Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 21 of 210
Found at i:7041688 original size:2 final size:2
Alignment explanation
Indices: 7041681--7041710 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7041671 ACCAAATCCG
7041681 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
7041711 CACATCTTAA
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:7042506 original size:28 final size:30
Alignment explanation
Indices: 7042440--7042509 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
7042430 AATACTAAAA
*
7042440 TTATACATGAACTATGGTTTAATGTGCAATT
1 TTATACATGAACTATGATTT-ATGTGCAATT
* *
7042471 GTATACATGAACT-TGATTT-TGTTCAATT
1 TTATACATGAACTATGATTTATGTGCAATT
7042499 TTATACATGAA
1 TTATACATGAA
7042510 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.51
30 5 0.14
31 12 0.34
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (30 bp):
TTATACATGAACTATGATTTATGTGCAATT
Found at i:7045520 original size:20 final size:20
Alignment explanation
Indices: 7045495--7045539 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7045485 TCCTATATTG
* * *
7045495 ATACAAGTTCACTTTTATCC
1 ATACAAGTCCACTTCTACCC
7045515 ATACAAGTCCACTTCTACCC
1 ATACAAGTCCACTTCTACCC
7045535 ATACA
1 ATACA
7045540 TCTTGTGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (20 bp):
ATACAAGTCCACTTCTACCC
Found at i:7050869 original size:17 final size:18
Alignment explanation
Indices: 7050847--7050880 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7050837 GAACGGGGGA
7050847 AAAAGAA-AAAGGGAAAG
1 AAAAGAAGAAAGGGAAAG
7050864 AAAAGAAGAAAGGGAAA
1 AAAAGAAGAAAGGGAAA
7050881 ATTAGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAGGGAAAG
Found at i:7051503 original size:16 final size:16
Alignment explanation
Indices: 7051482--7051520 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
7051472 TTATGTGTAT
7051482 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
7051498 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
7051514 GGTAAGT
1 GGTAAGT
7051521 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:7055141 original size:25 final size:25
Alignment explanation
Indices: 7055098--7055165 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
7055088 AAAATTAAGA
*
7055098 TTAGAACTTAGAACTTAAGTTTAGAAC
1 TTAGAA-TTAG-ATTTAAGTTTAGAAC
*
7055125 TTCGAATTAGATTTAAGTTTAGAAC
1 TTAGAATTAGATTTAAGTTTAGAAC
*
7055150 TTAGGATTAGATTTAA
1 TTAGAATTAGATTTAA
7055166 TAAGGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 28 0.76
26 4 0.11
27 5 0.14
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (25 bp):
TTAGAATTAGATTTAAGTTTAGAAC
Found at i:7060181 original size:28 final size:29
Alignment explanation
Indices: 7060127--7060181 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
7060117 AATTGTAAAT
* *
7060127 GGTTTCTAGTTAAGCCATTAAAGCTAGAG
1 GGTTTCTAGTTAAGCCATAAAAACTAGAG
* *
7060156 GGTTT-TAGTTTAGGCATAAAAACTAG
1 GGTTTCTAGTTAAGCCATAAAAACTAG
7060182 GGGGAAGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (29 bp):
GGTTTCTAGTTAAGCCATAAAAACTAGAG
Found at i:7060610 original size:29 final size:29
Alignment explanation
Indices: 7060568--7060640 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
7060558 ATTTCTTTTT
7060568 TGGTCACCCAACTATGAAAAGTTAAAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
* * *
7060597 TGGTCACCTAACTATGAGAAGTTACAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
**
7060626 TAATCACCCAACTAT
1 TGGTCACCCAACTAT
7060641 TCAATATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (29 bp):
TGGTCACCCAACTATGAAAAGTTAAAAAA
Found at i:7061555 original size:48 final size:48
Alignment explanation
Indices: 7061500--7061596 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
7061490 CTATTTTAAC
*
7061500 CATGCCATATCAAAACATACTTAATTTATAATAGATTAAACATTACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
*
7061548 CATGCCATATCAAAACATACTCAATTTATGATAGATTAAACATTACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
7061596 C
1 C
7061597 GTGATACCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (48 bp):
CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
Found at i:7066836 original size:9 final size:9
Alignment explanation
Indices: 7066822--7066849 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7066812 TCTTGAATTC
7066822 TTGATAAGA
1 TTGATAAGA
7066831 TTGATAAGA
1 TTGATAAGA
7066840 TTGATAAGA
1 TTGATAAGA
7066849 T
1 T
7066850 AGGAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (9 bp):
TTGATAAGA
Found at i:7068664 original size:111 final size:111
Alignment explanation
Indices: 7068442--7068655 Score: 428
Period size: 111 Copynumber: 1.9 Consensus size: 111
7068432 ACAACTGTAA
7068442 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
7068507 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
7068553 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
7068618 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
7068656 GACACTGCAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (111 bp):
AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
Found at i:7073883 original size:2 final size:2
Alignment explanation
Indices: 7073876--7073909 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7073866 TGATAGGAAT
7073876 TA TA 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 TA TA
7073910 CTACAAGAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7083128 original size:20 final size:20
Alignment explanation
Indices: 7083103--7083140 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7083093 CTTATATTTA
7083103 ATTTTAA-TGTTTATTTTAGT
1 ATTTTAAGT-TTTATTTTAGT
7083123 ATTTTAAGTTTTATTTTA
1 ATTTTAAGTTTTATTTTA
7083141 TCCCAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
ATTTTAAGTTTTATTTTAGT
Found at i:7083532 original size:9 final size:9
Alignment explanation
Indices: 7083520--7083564 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
7083510 TATATATAAT
7083520 TTTAAAAAA
1 TTTAAAAAA
7083529 TTTAAAAAA
1 TTTAAAAAA
* *
7083538 TATATATAAA
1 TTTA-AAAAA
*
7083548 GTTAAAAAA
1 TTTAAAAAA
7083557 TTTAAAAA
1 TTTAAAAA
7083565 TTATATATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
9 23 0.79
10 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:7083543 original size:28 final size:28
Alignment explanation
Indices: 7083503--7083572 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
7083493 GAATTACCTA
**
7083503 AAAATAATATATATAATTTTAAAAAATTT
1 AAAA-AATATATATAAAGTTAAAAAATTT
7083532 AAAAAATATATATAAAGTTAAAAAATTT
1 AAAAAATATATATAAAGTTAAAAAATTT
*
7083560 AAAAATTATATAT
1 AAAAAATATATAT
7083573 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 34 0.89
29 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
AAAAAATATATATAAAGTTAAAAAATTT
Found at i:7091679 original size:31 final size:31
Alignment explanation
Indices: 7091641--7091702 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
7091631 AGATAAAATG
* *
7091641 ATCATTGAATTGTTTGAAAGTTTTCATTTAA
1 ATCATTGAACTATTTGAAAGTTTTCATTTAA
*
7091672 ATCATTGAACTATTTGAAAGTTTTTATTTAA
1 ATCATTGAACTATTTGAAAGTTTTCATTTAA
7091703 GTTACTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (31 bp):
ATCATTGAACTATTTGAAAGTTTTCATTTAA
Found at i:7091907 original size:19 final size:19
Alignment explanation
Indices: 7091873--7091912 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
7091863 TTTTGTTTAG
*
7091873 TTTTGTTACTTTAATTAACA
1 TTTTGTAACTTTAATT-ACA
7091893 TTTTGTAAC-TTAATTACA
