Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 116 of 427
Found at i:30709928 original size:12 final size:12
Alignment explanation
Indices: 30709911--30709938 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
30709901 AGTTAGTCTA
30709911 TGTTATTTAACT
1 TGTTATTTAACT
30709923 TGTTATTTAACT
1 TGTTATTTAACT
30709935 TGTT
1 TGTT
30709939 CTTAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.11, T:0.61
Consensus pattern (12 bp):
TGTTATTTAACT
Found at i:30714272 original size:6 final size:6
Alignment explanation
Indices: 30714263--30714320 Score: 71
Period size: 6 Copynumber: 9.5 Consensus size: 6
30714253 TTTTATTTTC
* * *
30714263 TTTTAT TTTTAT TTTTAT TGTTAGT TTTTAT TTTTAT TTTTCT GTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
*
30714312 TTGTAT TTT
1 TTTTAT TTT
30714321 CCTAGACTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:30714292 original size:19 final size:18
Alignment explanation
Indices: 30714251--30714302 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
30714241 GAGTCCATTT
*
30714251 GTTTTTA-TTTTCTTTTA
1 GTTTTTATTTTTATTTTA
30714268 -TTTTTATTTTTATTGTTA
1 GTTTTTATTTTTATT-TTA
30714286 GTTTTTATTTTTATTTT
1 GTTTTTATTTTTATTTT
30714303 TCTGTTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 5 0.16
19 14 0.45
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (18 bp):
GTTTTTATTTTTATTTTA
Found at i:30720795 original size:116 final size:116
Alignment explanation
Indices: 30720591--30720822 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
30720581 AGGTGGAATA
*
30720591 ACTCCACTTAACTGGGAAATATACAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
1 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
30720656 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
66 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
30720707 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
1 ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
30720772 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
66 CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
30720823 CTTCTTTCCA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (116 bp):
ACTCCACTTAACTGGGAAATATAAAAGAGAGTTCGACCAGCAGAAATGTAGAAAGTCTGTAAATG
CAAAGAATTAATTTCTAAATAACACATCACCAACAGAATTAGAGGATGTAC
Found at i:30721381 original size:1 final size:1
Alignment explanation
Indices: 30721377--30721405 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
30721367 CCAAAAAAGG
30721377 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
30721406 GGGTCTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:30731028 original size:49 final size:48
Alignment explanation
Indices: 30730975--30731390 Score: 592
Period size: 47 Copynumber: 8.7 Consensus size: 48
30730965 GATTTTACGC
* * *
30730975 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCTGATGT
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCGATGT
* *
30731024 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCAAAGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
30731071 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
30731120 GATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATA-ATATGTGATAAGGCCTAATGGCCGATGT
30731171 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
*
30731220 GATGAAT-TGAAAGTGTAT-ATATGTGATAAGGCCTAATGGTCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * *
30731266 GATGAATGTGAAGGTGTAT-ATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * * * * *
30731313 GATAAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
*
30731360 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
30731391 TCCCGAAGGG
Statistics
Matches: 341, Mismatches: 20, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
46 34 0.10
47 146 0.43
48 12 0.04
49 100 0.29
51 49 0.14
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (48 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:30731192 original size:100 final size:96
Alignment explanation
Indices: 30730975--30731390 Score: 608
Period size: 100 Copynumber: 4.3 Consensus size: 96
30730965 GATTTTACGC
* * * *
30730975 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30731040 TATATATGTGATAAGGCCTAATGGCCAAAGT
66 TATATATGTGATAAGGCCTAATGGCCAATGT
30731071 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
30731136 TATATATATATGTGATAAGGCCTAATGGCCGATGT
66 ----TATATATGTGATAAGGCCTAATGGCCAATGT
30731171 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT-TGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
30731235 TATATATGTGATAAGGCCTAATGGTCGATGT
66 TATATATGTGATAAGGCCTAATGGCCAATGT
* * * *
30731266 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
30731329 TATATATGTGATAGGGCCGAGTGGCCAACGT
66 TATATATGTGATAAGGCCTAATGGCCAATGT
*
30731360 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 GATGAATGTGAAAGTGTATATATATGTGATAAG
30731391 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 19, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
93 37 0.13
94 55 0.19
95 44 0.15
96 65 0.22
99 8 0.03
100 85 0.29
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:30749672 original size:13 final size:14
Alignment explanation
Indices: 30749654--30749686 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
30749644 AAGTTTTGTA
30749654 CTATTACTTT-TTT
1 CTATTACTTTGTTT
30749667 CTATTACTTTGTTT
1 CTATTACTTTGTTT
30749681 -TATTAC
1 CTATTAC
30749687 GTCATATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (14 bp):
CTATTACTTTGTTT
Found at i:30749714 original size:9 final size:9
Alignment explanation
Indices: 30749700--30749798 Score: 68
Period size: 9 Copynumber: 11.3 Consensus size: 9
30749690 ATATTTGTCC
30749700 TTATTTATT
1 TTATTTATT
*
30749709 TTATTTATC
1 TTATTTATT
30749718 TTA-TTACTT
1 TTATTTA-TT
30749727 TT-TTTA-T
1 TTATTTATT
30749734 TTACTTT-TT
1 TTA-TTTATT
**
30749743 TTA-AGATT
1 TTATTTATT
*
30749751 TTATTTGTT
1 TTATTTATT
30749760 CTTA-TT-TT
1 -TTATTTATT
30749768 TTATTTATT
1 TTATTTATT
30749777 TTATTTATTT
1 TTATTTA-TT
*
30749787 TTATTGATT
1 TTATTTATT
30749796 TTA
1 TTA
30749799 GAAAACTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
7 6 0.08
8 12 0.17
9 42 0.59
10 11 0.15
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (9 bp):
TTATTTATT
Found at i:30749739 original size:13 final size:13
Alignment explanation
Indices: 30749721--30749745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30749711 ATTTATCTTA
30749721 TTACTTTTTTTAT
1 TTACTTTTTTTAT
30749734 TTACTTTTTTTA
1 TTACTTTTTTTA
30749746 AGATTTTATT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
TTACTTTTTTTAT
Found at i:30749769 original size:17 final size:16
Alignment explanation
Indices: 30749749--30749791 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
30749739 TTTTTTAAGA
*
30749749 TTTTATTTGTTCTTATT
1 TTTTATTTATT-TTATT
30749766 TTTTATTTATTTTATT
1 TTTTATTTATTTTATT
*
30749782 TATT-TTTATT
1 TTTTATTTATT
30749792 GATTTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTTATT
Found at i:30749788 original size:21 final size:22
Alignment explanation
Indices: 30749703--30749788 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 22
30749693 TTTGTCCTTA
* *
30749703 TTTATTTTATTTATCTTATTAC
1 TTTATTTTATTTATTTTTTTAC
*
30749725 TTT-TTTTATTTACTTTTTTTAAGAT
1 TTTATTTTATTTA-TTTTTTT---AC
30749750 TTTATTTGT-TCTTA-TTTTTTA-
1 TTTATTT-TAT-TTATTTTTTTAC
30749771 TTTATTTTATTTATTTTT
1 TTTATTTTATTTATTTTT
30749789 ATTGATTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
20 4 0.08
21 21 0.40
22 9 0.17
25 10 0.19
26 4 0.08
27 4 0.08
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTATTTTATTTATTTTTTTAC
Found at i:30749835 original size:23 final size:22
Alignment explanation
Indices: 30749808--30749875 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
30749798 AGAAAACTTA
30749808 AAATATATATTTGAAATATTTT
1 AAATATATATTTGAAATATTTT
* *
30749830 ATAATATATTTTTTTAAA-ATTTT
1 A-AATATA-TATTTGAAATATTTT
30749853 AAATATATATTTGAAATTATTTT
1 AAATATATATTTGAAA-TATTTT
30749876 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 7 0.18
22 7 0.18
23 17 0.45
24 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (22 bp):
AAATATATATTTGAAATATTTT
Found at i:30750031 original size:21 final size:21
Alignment explanation
Indices: 30749991--30750054 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
30749981 TATATTTTAA
*
30749991 GTTTTAAATATTTTTTAATTT
1 GTTTTAAATATTTTTAAATTT
30750012 GTTTTATAATA-TTTTAAATTAT
1 GTTTTA-AATATTTTTAAATT-T
*
30750034 AATTTTTAAATTATTTTTAAA
1 --GTTTTAAA-TATTTTTAAA
30750055 GATATTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
21 14 0.40
22 5 0.14
23 2 0.06
24 7 0.20
25 7 0.20
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (21 bp):
GTTTTAAATATTTTTAAATTT
Found at i:30750040 original size:14 final size:15
Alignment explanation
Indices: 30750015--30750047 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
30750005 TTAATTTGTT
30750015 TTATAATATTTTAAA
1 TTATAATATTTTAAA
30750030 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
30750044 TTAT
1 TTAT
30750048 TTTTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:30750162 original size:16 final size:18
Alignment explanation
Indices: 30750141--30750180 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
30750131 TTAGAAAAAA
30750141 TAAAAAA-A-ATATTTGT
