Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003940.1 Hibiscus syriacus cultivar Beakdansim tig00008513_pilon, whole genome shotgun sequence
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: 168851
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:7930 original size:3 final size:3
Alignment explanation
Indices: 7922--7993 Score: 92
Period size: 3 Copynumber: 23.3 Consensus size: 3
7912 ACAGGTTTTA
*
7922 ATT ATT ATT ATT ATT ATT ATT ATC A-T ATTT ATT ATT ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT -ATT
*
7968 ATT ATT ATT ATT ACAT ATT ATT ATT A
1 ATT ATT ATT ATT A-TT ATT ATT ATT A
7994 CAAATAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.02
3 53 0.87
4 7 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:12134 original size:19 final size:20
Alignment explanation
Indices: 12110--12148 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12100 AAACATTTTC
*
12110 ACAT-GGATCATTCATGAAA
1 ACATGGGATAATTCATGAAA
12129 ACATGGGGATAATTCATGAA
1 ACAT-GGGATAATTCATGAA
12149 GAATTCGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
ACATGGGATAATTCATGAAA
Found at i:16330 original size:99 final size:99
Alignment explanation
Indices: 16042--16440 Score: 395
Period size: 102 Copynumber: 3.9 Consensus size: 99
16032 CATATCGCCA
* ** * * *
16042 TTGAGATTGTTTCTCTAGAAACAAAATTTTATCTCGCTTGAGACAGTTTTCCCTCAAAATATAAA
1 TTGAGATTG-TTCTC-A-AAAC-AAATTTTGTCTCATTTGAGACAATTTTCCCTCAAAACACAAA
* *
16107 TTTTGAAATTTATTTCACTTGAAACAAAATTAATCTCAC
62 TTTTGAAA-TTGTTTCACTTGAAACAAAATTGATCTCAC
* * * ** * * * *
16146 TTGACATTGTTTTCCTATAAACGAATTTTGTCTCGCTTGAGATAGTTTTCCCTCAAAATACATAT
1 TTGAGATTGTTCT-C-A-AAACAAATTTTGTCTCATTTGAGACAATTTTCCCTCAAAACACAAAT
16211 TTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
63 TTTGAAATTGTTTCACTTGAAACAAAATTGATCTCAC
* * * * * *
16248 TTTAGATTGTTCTCAAAACAAATTTTGTCTCATTTCAGACATTTTTTCTTCAAAACACAAATTCT
1 TTGAGATTGTTCTCAAAACAAATTTTGTCTCATTTGAGACAATTTTCCCTCAAAACACAAATTTT
* * **
16313 AAAATTGTTTCACTTGAAACTAAATTGATAACA-
66 GAAATTGTTTCACTTGAAACAAAATTGATCTCAC
* * *
16346 TTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCATTTGAGACAAGTTTCCCTCAAAACACAAA
1 TTGAGATTG---TTC-TCAAAACAAATTTTGTCTCATTTGAGACAATTTTCCCTCAAAACACAAA
*
16411 TTTTGGAAATTTTTTCACTTGAAACAAAAT
62 TTTT-GAAATTGTTTCACTTGAAACAAAAT
16441 ACATAAACCA
Statistics
Matches: 249, Mismatches: 40, Indels: 13
0.82 0.13 0.04
Matches are distributed among these distances:
98 8 0.03
99 68 0.27
100 1 0.00
101 4 0.02
102 83 0.33
103 70 0.28
104 15 0.06
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.39
Consensus pattern (99 bp):
TTGAGATTGTTCTCAAAACAAATTTTGTCTCATTTGAGACAATTTTCCCTCAAAACACAAATTTT
GAAATTGTTTCACTTGAAACAAAATTGATCTCAC
Found at i:16498 original size:103 final size:98
Alignment explanation
Indices: 16039--16542 Score: 440
Period size: 103 Copynumber: 4.9 Consensus size: 98
16029 ATGCATATCG
* *
16039 CCATTGAGATTG-TTTCTCTAGAAACAAAATTTTATCTCGCTTGAGACAGTTTTCCCTCAAAATA
1 CCATTGAGATTGTTTTCT-TA-AAAC-AAATTTTGTCTCGCTTGAGACAG-TTTCCCTCAAAACA
* * *
16103 TAAATTTTGAAATTTATTTCACTTGAAACAAAATTAAT
62 CAAATTTTGAAA-TTGTTTCACTTGAAACAAAATTAAA
* * * * *
16141 CTCACTTGACATTGTTTTCCTATAAACGAATTTTGTCTCGCTTGAGATAGTTTTCCCTCAAAATA
1 C-CA-TTGAGATTGTTTTCTTA-AAACAAATTTTGTCTCGCTTGAGACAG-TTTCCCTCAAAACA
* * *
16206 CATATTTTGAAATTGTTTCACTTGAAACAAAATTGAT
62 CAAATTTTGAAATTGTTTCACTTGAAACAAAATTAAA
* * ** * * * *
16243 CTCACTTTAGATTG--TTCTCAAAACAAATTTTGTCTCATTTCAGACATTTTTTCTTCAAAACAC
1 C-CA-TTGAGATTGTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACA-GTTTCCCTCAAAACAC
* * *
16306 AAATTCTAAAATTGTTTCACTTGAAACTAAATTGATAA
63 AAATTTTGAAATTGTTTCACTTGAAACAAAATT-A-AA
* **
16344 -CATTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCATTTGAGACAAGTTTCCCTCAAAACAC
1 CCATTGAGATTG-TTTTCTT-AAAACAAATTTTGTCTCGCTTGAGAC-AGTTTCCCTCAAAACAC
*
16408 AAATTTTGGAAATTTTTTCACTTGAAACAAAATACATAAA
63 AAATTTT-GAAATTGTTTCACTTGAAACAAAAT---TAAA
* * ** *
16448 CCATTGAGATTGTTTATCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA
1 CCATTGAGATTGTTT-TCTTAAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTCAAAACACAA
* * * *
16513 ACCTTTGAGATTGTTTCTCTTGAAAAAAAA
65 A-TTTTGAAATTGTTTCACTTGAAACAAAA
16543 ATTTGTCTCG
Statistics
Matches: 331, Mismatches: 53, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
98 8 0.02
99 64 0.19
100 4 0.01
101 5 0.02
102 79 0.24
103 106 0.32
104 44 0.13
105 20 0.06
106 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (98 bp):
CCATTGAGATTGTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTCAAAACACAAA
TTTTGAAATTGTTTCACTTGAAACAAAATTAAA
Found at i:16504 original size:36 final size:35
Alignment explanation
Indices: 16459--16646 Score: 112
Period size: 36 Copynumber: 5.5 Consensus size: 35
16449 CATTGAGATT
*
16459 GTTTATCTTGAAACAAATTTTGTCTCGCTTGAGACA
1 GTTTCTCTTGAAACAAA-TTTGTCTCGCTTGAGACA
* * **
16495 GTTTCTCTTGAAACATAA----AC-C-TTTGAGATT
1 GTTTCTCTTGAAACA-AATTTGTCTCGCTTGAGACA
* *
16525 GTTTCTCTTGAAAAAAAAATTTGTCTCGCTTCAGACA
1 GTTTCTCTTG--AAACAAATTTGTCTCGCTTGAGACA
* * **
16562 GTTTCTCTTGAAACATAA----AC-C-TTTGAGATT
1 GTTTCTCTTGAAACA-AATTTGTCTCGCTTGAGACA
* * *
16592 GTTTCCCTTGAAACAAATTTTGTCTCACTTCAGACA
1 GTTTCTCTTGAAACAAA-TTTGTCTCGCTTGAGACA
16628 GTTTCTCTTGAAACAAATT
1 GTTTCTCTTGAAACAAATT
16647 ATCCCTAAAG
Statistics
Matches: 111, Mismatches: 24, Indels: 35
0.65 0.14 0.21
Matches are distributed among these distances:
29 2 0.02
30 35 0.32
31 4 0.04
32 6 0.05
34 1 0.01
35 8 0.07
36 38 0.34
37 17 0.15
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (35 bp):