1 TTTTGTAACTTTAATTACA
7091911 TT
1 TT
7091913 CAAACCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTGTAACTTTAATTACA
Found at i:7092333 original size:53 final size:53
Alignment explanation
Indices: 7092253--7092361 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
7092243 ACATTCTTAG
*
7092253 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACTTGTCATTTTTCA
1 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
7092306 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
1 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
7092359 TTC
1 TTC
7092362 TTCAAAACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (53 bp):
TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
Found at i:7104048 original size:23 final size:22
Alignment explanation
Indices: 7103984--7104048 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
7103974 TTTAAAATTA
*
7103984 AAATTT-AATACATTA-AAAAT
1 AAATTTAAATACTTTATAAAAT
* * *
7104004 AGATTTAAATAATTTTTAAAAAT
1 AAATTTAAATACTTTAT-AAAAT
7104027 AAATTTAAATACTTCTATAAAA
1 AAATTTAAATACTT-TATAAAA
7104049 ACAAAATCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 5 0.15
21 6 0.18
23 21 0.62
24 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTTAAATACTTTATAAAAT
Found at i:7104262 original size:16 final size:14
Alignment explanation
Indices: 7104202--7104275 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 14
7104192 TAAAACACAT
7104202 ATTTAAAAAATTAAA
1 ATTTAAAAAA-TAAA
*
7104217 ACCATTAAAAAATAGAA
1 A--TTTAAAAAATA-AA
7104234 ATTTAAAATAATAAA
1 ATTTAAAA-AATAAA
7104249 ATTGTTAAAAAATAAA
1 A-T-TTAAAAAATAAA
* *
7104265 TTTTAATAAAT
1 ATTTAAAAAAT
7104276 TTACATTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 8 0.16
15 11 0.22
16 13 0.27
17 17 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
ATTTAAAAAATAAA
Found at i:7104275 original size:14 final size:15
Alignment explanation
Indices: 7104221--7104275 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
7104211 ATTAAAACCA
*
7104221 TTAAAAAATAGAAAT-
1 TTAAAAAATA-AATTG
7104236 TTAAAATAATAAAATTG
1 TTAAAA-AAT-AAATTG
7104253 TTAAAAAATAAATT-
1 TTAAAAAATAAATTG
*
7104267 TTAATAAAT
1 TTAAAAAAT
7104276 TTACATTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 8 0.23
15 11 0.31
16 9 0.26
17 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
TTAAAAAATAAATTG
Found at i:7104325 original size:17 final size:18
Alignment explanation
Indices: 7104303--7104336 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
7104293 TTTTTTAACG
7104303 TAATTTTTTA-ATAAATA
1 TAATTTTTTACATAAATA
7104320 TAATTTTTTACATAAAT
1 TAATTTTTTACATAAAT
7104337 TTTTTCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTTTTTACATAAATA
Found at i:7105611 original size:22 final size:22
Alignment explanation
Indices: 7105572--7105619 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
7105562 ATCATAACTT
7105572 TAAT-TTTTTTAGAATTTA-AA
1 TAATATTTTTTAGAATTTATAA
*
7105592 TAATATTTTTTATAACTTTATAA
1 TAATATTTTTTAGAA-TTTATAA
7105615 -AATAT
1 TAATAT
7105620 ACAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 9 0.38
23 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTTTTTAGAATTTATAA
Found at i:7107565 original size:23 final size:23
Alignment explanation
Indices: 7107513--7107565 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
7107503 AGTGTTATTG
7107513 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
7107536 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7107559 ATCAGTG
1 ATCAGTG
7107566 TGGGGAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7108395 original size:14 final size:15
Alignment explanation
Indices: 7108375--7108411 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
7108365 AAATATATAC
*
7108375 TTTTTATATTTTATA
1 TTTTTATATTTCATA
7108390 -TTTTATA-TTCATA
1 TTTTTATATTTCATA
7108403 TTTTTATAT
1 TTTTTATAT
7108412 ATACATAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATATTTCATA
Found at i:7108457 original size:2 final size:2
Alignment explanation
Indices: 7108450--7108479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7108440 ATTTGAATTC
7108450 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
7108480 GTGTACTTGT
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):
AT
Found at i:7108728 original size:24 final size:22
Alignment explanation
Indices: 7108683--7108726 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7108673 ATATACACAC
7108683 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTATTTTATA
*
7108705 ATACTTACAGATTTT-TTTTATA
1 ATACTTACA-TTTTTATTTTATA
7108727 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.32, C:0.09, G:0.02, T:0.57
Consensus pattern (22 bp):
ATACTTACATTTTTATTTTATA
Found at i:7109309 original size:107 final size:107
Alignment explanation
Indices: 7109123--7109376 Score: 409
Period size: 107 Copynumber: 2.4 Consensus size: 107
7109113 NNNNNNCGAT
* *
7109123 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTT
1 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATACTTCACGTT
* *
7109188 TGGAAAATCAAGGAAACGTGCCCTAACGTGTTGGGTTTCGAC
66 TGGAAAATCAAGGAAACGTGCCCTAACGTGCTGAGTTTCGAC
*
7109230 TTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATACTTCACGTT
1 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATACTTCACGTT
* * *
7109295 TGGAAAATCCAGGAAACGTGCCCTAATGTGCTGAGTTTCGAT
66 TGGAAAATCAAGGAAACGTGCCCTAACGTGCTGAGTTTCGAC
* * *
7109337 TTCTCGTCCGACTAAATAGCCAAATATCCTTTTAAAACTT
1 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTT
7109377 CAAAGTATGG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 135 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (107 bp):
TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATACTTCACGTT
TGGAAAATCAAGGAAACGTGCCCTAACGTGCTGAGTTTCGAC
Found at i:7117337 original size:13 final size:13
Alignment explanation
Indices: 7117319--7117343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7117309 TATTCGATCT
7117319 TTTTTACTTATTG
1 TTTTTACTTATTG
7117332 TTTTTACTTATT
1 TTTTTACTTATT
7117344 CACGAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTACTTATTG
Found at i:7121359 original size:15 final size:14
Alignment explanation
Indices: 7121340--7121379 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
7121330 TTAACCTTTA
*
7121340 ATTAATTATAATTT
1 ATTAATTAAAATTT
7121354 ACTTAATTAAAATTT
1 A-TTAATTAAAATTT
7121369 GATTAATTAAA
1 -ATTAATTAAA
7121380 CATAAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTAATTAAAATTT
Found at i:7123772 original size:53 final size:53
Alignment explanation
Indices: 7123692--7123810 Score: 222
Period size: 53 Copynumber: 2.3 Consensus size: 53
7123682 GGGGAGGTAT
7123692 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
*
7123745 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTACCAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
7123798 TCATCAG-CCAAAC
1 TCATCAGCCCAAAC
7123811 CATTCGTTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
52 6 0.09
53 59 0.91
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (53 bp):
TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
Found at i:7130764 original size:22 final size:22
Alignment explanation
Indices: 7130736--7130777 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
7130726 AAGACTATAC
7130736 TTTCTGCAAACCATATTCTTAT
1 TTTCTGCAAACCATATTCTTAT
7130758 TTTCTGCAAACCATATTCTT
1 TTTCTGCAAACCATATTCTT
7130778 GATAGAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTCTGCAAACCATATTCTTAT
Found at i:7132855 original size:25 final size:25
Alignment explanation
Indices: 7132821--7132871 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7132811 GGATACCCAA
7132821 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
7132846 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
7132871 C
1 C
7132872 AAACAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.47
Consensus pattern (25 bp):
CTTAGTTTTCTAAGTTCAATGTGGT
Found at i:7136085 original size:21 final size:21
Alignment explanation
Indices: 7136061--7136201 Score: 104
Period size: 21 Copynumber: 6.8 Consensus size: 21
7136051 TGGGAACCCG
* * *
7136061 TAAGGGTTAAACGGAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
* * * *
7136082 TAAGAGCTGAACGGAAACCCA
1 TAAGAGTTAAACTGAAACTCA
* * *
7136103 TAAGGGTTAAACTTAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
* * *
7136124 AAAGAGCTAAACTGAAACCCA
1 TAAGAGTTAAACTGAAACTCA
* * *
7136145 GAAGGGTTAAACTAAAACTCA
1 TAAGAGTTAAACTGAAACTCA
* *
7136166 TATGAGTT-AACTGAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
*
7136186 TAAGAGCTAAACTGAA
1 TAAGAGTTAAACTGAA
7136202 TGCAAACACG
Statistics
Matches: 89, Mismatches: 30, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
20 16 0.18
21 73 0.82
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
TAAGAGTTAAACTGAAACTCA
Found at i:7136157 original size:42 final size:42
Alignment explanation
Indices: 7136045--7136157 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
7136035 GCACATAAAT
* * * *
7136045 GCTAAATGGGAACCC-GTAAGGGTTAAACGGAAGCTCATAAGA
1 GCTAAACGGAAACCCAG-AAGGGTTAAACTGAAGCTCAAAAGA
* * *
7136087 GCTGAACGGAAACCCATAAGGGTTAAACTTAAGCTCAAAAGA
1 GCTAAACGGAAACCCAGAAGGGTTAAACTGAAGCTCAAAAGA
*
7136129 GCTAAACTGAAACCCAGAAGGGTTAAACT
1 GCTAAACGGAAACCCAGAAGGGTTAAACT
7136158 AAAACTCATA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (42 bp):
GCTAAACGGAAACCCAGAAGGGTTAAACTGAAGCTCAAAAGA
Found at i:7147912 original size:14 final size:14
Alignment explanation
Indices: 7147890--7147919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7147880 TATTTTTTAA
*
7147890 GACTTCTTAAGAGG
1 GACTGCTTAAGAGG
7147904 GACTGCTTAAGAGG
1 GACTGCTTAAGAGG
7147918 GA
1 GA
7147920 GCTAATCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (14 bp):
GACTGCTTAAGAGG
Found at i:7161652 original size:37 final size:36
Alignment explanation
Indices: 7161611--7161681 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
7161601 TATTTGATTT
*
7161611 TTTGTTTTAAGCGGAACAACTAAACAAAAGATGATAG
1 TTTGTTTTAA-CGGAACAACTAAACAAAAAATGATAG
* * * *
7161648 TTTGTTTTGATGGAACAATTAAGCAAAAAATGAT
1 TTTGTTTTAACGGAACAACTAAACAAAAAATGAT
7161682 TATTTTGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 20 0.69
37 9 0.31
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.31
Consensus pattern (36 bp):
TTTGTTTTAACGGAACAACTAAACAAAAAATGATAG
Found at i:7161759 original size:17 final size:18
Alignment explanation
Indices: 7161734--7161772 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7161724 AATTTTAATT
*
7161734 TTAACTTAATATTT-AAA
1 TTAACTTAAGATTTAAAA
*
7161751 TTAATTTAAGATTTAAAA
1 TTAACTTAAGATTTAAAA
7161769 TTAA
1 TTAA
7161773 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAACTTAAGATTTAAAA
Found at i:7174829 original size:11 final size:11
Alignment explanation
Indices: 7174813--7174875 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
7174803 GATAATCAAT
7174813 AAAAATTATAA
1 AAAAATTATAA
*
7174824 AAAAA-TAT-T
1 AAAAATTATAA
*
7174833 AAAAATTAGAAA
1 AAAAATTA-TAA
7174845 AAAAATTAT--
1 AAAAATTATAA
*
7174854 -AAAATCATAA
1 AAAAATTATAA
7174864 AAAAATTATAA
1 AAAAATTATAA
7174875 A
1 A
7174876 TATATAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
8 7 0.17
9 5 0.12
10 5 0.12
11 15 0.38
12 8 0.20
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:7174835 original size:20 final size:20
Alignment explanation
Indices: 7174812--7174869 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
7174802 TGATAATCAA
7174812 TAAAAATTATAAAAAAATAT
1 TAAAAATTATAAAAAAATAT
*
7174832 TAAAAATTAGAAAAAAA-AT
1 TAAAAATTATAAAAAAATAT
*
7174851 TATAAAATCATAAAAAAAT
1 TA-AAAATTATAAAAAAAT
7174870 TATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATAT
Found at i:7174894 original size:27 final size:26
Alignment explanation
Indices: 7174847--7174902 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
7174837 ATTAGAAAAA
*
7174847 AAATTATAAAATCATAAAAAAATTAT
1 AAATTATAAAATCATAAAAAAACTAT
*
7174873 AAATATATAGAAAT-ATAGAAAAACTAT
1 AAAT-TATA-AAATCATAAAAAAACTAT
7174900 AAA
1 AAA
7174903 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 18 0.69
28 4 0.15
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (26 bp):
AAATTATAAAATCATAAAAAAACTAT
Found at i:7175181 original size:22 final size:21
Alignment explanation
Indices: 7175139--7175183 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7175129 TTAAATGGTC
7175139 TTTTTAATGCATTTTATAATT
1 TTTTTAATGCATTTTATAATT
* *
7175160 TTTTTTATG-ATTCTTATAAAT
1 TTTTTAATGCATT-TTATAATT
7175181 TTT
1 TTT
7175184 CACAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTAATGCATTTTATAATT
Found at i:7175853 original size:18 final size:19
Alignment explanation
Indices: 7175818--7175858 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7175808 TTTGAGATGG
*
7175818 TTATAGCAAAAATATTATA
1 TTATAACAAAAATATTATA
*
7175837 TTATAACAAAAA-CTTATA
1 TTATAACAAAAATATTATA
7175855 TTAT
1 TTAT
7175859 TTAAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
TTATAACAAAAATATTATA
Found at i:7177260 original size:21 final size:21
Alignment explanation
Indices: 7177221--7177266 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7177211 GTTATGATAA
*
7177221 AATAAATTATAATATTTTTAT
1 AATAAATTATAATACTTTTAT
*
7177242 GAATAAA-TATATTACTTTTAT
1 -AATAAATTATAATACTTTTAT
7177263 AATA
1 AATA
7177267 TATAGTATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATAAATTATAATACTTTTAT
Found at i:7177452 original size:19 final size:20
Alignment explanation
Indices: 7177421--7177490 Score: 70
Period size: 22 Copynumber: 3.4 Consensus size: 20
7177411 TTGTTATAAC
*
7177421 TTTATAAAATATATAAATTAT
1 TTTATAATATA-ATAAATTAT
***
7177442 TTTATAATATAATTTTTTAAT
1 TTTATAATATAATAAATT-AT
7177463 ATTTATAATATAATAAATT-T
1 -TTTATAATATAATAAATTAT
7177483 TTTATAAT
1 TTTATAAT
7177491 CATCCTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 8 0.20
20 5 0.12
21 12 0.30
22 15 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTATAATATAATAAATTAT
Found at i:7181522 original size:22 final size:22
Alignment explanation
Indices: 7181494--7181548 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
7181484 ATAATATAGA
7181494 TTTAATAAATGCAGGAAAATCT
1 TTTAATAAATGCAGGAAAATCT
7181516 TTTAATAAATGCAGGAAAATCT
1 TTTAATAAATGCAGGAAAATCT
7181538 TTTAATAAATG
1 TTTAATAAATG
7181549 AAAAGAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (22 bp):
TTTAATAAATGCAGGAAAATCT
Found at i:7190871 original size:20 final size:20
Alignment explanation
Indices: 7190823--7190871 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
7190813 TAATTTTTTT
7190823 ATATTATT-ACTAATATATA
1 ATATTATTAACTAATATATA
* *
7190842 ATAATATTAACTAATTTA-A
1 ATATTATTAACTAATATATA
7190861 ATATTACTTAA
1 ATATTA-TTAA
7190872 ATGCATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTATTAACTAATATATA
Found at i:7202290 original size:5 final size:5
Alignment explanation
