Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 132 of 444
Found at i:34768165 original size:2 final size:2
Alignment explanation
Indices: 34768158--34768183 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34768148 TTGGGGTGGG
34768158 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
34768184 GATGGAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34772150 original size:40 final size:40
Alignment explanation
Indices: 34772081--34772305 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
34772071 GGATATAACC
* * * * *
34772081 ACTCGCAC-AAGGCCATCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
34772120 GCTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
*
34772160 ACTCGCACAAATGCCTTCGGGACTTAGCCTGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
34772200 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * * *
34772240 ACTCGCAAAAATGCCTTCGGGATTTAGCCCGAAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
34772280 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
34772306 ACCCCGTTAG
Statistics
Matches: 164, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 6 0.04
40 156 0.95
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:34776128 original size:29 final size:28
Alignment explanation
Indices: 34776096--34776198 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
34776086 GTGACGAGAT
* *
34776096 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
34776125 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
34776154 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
34776183 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34776199 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:34784084 original size:29 final size:28
Alignment explanation
Indices: 34784052--34784154 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
34784042 GTGACGAGAT
* *
34784052 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* ** *
34784081 TGGCACTAAGCGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
34784110 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
34784139 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34784155 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
28 3 0.05
29 54 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:34786474 original size:25 final size:25
Alignment explanation
Indices: 34786445--34786492 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34786435 TTATAATATG
* * *
34786445 AAAATAACCGTTTTTCCCCTAGGTA
1 AAAATAACCATTATACCCCTAGGTA
*
34786470 AAAATGACCATTATACCCCTAGG
1 AAAATAACCATTATACCCCTAGG
34786493 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATAACCATTATACCCCTAGGTA
Found at i:34786576 original size:11 final size:11
Alignment explanation
Indices: 34786540--34786595 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34786530 CATGGTATGT
34786540 ATGATATGCAC
1 ATGATATGCAC
* *
34786551 ATGACATG--T
1 ATGATATGCAC
34786560 ATGATATGCAC
1 ATGATATGCAC
*
34786571 ATGATATG--T
1 ATGATATGCAC
34786580 ATGATATGCAC
1 ATGATATGCAC
34786591 ATGAT
1 ATGAT
34786596 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34786595 original size:20 final size:20
Alignment explanation
Indices: 34786529--34786595 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34786519 ATTTTGATAA
*
34786529 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34786549 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
34786569 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34786589 ACATGAT
1 ACATGAT
34786596 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34786676 original size:26 final size:24
Alignment explanation
Indices: 34786646--34786795 Score: 230
Period size: 24 Copynumber: 6.1 Consensus size: 24
34786636 AAGGAAGTGC
*
34786646 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34786670 AAAAAAGGGCTTATGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
34786696 AAAAGAGGGCTTATGCCCCAGTTACT
1 -AAA-AGGGCTTATGCCCCAGTTATT
*
34786722 AAAAGCGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34786746 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34786770 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
34786793 AAA
1 AAA
34786796 GAGGCTAGGC
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.14
24 52 0.44
25 7 0.06
26 43 0.36
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:34788309 original size:20 final size:22
Alignment explanation
Indices: 34788271--34788312 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
34788261 TAAGAGAGTG
34788271 AAAAGAACGAGAAACGGGCCAA
1 AAAAGAACGAGAAACGGGCCAA
*
34788293 AAAAGAA-GA-AAATGGGCCAA
1 AAAAGAACGAGAAACGGGCCAA
34788313 CTTACGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.57, C:0.14, G:0.26, T:0.02
Consensus pattern (22 bp):
AAAAGAACGAGAAACGGGCCAA
Found at i:34789698 original size:17 final size:17
Alignment explanation
Indices: 34789647--34789701 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
34789637 GATAGTGACG
* *
34789647 ATTACATACCAAAGAAT
1 ATTACAAACCAAATAAT
*
34789664 A-TA-AAAACAAATGGAAT
1 ATTACAAACCAAAT--AAT
34789681 ATTACAAACCAAATAAT
1 ATTACAAACCAAATAAT
34789698 ATTA
1 ATTA
34789702 GTGGCGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 2 0.07
19 8 0.27
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (17 bp):
ATTACAAACCAAATAAT
Found at i:34794430 original size:23 final size:24
Alignment explanation
Indices: 34794385--34794430 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
34794375 CTTTTATTTT
* * *
34794385 TTATATATTTTTTTAATTTAATTA
1 TTATATATTTTTTGAACTAAATTA
34794409 TTAT-TATTTTTTGAACTAAATT
1 TTATATATTTTTTGAACTAAATT
34794431 TGATCTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTATATATTTTTTGAACTAAATTA
Found at i:34795594 original size:30 final size:30
Alignment explanation
Indices: 34795521--34795596 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
34795511 ATAAAAAATT
* *
34795521 AAAAATTAGAAAAAATTATAAAAGTTGCAA
1 AAAAATTAGAAAATATTATAAAAATTGCAA
* *
34795551 AAAAATT-GTAAAATTTTATAAAAATAT-TAA
1 AAAAATTAG-AAAATATTATAAAAAT-TGCAA
34795581 AAAAATTAGAAAATAT
1 AAAAATTAGAAAATAT
34795597 AGAAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.03
30 35 0.92
31 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (30 bp):
AAAAATTAGAAAATATTATAAAAATTGCAA
Found at i:34795613 original size:20 final size:20
Alignment explanation
Indices: 34795560--34795614 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
34795550 AAAAAATTGT
*
34795560 AAAATTTTATAAAAATATTAA
1 AAAAATTTAT-AAAATATTAA
*
34795581 AAAAA-TTAGAAAATA-TAGA
1 AAAAATTTATAAAATATTA-A
34795600 AAAAATTTATAAAAT
1 AAAAATTTATAAAAT
34795615 TTTACAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 12 0.41
20 11 0.38
21 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAATTTATAAAATATTAA
Found at i:34795649 original size:20 final size:20
Alignment explanation
Indices: 34795521--34795682 Score: 70
Period size: 20 Copynumber: 8.2 Consensus size: 20
34795511 ATAAAAAATT
34795521 AAAAAT-TAGAAAAAATTATA
1 AAAAATGTA-AAAAAATTATA
** * *
34795541 AAAGTTGCAAAAAAATTGT-
1 AAAAATGTAAAAAAATTATA
* *
34795560 AAAATTTTATAAAAATATTA-A
1 AAAAATGTA-AAAAA-ATTATA
* *
34795581 AAAAAT-T-AGAAAATATAGA
1 AAAAATGTAAAAAAAT-TATA
* * *
34795600 AAAAAT-TTATAAAATTTTA
1 AAAAATGTAAAAAAATTATA
* *
34795619 CAAATTCGTAAAAAAATTATA
1 AAAAAT-GTAAAAAAATTATA
*
34795640 AAAAATGTAAAGAAA-TAT-
1 AAAAATGTAAAAAAATTATA
* *
34795658 AAAATTGGTAAAAGAATTATA
1 AAAAAT-GTAAAAAAATTATA
34795679 AAAA
1 AAAA
34795683 TTATCGTACT
Statistics
Matches: 106, Mismatches: 24, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
17 2 0.02
18 11 0.10
19 30 0.28
20 36 0.34
21 27 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAAATGTAAAAAAATTATA
Found at i:34795900 original size:20 final size:19
Alignment explanation
Indices: 34795868--34795933 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 19
34795858 TTTTTTTCCT
* *
34795868 ATTTTTAATAAATTTTATA
1 ATTTTTATTAAATTTAATA
34795887 ATTTTTATTAAAATTTAATA
1 ATTTTTATT-AAATTTAATA
* * * *
34795907 GTTTTTA-TAATTTTATTT
1 ATTTTTATTAAATTTAATA
34795925 ATTTTTATT
1 ATTTTTATT
34795934 TTTTATAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 13 0.34
19 10 0.26
20 15 0.39
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATTTTTATTAAATTTAATA
Found at i:34795945 original size:9 final size:9
Alignment explanation
Indices: 34795868--34795946 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
34795858 TTTTTTTCCT
34795868 ATTTTTAATA
1 ATTTTT-ATA
*
34795878 AATTTTATA
1 ATTTTTATA
34795887 ATTTTTATTAA
1 ATTTTTA-T-A
* *
34795898 AATTTAATA
1 ATTTTTATA
*
34795907 GTTTTTATA
1 ATTTTTATA
*
34795916 A-TTTTATTT
1 ATTTTTA-TA
34795925 ATTTTTAT-
1 ATTTTTATA
34795933 -TTTTTATA
1 ATTTTTATA
34795941 ATTTTT
1 ATTTTT
34795947 TTGCCACACC
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.13
