Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold196
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: 7488280
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 125249 characters in sequence are not A, C, G, or T
File 43 of 47
Found at i:6951028 original size:9 final size:9
Alignment explanation
Indices: 6951014--6951065 Score: 70
Period size: 9 Copynumber: 5.8 Consensus size: 9
6951004 TGGCAATAGC
*
6951014 AAGAAAAGA
1 AAGAAAAAA
6951023 AAG-AAAAA
1 AAGAAAAAA
6951031 AAGAAAGAAA
1 AAGAAA-AAA
6951041 AAGAAAAAA
1 AAGAAAAAA
6951050 AAGAAAAAA
1 AAGAAAAAA
*
6951059 AATAAAA
1 AAGAAAA
6951066 GATAGCTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 7 0.18
9 23 0.59
10 9 0.23
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:6951034 original size:12 final size:12
Alignment explanation
Indices: 6951017--6951042 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6951007 CAATAGCAAG
6951017 AAAAGAAAGAAA
1 AAAAGAAAGAAA
6951029 AAAAGAAAGAAA
1 AAAAGAAAGAAA
6951041 AA
1 AA
6951043 GAAAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:6951045 original size:18 final size:17
Alignment explanation
Indices: 6951014--6951065 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 17
6951004 TGGCAATAGC
*
6951014 AAGAAAAGAAAGAAAAA
1 AAGAAAAAAAAGAAAAA
6951031 AAGAAAGAAAAAGAAAAAA
1 AAGAAA-AAAAAG-AAAAA
*
6951050 AAGAAAAAAAATAAAA
1 AAGAAAAAAAAGAAAA
6951066 GATAGCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 10 0.32
18 10 0.32
19 11 0.35
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAAAGAAAAA
Found at i:6951436 original size:2 final size:2
Alignment explanation
Indices: 6951429--6951463 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6951419 ATTCCTTATT
6951429 TA TA 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 TA TA T
6951464 GCACATATTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6951590 original size:35 final size:35
Alignment explanation
Indices: 6951544--6951613 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
6951534 AGTCATTTTC
6951544 ATAAGAATTATGATGAAGATAATGTCTCATGCATT
1 ATAAGAATTATGATGAAGATAATGTCTCATGCATT
6951579 ATAAGAATTATGATGAAGATAATGTCTCATGCATT
1 ATAAGAATTATGATGAAGATAATGTCTCATGCATT
6951614 TTTTATAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (35 bp):
ATAAGAATTATGATGAAGATAATGTCTCATGCATT
Found at i:6951695 original size:2 final size:2
Alignment explanation
Indices: 6951688--6951715 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6951678 CTTACTTTAA
6951688 AT 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 AT
6951716 TTGGTGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6951991 original size:79 final size:78
Alignment explanation
Indices: 6951906--6952085 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 78
6951896 AGCATGTTGG
* ** ** *
6951906 TTTATATCGAGATATGTGCATTAAAGCCATTTTAGTGAATTTTTTGAGAAATTTGAGTTCTTAAG
1 TTTATATCGAGACATGTGCATTAAAGCCATTTTAGTGAATTTCATGAGAAATCCGAG-CCTTAAG
*
6951971 AGCATGTTGGTATT
65 AGCATGTTAGTATT
** * * *
6951985 TTTATATCGAGACATGTGCATTAGGGCTATTTTAGTGAGTTTCATGAGAAATCCGAGCCTTATGA
1 TTTATATCGAGACATGTGCATTAAAGCCATTTTAGTGAATTTCATGAGAAATCCGAGCCTTAAGA
6952050 GCATGTTAGTATT
66 GCATGTTAGTATT
* * *
6952063 TTCATATCGAGGCATGTACATTA
1 TTTATATCGAGACATGTGCATTA
6952086 TGGTCATTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 38 0.44
79 48 0.56
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (78 bp):
TTTATATCGAGACATGTGCATTAAAGCCATTTTAGTGAATTTCATGAGAAATCCGAGCCTTAAGA
GCATGTTAGTATT
Found at i:6952095 original size:78 final size:78
Alignment explanation
Indices: 6951909--6952097 Score: 200
Period size: 78 Copynumber: 2.4 Consensus size: 78
6951899 ATGTTGGTTT
* * * * ** ** *
6951909 ATATCGAGATATGTGCATTAAAGCCATTTTAGTGAATTTTTTGAGAAATTTGAGTTCTTAAGAGC
1 ATATCGAGACATGTACATT-AGGGCATTTTAGTGAATTTCATGAGAAATCCGAGTCCTTAAGAGC
* *
6951974 ATGTTGGTATTTTT
65 ATGTTAGTATTTTC
* * *
6951988 ATATCGAGACATGTGCATTAGGGCTATTTTAGTGAGTTTCATGAGAAATCCGAG-CCTTATGAGC
1 ATATCGAGACATGTACATTAGGGC-ATTTTAGTGAATTTCATGAGAAATCCGAGTCCTTAAGAGC
6952052 ATGTTAGTATTTTC
65 ATGTTAGTATTTTC
* *
6952066 ATATCGAGGCATGTACATTATGGTCATTTTAG
1 ATATCGAGACATGTACATTA-GGGCATTTTAG
6952098 AAAGTTTCTT
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
78 48 0.52
79 45 0.48
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (78 bp):
ATATCGAGACATGTACATTAGGGCATTTTAGTGAATTTCATGAGAAATCCGAGTCCTTAAGAGCA
TGTTAGTATTTTC
Found at i:6952229 original size:77 final size:75
Alignment explanation
Indices: 6952129--6952343 Score: 186
Period size: 74 Copynumber: 2.8 Consensus size: 75
6952119 GTCTCTAACG
* * * *
6952129 TCATGTGGGTACTTTCATATTGATACATGTCCATATAGTCATTTAGGTAATAGTACATTGAAATC
1 TCATGTGAGTA-TTTCTTGTTGATACATGTCCATATAGTCATTTAGGTAATAGTACATTAAAATC
* ***
6952194 GAGTCTTTATGA
65 AAGT-AGGATGA
* * **
6952206 TCATGTGAGTATTTTCTTGTTGATAGATATCCAT-TAGGGTCATTTACATAATAGTACATTAAAA
1 TCATGTGAGTA-TTTCTTGTTGATACATGTCCATATA--GTCATTTAGGTAATAGTACATTAAAA
6952270 TCAAGTAGGATGA
63 TCAAGTAGGATGA
* * * * *
6952283 T-ATG-GA-TATTTCTATGTTAATACATGTCTATTAGAGTCATTTAGGTAATGGTATATTAAAA
1 TCATGTGAGTATTTCT-TGTTGATACATGTCCA-TATAGTCATTTAGGTAATAGTACATTAAAA
6952344 CTAGGTCTCT
Statistics
Matches: 111, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
73 5 0.05
74 36 0.32
75 3 0.03
76 6 0.05
77 33 0.30
78 28 0.25
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (75 bp):
TCATGTGAGTATTTCTTGTTGATACATGTCCATATAGTCATTTAGGTAATAGTACATTAAAATCA
AGTAGGATGA
Found at i:6952572 original size:21 final size:21
Alignment explanation
Indices: 6952528--6952577 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
6952518 TCATAAATTA
*
6952528 TTTTAAATAAATAAATAACCT
1 TTTTAAATAAATAAATAACAT
*
6952549 TTTTAAATAAGTAAATTAA-AT
1 TTTTAAATAAATAAA-TAACAT
*
6952570 TTTCAAAT
1 TTTTAAAT
6952578 TTTCTGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (21 bp):
TTTTAAATAAATAAATAACAT
Found at i:6954645 original size:20 final size:19
Alignment explanation
Indices: 6954609--6954647 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
6954599 AAAATGTCTC
6954609 TTTTTTAATTTTATAATTA
1 TTTTTTAATTTTATAATTA
6954628 TTTTTTATATATTT-TAATTA
1 TTTTTTA-AT-TTTATAATTA
6954648 AAGTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTAATTTTATAATTA
Found at i:6955990 original size:29 final size:31
Alignment explanation
Indices: 6955958--6956039 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 31
6955948 TATCGTGATT
*
6955958 ATTATATTAT-TTTTATATT-TATTAAAAAA
1 ATTATATTATATTATATATTATATTAAAAAA
* *
6955987 ATTATATTTATATTATATTTTATATTAAAAAG
1 ATTATA-TTATATTATATATTATATTAAAAAA
* *
6956019 ATATATATAATA-CATATATTA
1 AT-TATATTATATTATATATTA
6956040 AATATATTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 6 0.14
30 4 0.09
31 14 0.33
32 15 0.35
33 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTATATTATATTATATATTATATTAAAAAA
Found at i:6956075 original size:23 final size:26
Alignment explanation
Indices: 6956026--6956076 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
6956016 AAGATATATA
* *
6956026 TAATACATATATTAAATATATTGTAT
1 TAATACATATATTAAACATATTCTAT
6956052 TAAT-CATAT-TTAAACATA-TCTAT
1 TAATACATATATTAAACATATTCTAT
6956075 TA
1 TA
6956077 TGTTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 8 0.35
25 5 0.22
26 4 0.17
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATACATATATTAAACATATTCTAT
Found at i:6956110 original size:22 final size:24
Alignment explanation
Indices: 6956085--6956133 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
6956075 TATGTTTATT
* *
6956085 ATATTATTAT-TTTAT-TTATTAA
1 ATATTATCATGTTTATATTATAAA
6956107 ATA-TATCATGTTTATATTATAAA
1 ATATTATCATGTTTATATTATAAA
6956130 ATAT
1 ATAT
6956134 ATATATCGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.23
22 8 0.36
23 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATTATCATGTTTATATTATAAA
Found at i:6956147 original size:124 final size:125