Indices: 7202280--7202306 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7202270 TTAAAAATAT
7202280 TTATA TTATA TTATA TTATA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TT
7202307 TATACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:7204542 original size:16 final size:18
Alignment explanation
Indices: 7204507--7204544 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7204497 ATCTTTATTT
7204507 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
7204525 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
7204541 AAAT
1 AAAT
7204545 TCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:7207292 original size:21 final size:21
Alignment explanation
Indices: 7207267--7207308 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7207257 AGTATGCCAG
7207267 GGCTGATCTAGTTGCTTATGC
1 GGCTGATCTAGTTGCTTATGC
7207288 GGCTGATCTAGTTGCTTATGC
1 GGCTGATCTAGTTGCTTATGC
7207309 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (21 bp):
GGCTGATCTAGTTGCTTATGC
Found at i:7209058 original size:16 final size:18
Alignment explanation
Indices: 7209023--7209060 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7209013 ATCCTTATTT
*
7209023 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
7209041 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
7209057 AAAT
1 AAAT
7209061 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:7215305 original size:25 final size:24
Alignment explanation
Indices: 7215277--7215333 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
7215267 GAAAGAAATA
*
7215277 AAAAAACAAAAAGAAAATCTATTCT
1 AAAAAA-AAAAAGAAAATCTAATCT
*
7215302 AAAAAGAAAAGAGAAAATCTAATCT
1 AAAAA-AAAAAAGAAAATCTAATCT
7215327 AAAAAAA
1 AAAAAAA
7215334 GTGAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 26 0.90
26 1 0.03
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (24 bp):
AAAAAAAAAAAGAAAATCTAATCT
Found at i:7217718 original size:20 final size:20
Alignment explanation
Indices: 7217693--7217732 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7217683 CGTAAAATGA
*
7217693 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
7217713 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
7217733 GGGAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:7217722 original size:34 final size:35
Alignment explanation
Indices: 7217678--7217744 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
7217668 CAGTAAAATA
*
7217678 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
7217712 TTTTCTGTAAAATGATTTACTGGGAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
7217745 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:7221204 original size:20 final size:20
Alignment explanation
Indices: 7221176--7221216 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7221166 TTTAATTAAT
7221176 TTAGCTTAATT-AAGTTAAAC
1 TTAGCTTAATTGAA-TTAAAC
*
7221196 TTAGTTTAATTGAATTAAAC
1 TTAGCTTAATTGAATTAAAC
7221216 T
1 T
7221217 AATCATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
TTAGCTTAATTGAATTAAAC
Found at i:7229026 original size:13 final size:13
Alignment explanation
Indices: 7229010--7229047 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
7229000 TTTAAACTAA
7229010 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
7229023 ACTTTTTCACAA-C
1 AC-TTTTCAAAAGC
7229036 ACTTTTCAAAAG
1 ACTTTTCAAAAG
7229048 TATTGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 8 0.38
13 5 0.24
14 8 0.38
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7230741 original size:2 final size:2
Alignment explanation
Indices: 7230734--7230764 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7230724 TGGTTTGGGT
7230734 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
7230765 TGATATTTTA
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:7232736 original size:7 final size:8
Alignment explanation
Indices: 7232719--7232747 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7232709 AATTTATTTT
7232719 AAAAATAA
1 AAAAATAA
7232727 AAAAATAA
1 AAAAATAA
7232735 AAAAATAA
1 AAAAATAA
7232743 AAAAA
1 AAAAA
7232748 AAGTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:7233903 original size:27 final size:27
Alignment explanation
Indices: 7233873--7233928 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
7233863 CATAGTGGAC
7233873 TTAAGCGGGTTGAATAGTGGTATTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
*
7233900 TTAAGCGGGTTGAATAGTGGTGTTCGA
1 TTAAGCGGGTTGAATAGTGGTATTCGA
7233927 TT
1 TT
7233929 CCTTACTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.23, C:0.07, G:0.34, T:0.36
Consensus pattern (27 bp):
TTAAGCGGGTTGAATAGTGGTATTCGA
Found at i:7263913 original size:30 final size:29
Alignment explanation
Indices: 7263879--7263942 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
7263869 AAAATACGAA
* *
7263879 ATTTTGATCCCTCAACTTTCTTAAAATTAC
1 ATTTTGA-CCCTAAACTTTCCTAAAATTAC
* *
7263909 ATTTTGACCTTAAATTTTCCTAAAATTAC
1 ATTTTGACCCTAAACTTTCCTAAAATTAC
7263938 ATTTT
1 ATTTT
7263943 AACCTTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (29 bp):
ATTTTGACCCTAAACTTTCCTAAAATTAC
Found at i:7263932 original size:29 final size:31
Alignment explanation
Indices: 7263895--7263957 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
7263885 ATCCCTCAAC
* *
7263895 TTTCTTAAAATTACATTTTGACCTT-AAA-T
1 TTTCCTAAAATTACATTTTAACCTTGAAAGT
7263924 TTTCCTAAAATTACATTTTAACCTTGAAAGT
1 TTTCCTAAAATTACATTTTAACCTTGAAAGT
7263955 TTT
1 TTT
7263958 GCGTCCTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 23 0.77
30 3 0.10
31 4 0.13
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTCCTAAAATTACATTTTAACCTTGAAAGT
Found at i:7264466 original size:25 final size:25
Alignment explanation
Indices: 7264438--7264492 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
7264428 ATTGGAGAGA
* * *
7264438 AAGGGAGAGAAGAAAAGAGAAAAAT
1 AAGGGAAAGAAGAAAAGAAAAAAAG
*
7264463 AAGGGAAAGAATAAAAGAAAAAAAG
1 AAGGGAAAGAAGAAAAGAAAAAAAG
7264488 AAGGG
1 AAGGG
7264493 GGAGGGAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.31, T:0.04
Consensus pattern (25 bp):
AAGGGAAAGAAGAAAAGAAAAAAAG
Found at i:7264619 original size:27 final size:24
Alignment explanation
Indices: 7264587--7264637 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7264577 AAAGAAAAAG
* *
7264587 AAAAAGG-AAG-AAGAAAGAGATA
1 AAAAAGGAAAGAAAGAAAAAAATA
7264609 AAAAAGGAAAGAAAGAAAAAAATA
1 AAAAAGGAAAGAAAGAAAAAAATA
7264633 AAAAA
1 AAAAA
7264638 ATATAGTCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 7 0.28
23 3 0.12
24 15 0.60
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (24 bp):
AAAAAGGAAAGAAAGAAAAAAATA
Found at i:7266684 original size:21 final size:22
Alignment explanation
Indices: 7266658--7266698 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7266648 CATATATATA
7266658 TAATAA-ACTTTAAAATTTTTT
1 TAATAATACTTTAAAATTTTTT
* *
7266679 TAATAATGCTTTATAATTTT
1 TAATAATACTTTAAAATTTT
7266699 ATATATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATAATACTTTAAAATTTTTT
Found at i:7272022 original size:20 final size:20
Alignment explanation
Indices: 7271986--7272024 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7271976 CGGCACCGAT
7271986 TCTGTAAGTGTTCTAAAAAC
1 TCTGTAAGTGTTCTAAAAAC
*
7272006 TCTGATAAGT-TTTTAAAAA
1 TCTG-TAAGTGTTCTAAAAA
7272025 TATGAGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TCTGTAAGTGTTCTAAAAAC
Found at i:7307045 original size:2 final size:2
Alignment explanation