8 5 0.09
9 24 0.44
10 12 0.22
11 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:34796953 original size:16 final size:15
Alignment explanation
Indices: 34796896--34796954 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
34796886 TAGAAAAATA
34796896 ATTATATT-AATTAT
1 ATTATATTAAATTAT
* *
34796910 A-TATTTTAAATAAT
1 ATTATATTAAATTAT
34796924 AATTATA-TATAATTAT
1 -ATTATATTA-AATTAT
34796940 ATTTATATTAAATTA
1 A-TTATATTAAATTA
34796955 GTAACACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 6 0.17
15 4 0.11
16 18 0.51
17 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTATATTAAATTAT
Found at i:34797414 original size:16 final size:17
Alignment explanation
Indices: 34797395--34797441 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
34797385 CAACTCGGCC
34797395 CATAAATAGTTATAG-T
1 CATAAATAGTTATAGTT
*
34797411 CATAATTAGTCT-T-GTT
1 CATAAATAGT-TATAGTT
34797427 CATAAATAGTTATAG
1 CATAAATAGTTATAG
34797442 CCCGAATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 2 0.08
16 21 0.84
17 2 0.08
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (17 bp):
CATAAATAGTTATAGTT
Found at i:34800055 original size:12 final size:12
Alignment explanation
Indices: 34800038--34800063 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34800028 GTAAATATAA
34800038 AAAAATAATCTT
1 AAAAATAATCTT
34800050 AAAAATAATCTT
1 AAAAATAATCTT
34800062 AA
1 AA
34800064 TAGGTAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATAATCTT
Found at i:34802611 original size:49 final size:49
Alignment explanation
Indices: 34802483--34802613 Score: 163
Period size: 49 Copynumber: 2.7 Consensus size: 49
34802473 TGTCACTATG
** *
34802483 CTGGTTAGCAACTATCATGCCTTACCAGAAACCTAGCACTCATGTCAAT
1 CTGGTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAAT
* * * * * *
34802532 CTGGTTAGTAACTATGATACCGTACCAGTGACCTATCATTCATGCCAAT
1 CTGGTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAAT
* *
34802581 CTGGTTAGCAACTAACATGCCTTACTAGTGACC
1 CTGGTTAGCAACTATCATGCCTTACCAGTGACC
34802614 CATCTTATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 67 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (49 bp):
CTGGTTAGCAACTATCATGCCTTACCAGTGACCTAGCACTCATGCCAAT
Found at i:34804518 original size:13 final size:14
Alignment explanation
Indices: 34804500--34804530 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
34804490 TATAAAATCA
34804500 CCAAAATTTAA-GT
1 CCAAAATTTAATGT
34804513 CCAAAATTTAATGT
1 CCAAAATTTAATGT
34804527 CCAA
1 CCAA
34804531 TGTCTATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:34809002 original size:13 final size:13
Alignment explanation
Indices: 34808986--34809010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34808976 TAGACACATG
34808986 CCCGTGTCCTTTT
1 CCCGTGTCCTTTT
34808999 CCCGTGTCCTTT
1 CCCGTGTCCTTT
34809011 CACACGGCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.16, T:0.44
Consensus pattern (13 bp):
CCCGTGTCCTTTT
Found at i:34810095 original size:47 final size:46
Alignment explanation
Indices: 34810022--34810198 Score: 196
Period size: 47 Copynumber: 3.8 Consensus size: 46
34810012 AAAACTCTTA
34810022 GCCGATGCATGTCCCAGACATGTCTTACATTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGC-ACTCATC-TCGAG
* * ** * *
34810069 GCCAATGCATGTCCCAGACATGTCTTACACTAACACTCATCTCCAC
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCGAG
* * *
34810115 GCCGATGCCATGTCCCAGACATAGTCTTAAATTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACATTGGCACTCAT-CTCGAG
* *
34810163 GCTGATGCATGTCCCAAACATGTCTTACATTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACATTGGCAC
34810199 ACAAGAAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 24 0.22
47 62 0.57
48 21 0.19
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCGAG
Found at i:34810172 original size:94 final size:91
Alignment explanation
Indices: 34809978--34810191 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 91
34809968 GTATATACAT
* * *
34809978 GCTGATGCATGTCCCAGACATGTCGTACAATAGCAAAACTCTTAGCCGATGCATGTCCCAGACAT
1 GCTGATGCATGTCCCAGACATGTCTTACAATAACAAAACTCTCAGCCGATGCATGTCCCAGACAT
* **
34810043 GTCTTACATTGGCTATCATCGTCGAG
66 GTCTTAAATTGGCTATCATAATCGAG
** * **
34810069 GCCAATGCATGTCCCAGACATGTCTTACACTAAC-ACTCATCTCCACGCCGATGCCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACAATAACAAAAC-TCT-CA-GCCGATG-CATGTCCCAG
*
34810133 ACATAGTCTTAAATTGGC-ACTCATAAT-GTG
62 ACAT-GTCTTAAATTGGCTA-TCATAATCGAG
*
34810163 GCTGATGCATGTCCCAAACATGTCTTACA
1 GCTGATGCATGTCCCAGACATGTCTTACA
34810192 TTGGCACACA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
90 2 0.02
91 32 0.31
92 1 0.01
93 7 0.07
94 43 0.42
95 17 0.17
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (91 bp):
GCTGATGCATGTCCCAGACATGTCTTACAATAACAAAACTCTCAGCCGATGCATGTCCCAGACAT
GTCTTAAATTGGCTATCATAATCGAG
Found at i:34814066 original size:70 final size:70
Alignment explanation
Indices: 34813990--34814124 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
34813980 TAGTTTATTA
* * * * *
34813990 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTATCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAAGACAAAATCATGGTG
34814055 CTTAG
66 CTTAG
*
34814060 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAAGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAAGACAAAATCATGGTG
34814125 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAAGACAAAATCATGGTG
CTTAG
Found at i:34814960 original size:43 final size:43
Alignment explanation
Indices: 34814899--34815069 Score: 254
Period size: 43 Copynumber: 4.0 Consensus size: 43
34814889 TATCGAAATG
*
34814899 TGATATACGGGCTTCGGGCCTAACAGGCTATAATGCCGGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
34814943 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCTGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* *
34814986 TAATATCGGGCCTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** *
34815029 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
34815070 TGAATTCAGA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 12 0.10
43 97 0.84
44 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:34815093 original size:42 final size:43
Alignment explanation
Indices: 34814916--34815097 Score: 127
Period size: 43 Copynumber: 4.3 Consensus size: 43
34814906 CGGGCTTCGG
* * * * ***
34814916 GCCTAACAGGCTATAATGCCGGTGAAATGATATCGGGCTTCGG
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
* * * * * * * ***
34814959 GCCTAGCAGGCTATAATGCCTGTGAGATAATATCGGGCCTCGG
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
* * * *
34815002 GCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
34815045 GCCTAGCAGGCGA-AATGCCGGTG-AATGA-ATTCAGACTTAAA
1 GCCTAGCAGGCGATAATGCCGGTGAAATGATA-TCAGACTTAAA
*
34815086 GGTCTAGCAGGC
1 -GCCTAGCAGGC
34815098 TTATGGCTGG
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 13 0.11
42 20 0.17
43 87 0.72
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (43 bp):
GCCTAGCAGGCGATAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:34820863 original size:70 final size:70
Alignment explanation
Indices: 34820787--34820921 Score: 216
Period size: 70 Copynumber: 1.9 Consensus size: 70
34820777 TAGTTTACTA
* * * * *
34820787 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
34820852 CTTAG
66 CTTAG
*
34820857 CTAATTAATATGCTGCTGTAATACTGTAAGTTATTGGCTATCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
34820922 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.36
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:34821756 original size:43 final size:43
Alignment explanation
Indices: 34821697--34821863 Score: 196
Period size: 43 Copynumber: 3.9 Consensus size: 43
34821687 GAAATGTGAT
*
34821697 ATAT-GGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAAATG
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
* * * * * *
34821739 ATATCGAGCTTCGGGCCTAGCAGGATATAATGCCGGTGAGATA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
* * *
34821782 ATATCGGGCCTT-GGGCCTAGCAGGCTATAATGACAATGAAATG
1 ATATCGGG-CTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
* *
34821825 ATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCAGTGAA
1 ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAA
34821864 TGAATTCAGA
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 17 0.16
43 85 0.81
44 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (43 bp):
ATATCGGGCTTCAGGCCTAGCAGGCTATAATGCCAGTGAAATG
Found at i:34825561 original size:30 final size:30
Alignment explanation
Indices: 34825526--34825617 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
34825516 CAGATTTTAG
*
34825526 GAGCCACACGGGCTGGGCACATGCCCATGT
1 GAGCCACATGGGCTGGGCACATGCCCATGT
* *
34825556 GAGCCACATGGGCTAGGCACACGCCCATGT
1 GAGCCACATGGGCTGGGCACATGCCCATGT
* * * *
34825586 GAGTCACATGAGCTGGACACATGCCCAAGT
1 GAGCCACATGGGCTGGGCACATGCCCATGT
34825616 GA
1 GA