1 TAAAAAAGATATATTTGT
*
30750157 TAAAAAAGATTTATTTGT
1 TAAAAAAGATATATTTGT
30750175 TAAAAA
1 TAAAAA
30750181 GTATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (18 bp):
TAAAAAAGATATATTTGT
Found at i:30750231 original size:27 final size:27
Alignment explanation
Indices: 30750191--30750245 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
30750181 GTATAACTTT
*
30750191 ATTTAAAATATATATATTAAAAA-TAAA
1 ATTTAAAATATATAT-TAAAAAATTAAA
* *
30750218 ATTTTAAATGTATATTAAAAAATTAAA
1 ATTTAAAATATATATTAAAAAATTAAA
30750245 A
1 A
30750246 ATATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
ATTTAAAATATATATTAAAAAATTAAA
Found at i:30751215 original size:19 final size:18
Alignment explanation
Indices: 30751191--30751249 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
30751181 TAAATTTAAA
30751191 ATTTTAATATATTTAATAT
1 ATTTTAA-ATATTTAATAT
* *
30751210 ATTTTAAAAAATTAAATAT
1 ATTTT-AAATATTTAATAT
*
30751229 ATTATAAATATGTTAAGTAT
1 ATTTTAAATAT-TTAA-TAT
30751249 A
1 A
30751250 ACCAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.16
19 21 0.66
20 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTTTAAATATTTAATAT
Found at i:30751226 original size:70 final size:71
Alignment explanation
Indices: 30751143--30751285 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
30751133 TTTAAAAAAC
* *
30751143 TTAAAAAAATAAATATATTA-AAAAATATTAAGTATAACTAAATTTAAAATTTTAATATATTTAA
1 TTAAAAAAATAAATATATTATAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAA
30751207 TATATT
66 TATATT
* * * *
30751213 TTAAAAAATTAAATATATTATAAATATGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAA
1 TTAAAAAAATAAATATATTATAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAA
30751278 TATATT
66 TATATT
30751284 TT
1 TT
30751286 TCTATAAGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
70 19 0.29
71 47 0.71
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (71 bp):
TTAAAAAAATAAATATATTATAAAAATATTAAGTATAACCAAATTTAAAATTTTAATATATTCAA
TATATT
Found at i:30751475 original size:20 final size:20
Alignment explanation
Indices: 30751452--30751491 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
30751442 TGAACATATT
30751452 AAAAAAATTTTAAGTATAAC
1 AAAAAAATTTTAAGTATAAC
*
30751472 AAAAAATTTTTAAGTATAAC
1 AAAAAAATTTTAAGTATAAC
30751492 CAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAAAATTTTAAGTATAAC
Found at i:30752905 original size:21 final size:20
Alignment explanation
Indices: 30752863--30752905 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30752853 GATTTTTTTT
*
30752863 TAATTTTAGTCTTCAATATA
1 TAATTTTAGTCTTAAATATA
30752883 TAATTTTACGT-TTAAATTATA
1 TAATTTTA-GTCTTAAA-TATA
30752904 TA
1 TA
30752906 GATAATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.51
Consensus pattern (20 bp):
TAATTTTAGTCTTAAATATA
Found at i:30755079 original size:24 final size:24
Alignment explanation
Indices: 30755047--30755094 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
30755037 GCCATTTCTC
30755047 TTTATATCACTATGTATGTCGTTA
1 TTTATATCACTATGTATGTCGTTA
30755071 TTTATATCACTATGTATGTCGTTA
1 TTTATATCACTATGTATGTCGTTA
30755095 CAGCTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (24 bp):
TTTATATCACTATGTATGTCGTTA
Found at i:30755194 original size:33 final size:33
Alignment explanation
Indices: 30755156--30755247 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
30755146 GAGGTGTACA
30755156 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* *
30755189 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
**
30755222 AACCTTTCCAAGT-GTACACACAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
30755248 GTACATAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
32 13 0.25
33 37 0.73
34 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:30755257 original size:32 final size:33
Alignment explanation
Indices: 30755158--30755271 Score: 124
Period size: 33 Copynumber: 3.5 Consensus size: 33
30755148 GGTGTACATT
* **
30755158 CCTTTCCAAGTGGTACACACAAAGTATACCTTT
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* * *
30755191 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTCCA-AGTGGTACACACAAAGTATACATAA
*
30755224 CCTTTCCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTCCAAGTGGTACACACAAAGTATACATAA
* *
30755256 CCTTTTCAAGTTGTAC
1 CCTTTCCAAGTGGTAC
30755272 CATTTGGGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.42
33 39 0.57
34 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (33 bp):
CCTTTCCAAGTGGTACACACAAAGTATACATAA
Found at i:30757176 original size:30 final size:30
Alignment explanation
Indices: 30757140--30757242 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
30757130 AGTCGCAGAG
*
30757140 AAGTTCATATCACTCGGACATTGGCGGTTC
1 AAGTTCATATCACTCGGACATAGGCGGTTC
* **
30757170 AAGTTCATATCA-TCCGGACATGGGTAGTTC
1 AAGTTCATATCACT-CGGACATAGGCGGTTC
* * * *
30757200 GAGTTCATATCACCCGAATATAGGCGGTTC
1 AAGTTCATATCACTCGGACATAGGCGGTTC
* *
30757230 GAGTTCATTTCAC
1 AAGTTCATATCAC
30757243 CCAAAGTAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 1 0.02
30 59 0.98
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (30 bp):
AAGTTCATATCACTCGGACATAGGCGGTTC
Found at i:30758551 original size:21 final size:22
Alignment explanation
Indices: 30758518--30758558 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
30758508 CTCCACCAAA
*
30758518 TAAAATATTAATTTTTAAAATT
1 TAAAATATTAATTTTAAAAATT
30758540 TAAAAT-TTAATTTTAAAAA
1 TAAAATATTAATTTTAAAAA
30758559 ACGTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAATATTAATTTTAAAAATT
Found at i:30758621 original size:12 final size:13
Alignment explanation
Indices: 30758567--30758621 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 13
30758557 AAACGTTTGA
30758567 ATATCTTTAAAATT
1 ATAT-TTTAAAATT
30758581 A-ATTTTAAAATT
1 ATATTTTAAAATT
30758593 AATAGTTTATAAAAATT
1 -ATA-TTT-T-AAAATT
30758610 ATA-TTTAAAATT
1 ATATTTTAAAATT
30758622 TAAGAAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
12 15 0.42
13 4 0.11
14 4 0.11
15 3 0.08
16 4 0.11
17 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (13 bp):
ATATTTTAAAATT
Found at i:30758730 original size:15 final size:15
Alignment explanation
Indices: 30758693--30758734 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
30758683 ATCTTTAAAA
30758693 ATAATTTAAAA-ATC
1 ATAATTTAAAATATC
*
30758707 ATAATTTAAAATATT
1 ATAATTTAAAATATC
*
30758722 ATAAATTAAAATA
1 ATAATTTAAAATA
30758735 AAAATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATTTAAAATATC
Found at i:30758740 original size:21 final size:22
Alignment explanation
Indices: 30758714--30758756 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
30758704 ATCATAATTT
30758714 AAAATATTATAA-A-TTAAAATA
1 AAAATATT-TAACATTTAAAATA
30758735 AAAATATTTAACATTTAAAATA
1 AAAATATTTAACATTTAAAATA
30758757 TACATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.15
21 9 0.45
22 8 0.40
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATATTTAACATTTAAAATA
Found at i:30758763 original size:13 final size:13
Alignment explanation
Indices: 30758745--30758770 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30758735 AAAATATTTA
30758745 ACATTTAAAATAT
1 ACATTTAAAATAT
30758758 ACATTTAAAATAT
1 ACATTTAAAATAT
30758771 TATAAAACTA
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:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ACATTTAAAATAT
Found at i:30758846 original size:22 final size:21
Alignment explanation
Indices: 30758832--30758900 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
30758822 TTTTATATTA
30758832 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
30758853 TT-AAAAA-A-A--T--AATT
1 TTAAAAAATATATTTAAAATT
* *
30758867 TCAAAAATATATATTTAAAATT
1 T-TAAAAAATATATTTAAAATT
30758889 TTAAAAAATATA
1 TTAAAAAATATA
30758901 ATATAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
14 5 0.14
16 5 0.14
17 1 0.03
18 2 0.06
19 1 0.03
20 6 0.17
21 11 0.31
22 5 0.14
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:30758874 original size:119 final size:115
Alignment explanation
Indices: 30758602--30758903 Score: 293
Period size: 119 Copynumber: 2.6 Consensus size: 115
30758592 TAATAGTTTA
* * *
30758602 TAAAAATTATATTTAAAA-TTT-AAGAAATATTT--AAATTATAAATTTAAAATATTATAAAA-A
1 TAAAAAATATATTTAAAATTTTAAAAAAATATTTCAAAAATATAAATTTAAAATATTATAAAATA
*
30758662 ATAATAAATTTGAAAGGTCATATCTTTAAAAATAATTTAAAAATCATAAT
66 ATAATAAATTTGAAAGGTCATACCTTTAAAAATAATTTAAAAATCATAAT
* * ** *
30758712 T-TAAAATAT-TAT-AAATTAAAATAAAAATATTTAACATTTAAAATATACATTTAAAATATTAT
1 TAAAAAATATATTTAAAATTTTAA-AAAAATATTT--CA---AAAATATAAATTTAAAATATTAT
* *
30758774 AAAACTAATAATAAATTTGAAAGGTCATACCTTT-AAAAT-ATTTAAATATTTTATATTAT
60 AAAA-TAATAATAAATTTGAAAGGTCATACCTTTAAAAATAATTTAAA-A-ATCATA--AT
* * *
30758833 TAAAAAATATATTTAAAATTTTAAAAAAATAATTTCAAAAATATATATTTAAAATTTTAAAAAAT
1 TAAAAAATATATTTAAAATTTTAAAAAAAT-ATTTCAAAAATATAAATTTAAAATATTATAAAAT
30758898 -ATAATA
65 AATAATA
30758904 TAAAACATTT
Statistics
Matches: 154, Mismatches: 18, Indels: 33
0.75 0.09 0.16
Matches are distributed among these distances:
107 3 0.02
108 3 0.02
109 7 0.05
110 10 0.06
117 38 0.25
118 7 0.05
119 55 0.36
121 3 0.02
122 9 0.06
123 8 0.05
124 11 0.07
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.39
Consensus pattern (115 bp):
TAAAAAATATATTTAAAATTTTAAAAAAATATTTCAAAAATATAAATTTAAAATATTATAAAATA