Indices: 7307038--7307071 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
7307028 ACTCATTTCT
7307038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
7307072 TTTCTTAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7309818 original size:26 final size:26
Alignment explanation
Indices: 7309756--7309832 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
7309746 AGTTTAGCAT
* *
7309756 TACTTTTGAAAAGTGCTTTTAAAAAG
1 TACTTTTGAAAAGTGTTTTTAAGAAG
* * *
7309782 T-GTTGTGGAAAAGTGTTTTTAAGACG
1 TACTT-TTGAAAAGTGTTTTTAAGAAG
*
7309808 TACTTTTGAAAAGTTTTGTTTAAGA
1 TACTTTTGAAAAGTGTT-TTTAAGA
7309833 TTTAAGAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
25 2 0.05
26 29 0.73
27 9 0.22
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (26 bp):
TACTTTTGAAAAGTGTTTTTAAGAAG
Found at i:7309893 original size:20 final size:18
Alignment explanation
Indices: 7309858--7309896 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
7309848 TTACTGTCAA
7309858 AAAATGCTTTTGAGAAAT
1 AAAATGCTTTTGAGAAAT
*
7309876 AAAATGTCTATTTTAGAAAT
1 AAAATG-CT-TTTGAGAAAT
7309896 A
1 A
7309897 GTATTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (18 bp):
AAAATGCTTTTGAGAAAT
Found at i:7310243 original size:20 final size:21
Alignment explanation
Indices: 7310220--7310268 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
7310210 AACCCATATT
*
7310220 AAATATTAACATAACATAG-A
1 AAATATTAACATAACAAAGTA
* *
7310240 AAATATAAACCTAACAAAGTA
1 AAATATTAACATAACAAAGTA
7310261 AAATATTA
1 AAATATTA
7310269 CATGTATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (21 bp):
AAATATTAACATAACAAAGTA
Found at i:7310981 original size:13 final size:13
Alignment explanation
Indices: 7310929--7310981 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
7310919 TTTAAACCAA
7310929 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
7310942 ACCTCTT-AAAAGC
1 A-CTTTTCAAAAGC
* * *
7310955 ACATTTCCACAGC
1 ACTTTTCAAAAGC
7310968 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
7310981 A
1 A
7310982 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
12 3 0.10
13 23 0.77
14 4 0.13
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:7316173 original size:21 final size:20
Alignment explanation
Indices: 7316130--7316174 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
7316120 GTAGATAGCG
*
7316130 AAAACAATCGATTGAAAAGC
1 AAAACAATCAATTGAAAAGC
7316150 AAAACAATCAATTGAAACAGC
1 AAAACAATCAATTGAAA-AGC
7316171 AAAA
1 AAAA
7316175 TAATTGATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (20 bp):
AAAACAATCAATTGAAAAGC
Found at i:7316184 original size:21 final size:20
Alignment explanation
Indices: 7316130--7316210 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 20
7316120 GTAGATAGCG
7316130 AAAACAATCGATTGAAAAGC
1 AAAACAATCGATTGAAAAGC
*
7316150 AAAACAATCAATTGAAACAGC
1 AAAACAATCGATTGAAA-AGC
* * * *
7316171 AAAATAATTGATTGTAAAGTG
1 AAAACAATCGATTGAAAAG-C
* *
7316192 AAAACAATTGGTTGAAAAG
1 AAAACAATCGATTGAAAAG
7316211 AATCATTTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
20 18 0.36
21 32 0.64
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (20 bp):
AAAACAATCGATTGAAAAGC
Found at i:7318870 original size:3 final size:3
Alignment explanation
Indices: 7318862--7318906 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
7318852 GCGTATGTAA
*
7318862 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7318907 AATTCCTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7331725 original size:44 final size:43
Alignment explanation
Indices: 7331628--7331746 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 43
7331618 TGAAGAAGCA
*
7331628 AATCTTATCTCCCTGAGGTTGCAGTGGAGCATATTGAAGTCAAT
1 AATCTTATCTCCCTGAGGTTGCAGTGGAGCA-ATTAAAGTCAAT
*
7331672 AATAC-TATCTCCCTGAGGTTGTAGTGGGGAGC-ATTAAAGT-AAT
1 AAT-CTTATCTCCCTGAGGTTGCAGT--GGAGCAATTAAAGTCAAT
* * *
7331715 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
1 A-ATCTTATCTCCCTGAGGTTGCAGTGGAGCA
7331747 GATCGCATCA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.06
43 5 0.08
44 48 0.76
45 1 0.02
46 5 0.08
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
AATCTTATCTCCCTGAGGTTGCAGTGGAGCAATTAAAGTCAAT
Found at i:7334039 original size:9 final size:9
Alignment explanation
Indices: 7334025--7334061 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7334015 TATAATTTGA
7334025 TATTCGAAT
1 TATTCGAAT
7334034 TATTCGAAT
1 TATTCGAAT
*
7334043 TATTCGAGT
1 TATTCGAAT
7334052 TATTCGAAT
1 TATTCGAAT
7334061 T
1 T
7334062 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7334645 original size:3 final size:3
Alignment explanation
Indices: 7334637--7334684 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
7334627 GCGTATGTAA
*
7334637 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7334685 AATTCCTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7340608 original size:2 final size:2
Alignment explanation
Indices: 7340603--7340636 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7340593 TATATATTGC
7340603 AT 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 AT
7340637 GCATATAAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7342044 original size:45 final size:48
Alignment explanation
Indices: 7341977--7342067 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 48
7341967 TTCTCTGCTT
* * *
7341977 AAAACGCCTAAGTCAGCCTAACTTGTAA-AA-AAAGG-TTCAATAGCA
1 AAAACGCCCAAGTCAGCCTAACTCGCAACAATAAAGGATTCAATAGCA
*
7342022 AAAACGCCCAAGTCAGCTTAACTCGCAACAATAAAGGATTCAATAG
1 AAAACGCCCAAGTCAGCCTAACTCGCAACAATAAAGGATTCAATAG
7342068 AATTCCCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
45 24 0.62
46 2 0.05
47 5 0.13
48 8 0.21
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (48 bp):
AAAACGCCCAAGTCAGCCTAACTCGCAACAATAAAGGATTCAATAGCA
Found at i:7342304 original size:19 final size:17
Alignment explanation
Indices: 7342278--7342331 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
7342268 AAAGCTGTAT
7342278 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
7342295 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
7342314 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
7342331 A
1 A
7342332 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:7342309 original size:36 final size:36
Alignment explanation
Indices: 7342261--7342331 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
7342251 ATCAAAGGAT
7342261 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
*
7342297 ATAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGA
7342332 TTAAATAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:7342321 original size:17 final size:17
Alignment explanation
Indices: 7342263--7342323 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
7342253 CAAAGGATAT
*
7342263 AATTAAAAGCTGTATAC
1 AATTAGAAGCTGTATAC
* *
7342280 AATTAGAA-CTCTAAGAC
1 AATTAGAAGCTGT-ATAC
7342297 ATAATTAGAAGCTGTATAC
1 --AATTAGAAGCTGTATAC
7342316 AATTAGAA
1 AATTAGAA
7342324 CTCTAAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
19 11 0.31
20 3 0.09
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (17 bp):
AATTAGAAGCTGTATAC
Found at i:7347396 original size:17 final size:17
Alignment explanation
Indices: 7347374--7347438 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
7347364 ACATCAAAGG
*
7347374 ATACAATTAAAAGCTGT
1 ATACAATTAGAAGCTGT
*
7347391 ATACAATTAGAA-CTCT
1 ATACAATTAGAAGCTGT
*
7347407 AAGACATAATTAGAAGCTGT
1 -ATAC--AATTAGAAGCTGT