34825618 CAACCCGTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.14
Consensus pattern (30 bp):
GAGCCACATGGGCTGGGCACATGCCCATGT
Found at i:34834637 original size:31 final size:31
Alignment explanation
Indices: 34834602--34834665 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34834592 CCTTTTCATG
34834602 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
34834633 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
34834664 TT
1 TT
34834666 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:34834907 original size:24 final size:24
Alignment explanation
Indices: 34834856--34834974 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
34834846 GCTTTATCAT
*
34834856 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
34834881 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
34834905 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
34834928 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
34834952 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34834975 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34834935 original size:47 final size:48
Alignment explanation
Indices: 34834856--34834974 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
34834846 GCTTTATCAT
*
34834856 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
34834905 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
34834952 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34834975 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:34835049 original size:20 final size:20
Alignment explanation
Indices: 34835024--34835084 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
34835014 TTATGATTAC
34835024 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34835044 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
34835064 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
34835084 A
1 A
34835085 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34839316 original size:30 final size:30
Alignment explanation
Indices: 34839282--34839344 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
34839272 CCTTTTCATG
34839282 TTTCATATTCCATAACACTGGGCCGAAGCC
1 TTTCATATTCCATAACACTGGGCCGAAGCC
* **
34839312 TTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTCATATTCCATAACACTGGGCCGAAGCC
34839342 TTT
1 TTT
34839345 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (30 bp):
TTTCATATTCCATAACACTGGGCCGAAGCC
Found at i:34839587 original size:24 final size:24
Alignment explanation
Indices: 34839536--34839677 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
34839526 GCTTTATCAT
*
34839536 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
34839561 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
34839585 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
34839608 ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
34839631 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
34839655 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34839678 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
22 16 0.15
23 12 0.11
24 68 0.63
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34839624 original size:46 final size:48
Alignment explanation
Indices: 34839536--34839676 Score: 207
Period size: 46 Copynumber: 3.0 Consensus size: 48
34839526 GCTTTATCAT
* *
34839536 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
*
34839585 ATAACTGGGGCATAAGCCCTTTT-ATAACT-GGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
34839631 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
34839677 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 38 0.44
47 12 0.14
48 24 0.28
49 12 0.14
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:34839752 original size:20 final size:20
Alignment explanation
Indices: 34839727--34839787 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
34839717 TTATGATTAC
34839727 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34839747 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
34839767 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
34839787 A
1 A
34839788 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34844122 original size:55 final size:53
Alignment explanation
Indices: 34843993--34844181 Score: 220
Period size: 55 Copynumber: 3.5 Consensus size: 53
34843983 GAACTTACAT
* * * *
34843993 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAATTCATCAA
* *
34844046 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAATTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AATTCATCAA
* * * *
34844101 TGCCATGTCTTGACATGGTCTTACATGATTTCCTGGCCTTATAGAACTT-ATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAA-TTCATCAA
*
34844155 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
34844182 ATATCCTTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 33 0.28
55 45 0.38
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAATTCATCAA
Found at i:34844223 original size:47 final size:47
Alignment explanation
Indices: 34844168--34844288 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
34844158 CATGCCTTGG
*
34844168 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
34844215 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
34844262 CATGGTTTTACATGGTAT-CTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
34844289 GTGCCAATAC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
46 8 0.11
47 62 0.89
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:34856947 original size:22 final size:23
Alignment explanation
Indices: 34856896--34856950 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
34856886 TATAAAATCT
*
34856896 AATAGAAATAGGCTTAAAGAAAA
1 AATAAAAATAGGCTTAAAGAAAA
* * *
34856919 AATAAAAATAGTCTTAAA-ATAG
1 AATAAAAATAGGCTTAAAGAAAA
34856941 AATAAAAATA
1 AATAAAAATA
34856951 AAAACATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.22
Consensus pattern (23 bp):
AATAAAAATAGGCTTAAAGAAAA
Found at i:34866072 original size:42 final size:42
Alignment explanation
Indices: 34866025--34866124 Score: 191
Period size: 42 Copynumber: 2.4 Consensus size: 42
34866015 TATTGGTCTC
34866025 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
34866067 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
34866109 GGCACTACGTGTGCGG
1 GGCACTAAGTGTGCGG
34866125 CTTTAAAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:34866196 original size:27 final size:28
Alignment explanation
Indices: 34866139--34866208 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
34866129 AAAATTGTAC
**
34866139 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
34866167 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
34866194 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34866209 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:34878003 original size:18 final size:18
Alignment explanation
Indices: 34877980--34878016 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34877970 TGATGGATTG
34877980 TCTACTCTTGAGTAAGAT
1 TCTACTCTTGAGTAAGAT
34877998 TCTACTCTTGAGTAAGAT
1 TCTACTCTTGAGTAAGAT
34878016 T
1 T
34878017 TTGAGTTTTC
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:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (18 bp):
TCTACTCTTGAGTAAGAT
Found at i:34878989 original size:40 final size:40
Alignment explanation
Indices: 34878929--34879070 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
34878919 AAATTGAATG
* *
34878929 ATATCCGGGCTAAG-CACCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGAC-CCGAAGACAATTATGCTAGAAACT
* * * ***
34878969 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
34879009 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
34879049 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
34879071 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:34879071 original size:40 final size:39
Alignment explanation
Indices: 34878968--34879096 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
34878958 TGCTGGAAAT
* * *
34878968 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
34879008 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
34879048 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
34879088 TATATCCGG
1 TATATCCGG
34879097 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:34882176 original size:55 final size:53
Alignment explanation
Indices: 34882047--34882249 Score: 223
Period size: 55 Copynumber: 3.8 Consensus size: 53
34882037 AAGTTACCAT
* * * * *
34882047 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTA-CCTTGCCTTATAGAATTCATCAA
*
34882100 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAATTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGGTACC-TTGCCTTATAG-AATTCATCAA
* * *
34882155 TGCCATGTCTTGAG-ATGGTCTTACATGATTTCCTTGCCTTATAGAACTT-ATCAA
1 TGCCATGCCTTG-GCATGGTCTTACATG-GTACCTTGCCTTATAGAA-TTCATCAA
* *