GTTTCTCTTGAAACAAATTTGTCTCGCTTGAGACA
Found at i:16529 original size:30 final size:30
Alignment explanation
Indices: 16495--16606 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 30
16485 GCTTGAGACA
16495 GTTTCTCTTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
* * * * **
16525 GTTTCTCTTGAAAAAAAAATTTGTCTCGCTTCAGACA
1 GTTTCTCTTGAAACATAAA-----C-C-TTTGAGATT
16562 GTTTCTCTTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
*
16592 GTTTCCCTTGAAACA
1 GTTTCTCTTGAAACA
16607 AATTTTGTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
30 36 0.58
31 1 0.02
32 1 0.02
35 1 0.02
36 1 0.02
37 22 0.35
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (30 bp):
GTTTCTCTTGAAACATAAACCTTTGAGATT
Found at i:16573 original size:67 final size:66
Alignment explanation
Indices: 16441--16642 Score: 332
Period size: 66 Copynumber: 3.0 Consensus size: 66
16431 GAAACAAAAT
* * *
16441 ACATAAACCATTGAGATTGTTTATCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGA
1 ACATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTCAGACAGTTTCTCTTGA
16506 A
66 A
* *
16507 ACATAAACCTTTGAGATTGTTTCTCTTGAAAAAAAAATTTGTCTCGCTTCAGACAGTTTCTCTTG
1 ACATAAACCTTTGAGATTGTTTCTCTTG-AAACAAATTTTGTCTCGCTTCAGACAGTTTCTCTTG
16572 AA
65 AA
* *
16574 ACATAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCACTTCAGACAGTTTCTCTTGA
1 ACATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTCAGACAGTTTCTCTTGA
16639 A
66 A
16640 ACA
1 ACA
16643 AATTATCCCT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
66 64 0.51
67 62 0.49
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (66 bp):
ACATAAACCTTTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCGCTTCAGACAGTTTCTCTTGA
A
Found at i:17003 original size:138 final size:139
Alignment explanation
Indices: 16641--17013 Score: 487
Period size: 139 Copynumber: 2.7 Consensus size: 139
16631 TCTCTTGAAA
* * *
16641 CAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACTGACTAGA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * *
16706 TCTCCTCAATGCGCAAGAGCAGCGTCATCCTCAGGCAATCCGACTTCCTCATCACGTACGAACCA
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCTCAGGCAATCAGACTTCCTCATCACGTACGAACCA
16771 TGTTGTCTC
131 TGTTGTCTC
* * * * *
16780 CAAAGTATTCCTAAAGATGACTAGACGTCCTCATCACGTAGGAACAATATCGTCCACCAACTAGA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * * * * * * **
16845 TCTCCTCAACGCATAAGAGCAGTGTCATTCTCATGTAATCAGACTTCTTCATCACGTAGGAA-TG
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCTCAGGCAATCAGACTTCCTCATCACGTACGAACCA
16909 TGTTGTCTC
131 TGTTGTCTC
* * * *
16918 CAAATTATCCCTAAAGATGGCTAGACGTCCTTAGCACGTAGGAACAATGTCGTCCACCGACCAAA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * * *
16983 TCTCCTCAACACGTAGGAGCAACATCATCCT
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCT
17014 AAGATAACTA
Statistics
Matches: 198, Mismatches: 36, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
138 89 0.45
139 109 0.55
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (139 bp):
CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
TCTCCTCAACGCGTAAGAGCAGCGTCATCCTCAGGCAATCAGACTTCCTCATCACGTACGAACCA
TGTTGTCTC
Found at i:17035 original size:138 final size:138
Alignment explanation
Indices: 16641--17056 Score: 476
Period size: 139 Copynumber: 3.0 Consensus size: 138
16631 TCTCTTGAAA
* * *
16641 CAAATTATCCCTAAAGATGGCTAGACATCCTCATCACGTAGGAACAATGTCATCCACTGACTAGA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * * * *
16706 TCTCCTCAATGCGCAAGAGCAGCGTCATCCTCAGGCAATCCGACTTCCTCATCACGTACGAACCA
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCT-AAGTAATCAGACTTCCTCATCACGTACGAACCA
16771 TGTTGTCTC
130 TGTTGTCTC
* * * * *
16780 CAAAGTATTCCTAAAGATGACTAGACGTCCTCATCACGTAGGAACAATATCGTCCACCAACTAGA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * * * * * **
16845 TCTCCTCAACGCATAAGAGCAGTGTCATTCTCATGTAATCAGACTTCTTCATCACGTAGGAA-TG
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCT-AAGTAATCAGACTTCCTCATCACGTACGAACCA
16909 TGTTGTCTC
130 TGTTGTCTC
* * * *
16918 CAAATTATCCCTAAAGATGGCTAGACGTCCTTAGCACGTAGGAACAATGTCGTCCACCGACCAAA
1 CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
* * * * * ** *
16983 TCTCCTCAACACGTAGGAGCAACATCATCCTAAGATAA-CTAGGCTTCCTCATCATATAGGAACC
66 TCTCCTCAACGCGTAAGAGCAGCGTCATCCTAAG-TAATC-AGACTTCCTCATCACGTACGAACC
*
17047 ATGTTATCTC
129 ATGTTGTCTC
17057 TAAAATCATC
Statistics
Matches: 230, Mismatches: 44, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
137 3 0.01
138 110 0.48
139 117 0.51
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (138 bp):
CAAATTATCCCTAAAGATGGCTAGACGTCCTCATCACGTAGGAACAATGTCGTCCACCGACTAGA
TCTCCTCAACGCGTAAGAGCAGCGTCATCCTAAGTAATCAGACTTCCTCATCACGTACGAACCAT
GTTGTCTC
Found at i:18799 original size:16 final size:16
Alignment explanation
Indices: 18764--18793 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18754 GTTCTTCATT
18764 ATTT-ATCCTTTTATG
1 ATTTAATCCTTTTATG
18779 ATTTAATCCTTTTAT
1 ATTTAATCCTTTTAT
18794 CGTTTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTTAATCCTTTTATG
Found at i:20748 original size:2 final size:2
Alignment explanation
Indices: 20741--20783 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
20731 ATATTCCACC
*
20741 TA TA TA TA TA TA TA TGA TG TA TA T- TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
20782 TA
1 TA
20784 CACACACGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:25991 original size:64 final size:64
Alignment explanation
Indices: 25914--26041 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
