Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold211
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: 2157208
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 20444 characters in sequence are not A, C, G, or T
File 2 of 15
Found at i:117119 original size:23 final size:23
Alignment explanation
Indices: 117071--117132 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
117061 TAATAAAATA
* *
117071 TAAATTTAAACTTAAA-TCTATT
1 TAAATTTAAACTAAAAGTCTATC
117093 TAAATTTAAACTAAAAGTCTATC
1 TAAATTTAAACTAAAAGTCTATC
*
117116 TAAATTTAAATTAAAAG
1 TAAATTTAAACTAAAAG
117133 CCTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 15 0.42
23 21 0.58
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (23 bp):
TAAATTTAAACTAAAAGTCTATC
Found at i:117142 original size:23 final size:23
Alignment explanation
Indices: 117071--117142 Score: 78
Period size: 23 Copynumber: 3.2 Consensus size: 23
117061 TAATAAAATA
*
117071 TAAATTTAAACTT-AAA-TCTATT
1 TAAATTTAAA-TTAAAAGTCTAAT
*
117093 TAAATTTAAACTAAAAGTCT-AT
1 TAAATTTAAATTAAAAGTCTAAT
*
117115 CTAAATTTAAATTAAAAGCCTAAT
1 -TAAATTTAAATTAAAAGTCTAAT
117139 TAAA
1 TAAA
117143 ACAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.02
22 14 0.33
23 25 0.60
24 2 0.05
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (23 bp):
TAAATTTAAATTAAAAGTCTAAT
Found at i:119177 original size:15 final size:15
Alignment explanation
Indices: 119153--119202 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
119143 GTAATTGAGC
119153 TTAT-ATTTATTTAA
1 TTATAATTTATTTAA
*
119167 TTATAATTTATAT-A
1 TTATAATTTATTTAA
119181 TTATTAATTTATCTTATA
1 TTA-TAATTTAT-TTA-A
119199 TTAT
1 TTAT
119203 TTAAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 8 0.28
15 15 0.52
16 1 0.03
17 1 0.03
18 4 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATAATTTATTTAA
Found at i:119178 original size:21 final size:20
Alignment explanation
Indices: 119152--119206 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
119142 TGTAATTGAG
119152 CTTATATTTATTTAATTATAAT
1 CTTATATTTATTTAATT-T-AT
119174 -TTATATATTA-TTAATTTAT
1 CTTATAT-TTATTTAATTTAT
119193 CTTATA-TTATTTAA
1 CTTATATTTATTTAA
119207 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
18 3 0.10
19 6 0.20
20 6 0.20
21 12 0.40
22 3 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
CTTATATTTATTTAATTTAT
Found at i:119267 original size:18 final size:19
Alignment explanation
Indices: 119246--119283 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
119236 TTTTTAATAA
*
119246 AATAATTATAATT-AATTT
1 AATAACTATAATTAAATTT
*
119264 AATAACTATATTTAAATTT
1 AATAACTATAATTAAATTT
119283 A
1 A
119284 CGTTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAACTATAATTAAATTT
Found at i:119943 original size:280 final size:281
Alignment explanation
Indices: 119441--120015 Score: 1089
Period size: 280 Copynumber: 2.0 Consensus size: 281
119431 GGTATTTTTT
*
119441 TATTCAATATATAATTTTAGAGTTTAGAAAATCCATGGCAATGTATAATAAATGTATAATATATT
1 TATTCAATATATAATTTTAGAGTTTAGAAAATCCATGGCAATGTATAATAAATGTATAATACATT
* *
119506 TATTTAATGAATTATTAAAAAAATAAATGTTTAATATAAATTTTAAAATTTTTTATATTTTAAAA
66 TATTTAATGAATTATTAAAAAAATAAATGTATAATATAAATTTTAAAATTTTTTAGATTTTAAAA
119571 AAGATAAATATATAATATAAATTTAAAAATTTTGTGGAGTCAATATTAATAATCATATTTGTTTA
131 AAGATAAATATATAATATAAATTTAAAAATTTTGTGGAGTCAATATTAATAATCATATTTGTTTA
*
119636 TAAATTTTAAAACATAAAATTAAGTTATACAAAAAATAAAAAATTAAATCAATATAAGTTTTATT
196 TAAATTTTAAAACATAAAATTAAGTTATACAAAAAATAAAAAATTAAATCAATATAAGCTTTATT
119701 TTGAAATGATCAATTTAATTA
261 TTGAAATGATCAATTTAATTA
*
119722 TATTCAATATATAATTTTAGAGTTTAGAAAATCCATGGCAATGTATAGTAAATGTATAATACATT
1 TATTCAATATATAATTTTAGAGTTTAGAAAATCCATGGCAATGTATAATAAATGTATAATACATT
119787 TATTTAATGAATTATTAAAAAAATAAATGTATAATATAAATTTT-AAATTTTTTAGATTTTAAAA
66 TATTTAATGAATTATTAAAAAAATAAATGTATAATATAAATTTTAAAATTTTTTAGATTTTAAAA
119851 AAGATAAATATATAATATAAATTTAAAAATTTTGTGGAGTCAATATTAATAATCATATTTGTTTA
131 AAGATAAATATATAATATAAATTTAAAAATTTTGTGGAGTCAATATTAATAATCATATTTGTTTA
119916 TAAATTTTAAAACATAAAATTAAGTTATACAAAAAATAAAAAATTAAATCAATATAAGCTTTATT
196 TAAATTTTAAAACATAAAATTAAGTTATACAAAAAATAAAAAATTAAATCAATATAAGCTTTATT
119981 TTGAAATGATCAATTTAATTA
261 TTGAAATGATCAATTTAATTA
*
120002 TATTCAGTATATAA
1 TATTCAATATATAA
120016 ATACATATAA
Statistics
Matches: 288, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
280 182 0.63
281 106 0.37
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (281 bp):
TATTCAATATATAATTTTAGAGTTTAGAAAATCCATGGCAATGTATAATAAATGTATAATACATT
TATTTAATGAATTATTAAAAAAATAAATGTATAATATAAATTTTAAAATTTTTTAGATTTTAAAA
AAGATAAATATATAATATAAATTTAAAAATTTTGTGGAGTCAATATTAATAATCATATTTGTTTA
TAAATTTTAAAACATAAAATTAAGTTATACAAAAAATAAAAAATTAAATCAATATAAGCTTTATT
TTGAAATGATCAATTTAATTA
Found at i:120580 original size:3 final size:3
Alignment explanation
Indices: 120572--120601 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
120562 CCCATATCAA
120572 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
120602 TGAAATTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:120754 original size:19 final size:18
Alignment explanation
Indices: 120718--120796 Score: 76
Period size: 19 Copynumber: 4.5 Consensus size: 18
120708 TAAATATGAT
*
120718 ATATTTA-ATTATAATTA
1 ATATTTATATTATATTTA
120735 ATATTTATATTTATATTTA
1 ATATTTATA-TTATATTTA
* *
120754 AAATTTTTA-TATATTTA
1 ATATTTATATTATATTTA
*
120771 ATTATTTTTATTAT-TTTA
1 A-TATTTATATTATATTTA
120789 A-ATTTATA
1 ATATTTATA
120797 CATTAAAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
16 6 0.11
17 16 0.30
18 13 0.25
19 18 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATATTTATATTATATTTA
Found at i:120768 original size:17 final size:17
Alignment explanation
Indices: 120746--120793 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
120736 TATTTATATT
120746 TATATTTAAAATTTTTA
1 TATATTTAAAATTTTTA
*
120763 TATATTTAATTATTTTTA
1 TATATTTAA-AATTTTTA
*
120781 T-TATTTTAAATTT
1 TATATTTAAAATTT
120794 ATACATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTAAAATTTTTA
Found at i:120786 original size:46 final size:48
Alignment explanation
Indices: 120716--120805 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 48
120706 AATAAATATG
* *
120716 ATATATTTAATTATAATTAATA-TTTATATTTATA-TTTAAAATTTTT
1 ATATATTTAATTATAATTAATATTTTAAATTTATACATTAAAATTTTT
** *
120762 ATATATTTAATTATTTTTATTATTTTAAATTTATACATTAAAAT
1 ATATATTTAATTATAATTAATATTTTAAATTTATACATTAAAAT
120806 AATACAGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 19 0.51
47 11 0.30
48 7 0.19
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (48 bp):
ATATATTTAATTATAATTAATATTTTAAATTTATACATTAAAATTTTT
Found at i:121874 original size:5 final size:5
Alignment explanation
Indices: 121866--121893 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
121856 ATATTTTTAT
121866 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTA
121894 TTATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:121919 original size:19 final size:19
Alignment explanation
Indices: 121887--121924 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
121877 TAAATTAAAT
121887 TAAATTATTATTTAATTAA
1 TAAATTATTATTTAATTAA
*
121906 TAAATATATT-TTTATTTAA
1 TAAAT-TATTATTTAATTAA
121925 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAAATTATTATTTAATTAA
Found at i:121928 original size:29 final size:29
Alignment explanation
Indices: 121856--121943 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
121846 TTTGAATATA
*
121856 ATATTTTTATTTAAATTAAATTAAATTAAAT
1 ATATTTTTATTTAAATTTAATT-AA-TAAAT
**
121887 -TA-AATTA-TT--ATTTAATTAATAAAT
1 ATATTTTTATTTAAATTTAATTAATAAAT
121911 ATATTTTTATTTAAATTTAATT-ATAAAAT
1 ATATTTTTATTTAAATTTAATTAAT-AAAT
121940 ATAT
1 ATAT
121944 AATATTAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
24 5 0.11
25 4 0.09
26 10 0.22
27 2 0.04
28 4 0.09
29 19 0.41
30 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATATTTTTATTTAAATTTAATTAATAAAT
Found at i:122325 original size:18 final size:18
Alignment explanation
Indices: 122302--122336 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
122292 ACTTAACTAA
122302 ATCGAA-TTAATTGAACTT
1 ATCGAATTTAA-TGAACTT
122320 ATCGAATTTAATGAACT
1 ATCGAATTTAATGAACT
122337 GTCCAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
ATCGAATTTAATGAACTT
Found at i:123022 original size:15 final size:15
Alignment explanation
Indices: 122999--123032 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
122989 TATATGATAA
*
122999 AATTTATTTTTATTT
1 AATTAATTTTTATTT
*
123014 AATTAATTTTTTTTT
1 AATTAATTTTTATTT
123029 AATT
1 AATT
123033 TTTTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
AATTAATTTTTATTT
Found at i:125499 original size:18 final size:17
Alignment explanation
Indices: 125448--125495 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
125438 TAATTATTAT
125448 ATATATATATTTATATATGA
1 ATAT-TATA-TTA-ATATGA
*
125468 ATATTATGTT-ATATGA
1 ATATTATATTAATATGA
125484 ATATTATATTAA
1 ATATTATATTAA
125496 ATATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 15 0.60