ATAATAAATTTGAAAGGTCATACCTTTAAAAATAATTTAAAAATCATAAT
Found at i:30758884 original size:36 final size:36
Alignment explanation
Indices: 30758834--30758902 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
30758824 TTATATTATT
30758834 AAAAAATATATTTAAAATTTTAAAAAA-ATAATTTC
1 AAAAAATATATTTAAAATTTTAAAAAATATAATTTC
30758869 AAAAATATATATTTAAAATTTTAAAAAATATAAT
1 AAAAA-ATATATTTAAAATTTTAAAAAATATAAT
30758903 ATAAAACATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 5 0.16
36 22 0.69
37 5 0.16
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (36 bp):
AAAAAATATATTTAAAATTTTAAAAAATATAATTTC
Found at i:30758913 original size:24 final size:23
Alignment explanation
Indices: 30758869--30758913 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
30758859 AAATAATTTC
*
30758869 AAAAATATATATTTAAAATTTTA
1 AAAAATATATATTAAAAATTTTA
30758892 AAAAATATA-ATATAAAACATTT
1 AAAAATATATAT-TAAAA-ATTT
30758914 CAAATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 13 0.68
24 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATATATATTAAAAATTTTA
Found at i:30758962 original size:23 final size:23
Alignment explanation
Indices: 30758936--30758981 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30758926 TCAAGTTTTT
* *
30758936 TAAAATCAATAATAAAAAATAAA
1 TAAAATAAATAAGAAAAAATAAA
*
30758959 TAAAATAAATAAGAACAAATAAA
1 TAAAATAAATAAGAAAAAATAAA
30758982 AAACTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAATAAATAAGAAAAAATAAA
Found at i:30758965 original size:9 final size:9
Alignment explanation
Indices: 30758951--30759032 Score: 55
Period size: 9 Copynumber: 9.2 Consensus size: 9
30758941 TCAATAATAA
30758951 AAAATAAAT
1 AAAATAAAT
30758960 AAAATAAAT
1 AAAATAAAT
*
30758969 AAGAACAAAT
1 AA-AATAAAT
*
30758979 AAAA-AACTT
1 AAAATAA-AT
30758988 AAAA-AAAGT
1 AAAATAAA-T
30758997 -AAATAAA-
1 AAAATAAAT
**
30759004 AAAAGGAAT
1 AAAATAAAT
**
30759013 AGGATAAAT
1 AAAATAAAT
30759022 AAAATAAAT
1 AAAATAAAT
30759031 AA
1 AA
30759033 GGATAAATCT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
8 10 0.18
9 38 0.68
10 8 0.14
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:30759937 original size:10 final size:10
Alignment explanation
Indices: 30759922--30759955 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
30759912 TAGGTTCAAA
30759922 ATTTTAATAT
1 ATTTTAATAT
30759932 ATTTTAATAT
1 ATTTTAATAT
*
30759942 ATTTAAATAT
1 ATTTTAATAT
30759952 ATTT
1 ATTT
30759956 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTTTAATAT
Found at i:30759956 original size:10 final size:10
Alignment explanation
Indices: 30759922--30759959 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
30759912 TAGGTTCAAA
*
30759922 ATTTTAATAT
1 ATTTAAATAT
*
30759932 ATTTTAATAT
1 ATTTAAATAT
30759942 ATTTAAATAT
1 ATTTAAATAT
30759952 ATTTAAAT
1 ATTTAAAT
30759960 TTTAAAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTAAATAT
Found at i:30760014 original size:28 final size:28
Alignment explanation
Indices: 30759982--30760038 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
30759972 TATACTCAAC
*
30759982 ATTTTCTTTAACATATTTA-AATTTTAA
1 ATTTTTTTTAACATATTTAGAATTTTAA
** *
30760009 ATTTTTTTTAAGTTTTTTAGAATTTTAA
1 ATTTTTTTTAACATATTTAGAATTTTAA
30760037 AT
1 AT
30760039 ATAGTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (28 bp):
ATTTTTTTTAACATATTTAGAATTTTAA
Found at i:30760091 original size:22 final size:22
Alignment explanation
Indices: 30760066--30760138 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
30760056 TTCTCTTTTC
30760066 ATATTAAAAAAATATATTAAAT
1 ATATTAAAAAAATATATTAAAT
30760088 ATATT---AAAAT-T-TTAAAAT
1 ATATTAAAAAAATATATT-AAAT
* *
30760106 ATATTTTAAAAAACTATATTGAAT
1 ATA--TTAAAAAAATATATTAAAT
30760130 ATATTAAAA
1 ATATTAAAA
30760139 TTTTAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 16
0.69 0.03 0.27
Matches are distributed among these distances:
17 2 0.05
18 8 0.20
19 5 0.12
20 2 0.05
22 11 0.27
23 4 0.10
24 7 0.17
25 2 0.05
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
ATATTAAAAAAATATATTAAAT
Found at i:30760096 original size:20 final size:20
Alignment explanation
Indices: 30760073--30760138 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 20
30760063 TTCATATTAA
30760073 AAAAATATATTAAATATATT
1 AAAAATATATTAAATATATT
30760093 -AAAAT-T-TTAAAATATATTTT
1 AAAAATATATT-AAATATA--TT
*
30760113 AAAAAACTATATTGAATATATT
1 -AAAAA-TATATTAAATATATT
30760135 AAAA
1 AAAA
30760139 TTTTAAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 15
0.70 0.02 0.28
Matches are distributed among these distances:
17 2 0.05
18 8 0.22
19 5 0.14
20 2 0.05
21 4 0.11
22 6 0.16
23 1 0.03
24 7 0.19
25 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATATATTAAATATATT
Found at i:30760204 original size:70 final size:71
Alignment explanation
Indices: 30760109--30760248 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 71
30760099 TTAAAATATA
* * *
30760109 TTTTAAAAAACTATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATAT
1 TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTGATTATACTTAACATTTTTTAATAT
30760174 ATTTAT
66 ATTTAT
* *
30760180 TTTTTAAAAA-TATATTAAATATATTAAAGTTTTAAAATTGATTATACTTAACATTTTTTAATAT
1 TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTGATTATACTTAACATTTTTTAATAT
30760244 ATTTA
66 ATTTA
30760249 AAATTTTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 55 0.86
71 9 0.14
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (71 bp):
TTTTAAAAAACTATATTAAATATATTAAAATTTTAAAATTGATTATACTTAACATTTTTTAATAT
ATTTAT
Found at i:30760274 original size:17 final size:17
Alignment explanation
Indices: 30760234--30760266 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30760224 TACTTAACAT
30760234 TTTTTAATATATTTAAA
1 TTTTTAATATATTTAAA
*
30760251 ATTTTAATATATTTAA
1 TTTTTAATATATTTAA
30760267 TTTGTTAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAATATATTTAAA
Found at i:30760288 original size:70 final size:68
Alignment explanation
Indices: 30760120--30760280 Score: 207
Period size: 70 Copynumber: 2.3 Consensus size: 68
30760110 TTTAAAAAAC
* * * * **
30760120 TATATTGAATATATTAAAATTTTAAAATTGGTTATACTTAATATTTTTTAATATATTTATTTTTT
1 TATATTAAATATATTAAAGTTTTAAAATTGATTATACTTAACATTTTTTAATATATTTAAATTTT
30760185 AAAAA
66 --AAA
30760190 TATATTAAATATATTAAAGTTTTAAAATTGATTATACTTAACATTTTTTAATATATTTAAAATTT
1 TATATTAAATATATTAAAGTTTTAAAATTGATTATACTTAACATTTTTTAATATATTT-AAATTT
30760255 T-AA
65 TAAA
* * *
30760258 TATATTTAATTTGTTAAAGTTTT
1 TATATTAAATATATTAAAGTTTT
30760281 TTAAAATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
68 22 0.27
70 54 0.67
71 5 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (68 bp):
TATATTAAATATATTAAAGTTTTAAAATTGATTATACTTAACATTTTTTAATATATTTAAATTTT
AAA
Found at i:30760403 original size:42 final size:40
Alignment explanation
Indices: 30760322--30760419 Score: 117
Period size: 43 Copynumber: 2.4 Consensus size: 40
30760312 TGTCTTTACC
* *
30760322 TATTAAAAATAT-ATATTAAGTATATTAAAATTTTTAATA
1 TATTAAAAATTTAAAATTAAGTATATTAAAATTTTTAATA
* *
30760361 TATTAAAAATTTAAAATTAATTATACTTAATATTTTTTAATA
1 TATTAAAAATTTAAAATTAAGTATA-TTAA-AATTTTTAATA
*
30760403 TATTTAAAATTTTAAAA
1 TA-TTAAAAATTTAAAA
30760420 AACTTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
39 11 0.22
40 10 0.20
41 4 0.08
42 12 0.24
43 13 0.26
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
TATTAAAAATTTAAAATTAAGTATATTAAAATTTTTAATA
Found at i:30760409 original size:19 final size:20
Alignment explanation
Indices: 30760377--30760415 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
30760367 AAATTTAAAA
*
30760377 TTAATTATACTTAATATTTT
1 TTAATTATACTTAAAATTTT
*
30760397 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
30760416 AAAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTATACTTAAAATTTT
Found at i:30767503 original size:20 final size:20
Alignment explanation
Indices: 30767466--30767504 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30767456 ACAAAAAACA
* **
30767466 TATAATTATTCATTTAATAG
1 TATAACTATTCAAATAATAG
30767486 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
30767505 TTTTTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (20 bp):
TATAACTATTCAAATAATAG
Found at i:30769495 original size:11 final size:11
Alignment explanation
Indices: 30769479--30769503 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30769469 AATATTTTCT
30769479 AATAAATTAAA
1 AATAAATTAAA
30769490 AATAAATTAAA
1 AATAAATTAAA
30769501 AAT
1 AAT
30769504 CTTTATACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAAATTAAA
Found at i:30771774 original size:3 final size:3
Alignment explanation
Indices: 30771761--30771808 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
30771751 TTGTATTTAC
30771761 TTA TCTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30771807 TT
1 TT
30771809 TTACATTCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30772798 original size:20 final size:20
Alignment explanation
Indices: 30772775--30772813 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
30772765 GGAAAATATT
30772775 TTATA-AAATTGAAATTACAC
1 TTATATAAATT-AAATTACAC
*
30772795 TTATATATATTAAATTACA
1 TTATATAAATTAAATTACA
30772814 ATTTCACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (20 bp):
TTATATAAATTAAATTACAC