34882209 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGGCATGGTCTTACATGGTA-CCTTGCCTTA
34882250 CCAAATGCCA
Statistics
Matches: 128, Mismatches: 14, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
52 2 0.02
53 37 0.29
54 41 0.32
55 45 0.35
56 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTACCTTGCCTTATAGAATTCATCAA
Found at i:34882232 original size:54 final size:54
Alignment explanation
Indices: 34882047--34882249 Score: 243
Period size: 54 Copynumber: 3.8 Consensus size: 54
34882037 AAGTTACCAT
* * * * * *
34882047 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
**
34882100 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA-TTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTT-ATCAA
* *
34882155 TGCCATGTCTTGAG-ATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTG-GCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
*
34882209 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTA
34882250 CCAAATGCCA
Statistics
Matches: 129, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.02
53 36 0.28
54 45 0.35
55 43 0.33
56 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTTATCAA
Found at i:34882277 original size:47 final size:47
Alignment explanation
Indices: 34882222--34882334 Score: 217
Period size: 47 Copynumber: 2.4 Consensus size: 47
34882212 CATGCCTTGG
*
34882222 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
34882269 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
34882316 CATGGTCTTACATGGTATC
1 CATGGTCTTACATGGTATC
34882335 ATTATTTTAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:34882532 original size:44 final size:44
Alignment explanation
Indices: 34882483--34882566 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
34882473 TCCTTAACCG
* *
34882483 TCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCCA
* *
34882527 TCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
34882567 GAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCCA
Found at i:34884919 original size:50 final size:49
Alignment explanation
Indices: 34884804--34884986 Score: 172
Period size: 51 Copynumber: 3.7 Consensus size: 49
34884794 CTGGTACGCA
* * **
34884804 TAGTAGCCTGCACTTAGTACTATACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
* *
34884853 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTAATACACG
* * * *** * *
34884903 TAGTAGCCTGAACTTAGTACTACACATGTGATC-ATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG---TCTAATACACG
*
34884954 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
34884987 TCACAATAGA
Statistics
Matches: 109, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 28 0.26
50 39 0.36
51 40 0.37
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:34886504 original size:25 final size:25
Alignment explanation
Indices: 34886476--34886526 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
34886466 CACTATTCCA
*
34886476 ATTAGGCCCTAATTCGGGATATTAC
1 ATTAGGCCCTAATTCAGGATATTAC
* *
34886501 ATTAGGCCCTATTTCAGGATGTTAC
1 ATTAGGCCCTAATTCAGGATATTAC
34886526 A
1 A
34886527 CATTGTGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (25 bp):
ATTAGGCCCTAATTCAGGATATTAC
Found at i:34891214 original size:13 final size:15
Alignment explanation
Indices: 34891186--34891218 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
34891176 TAATGCTATA
34891186 TAAATCATATTTTTT
1 TAAATCATATTTTTT
34891201 TAAAT-ATA-TTTTT
1 TAAATCATATTTTTT
34891214 TAAAT
1 TAAAT
34891219 TTAATGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TAAATCATATTTTTT
Found at i:34891252 original size:16 final size:16
Alignment explanation
Indices: 34891231--34891267 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34891221 AATGTCTTGT
34891231 GATTTGTTATTGCATA
1 GATTTGTTATTGCATA
34891247 GATTTGTTATTGCATA
1 GATTTGTTATTGCATA
*
34891263 TATTT
1 GATTT
34891268 ATGTTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.16, T:0.54
Consensus pattern (16 bp):
GATTTGTTATTGCATA
Found at i:34891716 original size:22 final size:22
Alignment explanation
Indices: 34891688--34891733 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34891678 ATGTATTCAA
34891688 AATTATCAAATCTAACTCCAAT
1 AATTATCAAATCTAACTCCAAT
34891710 AATTATCAAATCTAACTCCAAT
1 AATTATCAAATCTAACTCCAAT
34891732 AA
1 AA
34891734 ATAGACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTATCAAATCTAACTCCAAT
Found at i:34893588 original size:692 final size:683
Alignment explanation
Indices: 34892241--34893603 Score: 2029
Period size: 692 Copynumber: 2.0 Consensus size: 683
34892231 CTAATTGGTT
* * *
34892241 CAATTTTATCTCTCAGTCACCATTTTATCAAATTAGACAATTTAGTTTGATTTATCTATTGATCT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
* * * * **
34892306 CACAAAATTAAATCAGGACAACCAAATTGGTGTTCGATAGGCTCTCTTCTCGGTCTCACCTACCT
66 CACAAAAGTAAATCAGGACAACCAAATTAGTGTTCAATAGGCTCTCCTCTCAATCTCACCTACCT
* * * *
34892371 AAATATTCACCTAGAGTTGTCAATTCTAAGTTTTGAAGTTTATTCAATTTGGTCCATTTTTTATG
131 AAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTAT-
* *
34892436 ACTTAGTCTCTACACCAATAACTAACTAAGCAACATTTCCATCAACCAACCACTATAGATTTAGT
195 A-TTAGTCTCTAAACCAATAACTAACTAAGCAACATTTCCATCAACCAACCACCATAGATTTAGT
*
34892501 TACCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTTATTAAAGGAAACACA
259 TACCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACA
* * *
34892566 AAAGCAAGGTTAAAGGAATCTTATCGGTTTTTTATAGATGCTTTAAAGAGGATGATAGTAGCAAC
324 AAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAAC
34892631 AATAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAAT
389 AATAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAAT
*
34892696 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCATTAGCAAGTAA
454 ATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAA
* * * *
34892761 TATAGTAGTCAATATTAGAGTTATCATCTCCACGGAGACTGATTTTAAAACATAGATTGTAAAAT
519 TATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAAT
* * *
34892826 TTACAAATAACAACTTGGAAAGTAAATAAAAATTTGATTGAATGCAAAGAAATATGCAAAGCAAT
584 TAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAAT
34892891 TTAAAAATAGTAATACAAATTAGATTCAATGCAAAG
649 TT-AAAATAGTAATACAAATTAGATTCAATGCAAAG
** * *
34892927 CAATTTTACCTCTTGGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTGTTGATTT
1 CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
*
34892992 CACCAAAGTAAATCAGGACAACCAAATTAGT-TCTCAATAGGCTCTCCTCTCAATCTCACCTACC
66 CACAAAAGTAAATCAGGACAACCAAATTAGTGT-TCAATAGGCTCTCCTCTCAATCTCACCTACC
* *
34893056 TAAATATTCGCATAAATTTGTCAATTCTAAGTTTTGAACTTTATT-AGATTTGATCCAATCCTTT
130 TAAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCA-ATTTGATCC-AT--TTT
* *
34893120 TTAT-TTGGTCTCTAAACCAATAACTAA-TCAAGCAACATTTCCATCAACCAACCACCATAGGTT
191 TTATATTAGTCTCTAAACCAATAACTAACT-AAGCAACATTTCCATCAACCAACCACCATAGATT
*
34893183 TAGTTACCAATCATCATCATCATCATGCAAACAATAATCAAACACATGCTCAAATGGTTCATTAA
255 TAGTTA-C---CA--ATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAA
* * * * * *
34893248 AGGAAACACAAAAGCAATGTTAGAGGGATCTTATAGGTTTTTGATAGATGCTTTGAATAAGTTGA
314 AGGAAACACAAAAGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGA
* * *
34893313 TAGTAGCAACAATGAAGGTGAAAACACAGCTAAAGTTAAGA-TTTCTATTCTTTTAAAGGTAAAT
379 TAGTAGCAACAATAAAGGTGAAAACACAACTAAAGTTAAGACTTT-TATGCTTTTAAAGGTAAAT
*
34893377 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGCT-TACACAATT
443 AAGACTAAAATATATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAG-TATACACAATC
* * * * *
34893441 GCTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCGTCTCCATAGAGATTGGTTTTAAAACAT
507 ACTAGCAAGTAATATAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACAT
*
34893506 AAATTGTAAAATTAACAAACAGCAACTTGGAAAGTAAAT-AAAATATGATTGAATGCAAAGAAAT
572 AAATTGTAAAATTAACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAAT
*
34893570 ATGCAAAGTAATTTTAAAATAGTAATACAAATTA
637 ATGCAAAGCAA-TTTAAAATAGTAATACAAATTA
34893604 ATAGTAATGA
Statistics
Matches: 608, Mismatches: 54, Indels: 25
0.89 0.08 0.04
Matches are distributed among these distances:
685 3 0.00
686 220 0.36
687 3 0.00
689 7 0.01
690 2 0.00
691 56 0.09
692 316 0.52
693 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (683 bp):
CAATTTTACCTCTCAGTCACCATTTTACCAAATTAGACAATTTAGTCTGATTTATCTATTGATCT
CACAAAAGTAAATCAGGACAACCAAATTAGTGTTCAATAGGCTCTCCTCTCAATCTCACCTACCT
AAATATTCACATAAAGTTGTCAATTCTAAGTTTTGAACTTTATTCAATTTGATCCATTTTTTATA
TTAGTCTCTAAACCAATAACTAACTAAGCAACATTTCCATCAACCAACCACCATAGATTTAGTTA
CCAATCATCATCATGCAAACAACAATCAAACACATGCTCAAATGGTTCATTAAAGGAAACACAAA
AGCAAGGTTAAAGGAATCTTATAGGTTTTTGATAGATGCTTTAAAGAAGATGATAGTAGCAACAA
TAAAGGTGAAAACACAACTAAAGTTAAGACTTTTATGCTTTTAAAGGTAAATAAGACTAAAATAT
ATTGAAGGATTTTGTCACGAATTTTCTTATGATGTGCAAGTATACACAATCACTAGCAAGTAATA
TAGTAGTAAATACTAGAGTTATCATCTCCACAGAGACTGATTTTAAAACATAAATTGTAAAATTA
ACAAACAACAACTTGGAAAGTAAATAAAAATATGATTGAATGCAAAGAAATATGCAAAGCAATTT
AAAATAGTAATACAAATTAGATTCAATGCAAAG
Found at i:34914032 original size:40 final size:40
Alignment explanation