17 1 0.04
18 2 0.08
19 3 0.12
20 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATATTATATTAATATGA
Found at i:125996 original size:3 final size:3
Alignment explanation
Indices: 125988--126039 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
125978 AATAAACTCC
125988 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
126036 TAA T
1 TAA T
126040 GATTTAATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:126838 original size:20 final size:20
Alignment explanation
Indices: 126815--126854 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
126805 ATATTTTATT
126815 ATATTATA-ATTATATTTAAA
1 ATATTATATATT-TATTTAAA
*
126835 ATATTTTATATTTATTTAAA
1 ATATTATATATTTATTTAAA
126855 TTTGGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTATATATTTATTTAAA
Found at i:127589 original size:15 final size:15
Alignment explanation
Indices: 127569--127598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
127559 TTAATTTTTT
*
127569 TATTTTTATTTAAAA
1 TATTTTTAATTAAAA
127584 TATTTTTAATTAAAA
1 TATTTTTAATTAAAA
127599 AATAAGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTTTAATTAAAA
Found at i:127992 original size:23 final size:21
Alignment explanation
Indices: 127961--128005 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
127951 ATTCACTTTT
127961 AAATAAAAATAACATAATATATA
1 AAATAAAAATAA-AT-ATATATA
* *
127984 AAATTAAAATTAATATATATA
1 AAATAAAAATAAATATATATA
128005 A
1 A
128006 TTGAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 2 0.10
23 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAAAATAAATATATATA
Found at i:129003 original size:24 final size:25
Alignment explanation
Indices: 128937--129005 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
128927 TAAATTGAAT
**
128937 TTAATTATATTTAATTAAAAGATATAA
1 TTAATT-TATTTAATT-AATTATATAA
* *
128964 TTTATTTATTT-TTTAATTATAT-A
1 TTAATTTATTTAATTAATTATATAA
128987 TTAATTTATTTAATTAATT
1 TTAATTTATTTAATTAATT
129006 TAATTTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
23 11 0.31
24 12 0.34
25 2 0.06
26 5 0.14
27 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (25 bp):
TTAATTTATTTAATTAATTATATAA
Found at i:131951 original size:26 final size:26
Alignment explanation
Indices: 131919--131971 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
131909 CATGCCATTG
131919 TTACAAGCAAATGCATGATTTTCTCA
1 TTACAAGCAAATGCATGATTTTCTCA
131945 TTACAAGCAAATGCATGATTTTCTCA
1 TTACAAGCAAATGCATGATTTTCTCA
131971 T
1 T
131972 GGAGATGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (26 bp):
TTACAAGCAAATGCATGATTTTCTCA
Found at i:132459 original size:2 final size:2
Alignment explanation
Indices: 132454--132478 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
132444 TGTGTGTGTG
132454 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 T
132479 TCAGACATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:136886 original size:24 final size:27
Alignment explanation
Indices: 136826--136886 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 27
136816 TATATATTAA
136826 AAATAAATTATTATAAATAAAATAAAAT
1 AAATAAATT-TTATAAATAAAATAAAAT
* *
136854 ACAT-GATTTTAT-AA-AAAAT-AAAT
1 AAATAAATTTTATAAATAAAATAAAAT
136877 AAATAAATTT
1 AAATAAATTT
136887 AATTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
23 7 0.25
24 9 0.32
25 2 0.07
26 4 0.14
27 3 0.11
28 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AAATAAATTTTATAAATAAAATAAAAT
Found at i:138819 original size:20 final size:20
Alignment explanation
Indices: 138796--138834 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
138786 TCAAAGTTAT
138796 TATTATAAAA-TATATAATTA
1 TATTATAAAACTATA-AATTA
138816 TATTATAAAACTATAAATT
1 TATTATAAAACTATAAATT
138835 TTGTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTATAAAACTATAAATTA
Found at i:140022 original size:20 final size:20
Alignment explanation
Indices: 139999--140048 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
139989 TTTAATAAAT
139999 TTTAAATTTATATTTTAATA
1 TTTAAATTTATATTTTAATA
* * * *
140019 TTTATATATATTTTTTAATT
1 TTTAAATTTATATTTTAATA
*
140039 TTTTAATTTA
1 TTTAAATTTA
140049 AGTTACGACT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTAAATTTATATTTTAATA
Found at i:140731 original size:20 final size:19
Alignment explanation
Indices: 140702--140778 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
140692 AAAGTACCCA
140702 AATGTATCGATACATTCTTC
1 AATGTATCGATACATT-TTC
* * *
140722 AATATATCGATACATGTATG
1 AATGTATCGATACAT-TTTC
*
140742 AACGTATCGATACATTTTTC
1 AATGTATCGATACA-TTTTC
140762 AATGTATCGATAC-TTTT
1 AATGTATCGATACATTTT
140779 AGTTAAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.09
20 41 0.87
21 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
AATGTATCGATACATTTTC
Found at i:147665 original size:15 final size:16
Alignment explanation
Indices: 147644--147678 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
147634 AGTAAAAGCA
147644 CAAAAAAATG-AAAAG
1 CAAAAAAATGCAAAAG
147659 -AAAAAAATGCAAAAG
1 CAAAAAAATGCAAAAG
147674 CAAAA
1 CAAAA
147679 TAAAAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.50
15 5 0.28
16 4 0.22
ACGTcount: A:0.74, C:0.09, G:0.11, T:0.06
Consensus pattern (16 bp):
CAAAAAAATGCAAAAG
Found at i:149044 original size:27 final size:27
Alignment explanation
Indices: 148980--149336 Score: 383
Period size: 27 Copynumber: 13.0 Consensus size: 27
148970 TTTCTTTTCA
* *
148980 AAGTCTACAACTCCGTGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCCTTTT
149008 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * * *
149035 AAGTCTACAACTTCGTGGCAACGTTCT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * *
149062 AAGTCCACAACTCCATGGCAACCATTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
149089 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
149116 AATTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
149143 AAGGT-CAAAACTCCGTGGAAACCATTT
1 AA-GTCCACAACTCCGTGGCACCCTTTT
*
149170 AAGTCCACAACTCCGTGGCAACCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
149197 AAAGTCCACAACTCCGTGGTAACCCTTTTT
1 -AAGTCCACAACTCCGTGG-CACCC-TTTT
** *
149227 AAGTCCACAACTCTATAGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
** * *
149254 AAGTCCACAACTCTATGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* * * *
149281 AAGTCCATAACTCTGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
149308 AAGTCCACAACTCCGTGGCAACACCTTTT
1 AAGTCCACAACTCCGTGGC-AC-CCTTTT
149337 TAAAGCCCAC
Statistics
Matches: 280, Mismatches: 42, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 207 0.74
28 43 0.15
29 24 0.09
30 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:149432 original size:29 final size:28
Alignment explanation
Indices: 149332--150396 Score: 1024
Period size: 28 Copynumber: 36.6 Consensus size: 28
149322 GTGGCAACAC
* *
149332 CTTTTTAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
149360 CATTTCAAAGCCCACAAGTTAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
149388 C-ATTCCAAGCCTACAAGTCAGTGGCACT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
149416 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
149444 CTTTTCAAAGCCCACACGAGTCGGTGGTAAGT
1 CTTTTCAAAGCCCACA--AGTCAGTGG-CA-T
*
149476 CTTTTTAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** * * *
149504 AC-TTTCAAAGTCCATGAGTTAGTAGCAC
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
149532 CCTTTCAAAGCCCATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
149560 CCTTTCAAAGCCCACAAGTCAGTGGCATT
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
149589 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
149617 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
149646 CATTCTCAAAGCCCACAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
* *
149675 CTTTCTCAAAGCCCACACAAATTAGTGGCA-
1 CTTT-TCAAAG-CC-CACAAGTCAGTGGCAT
149705 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
*
149734 CCTTTTCAAAGCCCACACAAGTCGGTGGCAT
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
* * *
149765 CATTTCAAAGCCCACACGAGTCGGTGGTAACT
1 CTTTTCAAAGCCCACA--AGTCAGTGG-CA-T
* *
149797 CTTTTTAAAGCTCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
149825 CCTTTCAAAGCCCATGAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
149853 CCTTTAAAAGCCCACAAGTCAGTGGTAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
149881 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
149909 CCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
149938 CCTTCTCAAACCCCACACAAATCAGTGGCAC
1 -CTTTTCAAA-GCC-CACAAGTCAGTGGCAT
149969 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
149997 CCTTTTCAAAGCCCACACAAGTCAGTGGCAT
1 -CTTTTCAAAG-CC-CACAAGTCAGTGGCAT
* *
150028 CATTTCAAAGCCCACACGAGTCGGTGGCAACT
1 CTTTTCAAAGCCCACA--AGTCAGTGGC-A-T
* * *
150060 CTTTTTAAAGCCCACAAGTTAGTAGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
150088 CCTTTCAAAGCCCATGAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
150116 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