Found at i:30773755 original size:8 final size:8
Alignment explanation
Indices: 30773742--30773774 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
30773732 TTCAAGGACT
30773742 AAAATAAA
1 AAAATAAA
30773750 AAAATAAA
1 AAAATAAA
30773758 AAAATAAA
1 AAAATAAA
30773766 AAAATAAA
1 AAAATAAA
30773774 A
1 A
30773775 TATATGGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:30775337 original size:20 final size:19
Alignment explanation
Indices: 30775307--30775350 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
30775297 AACTGAGTTG
*
30775307 TTTTTTATTTTTATTTTAA
1 TTTTTTATTTTTAATTTAA
*
30775326 TATTTTTGTTTTTAATTTAA
1 T-TTTTTATTTTTAATTTAA
30775346 TTTTT
1 TTTTT
30775351 AAATTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTAATTTAA
Found at i:30785845 original size:21 final size:21
Alignment explanation
Indices: 30785820--30785859 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30785810 TGTTCAACCA
30785820 ATTCAAAACACAT-TCAAATTC
1 ATTCAAAACA-ATGTCAAATTC
30785841 ATTCAAAACAATGTCAAAT
1 ATTCAAAACAATGTCAAAT
30785860 AAACAACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.28
Consensus pattern (21 bp):
ATTCAAAACAATGTCAAATTC
Found at i:30785962 original size:17 final size:18
Alignment explanation
Indices: 30785937--30785970 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30785927 AATAATTTCA
30785937 TTCAAACCAA-ATCAACT
1 TTCAAACCAATATCAACT
*
30785954 TTCATACCAATATCAAC
1 TTCAAACCAATATCAAC
30785971 CCAAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
TTCAAACCAATATCAACT
Found at i:30786055 original size:2 final size:2
Alignment explanation
Indices: 30786048--30786082 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
30786038 ATACATAAAC
*
30786048 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30786083 AAAGTAGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30787717 original size:8 final size:8
Alignment explanation
Indices: 30787704--30787735 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
30787694 GTATAATAAC
30787704 AATAATAT
1 AATAATAT
30787712 AATAATAT
1 AATAATAT
30787720 AATAATAT
1 AATAATAT
30787728 AATAATAT
1 AATAATAT
30787736 TTTATATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATAATAT
Found at i:30788853 original size:72 final size:72
Alignment explanation
Indices: 30788732--30788879 Score: 287
Period size: 72 Copynumber: 2.1 Consensus size: 72
30788722 TTCTGCTCAG
*
30788732 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGTATGATTATCTATACATTATC
1 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
30788797 CTAGGAC
66 CTAGGAC
30788804 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
1 ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
30788869 CTAGGAC
66 CTAGGAC
30788876 ATTG
1 ATTG
30788880 TCAGTGAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.48
Consensus pattern (72 bp):
ATTGCTTGTATTCTTTATTGTCATTTTAGTTTAAATTTCCAATGCATGATTATCTATACATTATC
CTAGGAC
Found at i:30797104 original size:48 final size:48
Alignment explanation
Indices: 30796966--30797645 Score: 1066
Period size: 48 Copynumber: 14.3 Consensus size: 48
30796956 TGTACAAGAT
*
30796966 AAATAAGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797014 AAATATGTATGAGA-ATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATAAGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797063 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30797111 AAAT-A-TATGAGATATGTATATGTGG-AAAGCCGAATGGCT-ATGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30797155 AAATATA-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATA-AGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797203 AAATATGTATGAGA-ATGTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATAAGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTG
30797252 AAAT-AGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797299 AAAT-A-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30797345 AAATATA-TATGAG-TATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATA-AGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
30797392 AAATATGTATGAGA-ATTATATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATAAGTATGAGATA-TGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797440 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-ATGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
30797487 AAATATA-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATA-AGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
30797535 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
30797583 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
30797631 AAATATGTAGGAGAT
1 AAATAAGTATGAGAT
30797646 GTGTGTATAT
Statistics
Matches: 596, Mismatches: 16, Indels: 40
0.91 0.02 0.06
Matches are distributed among these distances:
44 8 0.01
45 14 0.02
46 85 0.14
47 146 0.24
48 260 0.44
49 80 0.13
50 3 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
AAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:30797331 original size:189 final size:190
Alignment explanation
Indices: 30796973--30797645 Score: 1198
Period size: 189 Copynumber: 3.6 Consensus size: 190
30796963 GATAAATAAG
*
30796973 TATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
*
30797038 GTGGTAAAGCCGAATGGCTAATGTGAAATAAGTATGAGATATGTATATGTGGTAAAGCCGAATGG
66 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
*
30797103 CTACTGTGAAATATATGAGATATGTATATGTGG-AAAGCCGAATGGCTATGTGAAATATA
131 CTAATGTGAAATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGTGAAATATA
30797162 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
30797227 GTGGTAAAGCCGAATGGCTAATGTGAAATA-GTATGAGATATGTATATGTGGTAAAGCCGAATGG
66 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
30797291 CTAATGTGAAATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATA
131 CTAATGTGAAATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTA-TGTGAAATATA
30797352 TATGAG-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAT-TATATAT
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
30797415 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
66 GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
*
30797480 CT-ATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
131 CTAATGTG-AA-ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATA
30797542 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG--TATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATGTATATA
* *
30797605 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
65 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
30797646 GTGTGTATAT
Statistics
Matches: 470, Mismatches: 5, Indels: 16
0.96 0.01 0.03
Matches are distributed among these distances:
188 108 0.23
189 197 0.42
190 71 0.15
191 92 0.20
192 2 0.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (190 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAATGTATATAT
GTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG
CTAATGTGAAATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTATGTGAAATATA
Found at i:30797508 original size:143 final size:142
Alignment explanation
Indices: 30796966--30797645 Score: 1110
Period size: 143 Copynumber: 4.8 Consensus size: 142
30796956 TGTACAAGAT
*
30796966 AAATAAGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGA-AT
1 AAAT-AGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
30797030 GTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATA-AGTATGAGATATGTATATGTGGTAAA
65 G--TATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATA-TATGAGATATGTATATGTGGTAAA
*
30797094 GCCGAATGGCTACTGTG
126 GCCGAATGGCTAATGTG
*
30797111 AAATA-TATGAGATATGTATATGTGG-AAAGCCGAATGGCT-ATGTGAAATATATATGAGATATG
1 AAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
30797173 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA-ATGTATATATGTGGTAAAGC
66 TATATGTGGTAAAGCCGAATGGCT-ATGTGAAATATATATGAGATATG--TATATGTGGTAAAGC
30797237 CGAATGGCTAATGTG
128 CGAATGGCTAATGTG
30797252 AAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA--TATGAGATATG
1 AAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
30797315 TATATGTGGTAAAGCCGAATGGCTACTGTGAAATATATATGAG-TATGTATATGTGGTAAAGCCG
66 TATATGTGGTAAAGCCGAATGGCTA-TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
30797379 AATGGCTAATGTG
130 AATGGCTAATGTG
*
30797392 AAATATGTATGAGA-ATTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
1 AAATA-GTATGAGATA-TGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATA
30797456 TGTATATGTGGTAAAGCCGAATGGCTATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
64 TGTATATGTGGTAAAGCCGAATGGCTATGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
30797521 GAATGGCTAATGTG
129 GAATGGCTAATGTG
30797535 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
1 AAATA-GTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT
* *
30797600 GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
65 GTATATGTGGTAAAGCCGAATGGCTA-TGTGAAATATATATGAGAT
30797646 GTGTGTATAT
Statistics
Matches: 510, Mismatches: 9, Indels: 33
0.92 0.02 0.06
Matches are distributed among these distances:
139 3 0.01
140 78 0.15
141 97 0.19
142 107 0.21
143 192 0.38
144 29 0.06
145 4 0.01
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (142 bp):
AAATAGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