Indices: 34913968--34914064 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
34913958 ACTCGATATC
** * *
34913968 TCGCACACTAAGTATCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
* * *
34914008 TCGTACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
34914048 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
34914065 CAAATAACTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
Found at i:34922447 original size:28 final size:28
Alignment explanation
Indices: 34922415--34922484 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
34922405 AATGAGATTG
34922415 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
34922443 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
34922471 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34922485 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:34930213 original size:28 final size:28
Alignment explanation
Indices: 34930181--34930250 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
34930171 AATGAGATTG
34930181 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
34930209 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
34930237 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
34930251 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:34932676 original size:26 final size:25
Alignment explanation
Indices: 34932631--34932779 Score: 97
Period size: 26 Copynumber: 5.7 Consensus size: 25
34932621 TGAGTTTAAA
* *
34932631 TTAATAATTTCAAAAATAATATTATT
1 TTAATAATTT-AATATTAATATTATT
* *
34932657 TTAATAGATTTAATATTAATTTTAAT
1 TTAATA-ATTTAATATTAATATTATT
* *
34932683 TTAAT-ACTTAAT-TTAATAGTATT
1 TTAATAATTTAATATTAATATTATT
* *
34932706 TTATTAATTTAATATTAAAGTAATTAAAT
1 TTAATAATTTAATATT-AA-T-ATT-ATT
* *
34932735 TTAATTATAGTTGAAT-TTAATAGTATT
1 TTAA-TA-A-TTTAATATTAATATTATT
*
34932762 TTATTAATTTAATATTAA
1 TTAATAATTTAATATTAA
34932780 AGTTATTAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
23 12 0.13
24 17 0.18
25 7 0.07
26 26 0.28
27 10 0.11
28 4 0.04
29 6 0.06
30 4 0.04
31 3 0.03
32 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (25 bp):
TTAATAATTTAATATTAATATTATT
Found at i:34932678 original size:11 final size:11
Alignment explanation
Indices: 34932647--34932779 Score: 64
Period size: 11 Copynumber: 11.8 Consensus size: 11
34932637 ATTTCAAAAA
*
34932647 TAATATTATTT
1 TAATATTAATT
34932658 TAATAGATTTAATAT
1 TAAT--A-TTAAT-T
*
34932673 TAATTTTAATT
1 TAATATTAATT
34932684 TAATACTTAATT
1 TAATA-TTAATT
*
34932696 TAATAGT-ATT
1 TAATATTAATT
34932706 T--TATTAATT
1 TAATATTAATT
**
34932715 TAATATTAAAG
1 TAATATTAATT
*
34932726 TAAT-TAAATT
1 TAATATTAATT
34932736 TAATTATAGTTGAATT
1 T-A--ATA-TT-AATT
*
34932752 TAATAGT-ATT
1 TAATATTAATT
34932762 T--TATTAATT
1 TAATATTAATT
34932771 TAATATTAA
1 TAATATTAA
34932780 AGTTATTAAA
Statistics
Matches: 92, Mismatches: 13, Indels: 34
0.66 0.09 0.24
Matches are distributed among these distances:
8 6 0.07
9 8 0.09
10 12 0.13
11 27 0.29
12 17 0.18
13 6 0.07
14 4 0.04
15 7 0.08
16 5 0.05
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (11 bp):
TAATATTAATT
Found at i:34932714 original size:19 final size:19
Alignment explanation
Indices: 34932690--34932775 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
34932680 AATTTAATAC
34932690 TTAATTTAATAGTATTTTA
1 TTAATTTAATAGTATTTTA
* ** *
34932709 TTAATTTAATATTAAAGTAA
1 TTAATTTAATAGT-ATTTTA
**
34932729 TTAAATTTAAT--TATAGT-
1 TT-AATTTAATAGTATTTTA
*
34932746 TGAATTTAATAGTATTTTA
1 TTAATTTAATAGTATTTTA
34932765 TTAATTTAATA
1 TTAATTTAATA
34932776 TTAAAGTTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
16 8 0.16
17 1 0.02
18 5 0.10
19 23 0.46
20 5 0.10
21 8 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
TTAATTTAATAGTATTTTA
Found at i:34932768 original size:56 final size:56
Alignment explanation
Indices: 34932692--34932805 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
34932682 TTTAATACTT
34932692 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
1 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
*
34932748 AATTTAATAGTATTTTATTAATTTAATATTAAAGTTATTAAATTTAATTATAGTTG
1 AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
34932804 AA
1 AA
34932806 CTCTTTAAAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (56 bp):
AATTTAATAGTATTTTATTAATTTAATATTAAAGTAATTAAATTTAATTATAGTTG
Found at i:34932793 original size:21 final size:20
Alignment explanation
Indices: 34932706--34932795 Score: 73
Period size: 19 Copynumber: 4.7 Consensus size: 20
34932696 TAATAGTATT
34932706 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATATTAAAG
* *
34932726 TAATTAAATTT-A-ATTATAG
1 TTATT-AATTTAATATTAAAG
* * **
34932745 -T-TGAATTTAATAGT-ATT
1 TTATTAATTTAATATTAAAG
34932762 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATATTAAAG
34932782 TTATTAAATTTAAT
1 TTATT-AATTTAAT
34932796 TATAGTTGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 13
0.67 0.16 0.17
Matches are distributed among these distances:
16 5 0.10
17 2 0.04
18 3 0.06
19 17 0.33
20 11 0.22
21 13 0.25
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (20 bp):
TTATTAATTTAATATTAAAG
Found at i:34932933 original size:25 final size:26
Alignment explanation
Indices: 34932883--34932934 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
34932873 AGTTATAAAG
34932883 AGAAAATTTTCTAAAGAAATTATTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
* * *
34932909 AGAAAA-TTTCTAGAGATATTTTTTT
1 AGAAAATTTTCTAAAGAAATTATTTT
34932934 A
1 A
34932935 TTTACAACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAAATTATTTT
Found at i:34935958 original size:29 final size:28
Alignment explanation
Indices: 34935926--34936028 Score: 88
Period size: 26 Copynumber: 3.8 Consensus size: 28
34935916 GTATTGGCAA
34935926 ACTTCCAACATATTAGATAGTCTTTACGG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
* * * **
34935955 ACTT--TCATATAAGATAGTCCTGGCGG
1 ACTTCCACATATTAGATAGTCTTTACGG
* * *
34935981 ATTTCCTACATATTGGATAGTCTTTACTG
1 ACTTCC-ACATATTAGATAGTCTTTACGG
34936010 ACTTCCACATA--AGATAGTC
1 ACTTCCACATATTAGATAGTC
34936029 CTGGTGGACT
Statistics
Matches: 56, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
26 27 0.48
28 5 0.09
29 24 0.43
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (28 bp):
ACTTCCACATATTAGATAGTCTTTACGG
Found at i:34935992 original size:55 final size:55
Alignment explanation
Indices: 34935902--34936041 Score: 172
Period size: 55 Copynumber: 2.5 Consensus size: 55
34935892 TCTTACAAAT
* ** **
34935902 TTCCACATACGATAGTATTGGCAAACTTCCAACATATTAGATAGTCTTTACGGAC
1 TTCCACATAAGATAGTCCTGGCGGACTTCCAACATATTAGATAGTCTTTACGGAC
* * * * * *
34935957 TTTCATATAAGATAGTCCTGGCGGATTTCCTACATATTGGATAGTCTTTACTGAC
1 TTCCACATAAGATAGTCCTGGCGGACTTCCAACATATTAGATAGTCTTTACGGAC
*
34936012 TTCCACATAAGATAGTCCTGGTGGACTTCC
1 TTCCACATAAGATAGTCCTGGCGGACTTCC
34936042 CATATTTAAG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (55 bp):
TTCCACATAAGATAGTCCTGGCGGACTTCCAACATATTAGATAGTCTTTACGGAC
Found at i:34940717 original size:140 final size:141
Alignment explanation
Indices: 34940464--34940745 Score: 417
Period size: 140 Copynumber: 2.0 Consensus size: 141
34940454 AATCAGATTT
* * *
34940464 TTCCTCCTGATTTTTAGCATTTTTAGTTAAATTTGAATTTTTTTTCAGGAGAGAAAAGCTGAAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAGAAAAAAGCTGAAAA
* * * *
34940529 TTAGGAGGAAAAATTTGATTTGTCATTCTCCTATTGGAAAGGGATAAGGATGACGTGGAATCAAA
66 TCAGGAGGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCAAA
34940594 GTTTCATACAA
131 GTTTCATACAA
* **
34940605 TTCCTCTTGATTTTTAGCATTTTTAATTGGATTTGAA-TTTTTCT-AGGAGAAAAAAAGCTGAAA
1 TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAG-AAAAAAGCTGAAA
34940668 ATCAGGAGGAAAAATATAATTTGTCATTCTCCCATT-GACAAGGGATAAGGATGACGTGGAATCA
65 ATCAGGAGGAAAAATATAATTTGTCATTCTCCCATTGGA-AAGGGATAAGGATGACGTGGAATCA
**
34940732 CTGTTTCATACAA
129 AAGTTTCATACAA
34940745 T
1 T
34940746 CATTTCTCCT
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
139 7 0.06
140 87 0.69
141 33 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (141 bp):
TTCCTCCTGATTTTTAGCATTTTTAATTAAATTTGAATTTTTTCTCAGGAGAAAAAAGCTGAAAA
TCAGGAGGAAAAATATAATTTGTCATTCTCCCATTGGAAAGGGATAAGGATGACGTGGAATCAAA
GTTTCATACAA
Found at i:34943583 original size:13 final size:13
Alignment explanation
Indices: 34943567--34943597 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34943557 ATATTTGTAG
34943567 ATAAAAGTTGTCA
1 ATAAAAGTTGTCA
*
34943580 ATAAAAGTTGTGA
1 ATAAAAGTTGTCA
34943593 ATAAA
1 ATAAA
34943598 CCGCTAGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.03, G:0.16, T:0.29
Consensus pattern (13 bp):
ATAAAAGTTGTCA
Found at i:34947222 original size:22 final size:22
Alignment explanation
Indices: 34947195--34947239 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
34947185 TTCTTATATC
*
34947195 AATTCCCCATCAATTAGGAACT
1 AATTCCCCATAAATTAGGAACT
*
34947217 AATTCCCTATAAATTAGGAACT