150144 CCTTTCAAAGCTCACAAGTCAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
150172 CTTTTGAAAGCCCACACAAGTC-GATGGTAACC
1 CTTTTCAAAG-CC-CACAAGTCAG-TGG-CA-T
* * *
150204 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 CTTTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* *
150236 CATTTCAAAGCTCACAAGTCA-TGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
150263 CCTTCTCAAAGCCCACATAAATAAGTGGCAT
1 -CTTTTCAAAGCCCAC--AAGTCAGTGGCAT
150294 CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
150322 CCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
150351 CCTTCTCAAAGCCCACAAATCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
150380 CCTTCTCAAAGCTCACA
1 -CTTTTCAAAGCCCACA
150397 TAAGTTAACA
Statistics
Matches: 886, Mismatches: 106, Indels: 89
0.82 0.10 0.08
Matches are distributed among these distances:
27 21 0.02
28 328 0.37
29 254 0.29
30 128 0.14
31 72 0.08
32 82 0.09
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:149918 original size:263 final size:262
Alignment explanation
Indices: 149329--150396 Score: 1263
Period size: 263 Copynumber: 4.1 Consensus size: 262
149319 TCCGTGGCAA
* * * * * *
149329 CACCTTTTTAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAGTTAATGGCATCATTC-
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCATCATTCT
* * *
149393 C-AAGCCTACAAGTCAGTGGCACTCTTTTCAAAG-CC-CACAAGTCAGTGGCATCTTTTCAAAGC
66 CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACAAATCAGTGGCACCTTTTCAAAGC
* * * *
149455 CCACACGAGTCGGTGGTAAGT-CTTTTTAAAG-CC-CACAAGTCAGTGGCAT-ACTTTCAAAG-T
131 CCACA--AGTCAGTGG-CA-TCCTTTTCAAAGCCCACACAAGTCAGTGGCATCA-TTTCAAAGCC
* * * * *
149515 C-CATGAGTTAGTAGC-ACCCTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
191 CACACGAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAG
149578 TCAGTGG
256 TCAGTGG
* * *
149585 CATTCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCATT
1 CA-CCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAATGGCATCATT
* *
149650 CTCAAAGCCCACAAGTCAGTGGCA-TCTTTCTCAAAGCCCACACAAATTAGTGGCACTTTTTCAA
64 CTCAAAGCCCACAAGTCAGTGGCACTCTTT-TCAAAGCCCACACAAATCAGTGGCACCTTTTCAA
*
149714 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCATCATTTCAAAGCCCA
128 AGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCA
* * * * **
149779 CACGAGTCGGTGGTAACTCTTTTTAAAGCTCACAAGTCAGTGGCATCCTTTCAAAGCCCATGAGT
193 CACGAGTCAGTGGCAAC-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGT
149844 CAGTGG
257 CAGTGG
* * * *
149850 CACCCTTTAAAAGCCCACAAGTCAGTGGTACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCATCATTCT
* *
149915 CAAAGCCCACAAGTCAGTGGCA-TCCTTCTCAAACCCCACACAAATCAGTGGCACCTTTTCAAAG
66 CAAAGCCCACAAGTCAGTGGCACT-CTTTTCAAAGCCCACACAAATCAGTGGCACCTTTTCAAAG
149979 CCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACA
130 CCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACA
* * * * **
150044 CGAGTCGGTGGCAACTCTTTTTAAAGCCCACAAGTTAGTAGCATCCTTTCAAAGCCCATGAGTCA
195 CGAGTCAGTGGCAAC-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA
150109 GTGG
259 GTGG
* * * *
150113 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCTCACAAGTCAATGGCA-CCTTTT
1 CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCATCATTCT
* * * * * * *
150177 GAAAGCCCACACAAGTC-GATGGTAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTT
66 CAAAG-CC-CACAAGTCAG-TGG-CACTCTTTTCAAAGCCCACACAAATCAGTGGC-A-CCTTTT
* * * * * *
150241 CAAAGCTCACAAGTCA-TGGCATCCTTCTCAAAGCCCACATAAATAAGTGGCATCTTTTCAAAGC
125 CAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGC
* *
150305 CCACA--AGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACA
190 CCACACGAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACA
*
150368 AATCAGTGG
254 AGTCAGTGG
* *
150377 CATCCTTCTCAAAGCTCACA
1 CACCCTT-TCAAAGCCCACA
150397 TAAGTTAACA
Statistics
Matches: 713, Mismatches: 74, Indels: 41
0.86 0.09 0.05
Matches are distributed among these distances:
256 2 0.00
257 25 0.04
258 31 0.04
259 16 0.02
260 35 0.05
261 25 0.04
262 39 0.05
263 312 0.44
264 75 0.11
265 84 0.12
266 49 0.07
267 20 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (262 bp):
CACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCATCATTCT
CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACAAATCAGTGGCACCTTTTCAAAGC
CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCCACAC
GAGTCAGTGGCAACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGT
GG
Found at i:153379 original size:34 final size:34
Alignment explanation
Indices: 153341--153493 Score: 195
Period size: 34 Copynumber: 4.9 Consensus size: 34
153331 ATATACATGT
*
153341 TAACACACCTAACATTCTCACCAAATATATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
153375 TAACACACCTAACATTCTCACC-TA-ACA-CACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
153406 T---A-A-C--A--TTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
153431 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
153465 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
153494 CTTAACAAAG
Statistics
Matches: 103, Mismatches: 4, Indels: 24
0.79 0.03 0.18
Matches are distributed among these distances:
22 8 0.08
23 1 0.01
24 4 0.04
25 5 0.05
26 1 0.01
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 5 0.05
32 3 0.03
33 1 0.01
34 70 0.68
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.21
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:153398 original size:22 final size:22
Alignment explanation
Indices: 153370--153500 Score: 103
Period size: 22 Copynumber: 5.9 Consensus size: 22
153360 ACCAAATATA
153370 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
153392 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
153414 TCACCAAACACATCACCTAACA---
1 TCACC-TA-ACA-CACCTAACATTC
*
153436 -CACCTAACATTCTCACC-AA-ATAC
1 TCACCTAACA----CACCTAACATTC
153459 ATCACCTAACACACCTAACATTC
1 -TCACCTAACACACCTAACATTC
* * *
153482 TCACCAAATACACTTAACA
1 TCACCTAACACACCTAACA
153501 AAGAAATTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.03
20 2 0.02
21 10 0.11
22 50 0.56
23 4 0.04
24 3 0.03
25 18 0.20
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:153429 original size:56 final size:56
Alignment explanation
Indices: 153341--153452 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
153331 ATATACATGT
* *
153341 TAACACACCTAACATTCTCACCAAATATATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
153397 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
153453 AAATACATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (56 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
Found at i:153486 original size:56 final size:55
Alignment explanation
Indices: 153342--153469 Score: 166
Period size: 56 Copynumber: 2.2 Consensus size: 55
153332 TATACATGTT
* * * *
153342 AACACACCTAACATTCTCACCAAATATATCACCTAACACACCTAACATTCTCACCT
1 AACACACCTAACA-TCACACCAAACACATCACCTAACACACCTAACATTCTCACCA
*
153398 AACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACCAA
1 AACACACCTAACA-TCACACCAAACACATCACCTAACACACCTAACATTCTCACC-A
153455 ATACATCACCTAACA
1 A-ACA-CACCTAACA
153470 CACCTAACAT
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
56 53 0.80
57 1 0.02
58 3 0.05
59 9 0.14
ACGTcount: A:0.41, C:0.38, G:0.00, T:0.20
Consensus pattern (55 bp):
AACACACCTAACATCACACCAAACACATCACCTAACACACCTAACATTCTCACCA
Found at i:158209 original size:34 final size:34
Alignment explanation
Indices: 158171--158323 Score: 186
Period size: 34 Copynumber: 4.9 Consensus size: 34
158161 ATATACATGT
*
158171 TAACACACCTAACATTCTCACCAAATATATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
158205 TAACACACCTAACATTCTCACC-TA-ACA-CACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
158236 T---A-A-C--A--TTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
158261 TAACACACCTAACATTCTCATCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
158295 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
158324 CTTAACAAAG
Statistics
Matches: 101, Mismatches: 6, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
22 8 0.08
23 1 0.01
24 4 0.04
25 5 0.05
26 1 0.01
27 1 0.01
28 2 0.02
29 1 0.01
30 1 0.01
31 5 0.05
32 3 0.03
33 1 0.01
34 68 0.67
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:158228 original size:22 final size:22
Alignment explanation
Indices: 158200--158255 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
158190 ACCAAATATA
158200 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
158222 TCACCTAACACACCTAACATTC
1 TCACCTAACACACCTAACATTC
*
158244 TCACCAAACACA
1 TCACCTAACACA
158256 TCACCTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
TCACCTAACACACCTAACATTC
Found at i:158259 original size:56 final size:56
Alignment explanation
Indices: 158171--158280 Score: 202
Period size: 56 Copynumber: 2.0 Consensus size: 56
158161 ATATACATGT
* *
158171 TAACACACCTAACATTCTCACCAAATATATCACCTAACACACCTAACATTCTCACC
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
158227 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCA
1 TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCA
158281 TCAAATACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.22
Consensus pattern (56 bp):
TAACACACCTAACATTCTCACCAAACACATCACCTAACACACCTAACATTCTCACC
Found at i:161505 original size:21 final size:22
Alignment explanation
Indices: 161466--161506 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
161456 TATTTTTAAG
* *
161466 TTTTTTTATTTTTGGAATAATT
1 TTTTTTTATATTTGAAATAATT
161488 TTTTTTTATATTT-AAATAA
1 TTTTTTTATATTTGAAATAA
161507 AATTTCGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTTTATATTTGAAATAATT
Found at i:161876 original size:25 final size:22
Alignment explanation
Indices: 161833--161877 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 22
161823 TATGAAATAT
*
161833 ATAATATATAATAGGTACGAAA
1 ATAATATATAATAGATACGAAA
161855 ATAATATAATAAATATGATACGA
1 ATAATAT-AT-AATA-GATACGA
161878 TATATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 4 0.21
25 6 0.32
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (22 bp):
ATAATATATAATAGATACGAAA
Found at i:162989 original size:2 final size:2
Alignment explanation
Indices: 162982--163012 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
162972 AGTATTAGTA
162982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
163013 AAACTGGTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164026 original size:16 final size:15
Alignment explanation
Indices: 164005--164038 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
163995 TTATAAATTT
164005 AATGAGATAAAATAAA
1 AATGAGATAAAA-AAA
*
164021 AATGAGATACAAAAA
1 AATGAGATAAAAAAA
164036 AAT
1 AAT
164039 AATCAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.68, C:0.03, G:0.12, T:0.18
Consensus pattern (15 bp):
AATGAGATAAAAAAA
Found at i:164513 original size:6 final size:6
Alignment explanation
Indices: 164487--164536 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
164477 ATTATTTAAA
*
164487 AAATTT ATAATTT ATAATTT AAATTT AGATTT AAATTT -AATTT -AATTT
1 AAATTT A-AATTT A-AATTT AAATTT AAATTT AAATTT AAATTT AAATTT
164535 AA
1 AA
164537 CGATTTGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
5 10 0.25
6 17 0.43
7 13 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (6 bp):
AAATTT
Found at i:164921 original size:20 final size:20
Alignment explanation
Indices: 164872--164921 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
164862 ATTCTACATC
164872 ATTAAAAATTTT---TAAAT
1 ATTAAAAATTTTAAATAAAT
*
164889 ATTAAAATTTTTAAATAAAT
1 ATTAAAAATTTTAAATAAAT
164909 A-TAAATAATTTTA
1 ATTAAA-AATTTTA
164922 TAATTGTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 11 0.41
19 4 0.15
20 12 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTAAAAATTTTAAATAAAT
Found at i:165468 original size:15 final size:14
Alignment explanation
Indices: 165443--165474 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
165433 TTTTGATAAA
165443 TTTAAATTTTTAAT
1 TTTAAATTTTTAAT
165457 TTTAATATTTTTAAT
1 TTTAA-ATTTTTAAT
165472 TTT
1 TTT
165475 TTTAGATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAAATTTTTAAT
Found at i:165707 original size:17 final size:17
Alignment explanation
Indices: 165661--165723 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
165651 AATATGTGTT
**
165661 TATTAAATATAAATATA
1 TATTAAATATTTATATA
* *
165678 TATTATATTTTTATATA
1 TATTAAATATTTATATA
* *
165695 TTTTAAATATTTAAATTAA
1 TATTAAATATTTATA-T-A
165714 TATTAAATAT
1 TATTAAATAT
165724 AATCATTAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 24 0.69
18 1 0.03
19 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATATTTATATA
Found at i:165731 original size:13 final size:12
Alignment explanation
Indices: 165700--165743 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
165690 ATATATTTTA
165700 AATATTTAAAT-T
1 AATA-TTAAATAT
165712 AATATTAAATAT
1 AATATTAAATAT
165724 AATCATTAAATAT
1 AAT-ATTAAATAT
165737 AAATATT
1 -AATATT
165744 TTAAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.21
12 8 0.28
13 12 0.41
14 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
AATATTAAATAT
Found at i:166014 original size:17 final size:20
Alignment explanation
Indices: 165992--166055 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 20
165982 TTTGATATAA
165992 ATATATTTAA-AATT-T-TT
1 ATATATTTAATAATTATATT
166009 ATATATTTAATAATTATATT
1 ATATATTTAATAATTATATT
* * *
166029 TTATATTT-ATATTTA-AAT
1 ATATATTTAATAATTATATT
166047 ATATATTTA
1 ATATATTTA
166056 TATATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.26
18 13 0.33
19 7 0.18
20 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTTAATAATTATATT
Found at i:166028 original size:13 final size:13
Alignment explanation
Indices: 166010--166044 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
166000 AAAATTTTTA
166010 TATATTTAATAAT
1 TATATTTAATAAT
* *
166023 TATATTTTATATT
1 TATATTTAATAAT
166036 TATATTTAA
1 TATATTTAA
166045 ATATATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTTAATAAT
Found at i:166039 original size:6 final size:6
Alignment explanation
Indices: 166010--166058 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
166000 AAAATTTTTA
* * *
166010 TATATT TAATAAT TATATTT TATATT TATATT TAAATA TATATT TATAT
1 TATATT T-ATATT TATA-TT TATATT TATATT TATATT TATATT TATAT
166059 ATAAATATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (6 bp):
TATATT
Found at i:166039 original size:26 final size:26
Alignment explanation
Indices: 166008--166082 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
165998 TTAAAATTTT
166008 TATATATTTAATAATTATATTTTATA
1 TATATATTTAATAATTATATTTTATA
*
166034 TTTATATTT-A-AATATATATTTATATA
1 TATATATTTAATAAT-TATATTT-TATA
* *
166060 TAAATATTAAAT-ATTAATATTTT
1 TATATATTTAATAATT-ATATTTT
166083 TAAAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.08
25 8 0.20
26 20 0.50
27 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TATATATTTAATAATTATATTTTATA
Found at i:166053 original size:18 final size:18
Alignment explanation
Indices: 166030--166066 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
166020 AATTATATTT
*
166030 TATATTTATATTTAAATA
1 TATATTTATATATAAATA
166048 TATATTTATATATAAATA
1 TATATTTATATATAAATA
166066 T
1 T
166067 TAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATTTATATATAAATA
Found at i:166069 original size:25 final size:23
Alignment explanation
Indices: 166023--166073 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
166013 ATTTAATAAT
* *
166023 TATATTTTATATTTATATTTAAA
1 TATATTTTATATATAAATTTAAA
166046 TATATATTTATATATAAATATTAAA
1 TATAT-TTTATATATAAAT-TTAAA
166071 TAT
1 TAT
166074 TAATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 11 0.46
25 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATATTTTATATATAAATTTAAA
Found at i:166495 original size:21 final size:21
Alignment explanation
Indices: 166471--166524 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
166461 GGTCAATTTG
*
166471 ATTTATTTAAATTAAAAATTA
1 ATTTAATTAAATTAAAAATTA
* *
166492 ATTTAATTAAATTTAATATTAA
1 ATTTAATTAAATTAAAAATT-A
*
166514 AATTAATTAAA
1 ATTTAATTAAA
166525 ATAATCGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAATTAAATTAAAAATTA
Found at i:169768 original size:18 final size:18
Alignment explanation
Indices: 169745--169787 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
169735 TAACTGCAAG
*
169745 TGGTTCTAGTGTCTCTAA
1 TGGTTCTAATGTCTCTAA
169763 TGGTTCTAATGTCTCTAA
1 TGGTTCTAATGTCTCTAA
169781 TGGTTCT
1 TGGTTCT
169788 TGGGTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.47
Consensus pattern (18 bp):
TGGTTCTAATGTCTCTAA
Found at i:169905 original size:21 final size:22
Alignment explanation
Indices: 169879--169921 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
169869 GTTGAAACTC
* *
169879 CACCTGTTTTGGAGTA-TACTT
1 CACCTGCTGTGGAGTACTACTT
169900 CACCTGCTGTGGAGTACTACTT
1 CACCTGCTGTGGAGTACTACTT
169922 ATCTGAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (22 bp):
CACCTGCTGTGGAGTACTACTT
Found at i:172503 original size:27 final size:26
Alignment explanation
Indices: 172446--172516 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
172436 AACATGTCAC
* *
172446 TATTTTTTATAAATAAAAAAAACTGT
1 TATTTTTGATAAATAAAAAAAACTAT
* * *
172472 CATTTTTGATAAATACAAAATAATTAT
1 TATTTTTGATAAATA-AAAAAAACTAT
*
172499 TATTTTTGACAAATAAAA
1 TATTTTTGATAAATAAAA
172517 TGTGACTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
26 16 0.43
27 21 0.57
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (26 bp):
TATTTTTGATAAATAAAAAAAACTAT
Found at i:174080 original size:18 final size:20
Alignment explanation
Indices: 174057--174093 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
174047 TATCAGTGAA
174057 TTAAAATA-AT-TAAATTAT
1 TTAAAATATATATAAATTAT
174075 TTAAAATATATATAAATTA
1 TTAAAATATATATAAATTA
174094 GGTTCTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATATATATAAATTAT
Found at i:174591 original size:21 final size:21
Alignment explanation