25904 AAATATCTTT
25914 ATATATATAAAAGAAAGTTAATTATTGTAATTATATTTTTTAATACATATCCGATAAAACCTAA
1 ATATATATAAAAGAAAGTTAATTATTGTAATTATATTTTTTAATACATATCCGATAAAACCTAA
* *
25978 ATATATATAAAAGAAAGTTAATTATTGTAATTATATTTTTTAATATATATCCTATAAAACCTAA
1 ATATATATAAAAGAAAGTTAATTATTGTAATTATATTTTTTAATACATATCCGATAAAACCTAA
26042 TCCAAATTGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (64 bp):
ATATATATAAAAGAAAGTTAATTATTGTAATTATATTTTTTAATACATATCCGATAAAACCTAA
Found at i:26164 original size:24 final size:19
Alignment explanation
Indices: 26110--26157 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
26100 TATAAAAATC
26110 ATTTAAAATATAATATTTA
1 ATTTAAAATATAATATTTA
26129 ATTTAAAATATAATATTTA
1 ATTTAAAATATAATATTTA
26148 ATTTAAAATA
1 ATTTAAAATA
26158 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTTAAAATATAATATTTA
Found at i:28083 original size:4 final size:4
Alignment explanation
Indices: 28060--28095 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
28050 TATATCTAGG
* *
28060 TAAA TGAA TAAA TAAT TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
28096 AGGGACTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:29392 original size:34 final size:33
Alignment explanation
Indices: 29354--29430 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
29344 TTCAAAATCA
29354 TATATTATATAAATTTTAAAAAACGTTTTAAAAC
1 TATATTATAT-AATTTTAAAAAACGTTTTAAAAC
* *
29388 TATATGT-TATAGTTTTCAAAAACGTTTTAAAAC
1 TATAT-TATATAATTTTAAAAAACGTTTTAAAAC
29421 TATATTATAT
1 TATATTATAT
29431 GATTCAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 1 0.03
33 29 0.74
34 8 0.21
35 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (33 bp):
TATATTATATAATTTTAAAAAACGTTTTAAAAC
Found at i:29437 original size:31 final size:33
Alignment explanation
Indices: 29372--29446 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
29362 ATAAATTTTA
*
29372 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGTATTC
29405 AAAAACGTTTTAAAACTATA--TTATA-TGATTC
1 AAAAACGTTTTAAAACTATATGTTATAGT-ATTC
*
29436 AAAAATGTTTT
1 AAAAACGTTTT
29447 TTTTAACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 1 0.03
31 18 0.46
33 20 0.51
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (33 bp):
AAAAACGTTTTAAAACTATATGTTATAGTATTC
Found at i:29490 original size:35 final size:37
Alignment explanation
Indices: 29451--29538 Score: 108
Period size: 35 Copynumber: 2.4 Consensus size: 37
29441 TGTTTTTTTT
* *
29451 AACTATATATTATATAA-ATTTTAAAATTATTTT-AC
1 AACTATATATTATATAAGATTTTAAAATGATTTTAAA
* * *
29486 AACTATATCTTATATAAGTTTTTAAAATGGTTTTAAA
1 AACTATATATTATATAAGATTTTAAAATGATTTTAAA
*
29523 AACTATATAATATATA
1 AACTATATATTATATA
29539 TGGTTTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 16 0.36
36 13 0.30
37 15 0.34
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
AACTATATATTATATAAGATTTTAAAATGATTTTAAA
Found at i:29537 original size:37 final size:35
Alignment explanation
Indices: 29301--29538 Score: 129
Period size: 36 Copynumber: 6.8 Consensus size: 35
29291 TATATGATAA
* * * *
29301 AAAATG-TTTTAAAACTTTATATAATATATATTTC
1 AAAATGATTTTAAAACTATATATTATATAAATTTT
29335 AAAGAT-ATTTTCAAAA-TCATATATTATATAAATTTT
1 AAA-ATGATTTT-AAAACT-ATATATTATATAAATTTT
* * *
29371 AAAA-AACGTTTTAAAACTATATGTTATAGT---TTTCA
1 AAAATGA--TTTTAAAACTATATATTATA-TAAATTT-T
* * **
29406 AAAACG-TTTTAAAAC--TATATTATAT-GATTCA
1 AAAATGATTTTAAAACTATATATTATATAAATTTT
* **
29437 AAAATGTTTTTTTTAACTATATATTATATAAATTTT
1 AAAATG-ATTTTAAAACTATATATTATATAAATTTT
* * * *
29473 AAAATTATTTTACAACTATATCTTATATAAGTTTTT
1 AAAATGATTTTAAAACTATATATTATATAA-ATTTT
* *
29509 AAAATGGTTTTAAAAACTATATAATATATA
1 AAAATGATTTT-AAAACTATATATTATATA
29539 TGGTTTCAAA
Statistics
Matches: 158, Mismatches: 26, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
30 1 0.01
31 14 0.09
32 2 0.01
33 16 0.10
34 6 0.04
35 43 0.27
36 55 0.35
37 21 0.13
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (35 bp):
AAAATGATTTTAAAACTATATATTATATAAATTTT
Found at i:29597 original size:39 final size:38
Alignment explanation
Indices: 29496--29630 Score: 120
Period size: 37 Copynumber: 3.7 Consensus size: 38
29486 AACTATATCT
* * *
29496 TATATAAGTTTT-TAAAATGGTTTT-AAAAACTATATAA
1 TATATATGTTTTCAAAAAT-GTTTTCAAAAAATATATAA
* *** *
29533 TATATATGGTTTCAAAAA-AAATTCAAAAATTATATAA
1 TATATATGTTTTCAAAAATGTTTTCAAAAAATATATAA
*
29570 TATATATGTTTTCAAGAAATGTTTTCAAAAAACATAT-A
1 TATATATGTTTTCAA-AAATGTTTTCAAAAAATATATAA
*
29608 T-TATATATTTTC-AAAATGTTTTC
1 TATATATGTTTTCAAAAATGTTTTC
29631 TTTTTAGAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 10 0.12
36 3 0.04
37 46 0.57
38 9 0.11
39 12 0.15
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (38 bp):
TATATATGTTTTCAAAAATGTTTTCAAAAAATATATAA
Found at i:30598 original size:165 final size:165
Alignment explanation
Indices: 30303--30817 Score: 738
Period size: 165 Copynumber: 3.1 Consensus size: 165
30293 TTGAATATAA
*
30303 TCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CC
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
* * *
30367 TTGGAGCTGAGCGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTT
66 TCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTT
30432 ATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAG
131 ATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAG
*
30467 TCGAACTCGGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
30532 TCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTT
66 TCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTT
* * * *
30597 ATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