1 AATTCCCCATAAATTAGGAACT
34947239 A
1 A
34947240 TGTCTAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (22 bp):
AATTCCCCATAAATTAGGAACT
Found at i:34954376 original size:28 final size:29
Alignment explanation
Indices: 34954345--34954404 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
34954335 GATTTTTAGT
*
34954345 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
34954373 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
34954402 AAA
1 AAA
34954405 TAAATGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:34957388 original size:28 final size:28
Alignment explanation
Indices: 34957348--34957403 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
34957338 TGAAATCACT
34957348 ATAAGACACGAAAAATAAACAAAGTAAG
1 ATAAGACACGAAAAATAAACAAAGTAAG
34957376 ATAAGACACGAAAAATAAACAAAGTAAG
1 ATAAGACACGAAAAATAAACAAAGTAAG
34957404 CTTTAAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.64, C:0.11, G:0.14, T:0.11
Consensus pattern (28 bp):
ATAAGACACGAAAAATAAACAAAGTAAG
Found at i:34957748 original size:48 final size:48
Alignment explanation
Indices: 34957677--34957865 Score: 263
Period size: 48 Copynumber: 3.9 Consensus size: 48
34957667 ACTAGGAAGT
* * *
34957677 CTCGCACCCTAGGTGCCAATATCATTGCCCAAAGCCAAATCAAT-TAAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGT-AA
* *
34957725 CTCGCACCCGAAGTGCCAATATCATGACCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* * *
34957773 CTTGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* * *
34957821 CTCGCACCCGAAGTGCTAATATCATGGCCGAAAGTCAAATCAATG
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATG
34957866 AAGCTCCTAA
Statistics
Matches: 128, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
48 127 0.99
49 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
Found at i:34958445 original size:21 final size:20
Alignment explanation
Indices: 34958417--34958455 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34958407 CAAAACTTGT
34958417 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
34958437 ATAATCTATCATGAAACAT
1 ATAA-CTATCATCAAACAT
34958456 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:34959867 original size:21 final size:20
Alignment explanation
Indices: 34959839--34959877 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34959829 CAAAACTTAT
34959839 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
34959859 ATAATCTATCATGAAACAT
1 ATAA-CTATCATCAAACAT
34959878 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:34965440 original size:24 final size:24
Alignment explanation
Indices: 34965408--34965463 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
34965398 CACCTAGAGA
34965408 TAGGGTGACAAGATTTTGCCGAAT
1 TAGGGTGACAAGATTTTGCCGAAT
34965432 TAGGGTGACAAGATTTTGCCGAAT
1 TAGGGTGACAAGATTTTGCCGAAT
34965456 TAGGGTGA
1 TAGGGTGA
34965464 AACCTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (24 bp):
TAGGGTGACAAGATTTTGCCGAAT
Found at i:34982009 original size:13 final size:13
Alignment explanation
Indices: 34981991--34982015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34981981 AGGCCGTGTA
34981991 AAGGACACGAGCC
1 AAGGACACGAGCC
34982004 AAGGACACGAGC
1 AAGGACACGAGC
34982016 ATGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGGACACGAGCC
Found at i:34986265 original size:31 final size:31
Alignment explanation
Indices: 34986230--34986301 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
34986220 CACACGTCCA
*
34986230 TGTGGCCTACCCGTGTGGGCCCACAAACCCG
1 TGTGGCCTACCCGTGTAGGCCCACAAACCCG
* * **
34986261 TGTGG-TTCACCTGTGTAGGCCCACATGCCCG
1 TGTGGCCT-ACCCGTGTAGGCCCACAAACCCG
*
34986292 TATGGCCTAC
1 TGTGGCCTAC
34986302 ACGACCTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
30 1 0.03
31 30 0.94
32 1 0.03
ACGTcount: A:0.15, C:0.35, G:0.28, T:0.22
Consensus pattern (31 bp):
TGTGGCCTACCCGTGTAGGCCCACAAACCCG
Found at i:34990747 original size:60 final size:60
Alignment explanation
Indices: 34990682--34990836 Score: 186
Period size: 60 Copynumber: 2.6 Consensus size: 60
34990672 GTGTAGTCAG
* * **
34990682 GGGCACTGAAGTGCGAACAAGGGCACAAACGTGCAAACGGGGACACCGAAGTGTATACAA
1 GGGCACAGAAGTGCGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
* * * * *
34990742 GGGCACAGTAGTACGAACAGGGGCACAGACGTGCAAACAAGGACACCGAAGTGTATATAG
1 GGGCACAGAAGTGCGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
* * *
34990802 GGGCACCA-AAGTGCGAATAGGGGCAAAAATGTGCA
1 GGGCA-CAGAAGTGCGAACAGGGGCACAAACGTGCA
34990837 TTTAAGGGCA
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
60 77 0.97
61 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.32, T:0.11
Consensus pattern (60 bp):
GGGCACAGAAGTGCGAACAGGGGCACAAACGTGCAAACAAGGACACCGAAGTGTATACAA
Found at i:34990780 original size:20 final size:20
Alignment explanation
Indices: 34990657--34990780 Score: 72
Period size: 20 Copynumber: 6.2 Consensus size: 20
34990647 GTATATACAG
* *
34990657 AACAGGGGCACATACGTGTA
1 AACAGGGGCACAGACGTGCA
** * * *
34990677 GTCAGGGGCACTGAAGTGCG
1 AACAGGGGCACAGACGTGCA
* *
34990697 AACAAGGGCACAAACGTGCA
1 AACAGGGGCACAGACGTGCA
* * *
34990717 AAC-GGGGACACCGAAGTGTA
1 AACAGGGG-CACAGACGTGCA
* * * *
34990737 TACAAGGGCACAGTA-GTACG
1 AACAGGGGCACAG-ACGTGCA
34990757 AACAGGGGCACAGACGTGCA
1 AACAGGGGCACAGACGTGCA
34990777 AACA
1 AACA
34990781 AGGACACCGA
Statistics
Matches: 71, Mismatches: 29, Indels: 8
0.66 0.27 0.07
Matches are distributed among these distances:
19 4 0.06
20 63 0.89
21 4 0.06
ACGTcount: A:0.35, C:0.22, G:0.32, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACAGACGTGCA
Found at i:34990846 original size:40 final size:40
Alignment explanation
Indices: 34990802--34990879 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
34990792 GTGTATATAG
* *
34990802 GGGCACCAAAGTGCGAATAGGGGCAAAAATGTGCATTTAA
1 GGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATTTAA
** **
34990842 GGGCACTGAAGTGCAAACAGGGGCACTAATGTGCATTT
1 GGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATTT
34990880 TAGGAACACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (40 bp):
GGGCACCAAAGTGCAAACAGGGGCAAAAATGTGCATTTAA
Found at i:34990868 original size:20 final size:20
Alignment explanation
Indices: 34990679--34990867 Score: 89
Period size: 20 Copynumber: 9.4 Consensus size: 20
34990669 TACGTGTAGT
* *
34990679 CAGGGGCACTGAAGTGCGAA
1 CAGGGGCACAGAAGTGCAAA
*
34990699 CAAGGGCACA-AACGTGCAAA
1 CAGGGGCACAGAA-GTGCAAA
* * *
34990719 C-GGGGACACCGAAGTGTATA
1 CAGGGG-CACAGAAGTGCAAA
* * * *
34990739 CAAGGGCACAGTAGTACGAA
1 CAGGGGCACAGAAGTGCAAA
*
34990759 CAGGGGCACAGACGTGCAAA
1 CAGGGGCACAGAAGTGCAAA
* * * * *
34990779 CAAGGACACCGAAGTGTATA
1 CAGGGGCACAGAAGTGCAAA
* *
34990799 TAGGGGCACCA-AAGTGCGAA
1 CAGGGGCA-CAGAAGTGCAAA
* * **
34990819 TAGGGGCA-AAAATGTGCATT
1 CAGGGGCACAGAA-GTGCAAA
* * *
34990839 TAAGGGCACTGAAGTGCAAA
1 CAGGGGCACAGAAGTGCAAA
34990859 CAGGGGCAC
1 CAGGGGCAC
34990868 TAATGTGCAT
Statistics
Matches: 119, Mismatches: 42, Indels: 16
0.67 0.24 0.09
Matches are distributed among these distances:
18 1 0.01
19 7 0.06
20 103 0.87
21 8 0.07
ACGTcount: A:0.36, C:0.20, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGGGCACAGAAGTGCAAA
Found at i:34995356 original size:71 final size:71
Alignment explanation
Indices: 34995268--34995431 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
34995258 GAGATGTATC
34995268 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
34995333 AGGACA
66 AGGACA
*
34995339 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
34995404 CGGACA
66 AGGACA
34995410 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
34995432 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:34998136 original size:3 final size:3
Alignment explanation
Indices: 34998128--34998196 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
34998118 ACCATTGACG
34998128 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
34998176 ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
34998197 TGTTTCAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:35000334 original size:32 final size:32
Alignment explanation
Indices: 35000293--35000356 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35000283 ATTTTTGTCA
35000293 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
35000325 CATAGTTAAAGTTATCCTAATCCAATCAATAT
1 CATAGTTAAAGTTATCCTAATCCAATCAATAT
35000357 ATCAAATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (32 bp):
CATAGTTAAAGTTATCCTAATCCAATCAATAT
Found at i:35002680 original size:16 final size:16
Alignment explanation
Indices: 35002635--35002683 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
35002625 TATTCATTCA
*
35002635 TAATTTATTTTTAATG
1 TAATTTATTTTTTATG
35002651 T--TTTATTTTTTTTATG
1 TAATTTA--TTTTTTATG
35002667 TAATTTATTTTTTATG
1 TAATTTATTTTTTATG
35002683 T
1 T
35002684 GTGTTTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 4 0.14
16 20 0.71