Indices: 174567--174607 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
174557 AATTCAATTT
174567 AATTAAT-AATTAAAATTAAAA
1 AATTAATCAATT-AAATTAAAA
*
174588 AATTAATCAATTCAATTAAA
1 AATTAATCAATTAAATTAAA
174608 TAAAATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
AATTAATCAATTAAATTAAAA
Found at i:175035 original size:21 final size:21
Alignment explanation
Indices: 175009--175081 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
174999 CATGCATTTT
175009 CATTTCATGTTTTTCACGTAA
1 CATTTCATGTTTTTCACGTAA
** *
175030 CATTTCATG-CATGCA--TAA
1 CATTTCATGTTTTTCACGTAA
175048 TTTTCATTTCATGTTTTTCACGTAA
1 ----CATTTCATGTTTTTCACGTAA
175073 CATTTCATG
1 CATTTCATG
175082 CATGCATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
18 3 0.08
20 3 0.08
21 18 0.46
22 9 0.23
23 3 0.08
25 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (21 bp):
CATTTCATGTTTTTCACGTAA
Found at i:175058 original size:22 final size:22
Alignment explanation
Indices: 175030--175106 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 22
175020 TTTCACGTAA
175030 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
** *
175052 CATTTCATGTTTTTCACGTAA----
1 CATTTCATG-CATGCA--TAATTTT
175073 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
175095 CATTTCATGCAT
1 CATTTCATGCAT
175107 TTCAAAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
18 3 0.07
20 3 0.07
21 9 0.21
22 21 0.50
23 3 0.07
25 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.45
Consensus pattern (22 bp):
CATTTCATGCATGCATAATTTT
Found at i:175058 original size:43 final size:43
Alignment explanation
Indices: 175004--175103 Score: 200
Period size: 43 Copynumber: 2.3 Consensus size: 43
174994 CATTGCATGC
175004 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
175047 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
175090 ATTTTCATTTCATG
1 ATTTTCATTTCATG
175104 CATTTCAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (43 bp):
ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
Found at i:175110 original size:43 final size:43
Alignment explanation
Indices: 175004--175153 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 43
174994 CATTGCATGC
**
175004 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCATTTCACGTAACATTTCATGCATGCATA
**
175047 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCATTTCACGTAACATTTCATGCATGCATA
** *
175090 ATTTTCATTTCATGCATTTCA-AAAACATTTCATTGCATTGCACTTC
1 ATTTTCATTTCATGCATTTCACGTAACATTTCA-TGCA-TGCA--TA
175136 A-TTTCATTTCATTGCATT
1 ATTTTCATTTCA-TGCATT
175154 GCATTTCATT
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
42 9 0.09
43 66 0.68
44 4 0.04
45 10 0.10
46 8 0.08
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (43 bp):
ATTTTCATTTCATGCATTTCACGTAACATTTCATGCATGCATA
Found at i:175128 original size:5 final size:5
Alignment explanation
Indices: 175115--175198 Score: 96
Period size: 5 Copynumber: 16.8 Consensus size: 5
175105 ATTTCAAAAA
* * * * *
175115 CATTT CATTG CATTG CACTT CATTT CATTT CATTG CATTG CATTT CATTT
1 CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT CATTT
* * *
175165 CATTT CATTT CATTG CATTG CATTT CATTA CATT
1 CATTT CATTT CATTT CATTT CATTT CATTT CATT
175199 GCTTTCATGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (5 bp):
CATTT
Found at i:175138 original size:15 final size:15
Alignment explanation
Indices: 175115--175210 Score: 108
Period size: 15 Copynumber: 6.5 Consensus size: 15
175105 ATTTCAAAAA
* *
175115 CATTTCATTGCATTG
1 CATTGCATTGCATTT
*
175130 CACTT-CATTTCATTT
1 CA-TTGCATTGCATTT
175145 CATTGCATTGCATTT
1 CATTGCATTGCATTT
* *
175160 CATTTCATTTCATTT
1 CATTGCATTGCATTT
175175 CATTGCATTGCATTT
1 CATTGCATTGCATTT
*
175190 CATTACATTGC-TTT
1 CATTGCATTGCATTT
175204 CA-TGCAT
1 CATTGCAT
175211 GAAATGGCCG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
13 4 0.06
14 7 0.10
15 57 0.81
16 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.49
Consensus pattern (15 bp):
CATTGCATTGCATTT
Found at i:175143 original size:25 final size:24
Alignment explanation
Indices: 175115--175200 Score: 127
Period size: 25 Copynumber: 3.5 Consensus size: 24
175105 ATTTCAAAAA
175115 CATTTCATTGCATTGCACTTCATTT
1 CATTTCATTGCATTGCA-TTCATTT
175140 CATTTCATTGCATTGCATTTCATTT
1 CATTTCATTGCATTGCA-TTCATTT
*
175165 CATTTCATTTCATTGCATTGCATTT
1 CATTTCATTGCATTGCATT-CATTT
*
175190 CATTACATTGC
1 CATTTCATTGC
175201 TTTCATGCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
24 2 0.04
25 54 0.96
ACGTcount: A:0.21, C:0.22, G:0.08, T:0.49
Consensus pattern (24 bp):
CATTTCATTGCATTGCATTCATTT
Found at i:188724 original size:42 final size:41
Alignment explanation
Indices: 188673--189519 Score: 811
Period size: 42 Copynumber: 19.8 Consensus size: 41
188663 TTTTGTTTTC
*
188673 CCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
*
188714 CCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* *
188756 CCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTTTGGAGACTTTCCTAT
1 -CCTTAGTCTGCCTGTCGGCTTTGA-CC------C--TGGAGACTTTCCT-T
* * *
188808 CCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGAC-TGCC-T
1 -CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
188849 CATTTAAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTTCATC
1 C-CTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* *
188894 CCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGATTTTCCTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * * ***
188935 CCCTTAGTCTGCTTGTCGGCTTTGTCCCTGAAGACTTTTCAAC
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * * *
188978 CCTCAATCTACCTATCGGCTTTGACCCTGGAGACTTTTCTTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * * * *
189020 CCCTAAGTCTGCCTATCGGCTTCGTCCCTAGAGACTTTCTTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
189062 CCCTCAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTTCTTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * *
189105 CCCTAAGTCTGCCTGTCGGCTTTGGCCCTGGAGACTTTTCTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
189147 CCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
*
189189 CCCTTAGTCGGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* *
189231 CCTTCAGTTTGCCTGTCGGCTTTGACCCTGGAGACTTTTCTT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
*
189273 CCTTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTTCCTAT
1 CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCT-T
* ** *
189316 CCCTTCAGTCTGCCTGTCAGCTTTGATTCTGGAGAC-TGCC-T
1 -CCTT-AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
189357 CATTTAAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTCTT
1 C-CTT--AGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
* * *
189401 CCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTTCATC
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * *
189444 CCTTAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTTCTTT
1 CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTT
* * * *
189486 CCCTAAGTCTGCCCGTTGGCTTTGACCCGGGAGA
1 -CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA
189520 GTATTTTCTT
Statistics
Matches: 677, Mismatches: 97, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
40 2 0.00
41 19 0.03
42 454 0.67
43 117 0.17
44 45 0.07
45 2 0.00
46 1 0.00
49 1 0.00
51 12 0.02
52 7 0.01
53 17 0.03
ACGTcount: A:0.13, C:0.30, G:0.21, T:0.36
Consensus pattern (41 bp):
CCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTT
Found at i:188824 original size:53 final size:51
Alignment explanation
Indices: 188742--188844 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 51
188732 GCTTTGACCC
* **
188742 TGGAGACTTTTCTTCCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTT
1 TGGAGACTTTCCTTCCCTTAGTCTACCTGTCAGCTTTGACCCTGGAGACTT
* *
188793 TGGAGACTTTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACT
1 TGGAGACTTTCCT-TCCCTT-AGTCTACCTGTCAGCTTTGACCCTGGAGACT
188845 GCCTCATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 12 0.27
52 6 0.13
53 27 0.60
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (51 bp):
TGGAGACTTTCCTTCCCTTAGTCTACCTGTCAGCTTTGACCCTGGAGACTT
Found at i:189169 original size:254 final size:254
Alignment explanation
Indices: 188670--189519 Score: 1125
Period size: 254 Copynumber: 3.3 Consensus size: 254
188660 CTTTTTTGTT
*
188670 TTCCCTTAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCT
* * * *
188735 TTGACCCTGGAGACTTTTCTTCCCTTAGTCTACCTGTTGGCTTTGACCCTGGAGACTTTGGAGAC
66 TTGACCCTGGAGACTTTTCTTCCCTAAGTCTGCCTATCGGCTTTGACCCT----A-----GAGAC
188800 TTTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTGCCTCATTTAAAGTCTGCCT
122 TTTCCTATCCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTGCCTCATTTAAAGTCTGCCT
* *
188865 GTCGGCTTTGACCCTGGAGACTTTTCATCCCTTAGTCTGCCTGTCGGCTTTGACCCTAGAGATTT
187 GTCGGCTTTGACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGATTT
188930 TCC
252 TCC
* * * * ** * * * *
188933 TTCCCTTAGTCTGCTTGTCGGCTTTGTCCCTGAAGACTTTTCAACCCTCAATCTACCTATCGGCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCT
* * *
188998 TTGACCCTGGAGACTTTTCTTTCCCTAAGTCTGCCTATCGGCTTCGTCCCTAGAGACTTT-CTTT
66 TTGACCCTGGAGACTTTTC-TTCCCTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTAT
* * * ** *
189062 CCC-TCAGTCTACCTGTCGGCTTTGACCCTGGAGACT-TTTC-TTTCCCTAAGTCTGCCTGTCGG
130 CCCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTGCCTCATTT---AAAGTCTGCCTGTCGG
* *
189124 CTTTGGCCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCC
192 CTTTGACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGATTTTCC
* *
189187 TTCCCTTAGTCGGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTTTGCCTGTCGGCT
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCT
* * *
189252 TTGACCCTGGAGACTTTTCTTCCTTCAGTCTGCCTATCGGCTTTGACCCTGGAGACTTTCCTATC
66 TTGACCCTGGAGACTTTTCTTCCCTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTATC
*
189317 CCTTCAGTCTGCCTGTCAGCTTTGATTCTGGAGACTGCCTCATTTAAAGTCTGCCTGTCGGCTTT
131 CCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTGCCTCATTTAAAGTCTGCCTGTCGGCTTT
* *
189382 GACCTTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCCTTGACCCTGGAGACTTTT-C
196 GACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGA-TTTTCC
* * * * * * * *
189441 ATCCCTTAGTCTGCCTGTCGGTTTTGACCTTGGAGACTTTTCTTTCCCTAAGTCTGCCCGTTGGC
1 TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCCTTCCTTCAGTCTGCCTGTCGGC
*
189506 TTTGACCCGGGAGA
65 TTTGACCCTGGAGA
189520 GTATTTTCTT
Statistics
Matches: 509, Mismatches: 68, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
251 3 0.01
252 2 0.00
253 65 0.13
254 261 0.51
255 74 0.15
256 2 0.00
257 3 0.01
260 1 0.00
263 73 0.14
264 25 0.05
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.36
Consensus pattern (254 bp):
TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAGTCTGCCTGTCGGCT
TTGACCCTGGAGACTTTTCTTCCCTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTATC
CCTTCAGTCTGCCTGTCAGCTTTGACTCTGGAGACTGCCTCATTTAAAGTCTGCCTGTCGGCTTT
GACCCTGGAGACTTTTCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGATTTTCC
Found at i:190006 original size:22 final size:22
Alignment explanation
Indices: 189978--190097 Score: 85
Period size: 22 Copynumber: 5.5 Consensus size: 22
189968 TTTCACGTAA
189978 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
** *
190000 CATTTCATGTTTTTCACGTAA----
1 CATTTCATG-CATGCA--TAATTTT
190021 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
* *
190043 CATTTCATGCTTTTCACGTAA----
1 CATTTCATGC-ATGCA--TAATTTT
190064 CATTTCATGCATGCATAATTTT
1 CATTTCATGCATGCATAATTTT
190086 CATTTCATGCAT
1 CATTTCATGCAT
190098 TTCAAAAACA
Statistics
Matches: 74, Mismatches: 10, Indels: 28
0.66 0.09 0.25
Matches are distributed among these distances:
18 6 0.08
20 6 0.08
21 19 0.26
22 31 0.42
23 6 0.08
25 6 0.08
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (22 bp):
CATTTCATGCATGCATAATTTT
Found at i:190006 original size:43 final size:43
Alignment explanation
Indices: 189952--190094 Score: 277
Period size: 43 Copynumber: 3.3 Consensus size: 43
189942 CATTGCATGC
189952 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
189995 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
*
190038 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
190081 ATTTTCATTTCATG
1 ATTTTCATTTCATG
190095 CATTTCAAAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (43 bp):
ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
Found at i:190068 original size:21 final size:21
Alignment explanation
Indices: 189957--190073 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 21
189947 CATGCATTTT
*
189957 CATTTCATGTTTTTCACGTAA
1 CATTTCATGCTTTTCACGTAA
* *
189978 CATTTCATGC-ATGCA--TAA
1 CATTTCATGCTTTTCACGTAA
*
189996 TTTTCATTTCATGTTTTTCACGTAA
1 ----CATTTCATGCTTTTCACGTAA
* *
190021 CATTTCATGC-ATGCA--TAA
1 CATTTCATGCTTTTCACGTAA
190039 TTTTCATTTCATGCTTTTCACGTAA
1 ----CATTTCATGCTTTTCACGTAA
190064 CATTTCATGC
1 CATTTCATGC
190074 ATGCATAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
18 6 0.08
20 6 0.08
21 28 0.39
22 19 0.27
23 6 0.08
25 6 0.08
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (21 bp):
CATTTCATGCTTTTCACGTAA
Found at i:190095 original size:43 final size:43
Alignment explanation
Indices: 189952--190118 Score: 273
Period size: 43 Copynumber: 3.9 Consensus size: 43
189942 CATTGCATGC
*
189952 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
*
189995 ATTTTCATTTCATGTTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
190038 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
* **
190081 ATTTTCATTTCATGCATTTCA-AAAACATTTCATTGCAT
1 ATTTTCATTTCATGCTTTTCACGTAACATTTCA-TGCAT
190119 TGCACTTCAT
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 9 0.08
43 110 0.92
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (43 bp):
ATTTTCATTTCATGCTTTTCACGTAACATTTCATGCATGCATA
Found at i:190119 original size:5 final size:5
Alignment explanation
Indices: 190106--190196 Score: 85
Period size: 5 Copynumber: 18.2 Consensus size: 5
190096 ATTTCAAAAA
* * * *
190106 CATTT CATTG CATTG CACTT- CATTT CATTT CATTG CATTT CATTG CATTG
1 CATTG CATTG CATTG CA-TTG CATTG CATTG CATTG CATTG CATTG CATTG
* * * * *
190156 CATTT CATTT CATTT CATTG CATTG CATTT CATTA CATTG C
1 CATTG CATTG CATTG CATTG CATTG CATTG CATTG CATTG C
190197 TTTCATGCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
4 2 0.03
5 71 0.95
6 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.09, T:0.48
Consensus pattern (5 bp):
CATTG
Found at i:190129 original size:10 final size:10
Alignment explanation
Indices: 190106--190194 Score: 97
Period size: 10 Copynumber: 8.9 Consensus size: 10
190096 ATTTCAAAAA
* *
190106 CATTTCATTG
1 CATTGCATTT
*
190116 CATTGCACTT
1 CATTGCATTT
*
190126 CATTTCATTT
1 CATTGCATTT
190136 CATTGCATTT
1 CATTGCATTT
*
190146 CATTGCATTG
1 CATTGCATTT
*
190156 CATTTCATTT
1 CATTGCATTT
* *
190166 CATTTCATTG
1 CATTGCATTT
190176 CATTGCATTT
1 CATTGCATTT
*
190186 CATTACATT
1 CATTGCATT
190195 GCTTTCATGC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 66 1.00
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.49
Consensus pattern (10 bp):
CATTGCATTT
Found at i:190129 original size:20 final size:20
Alignment explanation
Indices: 190106--190196 Score: 137
Period size: 20 Copynumber: 4.5 Consensus size: 20
190096 ATTTCAAAAA
*
190106 CATTTCATTGCATTGCACTT
1 CATTTCATTGCATTGCATTT
*
190126 CATTTCATTTCATTGCATTT
1 CATTTCATTGCATTGCATTT
* *
190146 CATTGCATTGCATTTCATTT
1 CATTTCATTGCATTGCATTT
190166 CATTTCATTGCATTGCATTT
1 CATTTCATTGCATTGCATTT
*
190186 CATTACATTGC
1 CATTTCATTGC
190197 TTTCATGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.21, C:0.22, G:0.09, T:0.48
Consensus pattern (20 bp):
CATTTCATTGCATTGCATTT
Found at i:194217 original size:20 final size:23
Alignment explanation
Indices: 194184--194238 Score: 80
Period size: 21 Copynumber: 2.5 Consensus size: 23
194174 ACATATTTTT
194184 TATAATATATTT-AAAATATAAAA
1 TATAATA-ATTTAAAAATATAAAA
194207 -A-AATAATTTAAAAATATAAAA
1 TATAATAATTTAAAAATATAAAA
194228 TATAATAATTT
1 TATAATAATTT
194239 TTTAATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.14
21 15 0.52
22 2 0.07
23 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TATAATAATTTAAAAATATAAAA
Found at i:195137 original size:16 final size:16
Alignment explanation
Indices: 195118--195213 Score: 63
Period size: 16 Copynumber: 5.8 Consensus size: 16
195108 TTAAAATAAT
195118 ATATATTTATATTTTA
1 ATATATTTATATTTTA
*
195134 ATAT-TATTATTAATTT-
1 ATATAT-TTA-TATTTTA
* *
195150 ATATTATATAAATTTTA
1 ATA-TATTTATATTTTA
*
195167 ATAAATTTATATATTTA
1 ATATATTTATAT-TTTA
195184 TATTATATTTATATTTT-
1 -A-TATATTTATATTTTA
*
195201 TTAATATTTATAT
1 AT-ATATTTATAT
195214 ATATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.03
16 30 0.48
17 15 0.24
18 5 0.08
19 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTTATATTTTA
Found at i:195153 original size:24 final size:25
Alignment explanation
Indices: 195122--195189 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
195112 AATAATATAT
*
195122 ATTTATATTTTAATATTATT-ATTA
1 ATTTATATTTTAATATTATTAATAA
195146 ATTTATATTATATAA-ATT-TTAATAA
1 ATTTATATT-T-TAATATTATTAATAA
195171 ATTTATATATTT-ATATTAT
1 ATTTATAT-TTTAATATTAT
195190 ATTTATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
23 1 0.03
24 15 0.41
25 17 0.46
26 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTATATTTTAATATTATTAATAA
Found at i:195209 original size:10 final size:10
Alignment explanation
Indices: 195194--195233 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
195184 TATTATATTT
195194 ATATTTTTTA
1 ATATTTTTTA
*
195204 ATA-TTTATA
1 ATATTTTTTA
195213 TATATTTTTTA
1 -ATATTTTTTA
195224 ATATTTTTTA
1 ATATTTTTTA
195234 GATTACCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 16 0.62
11 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATATTTTTTA
Found at i:195210 original size:35 final size:32
Alignment explanation
Indices: 195114--195215 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 32
195104 ATATTTAAAA