131 ATACTGCAAATGATGTGCCTTAG-AGCTGAGCGTAG
* * *
30633 TCGAACT-TAAGGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
1 TCGAACTCGAA-GGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * *
30697 TGCCCTCGAAGCTGAGTGTAATCGAACCCGAAGGTC---T-TTGGCAGATAGCCCTTCTCGACTT
61 TGCCCTCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTT
* * *
30758 AAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
126 AAGTTATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAG
30798 TCGAACTC-AAGGGTCTTTGG
1 TCGAACTCGAA-GGTCTTTGG
30818 TTGGCAGACA
Statistics
Matches: 319, Mismatches: 24, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
161 4 0.01
163 1 0.00
164 60 0.19
165 110 0.34
166 67 0.21
167 1 0.00
168 1 0.00
170 75 0.24
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCC
TCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTT
ATACTGCAAATGATGTGCCTTAGAGCTGAGCGTAG
Found at i:30604 original size:85 final size:85
Alignment explanation
Indices: 30303--30825 Score: 648
Period size: 85 Copynumber: 6.3 Consensus size: 85
30293 TTGAATATAA
* *
30303 TCGAACTCGAAGGTC---T-TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
30364 G-CCTTGGAGCTGAGCGTAG
66 GCCCTCGAAGCTGAGCGTAG
* * * *
30383 TCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
30448 GCCTTAG-AGCTGAGCGTAG
66 GCCCTCGAAGCTGAGCGTAG
* *
30467 TCGAACTCGGAGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
*
30528 GCCCTCGAAGCTGAGTGTAG
66 GCCCTCGAAGCTGAGCGTAG
* * * *
30548 TCGAACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
30613 GCCCTCGAAGCTGAGTGTAA
66 GCCCTCGAAGCTGAGCGTAG
* * *
30633 TCGAACT-TAAGGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
1 TCGAACTCGAA-GGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* *
30697 TGCCCTCGAAGCTGAGTGTAA
65 TGCCCTCGAAGCTGAGCGTAG
* *
30718 TCGAACCCGAAGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
30779 G-CCTTGGAGCTGAGCGTAG
66 GCCCTCGAAGCTGAGCGTAG
*
30798 TCGAACTC-AAGGGTCTTTGGTTGGCAGA
1 TCGAACTCGAA-GGTCTTTTGTTGGCAGA
30826 CACTCCTTCT
Statistics
Matches: 390, Mismatches: 36, Indels: 30
0.86 0.08 0.07
Matches are distributed among these distances:
79 2 0.01
80 85 0.22
81 71 0.18
83 1 0.00
84 78 0.20
85 151 0.39
86 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (85 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
GCCCTCGAAGCTGAGCGTAG
Found at i:30836 original size:250 final size:249
Alignment explanation
Indices: 30322--30825 Score: 735
Period size: 250 Copynumber: 2.0 Consensus size: 249
30312 AAGGTCTTTA
* * * * * *
30322 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCGA
** * * *
30387 ACTCGGAGGTCTTTTGTTGGCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCT
66 ACTAAGAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCC
* * *
30452 TAGAGCTGAGCGTAGTCGAACTCGGAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
131 TAGAGCTGAGCGTAATCGAACCCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* * *
30517 GCAAATGATGTGCCCTCGAAGCTGAGTGTAGTCGAACTCGGAGGTCTTTTGTTG
196 GCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCAGAGGTCTTTGGTTG
* *
30571 GCAGATAACCCTTCTTGACTTAAGTTATACTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATGTG-CCTCGAAGCTGAGCGTAATCG
*
30636 AACTTAAG-GGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
65 AAC-TAAGAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGC
* *
30700 CCTCGAAGCTGAGTGTAATCGAACCCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
129 CCTAG-AGCTGAGCGTAATCGAACCCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
30765 GCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCA-AGGGTCTTTGGTTG
193 GCTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCAGA-GGTCTTTGGTTG
30821 GCAGA
1 GCAGA
30826 CACTCCTTCT
Statistics
Matches: 227, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
249 40 0.18
250 115 0.51
251 72 0.32
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (249 bp):
GCAGATAACCCTTCTTGACTTAAGCTATACTGCAAATGATGTGCCTCGAAGCTGAGCGTAATCGA
ACTAAGAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATGTGCCC
TAGAGCTGAGCGTAATCGAACCCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
GCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCAGAGGTCTTTGGTTG
Found at i:31441 original size:106 final size:106
Alignment explanation
Indices: 31016--32016 Score: 1648
Period size: 106 Copynumber: 9.5 Consensus size: 106
31006 TATTGTTCCA
* ** * * *
31016 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTG-GAAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAATTGTTTGTTGACAA
*
31080 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
31122 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAA-TGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31186 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
31227 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAA-TATTTGCTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
31291 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
31332 AGTCCAATATCCTTCCTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31397 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
31438 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
* *
31503 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
31544 AGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31609 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
31650 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31715 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