18 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TAATTTATTTTTTATG
Found at i:35002691 original size:18 final size:18
Alignment explanation
Indices: 35002649--35002691 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
35002639 TTATTTTTAA
*
35002649 TGTTTTATTTTTTTTATG
1 TGTTTTATTTTTTATATG
** *
35002667 TAATTTATTTTTTATGTG
1 TGTTTTATTTTTTATATG
35002685 TGTTTTA
1 TGTTTTA
35002692 GGTTGATTAG
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (18 bp):
TGTTTTATTTTTTATATG
Found at i:35002905 original size:21 final size:23
Alignment explanation
Indices: 35002879--35002922 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35002869 AGAATAAGAG
*
35002879 TTTATGTT-TTT-TAAATTTTAT
1 TTTATGTTATTTATAAATATTAT
35002900 TTTATGTTATTTATAAATATTAT
1 TTTATGTTATTTATAAATATTAT
35002923 AAATGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTATGTTATTTATAAATATTAT
Found at i:35003517 original size:15 final size:13
Alignment explanation
Indices: 35003489--35003514 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35003479 TTAATCATGG
35003489 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
35003502 GTTCCCTTAAAAA
1 GTTCCCTTAAAAA
35003515 AAGATCTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (13 bp):
GTTCCCTTAAAAA
Found at i:35008718 original size:14 final size:16
Alignment explanation
Indices: 35008699--35008735 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
35008689 AATAATAATA
35008699 TCTTTTCGTTC-TTC-
1 TCTTTTCGTTCTTTCT
*
35008713 TCTTTTCTTTCTTTCT
1 TCTTTTCGTTCTTTCT
35008729 TCTTTTC
1 TCTTTTC
35008736 TCCCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (16 bp):
TCTTTTCGTTCTTTCT
Found at i:35009202 original size:17 final size:17
Alignment explanation
Indices: 35009180--35009213 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
35009170 TCAATCCTTA
35009180 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
35009197 ACCTTTACACATTTATT
1 ACCTTTACACATTTATT
35009214 TAATTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
ACCTTTACACATTTATT
Found at i:35013448 original size:8 final size:8
Alignment explanation
Indices: 35013435--35013468 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
35013425 AAAAAAAAAA
35013435 ATCATTTT
1 ATCATTTT
35013443 ATCATTTT
1 ATCATTTT
35013451 ATCATTTT
1 ATCATTTT
*
35013459 ATCTTTTT
1 ATCATTTT
35013467 AT
1 AT
35013469 TTAACTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (8 bp):
ATCATTTT
Found at i:35013620 original size:30 final size:31
Alignment explanation
Indices: 35013581--35013640 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
35013571 GTTTATATTT
*
35013581 TTATAATTTTTAAAAAATTAAATTA-AATTG
1 TTATAATTTTTAAAAAACTAAATTACAATTG
* **
35013611 TTATCATTTTTAGGAAACTAAATTACAATT
1 TTATAATTTTTAAAAAACTAAATTACAATT
35013641 TTACCTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (31 bp):
TTATAATTTTTAAAAAACTAAATTACAATTG
Found at i:35013894 original size:10 final size:9
Alignment explanation
Indices: 35013877--35013905 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
35013867 TAAATTAATT
35013877 TTTTAAAAA
1 TTTTAAAAA
35013886 TTTTAAAAA
1 TTTTAAAAA
35013895 TTTTAAAAA
1 TTTTAAAAA
35013904 TT
1 TT
35013906 ATTTCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:35014302 original size:33 final size:31
Alignment explanation
Indices: 35014252--35014315 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
35014242 TAGATATTTG
35014252 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
1 AGTTTGAATGTAAATTTGTTTAAGGATTAGA
*
35014283 AGTTATGAATAGTAGATTTGTTTAAGGATTAGA
1 AGTT-TGAAT-GTAAATTTGTTTAAGGATTAGA
35014316 TTATTCATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.13
32 5 0.17
33 21 0.70
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (31 bp):
AGTTTGAATGTAAATTTGTTTAAGGATTAGA
Found at i:35023962 original size:15 final size:15
Alignment explanation
Indices: 35023935--35023982 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
35023925 AATTTATTTG
35023935 ATAA-TATTAATAATA
1 ATAATTATT-ATAATA
*
35023950 ATAATTATTATAACA
1 ATAATTATTATAATA
*
35023965 ATAATTTAATATAATA
1 ATAA-TTATTATAATA
35023981 AT
1 AT
35023983 TTAAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTATTATAATA
Found at i:35023993 original size:13 final size:13
Alignment explanation
Indices: 35023935--35023990 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 13
35023925 AATTTATTTG
35023935 ATAATATTAATAATA
1 ATAAT-TTAAT-ATA
* *
35023950 ATAATTATTATAACA
1 ATAATT-TAAT-ATA
35023965 ATAATTTAATATA
1 ATAATTTAATATA
35023978 ATAATTTAA-ATA
1 ATAATTTAATATA
35023990 A
1 A
35023991 ATATCTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 4 0.11
13 11 0.31
14 4 0.11
15 17 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
ATAATTTAATATA
Found at i:35036847 original size:68 final size:71
Alignment explanation
Indices: 35036775--35036973 Score: 280
Period size: 72 Copynumber: 2.8 Consensus size: 71
35036765 ACACCCTGTA
* * * *
35036775 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
35036837 ATAAA-T
65 ATAAATT
*
35036843 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
35036908 ATAAATT
65 ATAAATT
* *
35036915 ATAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
35036974 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 33 0.28
72 59 0.49
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (71 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAATT
Found at i:35036898 original size:71 final size:72
Alignment explanation
Indices: 35036809--35036973 Score: 314
Period size: 72 Copynumber: 2.3 Consensus size: 72
35036799 GAGATGTATC
*
35036809 CCATGTAGACAAGAGAGCTACGTGAAAGATAAA-TGTAGCTAGGTCGCATGCGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATTATAGCTAGGTCGCATGCGTGATTCCAAGTG
35036873 AAGGACA
66 AAGGACA
35036880 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATTATAGCTAGGTCGCATGCGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATTATAGCTAGGTCGCATGCGTGATTCCAAGTG
35036945 AAGGACA
66 AAGGACA
35036952 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35036974 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
71 33 0.36
72 59 0.64
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (72 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATTATAGCTAGGTCGCATGCGTGATTCCAAGTG
AAGGACA
Found at i:35040259 original size:22 final size:22
Alignment explanation
Indices: 35040231--35040275 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
35040221 AAGATGAGAA
*
35040231 TGGATGAAATTTGTTATTTATT
1 TGGATGAAATTTGTGATTTATT
*
35040253 TGGATGAAATTTGTGCTTTATT
1 TGGATGAAATTTGTGATTTATT
35040275 T
1 T
35040276 TTACTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.53
Consensus pattern (22 bp):
TGGATGAAATTTGTGATTTATT
Found at i:35057055 original size:46 final size:46
Alignment explanation
Indices: 35056914--35057081 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
35056904 GTGAGCTAGC
*
35056914 GTAAGACATGTCTGGGACATGCATCGGCCAT-ATTA-TGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCC-TGA-GACTGAGAGCCAGT
* * * *
35056960 GTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC-GAGTGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGACTGAGAGCCAGT
* *
35057008 GTAAGACATGTCTGCGACATGCATCGGCCTCGAGACTTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCT-GAGACTGAGAGCCAGT
35057054 GTAAGACATGTCTGGGACATGCATCGGC
1 GTAAGACATGTCTGGGACATGCATCGGC
35057082 TACGAGATGT
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 1 0.01
46 50 0.49
47 28 0.27
48 23 0.22
49 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTGAGACTGAGAGCCAGT
Found at i:35058139 original size:15 final size:15
Alignment explanation
Indices: 35058119--35058148 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35058109 CAGAATGTCC
35058119 ATGTTTTTGCAAACG
1 ATGTTTTTGCAAACG
35058134 ATGTTTTTGCAAACG
1 ATGTTTTTGCAAACG
35058149 GGCTAGGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGTTTTTGCAAACG
Found at i:35061565 original size:18 final size:19
Alignment explanation
Indices: 35061515--35061565 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
35061505 TATTCACATC
35061515 TCATTTCATCAAT-TCATACT
1 TCATTTC-T-AATCTCATACT
*
35061535 TCATTTCTCATCTCATA-T
1 TCATTTCTAATCTCATACT
*
35061553 TCATTTTTAATCT
1 TCATTTCTAATCT
35061566 TTTCCATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 14 0.52
19 6 0.22
20 7 0.26
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.51
Consensus pattern (19 bp):
TCATTTCTAATCTCATACT
Found at i:35063515 original size:40 final size:40
Alignment explanation
Indices: 35063460--35063669 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35063450 AACATTGGAA
35063460 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35063500 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35063540 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