TATATGTGGTAAAGCCGAATGGCTATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTG
Found at i:30803681 original size:45 final size:45
Alignment explanation
Indices: 30803581--30803717 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 45
30803571 TGGACTTTTC
* * *
30803581 TCAAATCACCGGCATT-TCGTCTGTTAGGCTCG-AGGCCCG-ATA
1 TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
*
30803623 TCAATTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
1 TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
* * * *
30803668 -GAATCTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATAA
1 TCAAT-TCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAAT-A
30803714 TCAA
1 TCAA
30803718 GTCAACAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
42 15 0.19
43 13 0.16
44 10 0.13
45 38 0.48
46 1 0.01
47 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TCAATTCACCGGCATTATAGTCTGCTAGGCTCGAAGGCCCGAATA
Found at i:30804090 original size:43 final size:43
Alignment explanation
Indices: 30804029--30804260 Score: 337
Period size: 43 Copynumber: 5.4 Consensus size: 43
30804019 ACATATCATT
* * *
30804029 TCACCGGCATTACGCCTGCTAGGCACGAAGGCTCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
30804072 TCACCGACA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
30804115 TCACCGGTA-TGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACT-AAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
30804158 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCTGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
30804201 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
30804243 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
30804261 GGGATTTATC
Statistics
Matches: 176, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
41 15 0.09
42 3 0.02
43 157 0.89
44 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:30806485 original size:27 final size:28
Alignment explanation
Indices: 30806455--30806524 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
30806445 ATAATAAGTC
*
30806455 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
30806482 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
30806510 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30806525 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30814561 original size:27 final size:28
Alignment explanation
Indices: 30814531--30814600 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
30814521 ATAATAAGTC
*
30814531 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
30814558 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
30814586 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30814601 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30821241 original size:21 final size:21
Alignment explanation
Indices: 30821215--30821258 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30821205 TTATGGTATA
30821215 TTTTGAATGGCTTGGAAATGG
1 TTTTGAATGGCTTGGAAATGG
30821236 TTTTGAATGGCTTGGAAATGG
1 TTTTGAATGGCTTGGAAATGG
30821257 TT
1 TT
30821259 AAATATGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.05, G:0.32, T:0.41
Consensus pattern (21 bp):
TTTTGAATGGCTTGGAAATGG
Found at i:30821266 original size:21 final size:21
Alignment explanation
Indices: 30821220--30821266 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
30821210 GTATATTTTG
**
30821220 AATGGCTTGGAAATGGTTTTG
1 AATGGCTTGGAAATGGTTTAA
30821241 AATGGCTTGGAAATGG-TTAA
1 AATGGCTTGGAAATGGTTTAA
30821261 ATATGG
1 A-ATGG
30821267 TATGTTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.34
Consensus pattern (21 bp):
AATGGCTTGGAAATGGTTTAA
Found at i:30823490 original size:40 final size:40
Alignment explanation
Indices: 30823445--30823607 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 40
30823435 CGGAATTTAG
* * *
30823445 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* *** * *
30823485 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
30823525 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTT-AG
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
30823564 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAAC
30823604 CCGG
1 CCGG
30823608 GTATCATTCA
Statistics
Matches: 98, Mismatches: 23, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
39 31 0.32
40 67 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:30823591 original size:79 final size:80
Alignment explanation
Indices: 30823432--30823607 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 80
30823422 AACCGAGTTT
* * * * **
30823432 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
*
30823496 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* ** *
30823511 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTT-AGCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAA
* *
30823574 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
30823590 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
30823608 GTATCATTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 48 0.59
80 31 0.38
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:30828594 original size:93 final size:93
Alignment explanation
Indices: 30828482--30828653 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30828472 GCCCATAAGT
* *
30828482 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30828547 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30828575 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30828640 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
30828654 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30828649 original size:46 final size:46
Alignment explanation
Indices: 30828474--30828649 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30828464 TGTAACCCGC
* * *
30828474 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30828520 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30828570 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
30828613 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30828650 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30831055 original size:30 final size:30
Alignment explanation
Indices: 30831011--30831099 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30831001 CAAAGATAAC
30831011 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
30831040 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
30831070 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
30831100 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:30831059 original size:15 final size:15
Alignment explanation
Indices: 30831011--30831090 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30831001 CAAAGATAAC
*
30831011 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30831025 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30831040 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30831055 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30831070 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30831085 AAGAAA
1 AAGAAA
30831091 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30831099 original size:15 final size:15
Alignment explanation
Indices: 30831022--30831099 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30831012 AGAAAACCGA
30831022 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30831037 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30831051 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30831066 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30831082 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30831097 ATA
1 ATA
30831100 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30834158 original size:93 final size:93
Alignment explanation
Indices: 30834046--30834216 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
30834036 GCCCATAAGT
* *
30834046 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30834111 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30834139 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30834204 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30834217 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30834232 original size:46 final size:46
Alignment explanation
Indices: 30834038--30834218 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
30834028 TGTAACCCGC
* * *
30834038 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30834084 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30834134 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
30834177 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
30834219 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30837573 original size:31 final size:31
Alignment explanation
Indices: 30837535--30837613 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
30837525 TTTAACGGTT
30837535 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
30837566 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTAGGCCGAAGCCTTTTCATAAATCATATC
* *
30837597 ATTGGGCCGAAGCCTTT
1 ACTAGGCCGAAGCCTTT
30837614 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTAGGCCGAAGCCTTTTCATAAATCATATC
Found at i:30837684 original size:42 final size:42
Alignment explanation
Indices: 30837637--30837728 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
30837627 TGGCCCTTAG
* ** *