31756 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31821 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
31862 AGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
31927 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
31968 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
32017 GTTGAAATTT
Statistics
Matches: 846, Mismatches: 47, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
105 204 0.24
106 641 0.76
107 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:35921 original size:4 final size:4
Alignment explanation
Indices: 35898--35933 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
35888 TATATCTAGG
* *
35898 TAAA TGAA TAAA TAAT TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
35934 GGGACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:37107 original size:26 final size:25
Alignment explanation
Indices: 37062--37116 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
37052 ACAAACACCC
37062 AAAAAAAAAACGATAAAATAAATAA
1 AAAAAAAAAACGATAAAATAAATAA
37087 TAAAAACAAAAAC-A-AATAATAAATAA
1 -AAAAA-AAAAACGATAA-AATAAATAA
37113 AAAA
1 AAAA
37117 GAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 6 0.22
26 15 0.56
27 6 0.22
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (25 bp):
AAAAAAAAAACGATAAAATAAATAA
Found at i:37229 original size:34 final size:33
Alignment explanation
Indices: 37191--37277 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 33
37181 TTCAAAATCA
37191 TATATTATATAAATTTAAAAAAACGTTTTAAAAC
1 TATATTATAT-AATTTAAAAAAACGTTTTAAAAC
* **
37225 TATATGT-TATAGTTTTCAAAAACGTTTTAAAAC
1 TATAT-TATATAATTTAAAAAAACGTTTTAAAAC
* *
37258 TATATTATATGATTCAAAAA
1 TATATTATATAATTTAAAAA
37278 TGTTTTTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
32 1 0.02
33 33 0.77
34 8 0.19
35 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (33 bp):
TATATTATATAATTTAAAAAAACGTTTTAAAAC
Found at i:37366 original size:37 final size:36
Alignment explanation
Indices: 37138--37425 Score: 115
Period size: 37 Copynumber: 8.1 Consensus size: 36
37128 TATATGATAA
37138 AAAATG-TTTTAAAACTTTATATAATATAT-A--TTTC
1 AAAATGATTTTAAAAC--TATATAATATATAAGTTTTC
* * **
37172 AAAGAT-ATTTTCAAAA-TCATATATTATATAAATTTAAA
1 AAA-ATGATTTT-AAAACT-ATATAATATATAAGTTT-TC
* *
37210 AAAACG-TTTTAAAACTATAT-GT-TAT-AGTTTTC
1 AAAATGATTTTAAAACTATATAATATATAAGTTTTC
* *
37242 AAAAACG-TTTTAAAACTATAT--TATAT--G-ATTC
1 -AAAATGATTTTAAAACTATATAATATATAAGTTTTC
* ** *
37273 AAAAATGTTTTTTTTAACTATATATTATATATAAATTTT-
1 -AAAATG-ATTTTAAAACTATATA--ATATATAAGTTTTC
* * **
37312 AAAATTATTTTACAACTATATCTTATATAAGTTTTC
1 AAAATGATTTTAAAACTATATAATATATAAGTTTTC
* * *
37348 AAAATGGTTTTAAAAACTATATAATATATATGGTTTC
1 AAAATGATTTT-AAAACTATATAATATATAAGTTTTC
** ** * *
37385 AAAAAAAATTCAAAAATTATATAATATATATGTTTTC
1 -AAAATGATTTTAAAACTATATAATATATAAGTTTTC
37422 AAAA
1 AAAA
37426 AGCATATATT
Statistics
Matches: 195, Mismatches: 35, Indels: 46
0.71 0.13 0.17
Matches are distributed among these distances:
31 9 0.05
32 2 0.01
33 40 0.21
34 16 0.08
35 19 0.10
36 25 0.13
37 68 0.35
38 14 0.07
40 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (36 bp):
AAAATGATTTTAAAACTATATAATATATAAGTTTTC
Found at i:37444 original size:24 final size:25
Alignment explanation
Indices: 37393--37449 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
37383 TCAAAAAAAA
**
37393 TTCAAAAATTATATAATATATATGTT
1 TTCAAAAAGCATATAATATATA-GTT
*
37419 TTCAAAAAGCATATATTATATA-TT
1 TTCAAAAAGCATATAATATATAGTT
37443 TTCAAAA
1 TTCAAAA
37450 TGTTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.32
26 19 0.68
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (25 bp):
TTCAAAAAGCATATAATATATAGTT
Found at i:39482 original size:17 final size:17
Alignment explanation
Indices: 39460--39498 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
39450 TAGCATGGCT
39460 GGTTCGCTAACGGATCC
1 GGTTCGCTAACGGATCC
*
39477 GGTTCGCTAACTGATCC
1 GGTTCGCTAACGGATCC
39494 GGTTC
1 GGTTC
39499 TGAAAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (17 bp):
GGTTCGCTAACGGATCC
Found at i:40472 original size:5 final size:5
Alignment explanation
Indices: 40462--40507 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
40452 TTTCGCAAAG
*
40462 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ACAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
40508 AGGAAAAGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:40929 original size:89 final size:87
Alignment explanation
Indices: 40820--41045 Score: 251
Period size: 89 Copynumber: 2.5 Consensus size: 87
40810 AAAACTTAAG
* *
40820 GGACTAAAATAGAAAAAAAAATAGAAATTGAAAGGACTAAAATAACAAAAACTAAAACTTAAGGG
1 GGACTAAAATAG---AAAAAATAGAAATT-AAGGGACTAAAAT-ACAAAAACAAAAACTTAAGGG
* * * *
40885 ATTCAAATAGCATAAATA-GAA-ATTTAAA
61 ACTAAAATA--ATAAA-ACAAACATATAAA
* * *
40913 GGACT-AAATAGTAAAAATAGACATTTAAGGGACTAAAATCACATAAACAAAAACTTAAGGGACT
1 GGACTAAAATAGAAAAAATAGA-AATTAAGGGACTAAAAT-ACAAAAACAAAAACTTAAGGGACT
40977 AAAATAATAAAACAAACATATAAA
64 AAAATAATAAAACAAACATATAAA
41001 GGACTAAAATAGAAAAAATAGAAACTTAAGGGACTAAAATACAAA
1 GGACTAAAATAGAAAAAATAGAAA-TTAAGGGACTAAAATACAAA
41046 TAAGATAAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
86 1 0.01
87 7 0.06
88 16 0.14
89 77 0.67
90 3 0.03
92 6 0.05
93 5 0.04
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.19
Consensus pattern (87 bp):
GGACTAAAATAGAAAAAATAGAAATTAAGGGACTAAAATACAAAAACAAAAACTTAAGGGACTAA
AATAATAAAACAAACATATAAA
Found at i:40958 original size:59 final size:59
Alignment explanation
Indices: 40791--41041 Score: 203