Alignment explanation
Indices: 6955925--6956172 Score: 277
Period size: 124 Copynumber: 2.0 Consensus size: 125
6955915 ATTTTGTTTT
* * * *
6955925 TATTAGTCAGATTTAAATATATCTATCGTGATTATTATATTATTTTTATATTTATTAAAAAAATT
1 TATTAATCAGATTTAAACATATCTATCATGATTATTATATTATTTTTATATTTATTAAAAAAATC
*** *
6955990 ATATTTATATTATATTTTATATTAAAAAGATATATATAATACA-TATATTAAATATATTG
66 ATATTTATATTATAAAATATATTAAAAAGATATATAAAATACATTATATTAAATATATTG
* * * * *
6956049 TATTAATCATATTTAAACATATCTATTATGTTTATTATATTATTATTT-TATTTATTAAATATAT
1 TATTAATCAGATTTAAACATATCTATCATGATTATTATATTATT-TTTATATTTATTAAAAAAAT
* * ** * * *
6956113 CATGTTTATATTATAAAATATA-TATATCGTATATATAAAATATATTTTATTAATTATATT
65 CATATTTATATTATAAAATATATTAAAAAG-ATATATAAAATACATTATATTAAATATATT
6956173 TAAATATATA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
123 4 0.04
124 81 0.80
125 16 0.16
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (125 bp):
TATTAATCAGATTTAAACATATCTATCATGATTATTATATTATTTTTATATTTATTAAAAAAATC
ATATTTATATTATAAAATATATTAAAAAGATATATAAAATACATTATATTAAATATATTG
Found at i:6956164 original size:111 final size:112
Alignment explanation
Indices: 6956005--6956210 Score: 292
Period size: 111 Copynumber: 1.8 Consensus size: 112
6955995 TATATTATAT
*
6956005 TTTATATTAAAAAGATATATATAATACATATATTAAATATATTGTATTAATCATATTTAAACATA
1 TTTATATTAAAAAGATATATATAATACATATATAAAATATATTGTATTAATCATATTTAAACATA
* * *
6956070 TCTATTATGTTTATTATATTATTATTTTATTTATTAAATATATCATG
66 TATATTATATTTATTATATTATAATTTTATTTATTAAATATATCATG
* * * *
6956117 TTTATATTATAAA-ATATATAT-AT-CGTATATATAAAATATATTTTATTAATTATATTTAAATA
1 TTTATATTAAAAAGATATATATAATAC--ATATATAAAATATATTGTATTAATCATATTTAAACA
*
6956179 TATATGTTATATTTATTATATTATAATTTTAT
64 TATATATTATATTTATTATATTATAATTTTAT
6956211 ATTTATATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
109 1 0.01
110 2 0.02
111 68 0.82
112 12 0.14
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (112 bp):
TTTATATTAAAAAGATATATATAATACATATATAAAATATATTGTATTAATCATATTTAAACATA
TATATTATATTTATTATATTATAATTTTATTTATTAAATATATCATG
Found at i:6956196 original size:28 final size:27
Alignment explanation
Indices: 6956142--6956222 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
6956132 ATATATATCG
* *
6956142 TATATATAAA-ATATATTT-TATTAAT
1 TATATTTAAATATATATTTATATTTAT
6956167 TATATTTAAATATATATGTTATATTTAT
1 TATATTTAAATATATAT-TTATATTTAT
* *
6956195 TATATTATAATTTTATATTTATATTTAT
1 TATATT-TAAATATATATTTATATTTAT
6956223 ACTATTATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 9 0.19
26 6 0.12
27 2 0.04
28 22 0.46
29 9 0.19
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TATATTTAAATATATATTTATATTTAT
Found at i:6956217 original size:6 final size:6
Alignment explanation
Indices: 6956166--6956251 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
6956156 ATTTTATTAA
* *
6956166 TTATAT TTAAAT ATATAT GTTATAT TTATTAT ATTATAATT TTATAT TTATAT
1 TTATAT TTATAT TTATAT -TTATAT TTA-TAT -TTAT-A-T TTATAT TTATAT
6956219 TTATACT ATTATCATT TTATAT TTATAT CTTAT
1 TTATA-T -TTAT-A-T TTATAT TTATAT -TTAT
6956252 TGAAAATTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
6 31 0.47
7 16 0.24
8 16 0.24
9 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (6 bp):
TTATAT
Found at i:6956228 original size:28 final size:27
Alignment explanation
Indices: 6956153--6956251 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 27
6956143 ATATATAAAA
* * *
6956153 TATATTT-TATTAATTATATT-TAAATA
1 TATATTTATATTTA-TATATTATAATTT
6956179 TATATGTTATATTTATTATATTATAATTT
1 TATAT-TTATATTTA-TATATTATAATTT
*
6956208 TATATTTATATTTATACTATTATCATTT
1 TATATTTATATTTATA-TATTATAATTT
6956236 TATATTTATATCTTAT
1 TATATTTATAT-TTAT
6956252 TGAAAATTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
26 5 0.08
27 4 0.06
28 42 0.66
29 13 0.20
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (27 bp):
TATATTTATATTTATATATTATAATTT
Found at i:6956334 original size:31 final size:31
Alignment explanation
Indices: 6956296--6956355 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
6956286 TGGTCCTTGT
*
6956296 CCAATGGAGACAATAGTCAATGACAATTTGG
1 CCAATGGAGACAATAATCAATGACAATTTGG
6956327 CCAATGGAGACAATAATCAATGACAATTT
1 CCAATGGAGACAATAATCAATGACAATTT
6956356 CACCCAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (31 bp):
CCAATGGAGACAATAATCAATGACAATTTGG
Found at i:6957884 original size:2 final size:2
Alignment explanation
Indices: 6957877--6957910 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6957867 TAATATCAAG
6957877 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6957911 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:6957915 original size:2 final size:2
Alignment explanation
Indices: 6957910--6957939 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6957900 TCTCTCTCTC
6957910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6957940 ATTTCTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6962232 original size:97 final size:96
Alignment explanation
Indices: 6962035--6962377 Score: 359
Period size: 98 Copynumber: 3.5 Consensus size: 96
6962025 TAATTTTTGA
* * *** * *
6962035 TTGAAAAACGGAGATAGAGTATCCCCTCAAAAAAATAGGG-TTGGAGTATTTTCGATGATGATAA
1 TTGAAAAAC-GAGTTAGAGTATCCCCTCGAAAAAAT-GGGATTGGAGTATCCCCAATGATGACAA
* *
6962099 -TTAGGTAAAAATAAGATTTAAATCTTAACAAA
64 TTTAAGTAAAAATAAGATTTAAATCTTAACAAG
*
6962131 TTGAAAAACAGAGTTAGAGTATTCCCTCGAAAAAATGGGATTGGAGTATCCCCAATGATGACAAT
1 TTGAAAAAC-GAGTTAGAGTATCCCCTCGAAAAAATGGGATTGGAGTATCCCCAATGATGACAAT
*
6962196 TTAAGTAAAGATAAGATTTAAATCTTAACAAG
65 TTAAGTAAAAATAAGATTTAAATCTTAACAAG
* ** * * * * *
6962228 TTGAAAAACGAGGTT-GAACTATCCTTTCGGAAGAATGGGATTAGAGTACCCCCTTATGATGACA
1 TTGAAAAACGA-GTTAG-AGTATCCCCTCGAAAAAATGGGATTGGAGTATCCCC-AATGATGACA
* * *
6962292 ATTTAAGTAAAAATAAAATTTAAATCTTGACGAG
63 ATTTAAGTAAAAATAAGATTTAAATCTTAACAAG
* * * * *
6962326 TTTAAAAGCGAGATTAAAGTATCCCCTCGAAAGAATAGGATTGGAGTATCCC
1 TTGAAAAACGAG-TTAGAGTATCCCCTCGAAAAAATGGGATTGGAGTATCCC
6962378 TATGAATAAA
Statistics
Matches: 205, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
95 3 0.01
96 54 0.26
97 70 0.34
98 78 0.38
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (96 bp):
TTGAAAAACGAGTTAGAGTATCCCCTCGAAAAAATGGGATTGGAGTATCCCCAATGATGACAATT
TAAGTAAAAATAAGATTTAAATCTTAACAAG
Found at i:6964628 original size:20 final size:20
Alignment explanation
Indices: 6964588--6964641 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
6964578 CATTTTAAGC
*
6964588 ATGTATCGATGCATTCACTT
1 ATGTATCGATACATTCACTT
6964608 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTCA-CTT
*
6964628 ATTGCATCGATACA
1 A-TGTATCGATACA
6964642 AACTGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 18 0.60
21 11 0.37
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:6965038 original size:42 final size:43
Alignment explanation
Indices: 6964963--6965053 Score: 141
Period size: 42 Copynumber: 2.1 Consensus size: 43
6964953 GTGAAGCATA
6964963 TTAGGTGTGTTAGATGATGTATTTGGTAGGAATGTTAGGTGTG
1 TTAGGTGTGTTAGATGATGTATTTGGTAGGAATGTTAGGTGTG
* *
6965006 TTAGGTGTGTT-GGTGATTTATTTGGT-GAGAATGTTAGGTGTG
1 TTAGGTGTGTTAGATGATGTATTTGGTAG-GAATGTTAGGTGTG
6965048 TTAGGT
1 TTAGGT
6965054 AATATATTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
41 1 0.02
42 33 0.73
43 11 0.24
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (43 bp):
TTAGGTGTGTTAGATGATGTATTTGGTAGGAATGTTAGGTGTG
Found at i:6965043 original size:33 final size:34
Alignment explanation
Indices: 6965004--6965068 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
6964994 ATGTTAGGTG
* * *
6965004 TGTTAGGTGTGTT-GGTGATTTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTAATATATTAGGTGAGAA
6965037 TGTTAGGTGTGTTAGGTAATATATTAGGTGAG
1 TGTTAGGTGTGTTAGGTAATATATTAGGTGAG
6965069 TAAGATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (34 bp):
TGTTAGGTGTGTTAGGTAATATATTAGGTGAGAA
Found at i:6969839 original size:9 final size:9
Alignment explanation
