 GCCGCTAATTCTCTAGGCTTTAGCGGCATTTTTGAAGAAAGC
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAG-AAGC
* * *
39901730 GCCACTATTGCTCTGGGCTTTA
1 GCCGCTAATGCTCTAGGCTTTA
39901752 AAGGTGGTTT
Statistics
Matches: 150, Mismatches: 28, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
39 4 0.03
40 38 0.25
41 79 0.53
42 26 0.17
43 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
Found at i:39901829 original size:40 final size:40
Alignment explanation
Indices: 39901520--39901831 Score: 138
Period size: 41 Copynumber: 7.7 Consensus size: 40
39901510 TATTTTTCAA
** * **
39901520 AAAGTGCCGCTAATGCTGGGGGATTTAGCGACGTTTTT-G
1 AAAGTGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTAG
* * * *
39901559 AAGAAGAGCCACTAATGATCTA-GGCTTTAACGGTG-TTTT-G
1 -A-AAGTGCCGCTAATGCTC-AGGGCTTTAGCGGTGTTTTTAG
* * * * * *
39901599 AAGATGCGCCGCTAATGATCTGAGCTTTAGCGGCGATTTT-G
1 AA-A-GTGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTAG
*
39901640 AAGAAGCT-ACGCTAATGCTCTA-GGCTTTAGCGGCAT-TTTTTAG
1 -A-AAG-TGCCGCTAATGCTC-AGGGCTTTAGCGG--TGTTTTTAG
** * **
39901683 AAAACGCCGCTAATTCTCTA-GGCTTTAGCGGCATTTTTGAAG
1 AAAGTGCCGCTAATGCTC-AGGGCTTTAGCGGTGTTTTT--AG
* * * * **
39901725 AAAGCGCCACTATTGCTCTGGGCTTTAAAGGTGGTTTTTAG
1 AAAGTGCCGCTAATGCTCAGGGCTTTAGCGGT-GTTTTTAG
* ** * *
39901766 AAAGTTCCAATAATTCTCTGGGCTTTAGCGGTGTTTTTAG
1 AAAGTGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTAG
39901806 AAAGTGCCGCTAATGCTCAGGGCTTT
1 AAAGTGCCGCTAATGCTCAGGGCTTT
39901832 TAGTGGGGCT
Statistics
Matches: 205, Mismatches: 48, Indels: 38
0.70 0.16 0.13
Matches are distributed among these distances:
38 1 0.00
39 2 0.01
40 63 0.31
41 100 0.49
42 32 0.16
43 7 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (40 bp):
AAAGTGCCGCTAATGCTCAGGGCTTTAGCGGTGTTTTTAG
Found at i:39903513 original size:49 final size:49
Alignment explanation
Indices: 39903360--39903687 Score: 249
Period size: 48 Copynumber: 6.7 Consensus size: 49
39903350 TATCGATGAA
* * * *
39903360 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAT-GATAAA-GATGGT
* * * * * * * *
39903411 CACATGTGTAGTACTAAAGTGAAGGCTACAATGTGTACTGA-GAAGCTTTGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTG-AATGATAAAG-ATGGT
* *
39903462 CACGTGTGTAATACTGTGTGAA-GCTACTACGTGAATGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAA-GATGGT
* * * * ** *
39903511 CACATGTGTAGTACTAAGTGAAGGCTATTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AATGATAAAG--ATGGT
* ** *
39903562 CACGTGTGTAGTA-T-TGTGAAGGCTACTACGTGGACCATAAA-ATGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAAGATGGT
* **
39903608 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-CTTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-TGATAAAGATGGT
*
39903656 CACGTGTGTAGTACTAAGTGAAGGCTACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
39903688 CGTATCGAAT
Statistics
Matches: 218, Mismatches: 46, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
46 16 0.07
47 1 0.00
48 63 0.29
49 51 0.23
50 19 0.09
51 50 0.23
52 17 0.08
53 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAAGATGGT
Found at i:39903564 original size:100 final size:99
Alignment explanation
Indices: 39903360--39903687 Score: 380
Period size: 99 Copynumber: 3.3 Consensus size: 99
39903350 TATCGATGAA
* *
39903360 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGCCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAAT-GATAAAT-ATGGTCACATGTGTAGTAC
* *
39903425 TAAAGTGAAGGCTACAATGTGTACTGAGAAGCTTTGT
64 T-AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGT
*
39903462 CACGTGTGTAATACTGTGTGAA-GCTACTACGTGAATGATAAATGATGGTCACATGTGTAGTACT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAAT-ATGGTCACATGTGTAGTACT
**
39903526 AAGTGAAGGCTATTATGTGTACCGAAAAGCTTTGGT
65 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTT-GT
* ** * *
39903562 CACGTGTGTAGTA-T-TGTGAAGGCTACTACGTGGACCATAAA-ATGATCACGTGTGTAGTACTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAATATGGTCACATGTGTAGTACTA
* * * * * * *
39903624 TGTGAAGGCTACTACGTGAACTGTAAA-C-TTAT
66 AGTGAAGGCTACAATGTGTACCGAAAAGCTTTGT
**
39903656 CACGTGTGTAGTACTAAGTGAAGGCTACTACG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACG
39903688 CGTATCGAAT
Statistics
Matches: 200, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
94 14 0.07
95 3 0.01
96 16 0.08
97 40 0.20
98 6 0.03
99 47 0.23
100 40 0.20
101 13 0.06
102 21 0.10
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (99 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAATATGGTCACATGTGTAGTACTA
AGTGAAGGCTACAATGTGTACCGAAAAGCTTTGT
Found at i:39925260 original size:13 final size:12
Alignment explanation
Indices: 39925237--39925274 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
39925227 CATTAATGGC
39925237 ATAAA-AAATAA
1 ATAAACAAATAA
39925248 TATAAACAAATAA
1 -ATAAACAAATAA
39925261 ATAAACGAAATAA
1 ATAAAC-AAATAA
39925274 A
1 A
39925275 AACAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.74, C:0.05, G:0.03, T:0.18
Consensus pattern (12 bp):
ATAAACAAATAA
Found at i:39929649 original size:30 final size:30
Alignment explanation
Indices: 39929600--39929660 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39929590 GATGGAGACA
* ** * *
39929600 AAGATGAAGTCGAGGGTGGAGATGAATATG
1 AAGATGAAGACGACAGTGGAGACGAAGATG
39929630 AAGATGAAGACGACAGTGGAGACGAAGATG
1 AAGATGAAGACGACAGTGGAGACGAAGATG
39929660 A
1 A
39929661 GCATGAGAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.38, T:0.15
Consensus pattern (30 bp):
AAGATGAAGACGACAGTGGAGACGAAGATG
Found at i:39934512 original size:15 final size:16
Alignment explanation
Indices: 39934494--39934526 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
39934484 TGTAATTAAC
39934494 TTTTTATATA-TAATA
1 TTTTTATATATTAATA
39934509 TTTTTATATATTAATA
1 TTTTTATATATTAATA
39934525 TT
1 TT
39934527 ATTTTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATATATTAATA
Found at i:39936105 original size:21 final size:22
Alignment explanation
Indices: 39936059--39936102 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
39936049 TTATTTTTAT
*
39936059 ATTTTATAATAAAAATTAAAAA
1 ATTTTATAATAAAAAATAAAAA
39936081 ATTTTAT-ATAAAAAAATAAAAA
1 ATTTTATAAT-AAAAAATAAAAA
39936103 TTTATAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
ATTTTATAATAAAAAATAAAAA
Found at i:39938173 original size:40 final size:40
Alignment explanation
Indices: 39938129--39938240 Score: 145
Period size: 39 Copynumber: 2.8 Consensus size: 40
39938119 CGTTTGGACA
* * * *
39938129 AAAAATGCCTCTAAAAATCGAGCATTAGCGGTGCATTTAG
1 AAAAACGCCACTAAAAATAGAGCATTAGCGGCGCATTTAG
* * *
39938169 AAAAACGCCACT-AAAATAAAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCACTAAAAATAGAGCATTAGCGGCGCATTTAG
*
39938208 AGAAACGCCACTAAAAATAGAGCATTAGCGGCG
1 AAAAACGCCACTAAAAATAGAGCATTAGCGGCG
39938241 TTTATAAGGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.53
40 29 0.47
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAAACGCCACTAAAAATAGAGCATTAGCGGCGCATTTAG
Found at i:39938394 original size:41 final size:41
Alignment explanation
Indices: 39938322--39938549 Score: 210
Period size: 41 Copynumber: 5.5 Consensus size: 41
39938312 TTCAAAAAGT
*** * * *
39938322 GCCGCTAATGCTGGGGGATTTAGCGACGTTTTTGAAGAAGA
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
* * * * *
39938363 GCCACTAATGATCTAGGCTTTAACGGTGTTTTTGAAGATGC
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
* *
39938404 GCCGCTAATGATCT-GAGCTTTAGCGGCGATTTTGAAGAAGC
1 GCCGCTAATGCTCTAG-GCTTTAGCGGCGTTTTTGAAGAAGC
** *
39938445 TACGCTAATGCTCTAGGCTTTAGCGGCATTTTTTAGAA-AA-C
1 GCCGCTAATGCTCTAGGCTTTAGCGGC-GTTTTT-GAAGAAGC
* *
39938486 GCCGCTAATTCTCTAGGCTTTAGCGGCATTTTTGAAGAAAGC
1 GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAG-AAGC
* * *
39938528 GCCACTATTGCTCTGGGCTTTA
1 GCCGCTAATGCTCTAGGCTTTA
39938550 AAGGTGGTTT
Statistics
Matches: 151, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.02
40 6 0.04
41 113 0.75