7347427 ATACAATTAGAA
1 ATACAATTAGAA
7347439 CTCTAAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.08
17 22 0.56
19 11 0.28
20 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.28
Consensus pattern (17 bp):
ATACAATTAGAAGCTGT
Found at i:7347419 original size:19 final size:17
Alignment explanation
Indices: 7347393--7347446 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
7347383 AAAGCTGTAT
7347393 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
7347410 ACATAATTAGAAGCTGT-AT
1 AC--AATTAGAA-CTCTAAG
7347429 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
7347446 A
1 A
7347447 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
19 11 0.38
20 3 0.10
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:7347425 original size:36 final size:36
Alignment explanation
Indices: 7347378--7347446 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
7347368 CAAAGGATAC
7347378 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
*
7347414 AATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 AATTAAAAGCTGTATACAATTAGAACTCTAAGA
7347447 TTAAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
Found at i:7348696 original size:24 final size:24
Alignment explanation
Indices: 7348667--7348748 Score: 87
Period size: 24 Copynumber: 3.2 Consensus size: 24
7348657 GTGATATATT
7348667 TAATACATAATAATTTTAAAATAA
1 TAATACATAATAATTTTAAAATAA
7348691 TAATACATAATAATTTTTTTTAAAA-ATA
1 TAATACATAATAA----TTTTAAAATA-A
7348719 TGAATACATAATACA-TTTAAAATAA
1 T-AATACATAATA-ATTTTAAAATAA
7348744 TAATA
1 TAATA
7348749 TTGGATAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
24 17 0.34
25 9 0.18
26 1 0.02
27 1 0.02
28 10 0.20
29 11 0.22
30 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (24 bp):
TAATACATAATAATTTTAAAATAA
Found at i:7348724 original size:29 final size:29
Alignment explanation
Indices: 7348680--7348736 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
7348670 TACATAATAA
7348680 TTTTAAAATAATAATACATAATA-ATTTT
1 TTTTAAAATAATAATACATAATACATTTT
7348708 TTTTAAAA-ATATGAATACATAATACATTT
1 TTTTAAAATA-AT-AATACATAATACATTT
7348737 AAAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 1 0.04
28 10 0.38
29 11 0.42
30 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (29 bp):
TTTTAAAATAATAATACATAATACATTTT
Found at i:7348765 original size:24 final size:24
Alignment explanation
Indices: 7348733--7348812 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
7348723 TACATAATAC
* **
7348733 ATTTAAAATAATAATATTGGATAA
1 ATTTTAAATAATAATATACGATAA
* * *
7348757 GTTTTAAATTATAGTATACGATAA
1 ATTTTAAATAATAATATACGATAA
* * *
7348781 ATTTTAAATTATGATATATGAT-A
1 ATTTTAAATAATAATATACGATAA
*
7348804 ATTTAAAAT
1 ATTTTAAAT
7348813 GATAGTTTAT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
23 9 0.20
24 36 0.80
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.42
Consensus pattern (24 bp):
ATTTTAAATAATAATATACGATAA
Found at i:7348873 original size:23 final size:25
Alignment explanation
Indices: 7348821--7348879 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 25
7348811 ATGATAGTTT
*
7348821 ATTAAATATTAAAATAATACTAATG
1 ATTAAATATTAAAACAATACTAATG
**
7348846 A-TAAAT-TTAAAACAATGTTAA-G
1 ATTAAATATTAAAACAATACTAATG
7348868 ATTAAATATTAA
1 ATTAAATATTAA
7348880 CTAGCATTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.07
23 17 0.59
24 9 0.31
25 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATTAAATATTAAAACAATACTAATG
Found at i:7350247 original size:16 final size:16
Alignment explanation
Indices: 7350223--7350276 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
7350213 TTTGGTTTGC
* *
7350223 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
7350239 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
7350255 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
7350271 TGTAAT
1 TGTAAT
7350277 AACAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:7350573 original size:56 final size:56
Alignment explanation
Indices: 7350470--7350581 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
7350460 TAATATCAAT
* *
7350470 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATAATTTAATAAAA
1 AATAAATAATTTAATAAAATTTAAACATAATTATTATTAAATATAATTTAATAAAA
* * * * * *
7350526 AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATAT-TAATTTACTAAAA
1 AATAAATAATTTAATAAAATT-TAAACATAATTATTATTAAATATAATTTAATAAAA
7350582 TCATAATATG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
56 30 0.64
57 17 0.36
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (56 bp):
AATAAATAATTTAATAAAATTTAAACATAATTATTATTAAATATAATTTAATAAAA
Found at i:7350930 original size:77 final size:77
Alignment explanation
Indices: 7350838--7350999 Score: 324
Period size: 77 Copynumber: 2.1 Consensus size: 77
7350828 ATTTTCTGTC
7350838 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
7350903 TTATTGACATAA
66 TTATTGACATAA
7350915 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
1 CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
7350980 TTATTGACATAA
66 TTATTGACATAA
7350992 CACTTTAA
1 CACTTTAA
7351000 GATTGTCTCA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (77 bp):
CACTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATT
TTATTGACATAA
Found at i:7351907 original size:10 final size:10
Alignment explanation
Indices: 7351892--7351934 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
7351882 CTTCTTAGAC
7351892 AAATAAACAA
1 AAATAAACAA
7351902 AAATAAACAA
1 AAATAAACAA
*
7351912 CAATAAACAA
1 AAATAAACAA
*
7351922 GAAT-AACAA
1 AAATAAACAA
7351931 AAAT
1 AAAT
7351935 TGTTTTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.74, C:0.12, G:0.02, T:0.12
Consensus pattern (10 bp):
AAATAAACAA
Found at i:7370184 original size:14 final size:13
Alignment explanation
Indices: 7370162--7370324 Score: 54
Period size: 13 Copynumber: 12.2 Consensus size: 13
7370152 AAGTGTTTTC
*
7370162 TTTCTTCAAGTGTT
1 TTTCATCAAGT-TT
7370176 TTTCATCAAGTTCT
1 TTTCATCAAGTT-T
7370190 TTT-ATCAAGTTT
1 TTTCATCAAGTTT
* *
7370202 TTAATTACCAAGGTTTTTT
1 TT--TCATCAA-G---TTT
* *
7370221 TTGTTATTAAGT-T
1 TT-TCATCAAGTTT
*
7370234 TTGCATCAAGTTCT
1 TTTCATCAAGTT-T
7370248 TTT--T-AAGT-T
1 TTTCATCAAGTTT
*
7370257 TTTCATCAAGTCT
1 TTTCATCAAGTTT
*
7370270 TTTCATAAAG-TT
1 TTTCATCAAGTTT
*
7370282 TTCCATCAAGTTT
1 TTTCATCAAGTTT
*
7370295 TTAATCATTAAG-TT
1 TT--TCATCAAGTTT
*
7370309 TTTCAATTAAGTTT
1 TTTC-ATCAAGTTT
7370323 TT
1 TT
7370325 ATCTCTTGCA
Statistics
Matches: 115, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
9 4 0.03
11 5 0.04
12 25 0.22
13 32 0.28
14 27 0.23
15 10 0.09
16 1 0.01
17 1 0.01
18 5 0.04
19 5 0.04
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (13 bp):
TTTCATCAAGTTT
Found at i:7370253 original size:23 final size:23
Alignment explanation
Indices: 7370227--7370293 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 23
7370217 TTTTTTGTTA
*
7370227 TTAAGTTTTGCATCAAGTTCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
*
7370250 TTAAGTTTTTCATCAAG-TCTTT
1 TTAAGTTTTCCATCAAGTTCTTT
7370272 TCATAAAGTTTTCCATCAAGTT
1 T--T-AAGTTTTCCATCAAGTT
7370294 TTTAATCATT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 6 0.16
23 16 0.42
24 1 0.03
25 14 0.37
26 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (23 bp):
TTAAGTTTTCCATCAAGTTCTTT
Found at i:7370319 original size:13 final size:12
Alignment explanation
Indices: 7370226--7370324 Score: 76