Indices: 6969825--6969851 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6969815 TTGGTGGGAA
6969825 TGTTAGGTG
1 TGTTAGGTG
6969834 TGTTAGGTG
1 TGTTAGGTG
6969843 TGTTAGGTG
1 TGTTAGGTG
6969852 ATGTATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.44, T:0.44
Consensus pattern (9 bp):
TGTTAGGTG
Found at i:6969854 original size:43 final size:43
Alignment explanation
Indices: 6969793--6969884 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
6969783 GTGAAGCATA
*
6969793 TTAGGTGTGTTAGGTGATGTATTTGGTGGGAATGTTAGGTGTG
1 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTG
6969836 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTG
1 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTG
6969879 TTAGGT
1 TTAGGT
6969885 ATATGTTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.42
Consensus pattern (43 bp):
TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTG
Found at i:6972383 original size:16 final size:17
Alignment explanation
Indices: 6972351--6972383 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6972341 TTGTAGGTTT
6972351 GCTTGTTTCGCAGCTTC
1 GCTTGTTTCGCAGCTTC
6972368 GCTTGTTTCG-AGCTTC
1 GCTTGTTTCGCAGCTTC
6972384 TCAGCACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.06, C:0.27, G:0.24, T:0.42
Consensus pattern (17 bp):
GCTTGTTTCGCAGCTTC
Found at i:6974578 original size:12 final size:12
Alignment explanation
Indices: 6974561--6974586 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6974551 GTTGCTATTT
6974561 ACCCTATTAACC
1 ACCCTATTAACC
6974573 ACCCTATTAACC
1 ACCCTATTAACC
6974585 AC
1 AC
6974587 TACATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCCTATTAACC
Found at i:6976595 original size:32 final size:30
Alignment explanation
Indices: 6976559--6976617 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
6976549 GAAATCTAAT
6976559 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
6976591 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
6976618 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:6976917 original size:13 final size:13
Alignment explanation
Indices: 6976899--6976924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6976889 ATTTTTTTTG
6976899 TGTATCGATACAT
1 TGTATCGATACAT
6976912 TGTATCGATACAT
1 TGTATCGATACAT
6976925 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6977047 original size:20 final size:20
Alignment explanation
Indices: 6976994--6977049 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6976984 ACATCTTTTT
*
6976994 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
6977014 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
6977033 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
6977050 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:6979481 original size:13 final size:13
Alignment explanation
Indices: 6979463--6979497 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6979453 ATAATCCCCC
6979463 TGTATCGATACAG
1 TGTATCGATACAG
*
6979476 TGTATCGATACAT
1 TGTATCGATACAG
6979489 TGTATCGAT
1 TGTATCGAT
6979498 CCAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6981263 original size:15 final size:15
Alignment explanation
Indices: 6981243--6981273 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6981233 ATTTCGTTTG
*
6981243 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
6981258 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
6981273 G
1 G
6981274 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:6983105 original size:21 final size:21
Alignment explanation
Indices: 6983076--6983120 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6983066 AAGTTTTTAT
*
6983076 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
6983096 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
6983118 TTT
1 TTT
6983121 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:6985037 original size:32 final size:30
Alignment explanation
Indices: 6985001--6985059 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
6984991 GAAATCTAAT
6985001 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
6985033 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
6985060 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:6985363 original size:34 final size:32
Alignment explanation
Indices: 6985319--6985383 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
6985309 TACAAGCCAA
*
6985319 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATAC-A-TATTTTGTGTATCGATACAT
*
6985353 TGTATTGATACATATTTTGTGTATCGATACA
1 TGTATCGATACATATTTTGTGTATCGATACA
6985384 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 10 0.34
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (32 bp):
TGTATCGATACATATTTTGTGTATCGATACAT
Found at i:6985488 original size:20 final size:20
Alignment explanation
Indices: 6985435--6985490 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6985425 ACATCTTTTT
*
6985435 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
6985455 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
6985474 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
6985491 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:6989208 original size:29 final size:29
Alignment explanation
Indices: 6989183--6989312 Score: 120
Period size: 29 Copynumber: 4.4 Consensus size: 29
6989173 ATACCAAAAA
6989183 TACCAGTGCCAAAGCACCTATGCCAAAGG
1 TACCAGTGCCAAAGCACCTATGCCAAAGG
* * * *
6989212 TACCTGTGCCAAAAGTACTTGTGCCAAAGG
1 TACCAGTGCC-AAAGCACCTATGCCAAAGG
* *
6989242 TACCTA-TGCCAAAGTACCTGTGCCAAAGG
1 TACC-AGTGCCAAAGCACCTATGCCAAAGG
* * * *
6989271 TA-CATGTGCTACAGCACATATGCCAAAAG
1 TACCA-GTGCCAAAGCACCTATGCCAAAGG
*
6989300 TACCTGTGCCAAA
1 TACCAGTGCCAAA
6989313 AAATATTATG
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
27 1 0.01
28 1 0.01
29 54 0.67
30 25 0.31
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (29 bp):
TACCAGTGCCAAAGCACCTATGCCAAAGG
Found at i:6989236 original size:44 final size:43
Alignment explanation
Indices: 6989188--6989313 Score: 171
Period size: 44 Copynumber: 2.9 Consensus size: 43
6989178 AAAAATACCA
*
6989188 GTGCCAAAGCACCTATGCCAAAGGTACCTGTGCCAAAAGTACTT
1 GTGCCAAAGCACCTATGCCAAA-GTACCTGTGCCAAAAGTACAT
* *
6989232 GTGCCAAAGGTACCTATGCCAAAGTACCTGTGCCAAAGGTACAT
1 GTGCCAAA-GCACCTATGCCAAAGTACCTGTGCCAAAAGTACAT
* * *
6989276 GTGCTACAGCACATATGCCAAAAGTACCTGTGCCAAAA
1 GTGCCAAAGCACCTATGCC-AAAGTACCTGTGCCAAAA
6989314 AATATTATGA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
43 9 0.12
44 50 0.69
45 13 0.18
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (43 bp):
GTGCCAAAGCACCTATGCCAAAGTACCTGTGCCAAAAGTACAT
Found at i:6989313 original size:15 final size:15
Alignment explanation
Indices: 6989176--6989313 Score: 120
Period size: 15 Copynumber: 9.4 Consensus size: 15
6989166 AACATTTATA
* *
6989176 CCAAAAATACCAGTG
1 CCAAAAGTACCTGTG
* *
6989191 CC-AAAGCACCTATG
1 CCAAAAGTACCTGTG
*
6989205 CCAAAGGTACCTGTG
1 CCAAAAGTACCTGTG
*
6989220 CCAAAAGTACTTGTG
1 CCAAAAGTACCTGTG
* *
6989235 CCAAAGGTACCTATG
1 CCAAAAGTACCTGTG
6989250 CC-AAAGTACCTGTG
1 CCAAAAGTACCTGTG
* *
6989264 CCAAAGGTACATGTG
1 CCAAAAGTACCTGTG
* * * * *
6989279 -CTACAGCACATATG
1 CCAAAAGTACCTGTG
6989293 CCAAAAGTACCTGTG
1 CCAAAAGTACCTGTG
6989308 CCAAAA
1 CCAAAA
6989314 AATATTATGA
Statistics
Matches: 94, Mismatches: 26, Indels: 6
0.75 0.21 0.05
Matches are distributed among these distances:
14 31 0.33
15 63 0.67
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (15 bp):
CCAAAAGTACCTGTG
Found at i:6989551 original size:24 final size:24
Alignment explanation
Indices: 6989524--6989573 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
6989514 CGCACAAGTC
*
6989524 TTGGCATAAAACATGAAGAACATG
1 TTGGCATAAAACATGAAAAACATG
**
6989548 TTGGCATGCAACATGAAAAACATG
1 TTGGCATAAAACATGAAAAACATG
6989572 TT
1 TT
6989574 ATTCTTTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (24 bp):
TTGGCATAAAACATGAAAAACATG
Found at i:6989650 original size:2 final size:2