30837637 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGAAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
*
30837679 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
30837721 GCCCATTT
1 GCCCATTT
30837729 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGAAA
Found at i:30837901 original size:25 final size:26
Alignment explanation
Indices: 30837873--30838020 Score: 230
Period size: 25 Copynumber: 5.8 Consensus size: 26
30837863 CCTCTTTAAT
30837873 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30837898 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
30837923 AACTGGGGCA-AAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30837948 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
30837974 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
30838000 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
30838021 GCACTTCCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
25 57 0.50
26 57 0.50
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30838012 original size:52 final size:51
Alignment explanation
Indices: 30837873--30838020 Score: 253
Period size: 52 Copynumber: 2.9 Consensus size: 51
30837863 CCTCTTTAAT
**
30837873 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
30837923 AACTGGGGCAAAACCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
30837974 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
30838021 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
50 32 0.35
51 25 0.27
52 35 0.38
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:30838857 original size:27 final size:27
Alignment explanation
Indices: 30838822--30838901 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
30838812 GGGCATATTC
* * *
30838822 GTCATTTTACCATACTGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
30838849 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
30838876 GTCACTTTACCCTACAGGGGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
30838902 AGTCTTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:30838997 original size:27 final size:27
Alignment explanation
Indices: 30838944--30839444 Score: 173
Period size: 27 Copynumber: 18.7 Consensus size: 27
30838934 TTTCATCCTA
* * * * * *
30838944 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
30838971 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
30838998 CAATGGTATTTCCA-TAATTTT-TAGA-
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* *
30839023 -AA--GTAATTTTTGTAACTTTATAAAT
1 CAAGGGTA-TTTTAGTAATTTTATAAAT
* * *
30839048 CAGGGGTATTTTGGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
30839075 CAAGGGTATTTCAGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
30839101 CCAGTGGCATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
* * * *
30839128 CTAGGAATATTTTGGTAATTTTACAAAT
1 CAAGG-GTATTTTAGTAATTTTATAAAT
** ** * *
30839156 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
30839183 CAGGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
30839209 CTAGGGTATTTTCA-TAATTTTACT-GAT
1 CAAGGGTATTTT-AGTAATTTTA-TAAAT
* * * *
30839236 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
30839263 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** * *
30839290 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
**** *
30839317 CAAGGGTAAAACA-TCAATTCTATAAAT
1 CAAGGGTATTTTAGT-AATTTTATAAAT
* *** *
30839344 CGAGGGTAAAATGGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *** *
30839371 CGAGGGTA-AAAAGGTAATTCTATAAAT
1 CAAGGGTATTTTA-GTAATTTTATAAAT
* * * * *
30839398 CGAGGGTACTTTGGTAATTTTACAATT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** *
30839425 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTTAGTAATTT
30839445 GGTAAGCTAA
Statistics
Matches: 375, Mismatches: 79, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.01
23 9 0.02
24 5 0.01
26 31 0.08
27 318 0.85
28 9 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:30839117 original size:54 final size:53
Alignment explanation
Indices: 30839028--30839297 Score: 202
Period size: 54 Copynumber: 5.0 Consensus size: 53
30839018 TTAGAAAGTA
* * * * *
30839028 ATTTTTGTAACTTTATAAATCAGGGGTATTTTGGTAATTTTGTAAATCAAGGGT
1 ATTTTAGTAATTTTACAAACCA-GGGTATTTTGGTAATTTTATAAATCAAGGGT
* * * * *
30839082 ATTTCAGTAATTTTACAAACCAGTGGCATTTTGGTAATTTTACAAA-CTAGGAAT
1 ATTTTAGTAATTTTACAAACCAG-GGTATTTTGGTAATTTTATAAATCAAGG-GT
* ** * * * *
30839136 ATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGT
1 ATTTTAGTAATTTTACAAA-CCAGGGTATTTTGGTAATTTTATAAATCAAGGGT
* * * ** * *
30839190 ATTTTAGCAATTTTACAGACTAGGGTATTTTCATAATTTTACT-GATCGAGGGT
1 ATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAATTTTA-TAAATCAAGGGT
* ** * * *
30839243 ATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGT
1 ATTTTAGTAATTTTACAAACC-AGGGTATTTTGGTAATTTTATAAATCAAGGGT
30839297 A
1 A
30839298 AAACAGTAAT
Statistics
Matches: 167, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
53 44 0.26
54 118 0.71
55 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (53 bp):
ATTTTAGTAATTTTACAAACCAGGGTATTTTGGTAATTTTATAAATCAAGGGT
Found at i:30839162 original size:81 final size:79
Alignment explanation
Indices: 30839054--30839283 Score: 271
Period size: 81 Copynumber: 2.9 Consensus size: 79
30839044 AAATCAGGGG
** * * * *
30839054 TATTTTGGTAATTTTGTAAATCAAGGGTATTTCAGTAATTTTACAAACCAGTGGCATTTTGGTAA
1 TATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTTAGTAA
30839119 TTTTACAAACTAGGAA
65 TTTTACAAACTAGG-A
* *
30839135 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAGCAA
1 TATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTTAGTAA
* *
30839200 TTTTACAGACTAGGG
65 TTTTACAAACTAGGA
** ** * **
30839215 TATTTTCATAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAA
1 TATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTTAGTAA
30839280 TTTT
65 TTTT
30839284 GTAAATCGAG
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
80 58 0.45
81 69 0.54
82 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (79 bp):
TATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTAGTAAT
TTTACAAACTAGGA
Found at i:30842344 original size:30 final size:30
Alignment explanation
Indices: 30842310--30842383 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
30842300 CATGGGTTGT
** *
30842310 CACATGGTTGCGTGCCACACACGGCCACAC
1 CACATGGTCACGTGACACACACGGCCACAC
* *
30842340 CACATGGTCATGTGACACACATGGCCACAC
1 CACATGGTCACGTGACACACACGGCCACAC
* *
30842370 CATATGGCCACGTG
1 CACATGGTCACGTG
30842384 TCCTTTAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.35, G:0.23, T:0.16
Consensus pattern (30 bp):
CACATGGTCACGTGACACACACGGCCACAC
Found at i:30852760 original size:2 final size:2
Alignment explanation
Indices: 30852753--30852783 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
30852743 TAATTTCAAC
30852753 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30852784 CAAATTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30855322 original size:150 final size:149
Alignment explanation
Indices: 30855050--30855504 Score: 716
Period size: 150 Copynumber: 3.0 Consensus size: 149
30855040 ATTATCTCTC
* * *
30855050 TTTACCATAGATAAAATAAGCACCCAAAATACTAATATGTCCTTTTACATTGAGTCCATTCGCAT
1 TTTACCATAGATAAAATAAGCACCCTAAATACTAATATGTCCTTTTACGTTGAGTCGATTCGCAT
* *
30855115 GGCT-ATCAAGGCACCTTATTATGATCTATTTTTGATATATATCCTTTTCCCCCTCTTCATGGCA
66 GGCTGA-CAAGCCACCTTATTATGATCTCTTTTTGATATATATCCTTTT-CCCCTCTTCATGGCA
*
30855179 GATAAAAAGACCTTTACGAGA
129 GACAAAAAGACCTTTACGAGA
* *
30855200 TTTACCATAGATAAAATAAGCACCCTAAATACCAATATGTCCTTTTACGTTGAGTTGATTCGCAT
1 TTTACCATAGATAAAATAAGCACCCTAAATACTAATATGTCCTTTTACGTTGAGTCGATTCGCAT
* * *
30855265 GACTGACAAGCCACCTTATTATGATCTCTTTTTGATATGTATCCTTTTCCCCTTCTTCATGGAAG
66 GGCTGACAAGCCACCTTATTATGATCTCTTTTTGATATATATCCTTTTCCCC-TCTTCATGGCAG
*
30855330 ACAAAAAGACCTTTAGGAGA
130 ACAAAAAGACCTTTACGAGA
* * *
30855350 TTTACCATAGATAAAATAAGTACCCTAAGTACTAATATGTCCTTTTATGTTGAGTCGATTCGCAT
1 TTTACCATAGATAAAATAAGCACCCTAAATACTAATATGTCCTTTTACGTTGAGTCGATTCGCAT
30855415 GGCTGACAAGCCACCTTATTATGATCTCTTTTTGATATATATCC-TTTCCTCCTCTTCATGGCAG
66 GGCTGACAAGCCACCTTATTATGATCTCTTTTTGATATATATCCTTTTCC-CCTCTTCATGGCAG
*
30855479 ACCAAAAGACCTTTACGAGA
130 ACAAAAAGACCTTTACGAGA
30855499 TTTACC
1 TTTACC
30855505 GTTGGGCATA
Statistics
Matches: 280, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
149 44 0.16
150 235 0.84
151 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (149 bp):
TTTACCATAGATAAAATAAGCACCCTAAATACTAATATGTCCTTTTACGTTGAGTCGATTCGCAT
GGCTGACAAGCCACCTTATTATGATCTCTTTTTGATATATATCCTTTTCCCCTCTTCATGGCAGA
CAAAAAGACCTTTACGAGA
Found at i:30860613 original size:26 final size:26
Alignment explanation
Indices: 30860584--30860641 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
30860574 ATATTATTTT
30860584 TATAAAAAATAAATTTAAAAATA-TAA
1 TATAAAAAATAAA-TTAAAAATACTAA
** *
30860610 TATATCAAATACATTAAAAATACTAA
1 TATAAAAAATAAATTAAAAATACTAA
*
30860636 AATAAA
1 TATAAA
30860642 CATTTCCAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (26 bp):
TATAAAAAATAAATTAAAAATACTAA
Found at i:30861484 original size:16 final size:16
Alignment explanation
Indices: 30861465--30861498 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30861455 AAATTAAAAA
30861465 TATATTAAAAAAATAT
1 TATATTAAAAAAATAT
* *
30861481 TATATTTAAATAATAT