42 26 0.17
43 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
GCCGCTAATGCTCTAGGCTTTAGCGGCGTTTTTGAAGAAGC
Found at i:39940320 original size:50 final size:50
Alignment explanation
Indices: 39940147--39940481 Score: 298
Period size: 50 Copynumber: 6.6 Consensus size: 50
39940137 TATCGATGAA
* * ** *
39940147 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAT-GATAAATCTTGGT
* * * * * * *
39940198 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACTGA-GAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AATGATAAATC-TTGGT
* * **
39940249 CACGTGTGTAATACTGTGTGAAGGCTACTACGTGAATGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAATCTTGGT
* * * * ** *
39940299 CACATGTGTAGTACTAAGTGAAGGCTATTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AATGATAAATC-TTGGT
* * * ** * *
39940350 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGGACCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAATCTTGGT
* *
39940400 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-TGATAAATCTTGGT
*
39940450 CACGTGTGTAGTACTAAGTGAAGGCTACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
39940482 CGTATCGAAT
Statistics
Matches: 226, Mismatches: 51, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
50 122 0.54
51 103 0.46
52 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATGATAAATCTTGGT
Found at i:39940324 original size:101 final size:100
Alignment explanation
Indices: 39940147--39940481 Score: 422
Period size: 101 Copynumber: 3.3 Consensus size: 100
39940137 TATCGATGAA
* *
39940147 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGCCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAAT-GATAAATAATGGTCACATGTGTAGTAC
*
39940212 TAAGTGAAGGCTACAATGTGTACTGAGAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGTACTGA-AAGCTTTGGT
* *
39940249 CACGTGTGTAATACTGTGTGAAGGCTACTACGTGAATGATAAATGATGGTCACATGTGTAGTACT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAATAATGGTCACATGTGTAGTACT
* *
39940314 AAGTGAAGGCTATTATGTGTACCGAAAAGCTTTGGT
66 AAGTGAAGGCTACTATGTGTACTG-AAAGCTTTGGT
* * ** * * *
39940350 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGGACCATAAA-ACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAATA-ATGGTCACATGTGTAGTAC
* * * * *
39940414 TATGTGAAGGCTACTACGTGAACTGTAAAAC-TTGAT
65 TAAGTGAAGGCTACTATGTGTACTG-AAAGCTTTGGT
**
39940450 CACGTGTGTAGTACTAAGTGAAGGCTACTACG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACG
39940482 CGTATCGAAT
Statistics
Matches: 204, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
100 33 0.16
101 135 0.66
102 36 0.18
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATGATAAATAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACTGAAAGCTTTGGT
Found at i:39940512 original size:151 final size:151
Alignment explanation
Indices: 39940248--39940522 Score: 338
Period size: 151 Copynumber: 1.8 Consensus size: 151
39940238 GAAGCTTTGG
* ** *
39940248 TCACGTGTGTAATACTGTGTGAAGGCTACTACGTGAATGATAAATGATGGTCACATGTGTAGTAC
1 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGAATGATAAAACATGATCACATGTGTAGTAC
* * * * *** * * * *
39940313 TAAGTGAAGGCTATTATGTGTACCGAAAAGCTTTGGTCACGTGTGTAGTATTGTGTGAAGGCTAC
66 TAAGTGAAGGCTACTACGCGTACCGAAAAGATAAAGTAACATGGGTAGTACTGTGTGAAGGCTAC
39940378 TACGTGGACCATAAAACTTGA
131 TACGTGGACCATAAAACTTGA
* * *
39940399 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAAACTTGATCACGTGTGTAGTA
1 TCACGTGTGTAATACTATGTGAAGGCTACTACGTGAA-TGATAAAACATGATCACATGTGTAGTA
* *
39940463 CTAAGTGAAGGCTACTACGCGTATCG-AATGATAAAAGTAACATGGGTAGTACTGTGTGAA
65 CTAAGTGAAGGCTACTACGCGTACCGAAAAGAT-AAAGTAACATGGGTAGTACTGTGTGAA
39940523 AAACCTCAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
150 4 0.04
151 96 0.94
152 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (151 bp):
TCACGTGTGTAATACTATGTGAAGGCTACTACGTGAATGATAAAACATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTACGCGTACCGAAAAGATAAAGTAACATGGGTAGTACTGTGTGAAGGCTAC
TACGTGGACCATAAAACTTGA
Done.