Period size: 59 Copynumber: 4.2 Consensus size: 59
40781 ATTCTATTTA
* * *
40791 AAAGGACCAAAATAGA-AAAAA-AAC--TTAAGGGACTAAAATAGAAAAAAAAATAGAAA-TT
1 AAAGGACTAAAATA-ATAAAAATAACATTTAAGGGACTAAAATAG---CATAAATAGAAACTT
* * * * * *
40849 GAAAGGACTAAAATAACAAAAACTAAAACTTAAGGGATTCAAATAGCATAAATAGAAATTT
1 -AAAGGACTAAAATAATAAAAA-TAACATTTAAGGGACTAAAATAGCATAAATAGAAACTT
* * *
40910 AAAGGACT-AAATAGTAAAAATAGACATTTAAGGGACTAAAATCA-CATAAACAAAAACTT
1 AAAGGACTAAAATAATAAAAATA-ACATTTAAGGGACTAAAAT-AGCATAAATAGAAACTT
* * * * *
40969 AAGGGACTAAAATAATAAAACA-AACATATAAAGGACTAAAATAGAAAAAATAGAAACTT
1 AAAGGACTAAAATAATAAAA-ATAACATTTAAGGGACTAAAATAGCATAAATAGAAACTT
*
41028 AAGGGACTAAAATA
1 AAAGGACTAAAATA
41042 CAAATAAGAT
Statistics
Matches: 158, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
58 4 0.03
59 104 0.66
60 30 0.19
61 5 0.03
63 15 0.09
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.18
Consensus pattern (59 bp):
AAAGGACTAAAATAATAAAAATAACATTTAAGGGACTAAAATAGCATAAATAGAAACTT
Found at i:40973 original size:30 final size:27
Alignment explanation
Indices: 40806--41041 Score: 132
Period size: 30 Copynumber: 7.9 Consensus size: 27
40796 ACCAAAATAG
*
40806 AAAAAAAACTTAAGGGACTAAAATAGAAAA
1 AAAAAAAACTTAAGGGACTAAAAT---AAT
* * *
40836 AAAAATAGAAATTGAAAGGACTAAAATAACA
1 AAAAA-A-AACTT-AAGGGACTAAAATAA-T
* *
40867 AAAACTAAAACTTAAGGGATTCAAATAGCAT
1 AAAA--AAAACTTAAGGGACTAAAATA--AT
* * * *
40898 AAATAGAAATTTAAAGGACT-AAATAGT
1 AAA-AAAAACTTAAGGGACTAAAATAAT
*
40925 AAAAATAGACATTTAAGGGACTAAAATCACAT
1 AAAAA-A-A-ACTTAAGGGACTAAAAT-A-AT
40957 AAACAAAAACTTAAGGGACTAAAATAAT
1 AAA-AAAAACTTAAGGGACTAAAATAAT
* * *
40985 AAAACAAACATATAAAGGACTAAAATAGAA
1 AAAAAAAAC-T-TAAGGGACTAAAATA-AT
41015 AAAATAGAAACTTAAGGGACTAAAATA
1 AAAA-A-AAACTTAAGGGACTAAAATA
41042 CAAATAAGAT
Statistics
Matches: 164, Mismatches: 21, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
26 1 0.01
27 10 0.06
28 7 0.04
29 31 0.19
30 68 0.41
31 16 0.10
32 16 0.10
33 15 0.09
ACGTcount: A:0.60, C:0.09, G:0.13, T:0.19
Consensus pattern (27 bp):
AAAAAAAACTTAAGGGACTAAAATAAT
Found at i:41924 original size:42 final size:42
Alignment explanation
Indices: 41844--41924 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
41834 AATCCCTCCT
* * **
41844 TCTCTCTATTTTCTTTTTGGTTTTTTGTTGTTTCTATTTGGA
1 TCTCTCTATTTTCTTTTTCGATTTGGGTTGTTTCTATTTGGA
41886 TCTCTCTATTTTCTTTTTTTCGATTTGGGTT-TTT-TATTT
1 TCTCTCTATTTTC--TTTTTCGATTTGGGTTGTTTCTATTT
41925 TTTTTCTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
42 18 0.55
43 3 0.09
44 12 0.36
ACGTcount: A:0.07, C:0.12, G:0.12, T:0.68
Consensus pattern (42 bp):
TCTCTCTATTTTCTTTTTCGATTTGGGTTGTTTCTATTTGGA
Found at i:42622 original size:3 final size:3
Alignment explanation
Indices: 42608--42667 Score: 93
Period size: 3 Copynumber: 19.3 Consensus size: 3
42598 TTGCAAAATG
*
42608 TAA TATA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42654 TAA TAA TAAA TAA T
1 TAA TAA T-AA TAA T
42668 GTTTTTTGTA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:44399 original size:3 final size:3
Alignment explanation
Indices: 44393--44457 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
44383 TTTGGTTTTT
*
44393 TTA TTA TTA TTA -TA TTTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44438 TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
44458 CAGATACAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:48311 original size:12 final size:12
Alignment explanation
Indices: 48294--48345 Score: 77
Period size: 12 Copynumber: 4.2 Consensus size: 12
48284 ACCTTCATAT
48294 ATTTACATTTGC
1 ATTTACATTTGC
48306 ATTTACATTTGC
1 ATTTACATTTGC
*
48318 ATTTTTACATTTGT
1 A--TTTACATTTGC
48332 ATTTACATTTGC
1 ATTTACATTTGC
48344 AT
1 AT
48346 ATTTCCATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
12 25 0.69
14 11 0.31
ACGTcount: A:0.25, C:0.13, G:0.08, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:48324 original size:26 final size:26
Alignment explanation
Indices: 48295--48345 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48285 CCTTCATATA
48295 TTTACATTTGCATTTACATTTGCATT
1 TTTACATTTGCATTTACATTTGCATT
*
48321 TTTACATTTGTATTTACATTTGCAT
1 TTTACATTTGCATTTACATTTGCAT
48346 ATTTCCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.14, G:0.08, T:0.55
Consensus pattern (26 bp):
TTTACATTTGCATTTACATTTGCATT
Found at i:51144 original size:15 final size:16
Alignment explanation
Indices: 51124--51155 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
51114 TCTTATACTC
51124 ATCCAGCAAA-AAAAA
1 ATCCAGCAAAGAAAAA
51139 ATCCAGCAAAGAAAAA
1 ATCCAGCAAAGAAAAA
51155 A
1 A
51156 AGAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.66, C:0.19, G:0.09, T:0.06
Consensus pattern (16 bp):
ATCCAGCAAAGAAAAA
Found at i:51168 original size:13 final size:13
Alignment explanation
Indices: 51150--51183 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
51140 TCCAGCAAAG
*
51150 AAAAAAAGAAACA
1 AAAAAAAAAAACA
*
51163 AAAAAAAAAAAGA
1 AAAAAAAAAAACA
51176 AAAAAAAA
1 AAAAAAAA
51184 GGAAAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:51170 original size:17 final size:16
Alignment explanation
Indices: 51150--51196 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
51140 TCCAGCAAAG
51150 AAAAAAAGAAACAAAAA
1 AAAAAAAGAAA-AAAAA
51167 AAAAAAAGAAAAAAAA
1 AAAAAAAGAAAAAAAA
*
51183 AGGAAAAAGAAAAA
1 A-AAAAAAGAAAAA
51197 GGGGAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAAA
Found at i:51189 original size:6 final size:6
Alignment explanation
Indices: 51152--51197 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