1 TATATTAAAAAAATAT
30861497 TA
1 TA
30861499 AAATAGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATTAAAAAAATAT
Found at i:30861965 original size:13 final size:13
Alignment explanation
Indices: 30861927--30861968 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
30861917 CTAGTTTGGC
30861927 AATGCTTTTGAAA
1 AATGCTTTTGAAA
* * *
30861940 AGTGCTGTGGAAA
1 AATGCTTTTGAAA
30861953 AATGCTTTTGAAA
1 AATGCTTTTGAAA
30861966 AAT
1 AAT
30861969 TTGGTTTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (13 bp):
AATGCTTTTGAAA
Found at i:30863842 original size:30 final size:30
Alignment explanation
Indices: 30863802--30863862 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
30863792 TGGCAACTCC
30863802 CAAACTTCTCCCTAAATTTCTCAAAGCTCT
1 CAAACTTCTCCCTAAATTTCTCAAAGCTCT
* *
30863832 CAAATTTCTCCTTAAATTTCTCAAAGCTCT
1 CAAACTTCTCCCTAAATTTCTCAAAGCTCT
30863862 C
1 C
30863863 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.31, G:0.03, T:0.36
Consensus pattern (30 bp):
CAAACTTCTCCCTAAATTTCTCAAAGCTCT
Found at i:30865661 original size:18 final size:18
Alignment explanation
Indices: 30865620--30865654 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30865610 GCCAAGTGCG
*
30865620 TATCCTAACTCTTATATA
1 TATCCTAACCCTTATATA
30865638 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
30865655 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:30866108 original size:24 final size:22
Alignment explanation
Indices: 30866092--30866136 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 22
30866082 ATAAATGTTG
30866092 TTTTTAATATTTTAATAGTAAATTA
1 TTTTT-ATATTTTAATA--AAATTA
30866117 TTTTTATATTTTAATAAAAT
1 TTTTTATATTTTAATAAAAT
30866137 AGAAGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTATATTTTAATAAAATTA
Found at i:30869454 original size:126 final size:126
Alignment explanation
Indices: 30869194--30869587 Score: 539
Period size: 126 Copynumber: 3.1 Consensus size: 126
30869184 GACAAATATG
* * * *
30869194 AACTACTGTAGAAAAAGAGCATCAACGTAGGAGTTTTTGTCA-TCAATTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGTTTTTTTCAGT-AATTTTGCTGACAGTGCATC
* * * *
30869258 CTGCTTAAAGCG-TTTTGACAC-ATTTGTTTAG-AACTGTCTTCTCAAAATTATTTTTTCATG-
65 CTGCTTGAAGTGTTTTTAACACTATTTGTTCAGAAAC-GTCTTCTCAAAATTATTTTTTCA-GA
* *
30869318 AACTACTGTAGAAAAAAAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGTTGACAGTGCATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCC
30869383 TGCTTGAAGTGTTTTTAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGTGTTTTTAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGA
* * * * *
30869444 AACTACTGTAGAAAAAAAACGTTCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAATGTATCC
1 AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
30869509 TACTTGAAGTGTTTTTAACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCA-A
66 TGCTTGAAGTGTTTTTAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGA
*
30869569 GAACTACTGTGGAAAAAAA
1 -AACTACTGTAGAAAAAAA
30869588 AACAAAATCA
Statistics
Matches: 243, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
124 66 0.27
125 11 0.05
126 163 0.67
127 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (126 bp):
AACTACTGTAGAAAAAAAGCGTCCACGTAGGAGTTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGTGTTTTTAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGA
Found at i:30869690 original size:34 final size:33
Alignment explanation
Indices: 30869652--30869758 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 33
30869642 TTATTTTTAA
*
30869652 AAAAAAACTAAACCTTAATTTAATTAATTTTCTT
1 AAAAAAACTAAACCCTAATTTAATTAATTTT-TT
* * *
30869686 AAAAATATTAAACCCTAATTTAATTTATTTATTT
1 AAAAAAACTAAACCCTAATTTAATTAATTT-TTT
* ***
30869720 TAAACCCCTAAACCCTAATTTAATTAA--TTTT
1 AAAAAAACTAAACCCTAATTTAATTAATTTTTT
30869751 AAAAAAAC
1 AAAAAAAC
30869759 ATTAAATCGT
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
31 7 0.12
32 1 0.02
34 49 0.84
35 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAAAACTAAACCCTAATTTAATTAATTTTTT
Found at i:30869884 original size:42 final size:42
Alignment explanation
Indices: 30869802--30869880 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
30869792 AACCCAGAAC
** *
30869802 CCTAAATTATTTTAACAAAATTCTAAACCCTACAAACCTAAG
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
*
30869844 CCTAAATTATTTTAACAAAACCCT-AACCTTAAAAACC
1 CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACC
30869881 CTAAAAACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 11 0.33
42 22 0.67
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (42 bp):
CCTAAATTATTTTAACAAAACCCTAAACCCTAAAAACCTAAG
Found at i:30870639 original size:16 final size:15
Alignment explanation
Indices: 30870618--30870654 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
30870608 CAAAATTTTT
*
30870618 AAAAAATTAAAACTAA
1 AAAAAACTAAAAC-AA
30870634 AAAAAACTAAAACAA
1 AAAAAACTAAAACAA
30870649 AAAAAA
1 AAAAAA
30870655 GAGAATAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAAACTAAAACAA
Found at i:30874758 original size:45 final size:45
Alignment explanation
Indices: 30874709--30874797 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
30874699 GTTCACATGT
* * *
30874709 AGGGTTCGCACATTTAGTGTTCACACATGTAAGGTTCGCACATAC
1 AGGGTTCGCACATATAGGGTTCACACATGCAAGGTTCGCACATAC
* * **
30874754 AGGGTTTGCATATATAGGGTTCGTACATGCAAGGTTCGCACATA
1 AGGGTTCGCACATATAGGGTTCACACATGCAAGGTTCGCACATA
30874798 TTTGGTTCTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (45 bp):
AGGGTTCGCACATATAGGGTTCACACATGCAAGGTTCGCACATAC
Found at i:30874759 original size:15 final size:15
Alignment explanation
Indices: 30874702--30874798 Score: 77
Period size: 15 Copynumber: 6.5 Consensus size: 15
30874692 ATAACAGGTT
*
30874702 CACATGTAGGGTTCG
1 CACATATAGGGTTCG
* * *
30874717 CACATTTAGTGTTCA
1 CACATATAGGGTTCG
* *
30874732 CACATGTAAGGTTCG
1 CACATATAGGGTTCG
* *
30874747 CACATACAGGGTTTG
1 CACATATAGGGTTCG
*
30874762 CATATATAGGGTTCG
1 CACATATAGGGTTCG
* ** *
30874777 TACATGCAAGGTTCG
1 CACATATAGGGTTCG
30874792 CACATAT
1 CACATAT
30874799 TTGGTTCTCA
Statistics
Matches: 60, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 60 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (15 bp):
CACATATAGGGTTCG
Found at i:30874944 original size:27 final size:26
Alignment explanation
Indices: 30874906--30874972 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
30874896 TACAAAGGAG
*
30874906 GTTCGCATACATGGGTTTGCATGGATT
1 GTTCGCATACATGGGTTTGCAT-GAGT
30874933 GTTCGCATACATGGGGTTTGCATGAGT
1 GTTCGCATACAT-GGGTTTGCATGAGT
*
30874960 GTTCGCGTACATG
1 GTTCGCATACATG
30874973 TACTAACAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.03
27 26 0.70
28 10 0.27
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.34
Consensus pattern (26 bp):
GTTCGCATACATGGGTTTGCATGAGT
Found at i:30877489 original size:41 final size:43
Alignment explanation
Indices: 30877388--30877504 Score: 132
Period size: 41 Copynumber: 2.8 Consensus size: 43
30877378 AGCATATGCA
* *
30877388 ATGCCGATGTCCAAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCGATGTCCAAGACATGGTCTTACACGTAATCAAACATCG
* ** * *
30877431 ATGCC-ACTGTCCTAGACAAAGTCTTACACG-AATCAGATA-CG
1 ATGCCGA-TGTCCAAGACATGGTCTTACACGTAATCAAACATCG
*
30877472 ATGCCGATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCGATGTCCAAGACATGGTCTTACACGTAA
30877505 AACAGAAGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 27 0.44
42 11 0.18
43 23 0.38
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCGATGTCCAAGACATGGTCTTACACGTAATCAAACATCG
Found at i:30878828 original size:26 final size:26
Alignment explanation
Indices: 30878799--30878861 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
30878789 TGACACAGGC
* * *
30878799 GTGTGTCAGGCTTGTGGGACATACGG
1 GTGTGCCAGGCTTGTGAGACATACAG
*
30878825 GTGTGCCAGGTTTGTGAGACATACAG
1 GTGTGCCAGGCTTGTGAGACATACAG
30878851 GTGTGCCAGGC
1 GTGTGCCAGGC
30878862 CGTGTGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.40, T:0.25
Consensus pattern (26 bp):
GTGTGCCAGGCTTGTGAGACATACAG
Found at i:30883760 original size:23 final size:23
Alignment explanation
Indices: 30883734--30883778 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30883724 TAGAAATGTG
*
30883734 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
30883757 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
30883779 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:30884811 original size:20 final size:20
Alignment explanation
Indices: 30884786--30884831 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
30884776 TATAGAATTC
*
30884786 TAATAATTTAATTATTTTTT
1 TAATAATTTAATAATTTTTT
*
30884806 TAATAATTTTATAATTTTTT
1 TAATAATTTAATAATTTTTT
30884826 T-ATAAT
1 TAATAAT
30884832 ATTATGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TAATAATTTAATAATTTTTT
Found at i:30885386 original size:9 final size:9
Alignment explanation
Indices: 30885359--30885453 Score: 50
Period size: 9 Copynumber: 10.2 Consensus size: 9
30885349 TGCATTCTAG
30885359 AATTATAAA
1 AATTATAAA
*
30885368 AA-CATAAAA
1 AATTAT-AAA
30885377 AATTATAAA
1 AATTATAAA
** *
30885386 AAAAATTAA
1 AATTATAAA
30885395 AATT-TATAA
1 AATTATA-AA
*
30885404 AATTATTAGA
1 AATTA-TAAA
*
30885414 AATTCATTAA
1 AATT-ATAAA
*
30885424 AATCATAAA
1 AATTATAAA
*
30885433 ATTTTATAAA
1 A-ATTATAAA
*