Period size: 13 Copynumber: 7.9 Consensus size: 12
7370216 TTTTTTTGTT
*
7370226 ATTAAGTTTTGC
1 ATTAAGTTTTTC
*
7370238 ATCAAGTTCTTT-
1 ATTAAGTT-TTTC
7370250 -TTAAGTTTTTC
1 ATTAAGTTTTTC
*
7370261 ATCAAGTCTTTTC
1 ATTAAGT-TTTTC
* *
7370274 ATAAAGTTTTCC
1 ATTAAGTTTTTC
*
7370286 ATCAAGTTTTTAATC
1 ATTAAG-TTTT--TC
7370301 ATTAAGTTTTTC
1 ATTAAGTTTTTC
7370313 AATTAAGTTTTT
1 -ATTAAGTTTTT
7370325 ATCTCTTGCA
Statistics
Matches: 70, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
10 3 0.04
11 6 0.09
12 23 0.33
13 28 0.40
14 4 0.06
15 6 0.09
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (12 bp):
ATTAAGTTTTTC
Found at i:7371178 original size:36 final size:37
Alignment explanation
Indices: 7371107--7371178 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 37
7371097 TTATTTAACT
* **
7371107 GCATTTTATTATTTTATTTTCAGCTTTTACTTTTTAC
1 GCATTTTATTATTTTATTTTCAGCTTTCAAATTTTAC
*
7371144 GCATTTTATT-TATTTA-TTTCAGGTTTCAAATTTTA
1 GCATTTTATTAT-TTTATTTTCAGCTTTCAAATTTTA
7371179 TCCCCCCGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.60
Consensus pattern (37 bp):
GCATTTTATTATTTTATTTTCAGCTTTCAAATTTTAC
Found at i:7382407 original size:2 final size:2
Alignment explanation
Indices: 7382400--7382428 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7382390 AACCAAAATC
7382400 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 A
7382429 CCCAATGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7382521 original size:41 final size:41
Alignment explanation
Indices: 7382468--7382638 Score: 317
Period size: 41 Copynumber: 4.2 Consensus size: 41
7382458 AGATTCACTA
7382468 GCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
*
7382509 ACACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
7382550 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
7382591 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
7382632 GCACTTA
1 GCACTTA
7382639 ATCTGATTGG
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 1 0.01
41 126 0.99
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.29
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCG
Found at i:7383320 original size:2 final size:2
Alignment explanation
Indices: 7383313--7383367 Score: 62
Period size: 2 Copynumber: 29.0 Consensus size: 2
7383303 ATTCAAAAAC
* * *
7383313 TA TA TA TA TA TG TA TA TA T- TA TG TA TA TA -A T- TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7383352 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
7383368 CACATATTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7384397 original size:28 final size:31
Alignment explanation
Indices: 7384365--7384423 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
7384355 TGTTTTGTTT
7384365 TTATTATAATAA-CATTAT-AAT-ATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
* *
7384393 TTATTATTATAACCTTTATAAATAATATAAA
1 TTATTATAATAACCATTATAAATAATATAAA
7384424 AACTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 5 0.19
30 3 0.12
31 7 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TTATTATAATAACCATTATAAATAATATAAA
Found at i:7402074 original size:42 final size:42
Alignment explanation
Indices: 7402013--7402142 Score: 181
Period size: 42 Copynumber: 3.1 Consensus size: 42
7402003 CACAGATGCA
* * *
7402013 CATAAGTGCTAAACAGAAACCCATAAGGGTTGAA-TGGAAGCT
1 CATAAGAGCTAAACGGAAACCCATAAGGGTTAAACT-GAAGCT
*
7402055 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACGGAAACCCATAAGGGTTAAACTGAAGCT
* * *
7402097 CAAAAGAGCTTAACGGAAACCCATAAGGGTTAAACTGAAACT
1 CATAAGAGCTAAACGGAAACCCATAAGGGTTAAACTGAAGCT
7402139 CATA
1 CATA
7402143 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 78 0.99
43 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (42 bp):
CATAAGAGCTAAACGGAAACCCATAAGGGTTAAACTGAAGCT
Found at i:7402136 original size:21 final size:21
Alignment explanation
Indices: 7402013--7402142 Score: 84
Period size: 21 Copynumber: 6.2 Consensus size: 21
7402003 CACAGATGCA
* * *
7402013 CATAAGTGCTAAACAGAAACC
1 CATAAGGGTTAAACTGAAACC
* * *
7402034 CATAAGGGTTGAA-TGGAAGCT
1 CATAAGGGTTAAACT-GAAACC
* * * *
7402055 CATAAGAGCTGAACGGAAACC
1 CATAAGGGTTAAACTGAAACC
* *
7402076 CATAAGGGTTAAACTGAAGCT
1 CATAAGGGTTAAACTGAAACC
* * *
7402097 CAAAAGAGCTT-AACGGAAACC
1 CATAAG-GGTTAAACTGAAACC
*
7402118 CATAAGGGTTAAACTGAAACT
1 CATAAGGGTTAAACTGAAACC
7402139 CATA
1 CATA
7402143 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
20 3 0.04
21 73 0.92
22 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (21 bp):
CATAAGGGTTAAACTGAAACC
Found at i:7402149 original size:21 final size:20
Alignment explanation
Indices: 7402053--7402159 Score: 79
Period size: 21 Copynumber: 5.2 Consensus size: 20
7402043 TGAATGGAAG
* *
7402053 CTCATAAGAGCTGAACGGAAA
1 CTCATAAGAG-TTAACTGAAA
* * *
7402074 CCCATAAGGGTTAAACTGAAG
1 CTCATAAGAGTT-AACTGAAA
* *
7402095 CTCAAAAGAGCTTAACGGAAA
1 CTCATAAGAG-TTAACTGAAA
* *
7402116 CCCATAAGGGTTAAACTGAAA
1 CTCATAAGAGTT-AACTGAAA
* *
7402137 CTCATATGAGTTAACAGAAA
1 CTCATAAGAGTTAACTGAAA
7402157 CTC
1 CTC
7402160 GTGAGAGCTA
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
20 13 0.20
21 50 0.77
22 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
CTCATAAGAGTTAACTGAAA
Found at i:7404089 original size:43 final size:43
Alignment explanation
Indices: 7404041--7404268 Score: 276
Period size: 43 Copynumber: 5.3 Consensus size: 43
7404031 GTTTTTAGAA
* *
7404041 ACAAACACCGCTATAGAACAAGACATTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * *
7404084 ACAAACGCCACTATAGAACAAGACCTTTAACGGCGCTTTTCAC
1 ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
7404127 TCAAACGCCGCTATAGAACAAGACCTTTAGCGGCACTTTTCCC
1 ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * * * ** *
7404170 ACAAACGCCGCTAAAGATCATGACTTTTAACGGTACTTTTACC
1 ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
** * * *
7404213 ACAAACGCCGCTATAGGTCATGACTTTTAGCGGTGCTTTTCCC
1 ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
7404256 ACAAACGCCGCTA
1 ACAAACGCCGCTA
7404269 AAAACATATC
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCC
Found at i:7404602 original size:43 final size:43
Alignment explanation
Indices: 7404538--7404622 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
7404528 ATATGCAAGA
* *
7404538 TAATAAAACATACAATGCATTTTCTTAATCAA-GTAAATCTTGG
1 TAATAAAACATACAATACATTTACTTAATCAATG-AAATCTTGG
* *
7404581 TAATAAAAGATATAATACATTTACTTAATCAATGAAATCTTG
1 TAATAAAACATACAATACATTTACTTAATCAATGAAATCTTG
7404623 TACATCATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (43 bp):
TAATAAAACATACAATACATTTACTTAATCAATGAAATCTTGG
Found at i:7408636 original size:7 final size:7
Alignment explanation
Indices: 7408621--7408681 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
7408611 CCTTAAATCT
*
7408621 CTAAATC
1 CTAACTC
7408628 CTAACTC
1 CTAACTC
*
7408635 CTAAATCC
1 CTAACT-C
7408643 CTAACTC
1 CTAACTC
* *
7408650 TTAACCC
1 CTAACTC
*
7408657 CTAACCC
1 CTAACTC
*
7408664 CTAACTA
1 CTAACTC
*
7408671 CTAACCC
1 CTAACTC
7408678 CTAA
1 CTAA
7408682 ACCTTAAACC
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (7 bp):
CTAACTC
Found at i:7408640 original size:22 final size:22
Alignment explanation
Indices: 7408609--7408682 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
7408599 CCCTAACCCG
* *
7408609 ACCCTTAAATCTCTAAATCCTA
1 ACCCCTAAATCCCTAAATCCTA
* * *
7408631 ACTCCTAAATCCCTAACTCTTA
1 ACCCCTAAATCCCTAAATCCTA
* * *
7408653 ACCCCT-AACCCCTAACTACTA
1 ACCCCTAAATCCCTAAATCCTA
7408674 ACCCCTAAA