Alignment explanation
Indices: 6989645--6989692 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
6989635 AAAAAAAACT
* * *
6989645 TA TA TA TA TA TA TA TA TA CA -A GTA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
6989687 TA TA TA
1 TA TA TA
6989693 CAAGGCCAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
1 1 0.03
2 37 0.95
3 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:6990221 original size:67 final size:64
Alignment explanation
Indices: 6990139--6990292 Score: 148
Period size: 66 Copynumber: 2.3 Consensus size: 64
6990129 CAAATTCTTC
* * * * *
6990139 ATTAAGAATATTTGTATTAGAGAGAATAACGAAAGTGACACACGAGACCACCATAGTCGACTTCT
1 ATTAAGAAAACTTGTATTAGAGAG--TAACAAAAGTGACACA-GAAACCACAATAGTCGACTTCT
6990204 CA
63 CA
* * * *
6990206 ATT-AGAAGAACTTGTATTTAGTAGAGTGACAAAAGTGGCACATAAACCACAATAGTTGACTTCT
1 ATTAAGAA-AACTTGTA-TTAG-AGAGTAACAAAAGTGACACAGAAACCACAATAGTCGACTTCT
*
6990270 CT
63 CA
*
6990272 ATTAAGAATACTTGTATTAGA
1 ATTAAGAAAACTTGTATTAGA
6990293 TTGAATGATG
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
64 1 0.01
65 4 0.06
66 33 0.46
67 26 0.36
68 4 0.06
69 4 0.06
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (64 bp):
ATTAAGAAAACTTGTATTAGAGAGTAACAAAAGTGACACAGAAACCACAATAGTCGACTTCTCA
Found at i:6990579 original size:67 final size:67
Alignment explanation
Indices: 6990456--6990583 Score: 154
Period size: 67 Copynumber: 1.9 Consensus size: 67
6990446 TATCGGCCTA
* * * *
6990456 CAATGGTCGACTTCTCCATTAAAACTATTTGTGAATGAGAAAATGATGGAAATGGCACATGAGAT
1 CAATAGTCGACTTATCCATTAAAACTACTTGTGAATGAGAAAATGATCGAAATGGCACATGAGAT
6990521 CG
66 CG
* *
6990523 CAATAGTCGACTTATCTATTAAGAA-TACTTGT-ATTGAGAAGAATGA-CGAAAGTGGCACATG
1 CAATAGTCGACTTATCCATTAA-AACTACTTGTGAATGAGAA-AATGATCGAAA-TGGCACATG
6990584 GGACCACAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
66 11 0.21
67 39 0.75
68 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (67 bp):
CAATAGTCGACTTATCCATTAAAACTACTTGTGAATGAGAAAATGATCGAAATGGCACATGAGAT
CG
Found at i:6992088 original size:15 final size:15
Alignment explanation
Indices: 6992065--6992094 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6992055 AAGTATTAAC
*
6992065 GGTTTGGGTGTTGGT
1 GGTTAGGGTGTTGGT
6992080 GGTTAGGGTGTTGGT
1 GGTTAGGGTGTTGGT
6992095 TAGGCCAAGG
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:0.03, C:0.00, G:0.53, T:0.43
Consensus pattern (15 bp):
GGTTAGGGTGTTGGT
Found at i:6993128 original size:15 final size:15
Alignment explanation
Indices: 6993108--6993149 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
6993098 AAACCATCTC
*
6993108 TGCTAAAAGTACCTA
1 TGCTAAAAGTACCCA
*
6993123 TGCTAAAAGTACCCG
1 TGCTAAAAGTACCCA
*
6993138 TGCTAAAGGTAC
1 TGCTAAAAGTAC
6993150 ATGTTCCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (15 bp):
TGCTAAAAGTACCCA
Found at i:6993189 original size:15 final size:15
Alignment explanation
Indices: 6993165--6993322 Score: 117
Period size: 15 Copynumber: 10.7 Consensus size: 15
6993155 CCAAGGCACC
*
6993165 TGTGCTAAAAGTACT
1 TGTGCCAAAAGTACT
* *
6993180 TGTGCCAAAATTACA
1 TGTGCCAAAAGTACT
* *
6993195 TGTGTCAAAGGTA-T
1 TGTGCCAAAAGTACT
* *
6993209 CTGTGCCAAAAATATT
1 -TGTGCCAAAAGTACT
* *
6993225 TGTGCCATAGGTA-T
1 TGTGCCAAAAGTACT
* * *
6993239 CTATGCC-AAAGCACC
1 -TGTGCCAAAAGTACT
*
6993254 TATGCCAAAAGTACT
1 TGTGCCAAAAGTACT
*
6993269 TGTGCC-AAAGTACC
1 TGTGCCAAAAGTACT
*
6993283 TATGCCAAAAGTACT
1 TGTGCCAAAAGTACT
* *
6993298 TATGCCAAAAGTATT
1 TGTGCCAAAAGTACT
6993313 TGTGCCAAAA
1 TGTGCCAAAA
6993323 AGTATTATAA
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
14 22 0.20
15 88 0.79
16 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.28
Consensus pattern (15 bp):
TGTGCCAAAAGTACT
Found at i:6993195 original size:44 final size:44
Alignment explanation
Indices: 6993118--6993321 Score: 144
Period size: 44 Copynumber: 4.6 Consensus size: 44
6993108 TGCTAAAAGT
* ** *
6993118 ACCTATGCTAAAAGTACCCGTGCTAAAGGTACATGTTCCAAGGC
1 ACCTATGCCAAAAGTACTTGTGCCAAAGGTACATGTTCCAAGGC
* * ** * *
6993162 ACCTGTGCTAAAAGTACTTGTGCCAAAATTACATGTGTCAAAGGT
1 ACCTATGCCAAAAGTACTTGTGCCAAAGGTACATGT-TCCAAGGC
* * * * * *
6993207 ATCTGTGCCAAAAATATTTGTGCCATAGGTATCTATG--CCAAAGC
1 ACCTATGCCAAAAGTACTTGTGCCAAAGGTA-C-ATGTTCCAAGGC
* * * * *
6993251 ACCTATGCCAAAAGTACTTGTGCCAAA-GTACCTATGCCAAAAGT
1 ACCTATGCCAAAAGTACTTGTGCCAAAGGTACATGTTCC-AAGGC
* *
6993295 ACTTATGCCAAAAGTATTTGTGCCAAA
1 ACCTATGCCAAAAGTACTTGTGCCAAA
6993322 AAGTATTATA
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.04
44 85 0.67
45 30 0.24
46 1 0.01
47 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
ACCTATGCCAAAAGTACTTGTGCCAAAGGTACATGTTCCAAGGC
Found at i:6993228 original size:45 final size:44
Alignment explanation
Indices: 6993147--6993277 Score: 113
Period size: 45 Copynumber: 3.0 Consensus size: 44
6993137 GTGCTAAAGG
* * *
6993147 TACATGTTCCAAGGCACCTGTGCTAAAAGTACTTGTGCCAAAAT
1 TACATGTTCAAAGGCACCTGTGCCAAAAATACTTGTGCCAAAAT
* * * * **
6993191 TACATGTGTCAAAGGTATCTGTGCCAAAAATATTTGTGCCATAGG
1 TACATGT-TCAAAGGCACCTGTGCCAAAAATACTTGTGCCAAAAT
* * *
6993236 TATCTATG-CCAAA-GCACCTATGCCAAAAGTACTTGTGCCAAA
1 TA-C-ATGTTCAAAGGCACCTGTGCCAAAAATACTTGTGCCAAA
6993278 GTACCTATGC
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
44 30 0.44
45 34 0.50
46 1 0.01
47 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
TACATGTTCAAAGGCACCTGTGCCAAAAATACTTGTGCCAAAAT
Found at i:6993274 original size:29 final size:29
Alignment explanation
Indices: 6993240--6993306 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
6993230 CATAGGTATC
6993240 TATGCCAAAGCACCTATGCCAAAAGTACT
1 TATGCCAAAGCACCTATGCCAAAAGTACT
* *
6993269 TGTGCCAAAGTACCTATGCCAAAAGTACT
1 TATGCCAAAGCACCTATGCCAAAAGTACT
6993298 TATGCCAAA
1 TATGCCAAA
6993307 AGTATTTGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (29 bp):
TATGCCAAAGCACCTATGCCAAAAGTACT
Found at i:6994877 original size:21 final size:22
Alignment explanation
Indices: 6994853--6994908 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 22
6994843 CAAGCAAGTT
*
6994853 TTAAAATACAAAAATAACCA-C
1 TTAAAATACAAAAATAACAATC
*
6994874 TT-AAATA-ACAAAATAACAATT
1 TTAAAATACA-AAAATAACAATC
*
6994895 TTAACATACAAAAA
1 TTAAAATACAAAAA
6994909 AATTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 4 0.14
22 8 0.29
23 1 0.04
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.23
Consensus pattern (22 bp):
TTAAAATACAAAAATAACAATC
Found at i:6995732 original size:38 final size:39
Alignment explanation
Indices: 6995655--6995732 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 39
6995645 TATCATTGTA
* *
6995655 TTATAATATTATATAATATCAAATAATGTTATATGATAT
1 TTATAATATTATATAATATAAAATAATGTTATATAATAT
*
6995694 TTAT-ATATTATATCATAATAAAAT-AT-TTATATAAATAT
1 TTATAATATTATATAAT-ATAAAATAATGTTATAT-AATAT
6995732 T
1 T
6995733 ATGTATTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
37 6 0.18
38 18 0.53
39 10 0.29
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (39 bp):
TTATAATATTATATAATATAAAATAATGTTATATAATAT
Found at i:6996478 original size:21 final size:22
Alignment explanation
Indices: 6996442--6996497 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
6996432 ATATCATTTA
*
6996442 TAAATAAAATAAAATA-TAAAACT
1 TAAATAATA-AAAATACTAAAA-T
6996465 TAAAT-ATAAAAATACTAAAAT
1 TAAATAATAAAAATACTAAAAT
*
6996486 TAATTAATAAAA
1 TAAATAATAAAA
6996498 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 11 0.38
22 13 0.45
23 5 0.17
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAATAAAAATACTAAAAT
Found at i:6996498 original size:21 final size:21
Alignment explanation
Indices: 6996449--6996499 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6996439 TTATAAATAA
6996449 AATAAAATATAAAACTTAAAT
1 AATAAAATATAAAACTTAAAT
*
6996470 -ATAAAAATACTAAAA-TTAATT
1 AAT-AAAATA-TAAAACTTAAAT
6996491 AATAAAATA
1 AATAAAATA
6996500 ATTTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.08
21 17 0.65
22 7 0.27