*
195114 TAATATATATTTATATTTTAATA-TTAT-TAT
1 TAATTTATATTTATATTTTAATATTTATATAT
195144 TAATTTATATTATATAAATTTTAATAAATTTATATAT
1 TAATTTATATT-TAT--ATTTTAAT--ATTTATATAT
*
195181 TTATATTATATTTATATTTTTTAATATTTATATAT
1 TAAT-TTATATTTATA--TTTTAATATTTATATAT
195216 ATTTTTTAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
30 10 0.17
31 3 0.05
33 8 0.13
35 12 0.20
36 4 0.07
37 16 0.27
38 7 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (32 bp):
TAATTTATATTTATATTTTAATATTTATATAT
Found at i:195213 original size:33 final size:33
Alignment explanation
Indices: 195119--195233 Score: 84
Period size: 37 Copynumber: 3.5 Consensus size: 33
195109 TAAAATAATA
*
195119 TATATTTATA--TTTTAATA-TTATTATTAAT-T
1 TATATTTATATTTTTTAATATTTA-TATTTATAT
**
195149 TATATTATATAAATTTTAATAAATTTATATATTTATAT
1 TATATT-TATATTTTTTAAT--A-TT-TATATTTATAT
195187 TATATTTATATTTTTTAATATTTATA--TATAT
1 TATATTTATATTTTTTAATATTTATATTTATAT
195218 T-T-TTTAATATTTTTTA
1 TATATTT-ATATTTTTTA
195234 GATTACCTTC
Statistics
Matches: 72, Mismatches: 3, Indels: 20
0.76 0.03 0.21
Matches are distributed among these distances:
29 3 0.04
30 17 0.24
31 10 0.14
33 11 0.15
34 2 0.03
35 2 0.03
37 18 0.25
38 9 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (33 bp):
TATATTTATATTTTTTAATATTTATATTTATAT
Found at i:195216 original size:20 final size:20
Alignment explanation
Indices: 195183--195229 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
195173 TTATATATTT
*
195183 ATATTATATTTATATTTTTTA
1 ATATT-TATATATATTTTTTA
195204 ATATTTATATATATTTTTTA
1 ATATTTATATATATTTTTTA
195224 ATATTT
1 ATATTT
195230 TTTAGATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATATTTATATATATTTTTTA
Found at i:196175 original size:5 final size:5
Alignment explanation
Indices: 196165--196219 Score: 53
Period size: 5 Copynumber: 11.6 Consensus size: 5
196155 TAATTTTAAG
* * *
196165 ATATA ATATA AAAT- ATATA AT-TA AAATA ATATA ATA-A ATATA ATACA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
*
196212 ATACA ATA
1 ATATA ATA
196220 CGAGACATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
4 10 0.24
5 32 0.76
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (5 bp):
ATATA
Found at i:196184 original size:14 final size:15
Alignment explanation
Indices: 196165--196214 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
196155 TAATTTTAAG
196165 ATATAATATAAAAT-
1 ATATAATATAAAATA
196179 ATATAAT-TAAAATA
1 ATATAATATAAAATA
*
196193 ATATAATA-AATATA
1 ATATAATATAAAATA
*
196207 ATACAATA
1 ATATAATA
196215 CAATACGAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 6 0.19
14 26 0.81
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATATAAAATA
Found at i:196544 original size:2 final size:2
Alignment explanation
Indices: 196539--196573 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
196529 AAACACACAC
196539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
196574 AGTTTGAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:196944 original size:21 final size:21
Alignment explanation
Indices: 196905--196945 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
196895 ATATTAAAAA
*
196905 ATATTTTATATTGATATTTAT
1 ATATTTTATATTGAAATTTAT
196926 ATATTTTATAATT-AAATTTA
1 ATATTTTAT-ATTGAAATTTA
196946 AATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
ATATTTTATATTGAAATTTAT
Found at i:197262 original size:5 final size:5
Alignment explanation
Indices: 197254--197290 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
197244 TAATTTGATA
*
197254 AAAAT AAAAT AAAAT AAAAT AAAAT --TAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
197291 AAATTAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
3 2 0.07
5 26 0.93
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:197275 original size:21 final size:21
Alignment explanation
Indices: 197251--197298 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
197241 ATTTAATTTG
197251 ATAAAA-ATAAAATAAAATAAA
1 ATAAAATATAAAATAAAA-AAA
197272 ATAAAATTATAAAATAAAAAAA
1 ATAAAA-TATAAAATAAAAAAA
*
197294 TTAAA
1 ATAAA
197299 CAATGACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
ATAAAATATAAAATAAAAAAA
Found at i:202512 original size:2 final size:2
Alignment explanation
Indices: 202505--202530 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
202495 AATTATTAAA
202505 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
202531 GGGGTTACCA
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:207366 original size:1 final size:1
Alignment explanation
Indices: 207360--207447 Score: 68
Period size: 1 Copynumber: 88.0 Consensus size: 1
207350 AAATCTTCAC
* * ** * * * **
207360 TTTTTTTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
207425 TTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
207448 CCAATTGCCA
Statistics
Matches: 67, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:207385 original size:16 final size:16
Alignment explanation
Indices: 207360--207441 Score: 89
Period size: 16 Copynumber: 5.2 Consensus size: 16
207350 AAATCTTCAC
207360 TTTTTT-TTTTGTTTT
1 TTTTTTCTTTTGTTTT
*
207375 TTTTTTCTTTT-TCCTT
1 TTTTTTCTTTTGT-TTT
*
207391 TTTTTTGTTTTGTTTT
1 TTTTTTCTTTTGTTTT
*
207407 TTTTTTCTTTT-TCCTT
1 TTTTTTCTTTTGT-TTT
*
207423 TTTTTTGTTTTGTTTT
1 TTTTTTCTTTTGTTTT
207439 TTT
1 TTT
207442 CTTTTTCCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
15 8 0.15
16 45 0.82
17 2 0.04
ACGTcount: A:0.00, C:0.07, G:0.06, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTTGTTTT
Found at i:207402 original size:32 final size:32
Alignment explanation
Indices: 207360--207441 Score: 157
Period size: 32 Copynumber: 2.6 Consensus size: 32
207350 AAATCTTCAC
207360 TTTTTT-TTTTGTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
207391 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
207423 TTTTTTGTTTTGTTTTTTT
1 TTTTTTGTTTTGTTTTTTT
207442 CTTTTTCCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 6 0.12
32 44 0.88
ACGTcount: A:0.00, C:0.07, G:0.06, T:0.87
Consensus pattern (32 bp):
TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTT
Found at i:219731 original size:27 final size:27
Alignment explanation
Indices: 219701--219771 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
219691 ACCCTTTGTG
*
219701 TTTGTCAAAAATGGTGGTTACTTTATA
1 TTTGTCAAAAATGGTGATTACTTTATA
* *
219728 TTTGTCAAAAATGGTGATTCCTTTTTA
1 TTTGTCAAAAATGGTGATTACTTTATA
* *
219755 TTTGTAAAAAATTGTGA
1 TTTGTCAAAAATGGTGA
219772 CTTGTTGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGATTACTTTATA
Found at i:224257 original size:27 final size:27
Alignment explanation
Indices: 224226--224303 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
224216 AAAAGTCACC
224226 CTTTGTGTTTGTCAAAAATAGTGGTTA
1 CTTTGTGTTTGTCAAAAATAGTGGTTA
* * *
224253 CTTTGTATTTGTCAAAAATAGTGATTC
1 CTTTGTGTTTGTCAAAAATAGTGGTTA
* *
224280 CTTTTTGTTTGTCAAAAATTGTGG
1 CTTTGTGTTTGTCAAAAATAGTGG
224304 CTTGTTGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATAGTGGTTA
Found at i:224801 original size:11 final size:10
Alignment explanation
Indices: 224782--224827 Score: 74
Period size: 11 Copynumber: 4.4 Consensus size: 10
224772 CTTGTTTTAT
224782 TATTTTATTA
1 TATTTTATTA
224792 TATTTATATTA
1 TATTT-TATTA
224803 TATTTTAATTA
1 TATTTT-ATTA
224814 TATTTTATTA
1 TATTTTATTA
224824 TATT
1 TATT
224828 CATGTTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.41
11 20 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTTTATTA
Found at i:224806 original size:16 final size:16
Alignment explanation
Indices: 224777--224827 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
224767 CATAACTTGT
224777 TTTATTATTTTATTATA
1 TTTA-TATTTTATTATA
* *
224794 TTTATATTATATTTTA
1 TTTATATTTTATTATA
*
224810 ATTATATTTTATTATA
1 TTTATATTTTATTATA
224826 TT
1 TT
224828 CATGTTATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATATTTTATTATA
Found at i:225096 original size:19 final size:19
Alignment explanation
Indices: 225059--225096 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
225049 ATAAGAAAAT
*
225059 TTATTAAAATTATATTTAA
1 TTATTAAAATTATAATTAA
225078 TTATTAAAAATTA-AATTAA
1 TTATT-AAAATTATAATTAA
225097 AAATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATTAAAATTATAATTAA
Found at i:225235 original size:20 final size:21
Alignment explanation
Indices: 225199--225248 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
225189 ATTTATATTT
225199 TAAA-TTAAATTAAATTT-TAA
1 TAAATTTAAATTAAATTTAT-A
* *
225219 TAAATTTAAA-TATATTTATT
1 TAAATTTAAATTAAATTTATA
225239 TAAATTTAAA
1 TAAATTTAAA
225249 CGATTTGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAATTTAAATTAAATTTATA
Found at i:225867 original size:14 final size:13
Alignment explanation
Indices: 225848--225898 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
225838 TAATATTAAA
225848 AATATTTTTATATT
1 AATATTTTTA-ATT
*
225862 AATATTTATAATT
1 AATATTTTTAATT
* **
225875 AA-ATTTTAAAAA
1 AATATTTTTAATT
225887 AATATTTTTAAT
1 AATATTTTTAAT