30885443 ATTTATAAA
1 AATTATAAA
30885452 AA
1 AA
30885454 ATAATTTTTT
Statistics
Matches: 63, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
8 3 0.05
9 38 0.60
10 19 0.30
11 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
AATTATAAA
Found at i:30885396 original size:19 final size:19
Alignment explanation
Indices: 30885359--30885405 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
30885349 TGCATTCTAG
*
30885359 AATTAT-AAAAACATAAAA
1 AATTATAAAAAAAATAAAA
*
30885377 AATTATAAAAAAAATTAAA
1 AATTATAAAAAAAATAAAA
*
30885396 ATTTATAAAA
1 AATTATAAAA
30885406 TTATTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AATTATAAAAAAAATAAAA
Found at i:30885441 original size:10 final size:9
Alignment explanation
Indices: 30885392--30885452 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
30885382 TAAAAAAAAT
30885392 TAAAATTTA
1 TAAAATTTA
30885401 TAAAA-TTA
1 TAAAATTTA
*
30885409 TTAGAAATTCA
1 -TA-AAATTTA
*
30885420 TTAAAA-TCA
1 -TAAAATTTA
30885429 TAAAATTTTA
1 TAAAA-TTTA
30885439 TAAAATTTA
1 TAAAATTTA
30885448 TAAAA
1 TAAAA
30885453 AATAATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 8 0.18
9 19 0.42
10 13 0.29
11 5 0.11
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (9 bp):
TAAAATTTA
Found at i:30885453 original size:28 final size:28
Alignment explanation
Indices: 30885400--30885453 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
30885390 ATTAAAATTT
* *
30885400 ATAAAATTATTAGAAATTCATTAAAATC
1 ATAAAATTATTAAAAATTCATAAAAATC
*
30885428 ATAAAATT-TTATAAAATTTATAAAAA
1 ATAAAATTATTA-AAAATTCATAAAAA
30885454 ATAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 3 0.14
28 19 0.86
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (28 bp):
ATAAAATTATTAAAAATTCATAAAAATC
Found at i:30885737 original size:38 final size:38
Alignment explanation
Indices: 30885662--30885744 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 38
30885652 ATTTTTTCTT
* * * *
30885662 TTTTTTTGTTTTTAATAATTTTTATACATTTTATAAAA
1 TTTTATTGTTTTTAATAATTTCTAAAAATTTTATAAAA
* *
30885700 TTTTATTGTTTTTATTAATTTCTAGAAAATTTTTAAAAAA
1 TTTTATTGTTTTTAATAATTTCTA-AAAA-TTTTATAAAA
30885740 TTTTA
1 TTTTA
30885745 GTACATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
38 21 0.57
39 2 0.05
40 14 0.38
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (38 bp):
TTTTATTGTTTTTAATAATTTCTAAAAATTTTATAAAA
Found at i:30885774 original size:21 final size:21
Alignment explanation
Indices: 30885750--30885792 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30885740 TTTTAGTACA
30885750 TTTTAATGATTTTTTAATAATT
1 TTTTAAT-ATTTTTTAATAATT
* *
30885772 TTTTTATATTTTTTTATAATT
1 TTTTAATATTTTTTAATAATT
30885793 CTAGAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATATTTTTTAATAATT
Found at i:30885786 original size:11 final size:11
Alignment explanation
Indices: 30885750--30885792 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
30885740 TTTTAGTACA
*
30885750 TTTTAATGATT
1 TTTTAATAATT
30885761 TTTTAATAATT
1 TTTTAATAATT
*
30885772 TTTTTAT-ATT
1 TTTTAATAATT
*
30885782 TTTTTATAATT
1 TTTTAATAATT
30885793 CTAGAATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 19 0.66
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (11 bp):
TTTTAATAATT
Found at i:30885918 original size:15 final size:17
Alignment explanation
Indices: 30885889--30885920 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
30885879 AATAAATTTA
30885889 AAATATTTTACTTTTTG
1 AAATATTTTACTTTTTG
30885906 AAAT-TTTTA-TTTTTG
1 AAATATTTTACTTTTTG
30885921 CTAATGTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.62
Consensus pattern (17 bp):
AAATATTTTACTTTTTG
Found at i:30887338 original size:16 final size:15
Alignment explanation
Indices: 30887317--30887346 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30887307 CCTGCCCAAA
30887317 ATAAAATAATAAATAT
1 ATAAAATAA-AAATAT
30887333 ATAAAATAAAAATA
1 ATAAAATAAAAATA
30887347 GTCTGGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
ATAAAATAAAAATAT
Found at i:30888819 original size:13 final size:13
Alignment explanation
Indices: 30888801--30888826 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30888791 ATCGTCATCG
30888801 TTATTTTATTTTT
1 TTATTTTATTTTT
30888814 TTATTTTATTTTT
1 TTATTTTATTTTT
30888827 GTTCTAGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTATTTTT
Found at i:30895241 original size:86 final size:85
Alignment explanation
Indices: 30895087--30895246 Score: 209
Period size: 86 Copynumber: 1.9 Consensus size: 85
30895077 AGCTGGTACA
* * *
30895087 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGTT
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
30895152 CTTACACGAAATCAGATACG
66 CTTACACGAAATCAGATACG
* * *
30895172 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-ATCCCAGAC-G
1 ATGCCAACATCCCAGACGTGGTCTTACACGT-AATCA-AATATCGATGCC-ACTATCCCAGACAG
30895234 TGGTCTTACACGA
63 -GGTCTTACACGA
30895247 GAACACATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 29 0.45
86 32 0.49
87 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATCAGATACG
Found at i:30902655 original size:43 final size:42
Alignment explanation
Indices: 30902535--30902689 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 42
30902525 AGCTGGCACA
*
30902535 ATGCCAATGTCCCAGACGTGGTCTTACA-TGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACT-AAATCAAATA-CG
* * * * *
30902578 ATGCCACTATCCGAGACAG-GGCCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACTAAATCAAATACG
30902620 ATGCCAATGTCCCAGACGTGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACAC-TAAATCA-AA-TACG
* *
30902664 ATGTCAATGTCCCAAACGTGGTCTTA
1 ATGCCAATGTCCCAGACGTGGTCTTA
30902690 AACGAGAATA
Statistics
Matches: 93, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.27
43 37 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACTAAATCAAATACG
Found at i:30905675 original size:50 final size:45
Alignment explanation
Indices: 30905639--30905739 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
30905629 TTATCATGGT
* * *
30905639 AAATCTTATCTCTCTGAAGTTGCTGTGGAGCAGATTGAAGATAGC
1 AAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTGAAGATAGC
* * *
30905684 AAATCTTATCTCTCGGAAGTTGCAGTAGAGCATATTAAAGCTA-C
1 AAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTGAAGATAGC
*
30905728 AAACCTTATCTC
1 AAATCTTATCTC
30905740 CCTGAAATTA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 12 0.24
45 37 0.76
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (45 bp):
AAATCTTATCTCTCGGAAGTTGCAGTAGAGCAGATTGAAGATAGC
Found at i:30908231 original size:44 final size:44
Alignment explanation
Indices: 30908179--30908445 Score: 146
Period size: 44 Copynumber: 5.8 Consensus size: 44
30908169 AGAAAGCAAA
30908179 TCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTACAAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTACAAG
* * * * *
30908223 TCTTATCTCTCTGAAGTTGCAATGGAGTATATTGAAA-CAACGAA-
1 TCTTATCTCTCTGAAGTTGCAGTAGAATAGATT-AAAGCTAC-AAG
** * * * *
30908267 TCCAATAC-CTCTGAAGTTGTAGTAG-GTGGGATTAAATCTACCATAACAAG
1 TCTTAT-CTCTCTGAAGTTGCAGTAGAAT-AGATT-AA---AGC-T-ACAAG
* * * * * *
30908317 TCTTATCACCCTAAAGTTGTAGTGGAATAGACTAAAGCTACAAGATAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTAC---A-AG
*
30908365 CAAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTACAAA
1 ----TCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTACAAG
* * * *
30908413 TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATT
1 TCTTATCTCTCTGAAGTTGCAGTAGAATAGATT
30908446 GAAATTACAA
Statistics
Matches: 168, Mismatches: 34, Indels: 42
0.69 0.14 0.17
Matches are distributed among these distances:
43 2 0.01
44 86 0.51
45 7 0.04
46 2 0.01
47 2 0.01
48 4 0.02
49 6 0.04
50 23 0.14
51 1 0.01
52 35 0.21
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCTACAAG
Found at i:30909626 original size:8 final size:9
Alignment explanation
Indices: 30909608--30909636 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
30909598 TCTATCTTAA
30909608 TTTTTATTT
1 TTTTTATTT
30909617 TTTTTATTT
1 TTTTTATTT
30909626 TTTTTATTT
1 TTTTTATTT
30909635 TT
1 TT
30909637 CCATTTTATT
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:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:30911298 original size:11 final size:11
Alignment explanation
Indices: 30911282--30911325 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 11
30911272 TTTTACATGT
30911282 TTAATTTTTAA
1 TTAATTTTTAA
30911293 TTAATTTTTAAA
1 TTAATTTTT-AA
30911305 TCTTATATTTTTAA
1 --TTA-ATTTTTAA
30911319 TTAATTT
1 TTAATTT
30911326 AAAATAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 13 0.45
12 5 0.17
14 5 0.17
15 6 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:30911553 original size:58 final size:58
Alignment explanation
Indices: 30911484--30911597 Score: 228
Period size: 58 Copynumber: 2.0 Consensus size: 58
30911474 ACTTAAATGC
30911484 AATTAATGTAAACTAATAATATTTAATTAGAATAACTAATTAATATCAATTATGTCGT
1 AATTAATGTAAACTAATAATATTTAATTAGAATAACTAATTAATATCAATTATGTCGT
30911542 AATTAATGTAAACTAATAATATTTAATTAGAATAACTAATTAATATCAATTATGTC
1 AATTAATGTAAACTAATAATATTTAATTAGAATAACTAATTAATATCAATTATGTC
30911598 ATGTGTATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.39
Consensus pattern (58 bp):
AATTAATGTAAACTAATAATATTTAATTAGAATAACTAATTAATATCAATTATGTCGT
Done.