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAATATAAAACTTAAAT
Found at i:7000314 original size:52 final size:51
Alignment explanation
Indices: 7000257--7000354 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
7000247 TACCTATATG
* * * *
7000257 TATCGATATATTGAAGAATGTATCGATATATTT-AGGTCAAAAACCCAAAATT
1 TATCGATAAAGTGAAGAATATATCGATACATTTGA-GTC-AAAACCCAAAATT
*
7000309 TATCGATAAAGTGAAGAATATATTGATACATTTGAGTCAAAACCCA
1 TATCGATAAAGTGAAGAATATATCGATACATTTGAGTCAAAACCCA
7000355 GCATGTATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
51 8 0.20
52 31 0.77
53 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (51 bp):
TATCGATAAAGTGAAGAATATATCGATACATTTGAGTCAAAACCCAAAATT
Found at i:7000473 original size:20 final size:20
Alignment explanation
Indices: 7000428--7000501 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
7000418 GACATGGTCC
7000428 TGTATCGATACATTT-CAGACA
1 TGTATCGATACATTTACA-A-A
**
7000449 TGTATCGATACATTTACTTA
1 TGTATCGATACATTTACAAA
* *
7000469 TGTATCGATACATTCACCAAT
1 TGTATCGATACATTTA-CAAA
7000490 TGTATCGATACA
1 TGTATCGATACA
7000502 AATTGTAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 16 0.36
21 28 0.62
22 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTACAAA
Found at i:7002060 original size:2 final size:2
Alignment explanation
Indices: 7002048--7002084 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
7002038 AGTTGACAAA
*
7002048 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7002085 CATAATCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7002854 original size:19 final size:20
Alignment explanation
Indices: 7002830--7002869 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7002820 TAATTTATAT
7002830 TTTTAG-TATATTTTAAAAA
1 TTTTAGTTATATTTTAAAAA
7002849 TTTTAGTTATATTTTAAAAA
1 TTTTAGTTATATTTTAAAAA
7002869 T
1 T
7002870 ATTTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTTAGTTATATTTTAAAAA
Found at i:7003097 original size:78 final size:80
Alignment explanation
Indices: 7002966--7003113 Score: 201
Period size: 78 Copynumber: 1.9 Consensus size: 80
7002956 TGTAGAGCTT
* * * *
7002966 TTATGGTTGAAATTAACTATAAGTAATCAATCCTTTATATTACTTATAGATGTAACAT-AAAAAA
1 TTATGGTTGAAATGAAC-ATAAGTAAACAATCCTCTATATTACTTATAAATGTAACATCAAAAAA
7003030 AAAATAGATAGGGCTC
65 AAAATAGATAGGGCTC
* * * *
7003046 TTATGGTTGAAATGAAC-TAAGTAAACAATTCTCTATTTTACTTATAAATGTAATATCATAAAAA
1 TTATGGTTGAAATGAACATAAGTAAACAATCCTCTATATTACTTATAAATGTAACATCAAAAAAA
7003110 AAAT
66 AAAT
7003114 CCATTTGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
78 33 0.56
79 10 0.17
80 16 0.27
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (80 bp):
TTATGGTTGAAATGAACATAAGTAAACAATCCTCTATATTACTTATAAATGTAACATCAAAAAAA
AAATAGATAGGGCTC
Found at i:7003725 original size:18 final size:18
Alignment explanation
Indices: 7003703--7003749 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
7003693 ATAATTTTTA
*
7003703 ATATTTTAATATATACTT
1 ATATTTTAATATATAATT
*
7003721 TTATTTTAA-A-ATAATT
1 ATATTTTAATATATAATT
7003737 ATATTTTAATATA
1 ATATTTTAATATA
7003750 AAATATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 13 0.54
17 2 0.08
18 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTTTAATATATAATT
Found at i:7003743 original size:21 final size:23
Alignment explanation
Indices: 7003709--7003754 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
7003699 TTTAATATTT
* *
7003709 TAATATATACTTTTATTTTAAAA
1 TAATATATACTTTTAATATAAAA
7003732 TAAT-TATA-TTTTAATATAAAA
1 TAATATATACTTTTAATATAAAA
7003753 TA
1 TA
7003755 TAAATATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 4 0.19
23 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TAATATATACTTTTAATATAAAA
Found at i:7004483 original size:13 final size:13
Alignment explanation
Indices: 7004465--7004491 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7004455 TAACAGATTA
7004465 ATTTACTTCAAAT
1 ATTTACTTCAAAT
7004478 ATTTACTTCAAAT
1 ATTTACTTCAAAT
7004491 A
1 A
7004492 GTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTACTTCAAAT
Found at i:7004638 original size:16 final size:16
Alignment explanation
Indices: 7004617--7004654 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7004607 GAAATAAAAA
7004617 AATTATTT-TTATTAAT
1 AATTATTTATTA-TAAT
7004633 AATTATTTATTATAAT
1 AATTATTTATTATAAT
*
7004649 GATTAT
1 AATTAT
7004655 ATTTGCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
AATTATTTATTATAAT
Found at i:7006226 original size:11 final size:12
Alignment explanation
Indices: 7006199--7006236 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
7006189 TGATACGATT
7006199 ATATAATCTAAA
1 ATATAATCTAAA
7006211 A-ATAAT-TAAA
1 ATATAATCTAAA
*
7006221 ATATAATGTAAA
1 ATATAATCTAAA
7006233 ATAT
1 ATAT
7006237 TAAGCATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 10 0.42
12 9 0.38
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (12 bp):
ATATAATCTAAA
Found at i:7006440 original size:4 final size:4
Alignment explanation
Indices: 7006433--7006458 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
7006423 TAGTTAGGAT
7006433 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
7006459 GCAGCAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:7007578 original size:20 final size:20
Alignment explanation
Indices: 7007539--7007604 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
7007529 TATGATGGAA
* *
7007539 ATTCACATTGATTCACCTTG
1 ATTCACACTAATTCACCTTG
* *
7007559 ATTTACACTAATTCAACTTG
1 ATTCACACTAATTCACCTTG
*
7007579 ATTCACGCTAATTCACCTTG
1 ATTCACACTAATTCACCTTG
7007599 ATTCAC
1 ATTCAC
7007605 TTTGACACAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTCACACTAATTCACCTTG
Found at i:7007639 original size:10 final size:10
Alignment explanation
Indices: 7007624--7007660 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
7007614 CCGTAATACG
7007624 CCTTGATTTA
1 CCTTGATTTA
7007634 CCTTGATTTA
1 CCTTGATTTA
* *
7007644 CTTTGATTCA
1 CCTTGATTTA
7007654 CCTTGAT
1 CCTTGAT
7007661 ACACTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (10 bp):
CCTTGATTTA
Found at i:7007680 original size:20 final size:20
Alignment explanation
Indices: 7007589--7007672 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
7007579 ATTCACGCTA
*
7007589 ATTCACCTTGATTCACTTTG
1 ATTCACCTTGATACACTTTG
** * * * *
7007609 ACACACCGTAATACGCCTTG
1 ATTCACCTTGATACACTTTG
* **
7007629 ATTTACCTTGATTTACTTTG
1 ATTCACCTTGATACACTTTG
7007649 ATTCACCTTGATACACTTTG
1 ATTCACCTTGATACACTTTG
7007669 ATTC
1 ATTC
7007673 CCTATGATGC
Statistics
Matches: 45, Mismatches: 19, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.40
Consensus pattern (20 bp):
ATTCACCTTGATACACTTTG
Found at i:7007751 original size:23 final size:23
Alignment explanation
Indices: 7007724--7007771 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7007714 GTAGAATAAA
7007724 AGAATAAATTC-TATTTTTATCAT
1 AGAATAAATTCTTA-TTTTATCAT
**
7007747 AGAATATTTTCTTATTTTATCAT
1 AGAATAAATTCTTATTTTATCAT
7007770 AG
1 AG
7007772 TATCAAAGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (23 bp):
AGAATAAATTCTTATTTTATCAT
Found at i:7009794 original size:28 final size:29
Alignment explanation
Indices: 7009740--7009795 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
7009730 AAGAGTACTA
*
7009740 TGCCAAATCAACTATGTTAAATGTATCTG
1 TGCCAAATCAACTATGATAAATGTATCTG
7009769 TGCCAAAT-AACTTATGATAAA-GTATCT
1 TGCCAAATCAAC-TATGATAAATGTATCT
7009796 TTGCTAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (29 bp):
TGCCAAATCAACTATGATAAATGTATCTG
Found at i:7009830 original size:29 final size:29
Alignment explanation
Indices: 7009797--7009876 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 29
7009787 AAAGTATCTT
* * *
7009797 TGCTAAAGTATTTCTGTTAAAAATACTTG
1 TGCTAAAGTATTTATGTTAAAAATACATC
** * * * *
7009826 TGCTATGGTATTTGTATCAAAAGTACATC
1 TGCTAAAGTATTTATGTTAAAAATACATC
*
7009855 TGTTAAAGTATTTATGTTAAAA
1 TGCTAAAGTATTTATGTTAAAA
7009877 TACCTATGTC