1 ACCCCTAAA
7408683 CCTTAAACCC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (22 bp):
ACCCCTAAATCCCTAAATCCTA
Found at i:7408667 original size:21 final size:21
Alignment explanation
Indices: 7408641--7408681 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7408631 ACTCCTAAAT
7408641 CCCTAACT-CTTAACCCCTAAC
1 CCCTAACTAC-TAACCCCTAAC
7408662 CCCTAACTACTAACCCCTAA
1 CCCTAACTACTAACCCCTAA
7408682 ACCTTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAACTACTAACCCCTAAC
Found at i:7408700 original size:14 final size:15
Alignment explanation
Indices: 7408673--7408705 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7408663 CCTAACTACT
7408673 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
7408688 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
7408702 AACC
1 AACC
7408706 ATAATCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:7408995 original size:20 final size:21
Alignment explanation
Indices: 7408970--7409008 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
7408960 ACTAGTTAAT
7408970 CTAAACCCT-AAACCATAAAC
1 CTAAACCCTAAAACCATAAAC
7408990 CTAAACCCTAAAACCATAA
1 CTAAACCCTAAAACCATAA
7409009 GCCCTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAAACCCTAAAACCATAAAC
Found at i:7409063 original size:7 final size:7
Alignment explanation
Indices: 7409053--7409171 Score: 53
Period size: 7 Copynumber: 16.7 Consensus size: 7
7409043 CCCCAGCCTT
7409053 TAAACCA
1 TAAACCA
7409060 TAAACCA
1 TAAACCA
* *
7409067 TAACCCC
1 TAAACCA
7409074 TAAACCCA
1 TAAA-CCA
*
7409082 TAATCCA
1 TAAACCA
* *
7409089 TAAGCCT
1 TAAACCA
***
7409096 TAAAATGG
1 T-AAACCA
7409104 TAACACC-
1 TAA-ACCA
*
7409111 TAAACCT
1 TAAACCA
7409118 TAAACTC-
1 TAAAC-CA
7409125 TAAACCA
1 TAAACCA
* *
7409132 TATACCC
1 TAAACCA
7409139 TAAACCA
1 TAAACCA
* *
7409146 AAAACCC
1 TAAACCA
7409153 TAAACCA
1 TAAACCA
* *
7409160 AAAACCC
1 TAAACCA
7409167 TAAAC
1 TAAAC
7409172 TATAGTGATA
Statistics
Matches: 82, Mismatches: 24, Indels: 12
0.69 0.20 0.10
Matches are distributed among these distances:
6 4 0.05
7 68 0.83
8 10 0.12
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:7409099 original size:22 final size:21
Alignment explanation
Indices: 7408971--7409099 Score: 70
Period size: 21 Copynumber: 6.2 Consensus size: 21
7408961 CTAGTTAATC
* *
7408971 TAAACCCTAAACCATAAACC-
1 TAAACCATAAACCATAAGCCT
*
7408991 TAAACCCTAAAACCATAAGCCCT
1 TAAACCAT-AAACCATAAG-CCT
** * *
7409014 T-AA-CATGCA-CATAACCTT
1 TAAACCATAAACCATAAGCCT
* **
7409032 TAAACCTTAAACC-CCAGCCTT
1 TAAACCATAAACCATAAGCC-T
* *
7409053 TAAACCATAAACCATAACCCC
1 TAAACCATAAACCATAAGCCT
*
7409074 TAAACCCATAATCCATAAGCCT
1 TAAA-CCATAAACCATAAGCCT
7409096 TAAA
1 TAAA
7409100 ATGGTAACAC
Statistics
Matches: 79, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
18 3 0.04
19 7 0.09
20 14 0.18
21 29 0.37
22 25 0.32
23 1 0.01
ACGTcount: A:0.43, C:0.33, G:0.03, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCATAAGCCT
Found at i:7409129 original size:14 final size:14
Alignment explanation
Indices: 7409109--7409171 Score: 81
Period size: 14 Copynumber: 4.5 Consensus size: 14
7409099 AATGGTAACA
*
7409109 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
7409123 TCTAAACCATATAC
1 CCTAAACCATAAAC
*
7409137 CCTAAACCAAAAAC
1 CCTAAACCATAAAC
*
7409151 CCTAAACCAAAAAC
1 CCTAAACCATAAAC
7409165 CCTAAAC
1 CCTAAAC
7409172 TATAGTGATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 43 1.00
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:7409666 original size:114 final size:114
Alignment explanation
Indices: 7409413--7409748 Score: 494
Period size: 114 Copynumber: 2.9 Consensus size: 114
7409403 GGTGTCGTTG
* * *
7409413 GGCTTAGGTTTTTTGCGGCGCTTTCTAAAAAACGCCGCTAAAAGCCCTGAGCATTAGTGACGCTT
1 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTT
** * *
7409478 TATTAAAAAACGCCGCTAAATCCCTGAAAGCTCACAAAACGGTGTCATTTT
65 CCTT-AAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTT
* * *
7409529 GGCTTAGGTTTTTTGCGGTGCTTTCTCAAAAACGCAGCTAAAGCCCTAAGCATTAGCGGCGCTTC
1 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
* * * * *
7409594 CTTTAAAATGCCACTAAATCCCCAAAATCTCACAAAACGGCGT-AGTTTT
66 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCA-TTTT
*
7409643 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTC
1 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
7409708 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGC
66 CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGC
7409749 TAAATCCCCG
Statistics
Matches: 195, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
113 1 0.01
114 134 0.69
115 24 0.12
116 36 0.18
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (114 bp):
GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTC
CTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTTT
Found at i:7409752 original size:27 final size:27
Alignment explanation
Indices: 7409720--7409774 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
7409710 TAAAAACGCC
7409720 GCTAAATCCCCGAAAGCTCACAAAACG
1 GCTAAATCCCCGAAAGCTCACAAAACG
7409747 GCTAAATCCCCGAAAGCTCACAAAACG
1 GCTAAATCCCCGAAAGCTCACAAAACG
7409774 G
1 G
7409775 TGTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.33, G:0.16, T:0.11
Consensus pattern (27 bp):
GCTAAATCCCCGAAAGCTCACAAAACG
Found at i:7420001 original size:22 final size:22
Alignment explanation
Indices: 7419976--7420017 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7419966 AAATAGTAAG
* *
7419976 AAAATAACAAGAAAATAGCAGT
1 AAAACAACAAAAAAATAGCAGT
*
7419998 AAAACAATAAAAAAATAGCA
1 AAAACAACAAAAAAATAGCA
7420018 TATTTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAACAACAAAAAAATAGCAGT
Found at i:7420667 original size:28 final size:28
Alignment explanation
Indices: 7420608--7420678 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
7420598 AAAAATAAAA
7420608 ATTTACCAAAATAT-TACAATTTTTTTT
1 ATTTACCAAAATATATACAATTTTTTTT
7420635 ATTTACCAAAATATATA-AACTTTTTTTT
1 ATTTACCAAAATATATACAA-TTTTTTTT
7420663 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
7420679 CAAAAAAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.38
28 26 0.62
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTACCAAAATATATACAATTTTTTTT
Found at i:7420776 original size:27 final size:27
Alignment explanation
Indices: 7420737--7420812 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
7420727 TACTGGTCAC
*
7420737 GCCAATGGAATTGGCGACACCAATGGT
1 GCCAATGCAATTGGCGACACCAATGGT
* *
7420764 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCAATTGGCGACACCAATGGT
* *
7420791 GCC-ATACTAATTGGCGGCACCA
1 GCCAATGC-AATTGGCGACACCA
7420813 CTCGTATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.26, C:0.28, G:0.28, T:0.18
Consensus pattern (27 bp):
GCCAATGCAATTGGCGACACCAATGGT
Found at i:7420981 original size:19 final size:21
Alignment explanation
Indices: 7420943--7420981 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7420933 AATAATTGAT
*
7420943 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
7420964 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
7420982 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:7421057 original size:3 final size:3
Alignment explanation
Indices: 7421051--7421097 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7421041 ATTATTATTA
7421051 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
7421098 AGTATGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Done.