35063580 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
35063619 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
35063660 CTATATCCGG
1 ATATATCCGG
35063670 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:35071654 original size:40 final size:40
Alignment explanation
Indices: 35071599--35071808 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35071589 AACATTGGAA
35071599 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35071639 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35071679 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
35071719 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
35071758 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
35071799 CTATATCCGG
1 ATATATCCGG
35071809 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:35074279 original size:35 final size:34
Alignment explanation
Indices: 35074214--35074279 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
35074204 TTTTAATTTC
* *
35074214 ATTCATTATTATTATATTATAATATCTACATTAG
1 ATTCATTATTATTATATTATAACATATACATTAG
35074248 ATTCATT-TTATTTATTATTATAACATATACAT
1 ATTCATTATTA-TTA-TATTATAACATATACAT
35074280 ATATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.11
34 10 0.36
35 15 0.54
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (34 bp):
ATTCATTATTATTATATTATAACATATACATTAG
Found at i:35080492 original size:23 final size:24
Alignment explanation
Indices: 35080465--35080523 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
35080455 TTCTTTGTCC
* * *
35080465 TTTTTCATTTTTTTTCTTTTTAAG
1 TTTTTTATTTATTTACTTTTTAAG
35080489 TTTTTTATTTATTTACTTTTTAA-
1 TTTTTTATTTATTTACTTTTTAAG
35080512 TTTTTTATTTAT
1 TTTTTTATTTAT
35080524 CCTTTATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTTATTTATTTACTTTTTAAG
Found at i:35080607 original size:23 final size:23
Alignment explanation
Indices: 35080557--35080637 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
35080547 TTTATTATTG
* * *
35080557 ATTTTATAAAATTTGAAATGTAT
1 ATTTTTTAAAATTTTAAATATAT
*
35080580 A--TTTTAAATGTTTTATAATAT-T
1 ATTTTTTAAA-ATTTTA-AATATAT
35080602 ATTTTTTAAAATTTTAAATATAT
1 ATTTTTTAAAATTTTAAATATAT
*
35080625 ATTTTTTTAAATT
1 ATTTTTTAAAATT
35080638 ATTATTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
21 6 0.13
22 11 0.23
23 23 0.49
24 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTTTTTAAAATTTTAAATATAT
Found at i:35080610 original size:24 final size:25
Alignment explanation
Indices: 35080581--35080636 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
35080571 GAAATGTATA
*
35080581 TTTTAAATGTTTTATAATAT-TA-TT
1 TTTTAAATATTTTA-AATATATATTT
35080605 TTTTAAA-ATTTTAAATATATATTT
1 TTTTAAATATTTTAAATATATATTT
35080629 TTTTAAAT
1 TTTTAAAT
35080637 TATTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 16 0.57
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTAAATATTTTAAATATATATTT
Found at i:35080634 original size:16 final size:16
Alignment explanation
Indices: 35080613--35080670 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 16
35080603 TTTTTTAAAA
35080613 TTTTAAATATATATTT
1 TTTTAAATATATATTT
35080629 TTTTAAAT-TAT-TATT
1 TTTTAAATATATAT-TT
*
35080644 TTTTAAATTTAAATATTAT
1 TTTTAAA--TATATATT-T
35080663 TTTTAAAT
1 TTTTAAAT
35080671 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 11
0.74 0.02 0.23
Matches are distributed among these distances:
14 1 0.03
15 12 0.34
16 8 0.23
17 2 0.06
18 3 0.09
19 9 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAAATATATATTT
Found at i:35080641 original size:39 final size:36
Alignment explanation
Indices: 35080590--35080666 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 36
35080580 ATTTTAAATG
35080590 TTTTATAATATTATTTTTTAAAATTTTAAATATATATTT
1 TTTTATAATATTATTTTTT-AAA-TTTAAATAT-TATTT
35080629 TTTTA-AATTATTATTTTTTAAATTTAAATATTATTT
1 TTTTATAA-TATTATTTTTTAAATTTAAATATTATTT
35080665 TT
1 TT
35080667 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
36 7 0.19
37 9 0.24
38 5 0.14
39 16 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (36 bp):
TTTTATAATATTATTTTTTAAATTTAAATATTATTT
Found at i:35080645 original size:15 final size:17
Alignment explanation
Indices: 35080613--35080671 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
35080603 TTTTTTAAAA
35080613 TTTTAAA-TATATATTT
1 TTTTAAATTATATATTT
35080629 TTTTAAATTAT-TA-TT
1 TTTTAAATTATATATTT
*
35080644 TTTTAAATTTAAATATTAT
1 TTTTAAA-TTATATATT-T
35080663 TTTTAAATT
1 TTTTAAATT
35080672 TTAAATAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
15 9 0.24
16 12 0.32
17 5 0.14
18 3 0.08
19 8 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTAAATTATATATTT
Found at i:35080662 original size:20 final size:21
Alignment explanation
Indices: 35080581--35080688 Score: 97
Period size: 20 Copynumber: 5.3 Consensus size: 21
35080571 GAAATGTATA
35080581 TTTTAAATGTTTTATAATATTATT
1 TTTTAAA--TTTTA-AATATTATT
35080605 TTTTAAAATTTTAAATA-TA-T
1 TTTT-AAATTTTAAATATTATT
*
35080625 ATTT---TTTTAAATTATTATT
1 TTTTAAATTTTAAA-TATTATT
35080644 TTTTAAA-TTTAAATATTA-T
1 TTTTAAATTTTAAATATTATT
*
35080663 TTTTAAATTTTAAATA-AATT
1 TTTTAAATTTTAAATATTATT
35080683 TTTTAA
1 TTTTAA
35080689 TAATATAAAA
Statistics
Matches: 72, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
16 7 0.10
17 2 0.03
18 2 0.03
19 13 0.18
20 24 0.33
21 8 0.11
22 4 0.06
23 5 0.07
24 4 0.06
25 3 0.04
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTAAATTTTAAATATTATT
Found at i:35080683 original size:19 final size:19
Alignment explanation
Indices: 35080643--35080685 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35080633 AAATTATTAT
*
35080643 TTTTTAAATTTAAATATTA
1 TTTTTAAATTTAAATATAA
35080662 TTTTTAAATTTTAAATA-AA
1 TTTTTAAA-TTTAAATATAA
35080681 TTTTT
1 TTTTT
35080686 TAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTTAAATATAA
Found at i:35080781 original size:22 final size:23
Alignment explanation
Indices: 35080750--35080824 Score: 93
Period size: 22 Copynumber: 3.4 Consensus size: 23
35080740 TTATTATTTG
*
35080750 TTTTATAAAATTTTAAATGTATA
1 TTTTATAAAATTTTAAATATATA
35080773 TTTTA-AAAATTTTAAATATATA
1 TTTTATAAAATTTTAAATATATA
**
35080795 -TTTATTTAATTTTAAATATA-A
1 TTTTATAAAATTTTAAATATATA
*
35080816 TTTTTTAAA
1 TTTTATAAA
35080825 TTATGATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 5 0.11
22 34 0.77
23 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (23 bp):
TTTTATAAAATTTTAAATATATA
Found at i:35080980 original size:17 final size:18
Alignment explanation
Indices: 35080941--35080981 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
35080931 GAAAAAATAA
*
35080941 AAAAATGATTTATTTGTT
1 AAAAAGGATTTATTTGTT
35080959 AAAAAGGATTTATTTGTT
1 AAAAAGGATTTATTTGTT
35080977 AAAAA
1 AAAAA
35080982 ATTATGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
AAAAAGGATTTATTTGTT
Found at i:35081032 original size:21 final size:21
Alignment explanation
Indices: 35081002--35081053 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
35080992 TTTAAAATAT
*
35081002 ATATGTATTAAAAAAGTAAAA
1 ATATATATTAAAAAAGTAAAA
* * *
35081023 ATTTATATTAGAAAATTAAAA
1 ATATATATTAAAAAAGTAAAA
35081044 ATATATATTA
1 ATATATATTA
35081054 TAACGACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
ATATATATTAAAAAAGTAAAA
Found at i:35082080 original size:21 final size:20
Alignment explanation
Indices: 35082038--35082080 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
35082028 CTCAACCTTT
*
35082038 TAATTTTGATCTTCAATATA
1 TAATTTTGATCTTAAATATA
35082058 TAATTTT-ATGCTTAAATTATA
1 TAATTTTGAT-CTTAAA-TATA
35082079 TA
1 TA
35082081 TATATAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
TAATTTTGATCTTAAATATA
Found at i:35083679 original size:30 final size:30
Alignment explanation
Indices: 35083643--35083745 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
35083633 GACGCAGAGT
* *
35083643 AGTTCATACCACCCGGACATGGGCGGTTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
*
35083673 AGTTCATATCACCCAGACATGGGCGATTCG
1 AGTTCATATCACCCAGACATGGGCGGTTCG
* *
35083703 AGTTCATATAACCCCA-ACATAGGCGGTTCG
1 AGTTCATATCA-CCCAGACATGGGCGGTTCG
* *
35083733 AGTTTATTTCACC
1 AGTTCATATCACC
35083746 AACAGCAACC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 2 0.03
30 57 0.90
31 4 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (30 bp):
AGTTCATATCACCCAGACATGGGCGGTTCG
Found at i:35087767 original size:27 final size:25
Alignment explanation
Indices: 35087731--35087792 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
35087721 ATAAGGGCAC
35087731 ATAATCAGGAAGCACACTCTCGAGCCAT
1 ATAA-CAGGAAGCACA-TCT-GAGCCAT
* * *
35087759 ATAACAGGATGCTCATGTGAGCCAT
1 ATAACAGGAAGCACATCTGAGCCAT
*
35087784 GTAACAGGA
1 ATAACAGGA
35087793 TGCTTATCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 15 0.50
26 2 0.07
27 9 0.30
28 4 0.13
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (25 bp):
ATAACAGGAAGCACATCTGAGCCAT
Done.