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (29 bp):
TGCTAAAGTATTTATGTTAAAAATACATC
Found at i:7011287 original size:14 final size:14
Alignment explanation
Indices: 7011243--7011336 Score: 57
Period size: 14 Copynumber: 6.6 Consensus size: 14
7011233 AAATGCCGCC
7011243 AAGTACTTATGCTAA
1 AAGTACTTATGC-AA
* **
7011258 AA-TATTTATATTAA
1 AAGTACTTAT-GCAA
7011272 AAGTACTTATGCAA
1 AAGTACTTATGCAA
* *
7011286 AAGTATTTGTGCTAA
1 AAGTACTTATGC-AA
*
7011301 AA-TACTTGTGTCAA
1 AAGTACTTATG-CAA
* * *
7011315 AAATACCTATGCGA
1 AAGTACTTATGCAA
7011329 AAGTACTT
1 AAGTACTT
7011337 GTGTGAAAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
14 41 0.68
15 19 0.32
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (14 bp):
AAGTACTTATGCAA
Found at i:7011301 original size:29 final size:28
Alignment explanation
Indices: 7011243--7011316 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
7011233 AAATGCCGCC
*
7011243 AAGTACTTATGCTAAAATATTTATATTAA
1 AAGTACTTATGC-AAAATATTTATACTAA
* *
7011272 AAGTACTTATGCAAAAGTATTTGTGCTAA
1 AAGTACTTATGCAAAA-TATTTATACTAA
*
7011301 AA-TACTTGTGTCAAAA
1 AAGTACTTATG-CAAAA
7011317 ATACCTATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 11 0.28
29 28 0.72
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (28 bp):
AAGTACTTATGCAAAATATTTATACTAA
Found at i:7011326 original size:43 final size:43
Alignment explanation
Indices: 7011243--7011339 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 43
7011233 AAATGCCGCC
* * * * *
7011243 AAGTACTTATGCTAAAATATTTATATTAAAAGTACTTATGCAA
1 AAGTACTTGTGCTAAAATACTTATATCAAAAATACCTATGCAA
* * * *
7011286 AAGTATTTGTGCTAAAATACTTGTGTCAAAAATACCTATGCGA
1 AAGTACTTGTGCTAAAATACTTATATCAAAAATACCTATGCAA
7011329 AAGTACTTGTG
1 AAGTACTTGTG
7011340 TGAAAGTACC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (43 bp):
AAGTACTTGTGCTAAAATACTTATATCAAAAATACCTATGCAA
Found at i:7011346 original size:14 final size:14
Alignment explanation
Indices: 7011327--7011370 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
7011317 ATACCTATGC
*
7011327 GAAAGTACTTGTGT
1 GAAAGTACCTGTGT
7011341 GAAAGTACC--TGT
1 GAAAGTACCTGTGT
7011353 G--AGTACCTGTGT
1 GAAAGTACCTGTGT
7011365 GAAAGT
1 GAAAGT
7011371 GTCTATCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
10 6 0.24
12 8 0.32
14 11 0.44
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (14 bp):
GAAAGTACCTGTGT
Found at i:7011432 original size:14 final size:14
Alignment explanation
Indices: 7011413--7011484 Score: 72
Period size: 14 Copynumber: 5.0 Consensus size: 14
7011403 CGTACTAAAT
*
7011413 TATTTATGTCAAAG
1 TATTTATGTCAAAA
*
7011427 TATTTATATCAGAAA
1 TATTTATGTCA-AAA
* *
7011442 TATCTATATCAAAAA
1 TATTTATGTC-AAAA
*
7011457 TATTTATGTCAAAG
1 TATTTATGTCAAAA
*
7011471 TATTAATGTCAAAA
1 TATTTATGTCAAAA
7011485 ATACTTTTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
14 25 0.52
15 22 0.46
16 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (14 bp):
TATTTATGTCAAAA
Found at i:7011451 original size:15 final size:15
Alignment explanation
Indices: 7011431--7011469 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
7011421 TCAAAGTATT
*
7011431 TATATCAGAAATATC
1 TATATCAAAAATATC
*
7011446 TATATCAAAAATATT
1 TATATCAAAAATATC
*
7011461 TATGTCAAA
1 TATATCAAA
7011470 GTATTAATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (15 bp):
TATATCAAAAATATC
Found at i:7011961 original size:27 final size:27
Alignment explanation
Indices: 7011909--7011961 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
7011899 AAATTTTTTA
* *
7011909 TATATTTAAAAAATTATATTTCATATC
1 TATATTTAAAAAATTATATATAATATC
*
7011936 TATATTT-AAATATATATATATAATAT
1 TATATTTAAAAAAT-TATATATAATAT
7011962 AAATGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTTAAAAAATTATATATAATATC
Found at i:7013525 original size:27 final size:27
Alignment explanation
Indices: 7013464--7013535 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
7013454 AAACAAGTCT
* *
7013464 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
7013492 CCATTTTTGACAAACACAAA-ATAACCG
1 CCATTTTTGACAAACACAAAGA-AACCA
7013519 CCATTTTTTGACAAACA
1 CCA-TTTTTGACAAACA
7013536 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 7 0.18
28 31 0.79
ACGTcount: A:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:7018064 original size:25 final size:25
Alignment explanation
Indices: 7018002--7018071 Score: 99
Period size: 24 Copynumber: 2.8 Consensus size: 25
7017992 TTTATTTATT
*
7018002 AGCCACCAATTTTGACAAA-CAACA
1 AGCCACCAATTTTGACAAATAAACA
7018026 AGCCACCAATTTTGACAAATAAACA
1 AGCCACCAATTTTGACAAATAAACA
*
7018051 AGCCTCC-ATATTTGACAAATA
1 AGCCACCAAT-TTTGACAAATA
7018072 CAAAGGAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
24 21 0.50
25 21 0.50
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTGACAAATAAACA
Found at i:7018117 original size:27 final size:27
Alignment explanation
Indices: 7018056--7018127 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
7018046 AAACAAGCCT
* *
7018056 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
7018084 CCATTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
7018111 CCATTTTTTGACAAACA
1 CCA-TTTTTGACAAACA
7018128 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 8 0.20
28 31 0.77
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:7018543 original size:21 final size:20
Alignment explanation
Indices: 7018502--7018557 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
7018492 ATTTCGGGAG
*
7018502 ATAAAAATAATAATAATAAT
1 ATAAAAATAAAAATAATAAT
7018522 ATTAAAAATAAAAATACA-AAT
1 A-TAAAAATAAAAATA-ATAAT
*
7018543 ATATAAATAAAAATA
1 ATAAAAATAAAAATA
7018558 TGCAATACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.44
21 17 0.53
22 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAAAAATAAAAATAATAAT
Found at i:7023138 original size:16 final size:16
Alignment explanation
Indices: 7023100--7023138 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7023090 GTCATTTTAT
*
7023100 GTTTGGATTATTTCGA
1 GTTTGGGTTATTTCGA
*
7023116 GTTTGGGTTCTTTCGA
1 GTTTGGGTTATTTCGA
7023132 GTTTGGG
1 GTTTGGG
7023139 CCTATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.33, T:0.49
Consensus pattern (16 bp):
GTTTGGGTTATTTCGA
Found at i:7023196 original size:16 final size:16
Alignment explanation
Indices: 7023127--7023234 Score: 65
Period size: 16 Copynumber: 6.8 Consensus size: 16
7023117 TTTGGGTTCT
*
7023127 TTCGAGTTTGGGCCTA
1 TTCGGGTTTGGGCCTA
* *
7023143 TTCGGGTTCGGGCTTA
1 TTCGGGTTTGGGCCTA
* ** *
7023159 TTGGGGTTT-GATCTT
1 TTCGGGTTTGGGCCTA
* *
7023174 TTTGGGTTTGTGCCTA
1 TTCGGGTTTGGGCCTA
*** *
7023190 TTCGGGTTCAAGCCTT
1 TTCGGGTTTGGGCCTA
* *
7023206 TTCGGGTTTCGGCCTT
1 TTCGGGTTTGGGCCTA
*
7023222 TTCGAGTTTGGGC
1 TTCGGGTTTGGGC
7023235 TTTTAATATT
Statistics
Matches: 67, Mismatches: 24, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
15 10 0.15
16 57 0.85
ACGTcount: A:0.07, C:0.18, G:0.32, T:0.43
Consensus pattern (16 bp):
TTCGGGTTTGGGCCTA
Found at i:7024069 original size:16 final size:16
Alignment explanation
Indices: 7024035--7024115 Score: 72
Period size: 16 Copynumber: 5.1 Consensus size: 16
7024025 TCGGGTTCAA
* *
7024035 GTTCTCTTAGGTTCAG
1 GTTCTTTTAGGTTCGG
* *
7024051 GTTTTTTTAGGTTTGG
1 GTTCTTTTAGGTTCGG
*
7024067 GTTCTTTTATGTTCGG
1 GTTCTTTTAGGTTCGG
** *
7024083 GTTCTTTCGGGTTTGG
1 GTTCTTTTAGGTTCGG
* *
7024099 TTTCTTTTGGGTTCGG
1 GTTCTTTTAGGTTCGG
7024115 G
1 G
7024116 CTATTTCGGG
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.05, C:0.11, G:0.31, T:0.53
Consensus pattern (16 bp):
GTTCTTTTAGGTTCGG
Found at i:7024071 original size:32 final size:32
Alignment explanation
Indices: 7024035--7024112 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
7024025 TCGGGTTCAA
* * *
7024035 GTTCTCTTAGGTTCAGGTTTTTTTAGGTTTGG
1 GTTCTTTTAGGTTCAGGTTCTTTCAGGTTTGG
* * *
7024067 GTTCTTTTATGTTCGGGTTCTTTCGGGTTTGG
1 GTTCTTTTAGGTTCAGGTTCTTTCAGGTTTGG
* *
7024099 TTTCTTTTGGGTTC
1 GTTCTTTTAGGTTC