225899 CTCAAATTCA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
12 8 0.28
13 12 0.41
14 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATTTTTAATT
Found at i:225877 original size:40 final size:39
Alignment explanation
Indices: 225819--225896 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
225809 TAATTTAAAA
* *
225819 ATTAATATTATTATTTAAATAATATTAAAAATATTTTTAT
1 ATTAATATTATTAATTAAATAATA-AAAAAATATTTTTAT
**
225859 ATTAATATT-TATAATTAAATTTTAAAAAAATATTTTTA
1 ATTAATATTAT-TAATTAAATAATAAAAAAATATTTTTA
225897 ATCTCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (39 bp):
ATTAATATTATTAATTAAATAATAAAAAAATATTTTTAT
Found at i:226117 original size:2 final size:2
Alignment explanation
Indices: 226112--226136 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
226102 AAACCATTGG
226112 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
226137 CCAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:226637 original size:2 final size:2
Alignment explanation
Indices: 226626--226670 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
226616 CCTTTTGTTT
* *
226626 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA GA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
226667 TA TA
1 TA TA
226671 GTGTCGTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:227938 original size:16 final size:15
Alignment explanation
Indices: 227919--227962 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
227909 TTTAAAAATT
227919 TTTGAACTCGAAAAAA
1 TTTGAACTC-AAAAAA
*
227935 TTTGAA-TAAAAAAA
1 TTTGAACTCAAAAAA
*
227949 TTCGAACTCAAAAA
1 TTTGAACTCAAAAA
227963 TATCAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.46
15 7 0.29
16 6 0.25
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (15 bp):
TTTGAACTCAAAAAA
Found at i:231498 original size:12 final size:12
Alignment explanation
Indices: 231483--231526 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
231473 AATATGTACT
*
231483 TAAATTTGAAAA
1 TAAATTTAAAAA
231495 TAAATTTAAAACA
1 TAAATTTAAAA-A
*
231508 TAAAATTAAAAAA
1 T-AAATTTAAAAA
231521 TAAATT
1 TAAATT
231527 ATTTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 15 0.54
13 4 0.14
14 9 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:231519 original size:14 final size:13
Alignment explanation
Indices: 231491--231524 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
231481 CTTAAATTTG
*
231491 AAAATAAATTTAA
1 AAAATAAAATTAA
*
231504 AACATAAAATTAA
1 AAAATAAAATTAA
231517 AAAATAAA
1 AAAATAAA
231525 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:231556 original size:24 final size:23
Alignment explanation
Indices: 231523--231574 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
231513 TTAAAAAATA
231523 AATTATTTTTAAATTAATTAATT
1 AATTATTTTTAAATTAATTAATT
** *
231546 AATTATTTTTTACTTTAATTATTT
1 AATTA-TTTTTAAATTAATTAATT
231570 AATTA
1 AATTA
231575 AAAGATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AATTATTTTTAAATTAATTAATT
Found at i:235640 original size:31 final size:30
Alignment explanation
Indices: 235561--235652 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
235551 AATTATTTTT
*
235561 ATTTAAATTTAATTATAAATATTAATATAAA
1 ATTTAAATTTAAAT-TAAATATTAATATAAA
* * *
235592 ATATATATTTATTATTAAATGA-TAATATAAA
1 ATTTAAATTTA-AATTAAAT-ATTAATATAAA
*
235623 TTTTTAAATTTAAATTAAAT-TT-ATATAAA
1 -ATTTAAATTTAAATTAAATATTAATATAAA
235652 A
1 A
235653 AATAAAAAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
29 7 0.15
30 1 0.02
31 30 0.62
32 10 0.21
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
ATTTAAATTTAAATTAAATATTAATATAAA
Found at i:241885 original size:16 final size:16
Alignment explanation
Indices: 241860--241902 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
241850 AGTGTTTAGT
*
241860 AGAATAAAAAAGTGAA
1 AGAATGAAAAAGTGAA
*
241876 AGAATGAAAAAGAGAA
1 AGAATGAAAAAGTGAA
241892 AG--TGAAAAAGT
1 AGAATGAAAAAGT
241903 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.33
16 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (16 bp):
AGAATGAAAAAGTGAA
Found at i:242401 original size:11 final size:11
Alignment explanation
Indices: 242385--242409 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
242375 TTATATTAAT
242385 TTTTTTAAATA
1 TTTTTTAAATA
242396 TTTTTTAAATA
1 TTTTTTAAATA
242407 TTT
1 TTT
242410 ATAAAATAAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:252420 original size:12 final size:13
Alignment explanation
Indices: 252398--252426 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
252388 TTGCCTGCAT
252398 AAAATTCAAAAAA
1 AAAATTCAAAAAA
252411 AAAATT-AAAAAA
1 AAAATTCAAAAAA
252423 AAAA
1 AAAA
252427 AAAGTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAATTCAAAAAA
Found at i:252427 original size:13 final size:13
Alignment explanation
Indices: 252398--252427 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
252388 TTGCCTGCAT
*
252398 AAAATTCAAAAAA
1 AAAATTAAAAAAA
252411 AAAATTAAAAAAA
1 AAAATTAAAAAAA
252424 AAAA
1 AAAA
252428 AAGTAAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAATTAAAAAAA
Found at i:252726 original size:22 final size:21
Alignment explanation
Indices: 252676--252726 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
252666 AAATGCAATC
252676 ATATTTAAAATATAATATTTT
1 ATATTTAAAATATAATATTTT
* * *
252697 AAAATTAAAA-ATAATTTTAATT
1 ATATTTAAAATATAATATT--TT
252719 ATATTTAA
1 ATATTTAA
252727 TTAATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 7 0.30
21 8 0.35
22 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTAAAATATAATATTTT
Found at i:252751 original size:27 final size:29
Alignment explanation
Indices: 252702--252763 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
252692 ATTTTAAAAT
*
252702 TAAAAATAATTTTAATTATATTTAATTAA
1 TAAAAATAATTTTAATTAAATTTAATTAA
*
252731 TAAAAA-AA-TTTATTTAAATTTAATT--
1 TAAAAATAATTTTAATTAAATTTAATTAA
252756 TAAAAATA
1 TAAAAATA
252764 TATAAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 6 0.20
26 1 0.03
27 15 0.50
28 2 0.07
29 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAAAAATAATTTTAATTAAATTTAATTAA
Found at i:254377 original size:25 final size:25
Alignment explanation
Indices: 254349--254413 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
254339 AAATTATTAT
254349 TAAAGATAATTTTTTACCTTCAAAA
1 TAAAGATAATTTTTTACCTTCAAAA
* * *
254374 TAAAAATAATTTTTTATCTTTAAAA
1 TAAAGATAATTTTTTACCTTCAAAA
* *
254399 TAAGGATGATTTTTT
1 TAAAGATAATTTTTT
254414 TTTTTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (25 bp):
TAAAGATAATTTTTTACCTTCAAAA
Found at i:256687 original size:17 final size:18
Alignment explanation
Indices: 256650--256694 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
256640 TTTGGTTCAT
256650 TTTTTTAATTAAATCTCA
1 TTTTTTAATTAAATCTCA
* *
256668 TTTTTTATTTAAAT-TTA
1 TTTTTTAATTAAATCTCA
*
256685 TTTTTAAATT
1 TTTTTTAATT
256695 TAATATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTAATTAAATCTCA
Found at i:256933 original size:21 final size:21
Alignment explanation
Indices: 256905--256965 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
256895 TTATTTAATA
256905 AATA-AAAATTATTTAAAATT
1 AATATAAAATTATTTAAAATT
* *
256925 ATTATAAAA-TATATAAATATT
1 AATATAAAATTATTTAAA-ATT
*
256946 AATATAAAATAATTTTAAAA
1 AATATAAAATTA-TTTAAAA
256966 AATATCGTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 10 0.31
21 15 0.47
22 2 0.06
23 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATAAAATTATTTAAAATT
Found at i:256941 original size:31 final size:32
Alignment explanation
Indices: 256891--256970 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
256881 AAAAATTCAC
** * *
256891 ATTATTATTTAATAAATAAAAATT-ATTTAAA
1 ATTATTATAAAATATATAAAAATTAATATAAA
*
256922 ATTATTATAAAATATATAAATATTAATATAAA
1 ATTATTATAAAATATATAAAAATTAATATAAA
* * *
256954 ATAATTTTAAAAAATAT
1 ATTATTATAAAATATAT
256971 CGTAATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 20 0.50
32 20 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
ATTATTATAAAATATATAAAAATTAATATAAA
Found at i:257147 original size:24 final size:28
Alignment explanation
Indices: 257115--257168 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 28
257105 ATCAATCAAA
257115 ATTATTATTT-AA-TTAA-TA-AAAAAT
1 ATTATTATTTAAATTTAATTATAAAAAT
257139 ATTATTATTTAAATTTAATTATAAAAAT
1 ATTATTATTTAAATTTAATTATAAAAAT
257167 AT
1 AT
257169 ATAAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.38
25 2 0.08
26 4 0.15
27 2 0.08
28 8 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATTATTTAAATTTAATTATAAAAAT
Found at i:257156 original size:30 final size:31
Alignment explanation
Indices: 257121--257179 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
257111 CAAAATTATT
*
257121 ATTTAATTAATAAAAA-ATAT-TATTATTTAA
1 ATTTAATT-ATAAAAATATATAAATTATTTAA
257151 ATTTAATTATAAAAATATATAAATTATTT
1 ATTTAATTATAAAAATATATAAATTATTT
257180 TAATATTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.27
30 12 0.46
31 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTAATTATAAAAATATATAAATTATTTAA
Done.