7024113 GGGCTATTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.05, C:0.12, G:0.28, T:0.55
Consensus pattern (32 bp):
GTTCTTTTAGGTTCAGGTTCTTTCAGGTTTGG
Found at i:7024113 original size:32 final size:32
Alignment explanation
Indices: 7024060--7024127 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
7024050 GGTTTTTTTA
* * *
7024060 GGTTTGGGTTCTTTTATGTTCGGGTTCTTTCG
1 GGTTTGGGTTCTTTTAGGTTCGGGCTATTTCG
* *
7024092 GGTTTGGTTTCTTTTGGGTTCGGGCTATTTCG
1 GGTTTGGGTTCTTTTAGGTTCGGGCTATTTCG
7024124 GGTT
1 GGTT
7024128 GGGCCATTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.03, C:0.12, G:0.34, T:0.51
Consensus pattern (32 bp):
GGTTTGGGTTCTTTTAGGTTCGGGCTATTTCG
Found at i:7026252 original size:2 final size:2
Alignment explanation
Indices: 7026245--7026293 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7026235 TGTCTATGTA
7026245 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7026287 TG TG TG T
1 TG TG TG T
7026294 TACATAATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:7031941 original size:23 final size:22
Alignment explanation
Indices: 7031907--7031950 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
7031897 GATAATTCGT
7031907 ATTTTTATATTATAAATATATA
1 ATTTTTATATTATAAATATATA
*
7031929 ATTTATTATATTATAATTATAT
1 ATTT-TTATATTATAAATATAT
7031951 TTAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTTATATTATAAATATATA
Found at i:7032014 original size:25 final size:25
Alignment explanation
Indices: 7031964--7032076 Score: 104
Period size: 25 Copynumber: 4.3 Consensus size: 25
7031954 AAATATTTTT
*
7031964 ATTTATATTAATTTTAATATTTAAATA
1 ATTTATA-TAA-TATAATATTTAAATA
* *
7031991 ATTTATATAATATAAAATTTAAATC
1 ATTTATATAATATAATATTTAAATA
*
7032016 ATTTATTTATAATATATTATATTTTAATA
1 ATTTA--TATAATATA--ATATTTAAATA
*
7032045 ATTT-TATATATATCATATTTAAATA
1 ATTTATATA-ATATAATATTTAAATA
7032070 A-TTATAT
1 ATTTATAT
7032077 TTAAAATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
24 2 0.03
25 31 0.43
26 7 0.10
27 20 0.28
29 12 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTATATAATATAATATTTAAATA
Found at i:7032045 original size:54 final size:56
Alignment explanation
Indices: 7031961--7032079 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 56
7031951 TTAAAATATT
* * *
7031961 TTTATTTATATTAATTTTAATATTTAAATAA-TTTATATAATATAAAATTTAAATCA
1 TTTATTTATAATAATATTAATATTTAAATAATTTTATAT-ATATAAAATTTAAATAA
* * *
7032017 TTTATTTATAAT-ATATT-ATATTTTAATAATTTTATATATATCATATTTAAATAA
1 TTTATTTATAATAATATTAATATTTAAATAATTTTATATATATAAAATTTAAATAA
7032071 TTATATTTA
1 TT-TATTTA
7032080 AAATTTTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 27 0.49
55 17 0.31
56 11 0.20
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (56 bp):
TTTATTTATAATAATATTAATATTTAAATAATTTTATATATATAAAATTTAAATAA
Found at i:7032051 original size:16 final size:16
Alignment explanation
Indices: 7031911--7032079 Score: 56
Period size: 15 Copynumber: 11.6 Consensus size: 16
7031901 ATTCGTATTT
7031911 TTATA-TTATAAATATA
1 TTATATTTAT-AATATA
* * *
7031927 TAATTTATTATATTATAA
1 TTATAT-TTATAATAT-A
*
7031945 TTATATTTAAAATAT-
1 TTATATTTATAATATA
* * *
7031960 TTTTATTTATATTAATT
1 TTATATTTATAAT-ATA
7031977 TTAATATTTA-AATA-A
1 TT-ATATTTATAATATA
7031992 TT-TA--TATAATATA
1 TTATATTTATAATATA
* *
7032005 --AAATTTA-AAT-CA
1 TTATATTTATAATATA
7032017 TT-TATTTATAATATA
1 TTATATTTATAATATA
7032032 TTATATTT-T-A-ATA
1 TTATATTTATAATATA
7032045 --AT-TTTAT-ATATA
1 TTATATTTATAATATA
*
7032057 TCATATTTA-AATA-A
1 TTATATTTATAATATA
7032071 TTATATTTA
1 TTATATTTA
7032080 AAATTTTCAA
Statistics
Matches: 113, Mismatches: 18, Indels: 46
0.64 0.10 0.26
Matches are distributed among these distances:
10 3 0.03
11 6 0.05
12 9 0.08
13 14 0.12
14 17 0.15
15 23 0.20
16 11 0.10
17 15 0.13
18 15 0.13
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATTTATAATATA
Found at i:7032469 original size:19 final size:18
Alignment explanation
Indices: 7032419--7032487 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
7032409 TAGTGTACTT
*
7032419 TAATTTTTT-AAAATTAA
1 TAATTTTTTAAAAAATAA
* *
7032436 -AATGTATTAAAAAATAGA
1 TAATTTTTTAAAAAATA-A
*
7032454 TAATTTTTTAATAAATAA
1 TAATTTTTTAAAAAATAA
* *
7032472 TTATTTTTAAAAAAAT
1 TAATTTTTTAAAAAAT
7032488 TAAAAATAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 6 0.15
17 6 0.15
18 15 0.38
19 13 0.32
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (18 bp):
TAATTTTTTAAAAAATAA
Found at i:7032548 original size:20 final size:21
Alignment explanation
Indices: 7032503--7032549 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
7032493 ATAAAACACA
* *
7032503 ATAATTTCATTTTATTATTAT
1 ATAATTTCATTTAATTATTAG
*
7032524 A-AATTTGATTTAATT-TTAG
1 ATAATTTCATTTAATTATTAG
7032543 ATAATTT
1 ATAATTT
7032550 TCTTAATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
ATAATTTCATTTAATTATTAG
Found at i:7032996 original size:16 final size:16
Alignment explanation
Indices: 7032975--7033021 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
7032965 GCTGATTGAC
7032975 CTAAACTTGAAATAAT
1 CTAAACTTGAAATAAT
*
7032991 CTAAACTTGAAATGAT
1 CTAAACTTGAAATAAT
*
7033007 CAAAAAC-TGAAATAA
1 C-TAAACTTGAAATAA
7033022 CATGAACCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 23 0.85
17 4 0.15
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.26
Consensus pattern (16 bp):
CTAAACTTGAAATAAT
Found at i:7034262 original size:17 final size:17
Alignment explanation
Indices: 7034237--7034281 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7034227 GATAGCTCTT
*
7034237 AAAGGAAGAGAGGAAAG
1 AAAGAAAGAGAGGAAAG
* *
7034254 AAAGAAAGAAAGGAATG
1 AAAGAAAGAGAGGAAAG
7034271 AAAGAAA-AGAG
1 AAAGAAAGAGAG
7034282 AAAAAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (17 bp):
AAAGAAAGAGAGGAAAG
Found at i:7034457 original size:19 final size:20
Alignment explanation
Indices: 7034418--7034457 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7034408 GACGTATTCA
*
7034418 TATTAATTTTTATATTTTGT
1 TATTAATTTTTATATTATGT
*
7034438 TATT-ATTTTTATGTTATGT
1 TATTAATTTTTATATTATGT
7034457 T
1 T
7034458 CGTATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TATTAATTTTTATATTATGT
Found at i:7034755 original size:27 final size:31
Alignment explanation
Indices: 7034725--7034788 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 31
7034715 TATATTCATA
7034725 TTATACTTAT-ATTA-TTT-TCATGTCGTG-
1 TTATACTTATAATTACTTTCTCATGTCGTGT
* *
7034752 TTATA-TTTTAATTACTTTCTCATGTTGTGT
1 TTATACTTATAATTACTTTCTCATGTCGTGT
7034782 TTATACT
1 TTATACT
7034789 ATTATCTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 3 0.10
27 9 0.30
28 3 0.10
29 9 0.30
30 5 0.17
31 1 0.03
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (31 bp):
TTATACTTATAATTACTTTCTCATGTCGTGT
Found at i:7036724 original size:27 final size:27
Alignment explanation
Indices: 7036685--7036764 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
7036675 ATGTAAAATT
* *
7036685 TTAAATTAA-TTTAATATTTTTATATT
1 TTAAATAAATTTTAATATTTTTATATA
* * *
7036711 TTTAATATATTTTAATAAATTTTTTTATA
1 TTAAATAAATTTTAAT--ATTTTTATATA
7036740 TTAAATAAATTATTAAATATTTTTA
1 TTAAATAAATT-TT-AATATTTTTA
7036765 ATTAATTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
26 6 0.15
27 6 0.15
29 24 0.59
30 2 0.05
31 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTAAATAAATTTTAATATTTTTATATA
Found at i:7036725 original size:10 final size:9
Alignment explanation
Indices: 7036694--7036727 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
7036684 TTTAAATTAA
7036694 TTTAATATT
1 TTTAATATT
7036703 TTT-ATATT
1 TTTAATATT
7036711 TTTAATATAT
1 TTTAATAT-T
7036721 TTTAATA
1 TTTAATA
7036728 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTAATATT
Found at i:7036734 original size:22 final size:22
Alignment explanation
Indices: 7036709--7036772 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 22
7036699 TATTTTTATA
7036709 TTTTTAATATATTTTAATAAAT
1 TTTTTAATATATTTTAATAAAT
*
7036731 TTTTT--TATA-TTAAATAAAT
1 TTTTTAATATATTTTAATAAAT
* * *
7036750 TATTAAATAT-TTTTAATTAAT
1 TTTTTAATATATTTTAATAAAT
7036771 TT
1 TT
7036773 AAAATTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 12 0.36
20 4 0.12
21 12 0.36
22 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTTAATATATTTTAATAAAT
Found at i:7036774 original size:19 final size:19
Alignment explanation
Indices: 7036678--7036779 Score: 54
Period size: 19 Copynumber: 5.5 Consensus size: 19
7036668 ATTATTTATG
*
7036678 TAAA-ATTTTAAATTAATT
1 TAAATATTTTTAATTAATT
7036696 T-AATATTTTTATATT--TT
1 TAAATATTTTTA-ATTAATT
*
7036713 T-AATATATTTTAATAAATT
1 TAAATAT-TTTTAATTAATT
*** * * *
7036732 TTTTTATATTAAATAAATTAT
1 TAAATATTTTTAATTAA-T-T
7036753 TAAATATTTTTAATTAATT
1 TAAATATTTTTAATTAATT
7036772 TAAA-ATTT
1 TAAATATTT
7036780 AACCTGCATA
Statistics
Matches: 64, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 12 0.19
18 16 0.25
19 19 0.30
20 5 0.08
21 12 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAATATTTTTAATTAATT
Found at i:7041136 original size:17 final size:18
Alignment explanation
Indices: 7041116--7041158 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
7041106 AATTTTAAGT
7041116 ATTAAATTTATTTA-TGA
1 ATTAAATTTATTTATTGA
*
7041133 ATT-AAGTTATTTATTGA
1 ATTAAATTTATTTATTGA
7041150 ATTAAATTT
1 ATTAAATTT
7041159 TAACATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 9 0.41
18 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (18 bp):
ATTAAATTTATTTATTGA
Found at i:7041144 original size:16 final size:17
Alignment explanation
Indices: 7041123--7041154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7041113 AGTATTAAAT
7041123 TTATTTA-TGAATTAAG
1 TTATTTATTGAATTAAG
7041139 TTATTTATTGAATTAA
1 TTATTTATTGAATTAA
7041155 ATTTTAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (17 bp):
TTATTTATTGAATTAAG
Found at i:7041274 original size:38 final size:37
Alignment explanation
Indices: 7041196--7041275 Score: 91
Period size: 36 Copynumber: 2.3 Consensus size: 37
7041186 ATTTAAATAG
*
7041196 AATTAA-TT-ATTTAATAATAAAAAATATTTTTATTT
1 AATTAATTTAATTTAAAAATAAAAAATATTTTTATTT
7041231 -A--AATTTAATTATAAAAATATAAAAATATTTTT-TTT
1 AATTAATTTAATT-TAAAAATA-AAAAATATTTTTATTT
7041266 AATTAATTTA
1 AATTAATTTA
7041276 TAAATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
32 2 0.05
33 2 0.05
34 4 0.11
35 10 0.27
36 13 0.35
38 6 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (37 bp):
AATTAATTTAATTTAAAAATAAAAAATATTTTTATTT
Found at i:7041291 original size:34 final size:36
Alignment explanation
Indices: 7041211--7041294 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
7041201 ATTATTTAAT
7041211 AATA-AAAAATATTTTTATTTAAATTTAATTATAAA
1 AATATAAAAATATTTTTATTTAAATTTAATTATAAA
*
7041246 AATATAAAAATATTTTT-TTT-AA-TTAATT-TATA
1 AATATAAAAATATTTTTATTTAAATTTAATTATAAA
7041278 AATATAATTAAATATTT
1 AATATAA--AAATATTT
7041295 AAACTAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
32 10 0.22
33 6 0.13
34 10 0.22
35 7 0.16
36 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
AATATAAAAATATTTTTATTTAAATTTAATTATAAA
Found at i:7041518 original size:17 final size:18
Alignment explanation
Indices: 7041481--7041533 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
7041471 GTGTTTTGAG
**
7041481 ATTTATTATATTTTAAAA
1 ATTTATTATATTTTATTA
7041499 ATTTATT-TATTTTATTA
1 ATTTATTATATTTTATTA
* *
7041516 ATTT-TTGTATTATATTA
1 ATTTATTATATTTTATTA
7041533 A
1 A
7041534 GTAATAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 2 0.06
17 22 0.71
18 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTATTATATTTTATTA
Found at i:7041592 original size:15 final size:16
Alignment explanation
Indices: 7041565--7041594 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7041555 CATTTATTTA
7041565 ATATAATTAATTTTTT
1 ATATAATTAATTTTTT
7041581 ATATAA-TAATTTTT
1 ATATAATTAATTTTT
7041595 GAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATAATTAATTTTTT
Found at i:7043115 original size:2 final size:2
Alignment explanation
Indices: 7043108--7043138 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7043098 TTTCAAAGGC
7043108 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
7043139 TTGCAGACAC
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:7051733 original size:20 final size:18
Alignment explanation
Indices: 7051699--7051738 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
7051689 TTTATGAATT
*
7051699 TTTTATTTTATTTCTTTC
1 TTTTATTTTATTTCTATC
7051717 TTTTATATTTATATTCTATC
1 TTTTAT-TTTAT-TTCTATC
7051737 TT
1 TT
7051739 GATAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 8 0.42
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATTTTATTTCTATC
Found at i:7052807 original size:2 final size:2
Alignment explanation
Indices: 7052800--7052826 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7052790 TCGTATCTAA
7052800 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 A
7052827 AATTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7058042 original size:2 final size:2
Alignment explanation
Indices: 7058035--7058066 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7058025 TTCTGATTAC
7058035 AT AT AT 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 AT AT AT
7058067 CTAGCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7065699 original size:28 final size:28
Alignment explanation
Indices: 7065668--7065725 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
7065658 AGATATAATT
* *
7065668 TTATTAAAATAAATTTGTCCATATTATC
1 TTATTAAAATAAACTTATCCATATTATC
* * *
7065696 TTATTAATATAAGCTTATCTATATTATC
1 TTATTAAAATAAACTTATCCATATTATC
7065724 TT
1 TT
7065726 GACACGTGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.50
Consensus pattern (28 bp):
TTATTAAAATAAACTTATCCATATTATC
Found at i:7065809 original size:28 final size:28
Alignment explanation
Indices: 7065755--7065814 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
7065745 CATCATCTTA
* ** * *
7065755 TTAAGACAACTTTATTCGCTTTGCCTTC
1 TTAAGACAAATTTATGAGCATTACCTTC
*
7065783 TTAAGACAAATTTATGAGCATTACCTTT
1 TTAAGACAAATTTATGAGCATTACCTTC
7065811 TTAA
1 TTAA
7065815 AATATCCTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (28 bp):
TTAAGACAAATTTATGAGCATTACCTTC
Found at i:7067204 original size:21 final size:23
Alignment explanation
Indices: 7067180--7067223 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7067170 AACAAATTAT
7067180 ATAATATA-TACA-AATATAAAA
1 ATAATATATTACATAATATAAAA
*
7067201 ATAATATATTATATAATATAAAA
1 ATAATATATTACATAATATAAAA
7067224 TGGATCGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
ATAATATATTACATAATATAAAA
Found at i:7068135 original size:19 final size:16
Alignment explanation
Indices: 7068111--7068151 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 16
7068101 TTAATTAGAT
7068111 AAAAATTAAAATATTATA
1 AAAAATTAAAA-A-TATA
7068129 AATAAATTAAAAATATA
1 AA-AAATTAAAAATATA
7068146 AAAAAT
1 AAAAAT
7068152 CAATAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 6 0.27
18 3 0.14
19 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAAAAATATA
Found at i:7068151 original size:20 final size:19
Alignment explanation
Indices: 7068113--7068151 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7068103 AATTAGATAA
* *
7068113 AAATTAAAATATTATAAAT
1 AAATTAAAATATAAAAAAT
7068132 AAATTAAAAATATAAAAAAT
1 AAATT-AAAATATAAAAAAT
7068152 CAATAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATTAAAATATAAAAAAT
Found at i:7068406 original size:29 final size:30
Alignment explanation
Indices: 7068357--7068413 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
7068347 CAGCAAATTA
7068357 TTAAATTGAAAAAAGTATTA-TTATCTTTT
1 TTAAATTGAAAAAAGTATTATTTATCTTTT
* *
7068386 TTAATTTGAAAATAA-TTTTATTTATCTT
1 TTAAATTGAAAA-AAGTATTATTTATCTT
7068414 CTTAAGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.53
Consensus pattern (30 bp):
TTAAATTGAAAAAAGTATTATTTATCTTTT
Done.