51142 CAGCAAAGAA
*
51152 AAAAAG AAACAA- AAAAA- AAAAAG AAAAA- AAAAGG AAAAAG AAAAAG
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
51198 GGGAGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 11 0.31
6 22 0.63
7 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:51198 original size:13 final size:11
Alignment explanation
Indices: 51164--51197 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
51154 AAAGAAACAA
51164 AAAAAAAAAAG
1 AAAAAAAAAAG
*
51175 AAAAAAAAAGG
1 AAAAAAAAAAG
51186 AAAAAGAAAAAG
1 AAAAA-AAAAAG
51198 GGGAGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:53467 original size:114 final size:114
Alignment explanation
Indices: 53267--53718 Score: 841
Period size: 114 Copynumber: 4.0 Consensus size: 114
53257 GTGCCACGTT
* *
53267 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
53332 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
* *
53381 CTCATAGTAGAAATAAGGAAACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATTTG
1 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
53446 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
53495 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
*
53560 ATTTAGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
53609 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
* *
53674 ATTTGGTATGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
66 ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
53719 CTATATGATC
Statistics
Matches: 330, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 330 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGGAAACCCAATAACATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTG
ATTTGGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTG
Found at i:57033 original size:112 final size:112
Alignment explanation
Indices: 56704--57114 Score: 520
Period size: 113 Copynumber: 3.7 Consensus size: 112
56694 ATCCATCATA
*
56704 ATGGATCAACATTTT-CAGAGAAAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATC-A-ATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* ** * *
56768 TTTATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTG
64 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* *
56817 ATGGATTAACTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAA-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
56882 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTG
65 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
*
56930 ATGGATCAATATTGT-CAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAG-A
1 ATGGATCAAT-TT-TCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
*
56991 -AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCG
60 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
* *
57042 GTGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGT
1 ATGGATCA-ATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
57103 TCATAATGAGAA
65 TCATAATGAGAA
57115 AAACTCATCT
Statistics
Matches: 263, Mismatches: 21, Indels: 32
0.83 0.07 0.10
Matches are distributed among these distances:
106 7 0.03
107 1 0.00
108 2 0.01
109 19 0.07
110 1 0.00
111 2 0.01
112 83 0.32
113 129 0.49
114 2 0.01
115 5 0.02
116 12 0.05
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (112 bp):
ATGGATCAATTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
Found at i:57103 original size:36 final size:38
Alignment explanation
Indices: 57063--57159 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 38
57053 TTTCCAGAGA
57063 AAGTTCATAATGAGAAGAACTCATCT-G-AAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTAGAAAGAAGAAG
*
57099 AAGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAG
57139 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
57160 TATTCAACCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 25 0.45
39 1 0.02
40 29 0.53
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (38 bp):
AAGTTCATAATGAGAAGAACTCATCTAGAAAGAAGAAG
Found at i:57156 original size:149 final size:147
Alignment explanation
Indices: 56952--57272 Score: 448
Period size: 149 Copynumber: 2.1 Consensus size: 147
56942 TGTCAGGTAG
* * *
56952 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAA-AA-AC-TCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTATTCA
* *
57017 ACCTTTTGCTTAAATTCATCACTCGGTGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
63 ACCTTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAA
57082 CTCATCT-G-AAGAAGAAGA
128 CTCATCTAGAAAGAAGAAGA
57100 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAAAACTCATCTGAAG-AAGAAG-A-AA-TTCATAATGAGAAGAACTTATTC
**** *
57165 AACCTTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGTTCGAGTTCATAATGAGAAGC
62 AACCTTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGA
57230 ACTCATCTGAAGAAAGAAGAAGA
127 ACTCATCT--AGAAAGAAGAAGA
*
57253 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAAAACT
57273 TGTTCAACTT
Statistics
Matches: 154, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
145 10 0.06
146 7 0.05
147 3 0.02
148 17 0.11
149 87 0.56
152 1 0.01
153 29 0.19
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (147 bp):
AGTTCATAATGAGAAAAACTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAACTTATTCAACC
TTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTC
ATCTAGAAAGAAGAAGA
Found at i:57298 original size:113 final size:111
Alignment explanation
Indices: 57100--57723 Score: 803
Period size: 112 Copynumber: 5.6 Consensus size: 111
57090 AAGAAGAAGA
* * *
57100 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * *
57165 AACCTTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGTTCG
65 AACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCAG-TAG
* *
57213 AGTTCATAATGAGAAGCACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
57278 AACTTTTTGTTTGAATTCATCATTCGATGGATCGACATTTCCAGTTCG
65 AACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCAG-TAG
** *
57326 AGTTCATAATGAGAAGAACTCATCAT-CTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * *
57390 AACCTTTTGCTTAAATTCATCGTTTGATGGATCAATATTGCCAGGTAG
65 AACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCA-GTAG
57438 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG-A-AA-TTCATAATGAGAAGAATTTGT
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGT
* * *
57500 TCAACTTTTTGTTTGAATTAATCATTCGATGGATCAACTTTTCCAG-AA
63 TCAACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCAGTAG
* * *
57548 AGTTCATAATGAGAAGAACT-TTCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
** * *
57612 ACTTTTTGTTTGAATTCATCATTAAATGGATCAACTTTTCCAG-AA
66 ACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCAGTAG
* *
57657 AGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
57722 AC
66 AC
57724 CTTGCCATAA
Statistics
Matches: 459, Mismatches: 42, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
106 12 0.03
107 2 0.00
108 3 0.01
109 86 0.19
110 63 0.14
111 1 0.00
112 145 0.32
113 131 0.29
114 4 0.01
115 12 0.03
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACTTTTTGTTTGAATTCATCATTCGATGGATCAACATTTCCAGTAG
Found at i:57423 original size:374 final size:376
Alignment explanation
Indices: 56725--57491 Score: 1168
Period size: 374 Copynumber: 2.0 Consensus size: 376
56715 TTTTCAGAGA
* * * * *
56725 AAGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTTATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
* * * *
56790 CAACCTTTTGCTCAAATCCATCACTTGATGGATTAACTTTTCCAGAGGAAGTTCATAATGAGAAG
66 CAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCAGACGAAGTTCATAATGAGAAG
* *
56855 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAAT
131 AACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAAT
* * *
56920 TCATCATTTGATGGATCAATATTGTCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
196 TCATCATTCGATGGATCAACATTGTCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGA
*
56985 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCGGTGGATCA
261 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCGATGGATCA
* *
57050 GCT-TTTCCAGAG-AAAGTTCATAATGAGAAGAA-C-TCATCTGAAGAAGAAG
326 -ATATTGCCAG-GTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAG
57099 AAGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
1 AAGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
* * * *
57164 CAACCTTTTGCTTAAATTCATCACTCGGTGGATCAACATTTCCAGTTCG-AGTTCATAATGAGAA
66 CAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCAG-ACGAAGTTCATAATGAGAA
* *
57228 GCACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAA
130 GAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAA
* * *
57293 TTCATCATTCGATGGATCGACATT-TCCAGTTCGAGTTCATAATGAGAAGAACTCATCATCTGAA
195 TTCATCATTCGATGGATCAACATTGT-CAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAA
** *
57357 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCGTTTGATGGAT
259 GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCGATGGAT
*
57422 CAATATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAG
324 CAATATTGCCAGGTAAAGTTCATAATGAGAAGAAC-CGTCATCTGAAGAAGAAG
*
57476 AAATTCATAATGAGAA
1 AAGTTCATAATGAGAA
57492 GAATTTGTTC
Statistics
Matches: 355, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
373 3 0.01
374 319 0.90
375 1 0.00
376 1 0.00
377 31 0.09
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (376 bp):
AAGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
CAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTTCCAGACGAAGTTCATAATGAGAAG
AACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAAT
TCATCATTCGATGGATCAACATTGTCAGGTAGAGTTCATAATGAGAAGAACTCATCATCTGAAGA
AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTCGATGGATCA
ATATTGCCAGGTAAAGTTCATAATGAGAAGAACCGTCATCTGAAGAAGAAG
Found at i:58075 original size:3 final size:3
Alignment explanation
Indices: 58069--58145 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
58059 ATTTGGTTTT
*
58069 TTA TTA TTA TTA -TA TTTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
58114 TTA TTA GTA TTA ATA ATA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58146 CAGATACAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 59 0.91
4 2 0.03
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:62133 original size:42 final size:42
Alignment explanation
Indices: 62013--62235 Score: 295
Period size: 43 Copynumber: 5.2 Consensus size: 42
62003 TGAGAACTAA
* * *
62013 AAACGCCGCAATAGGTCAAGAACTATAGCGGCATTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
62056 AAATGTCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* *
62099 AAACACCGCAAAAGGTCAGATCTATAGCGGCGTTTTAGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
**
62142 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTGTTCCAA-
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTT-TTGGAAC
* *
62184 AAACGCCGCAAAAGGTCAAATCTATAACGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-AC
62227 AAACGCCGC
1 AAACGCCGC
62236 TAATTACCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
41 3 0.02
42 56 0.35
43 97 0.61
44 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:62176 original size:85 final size:86
Alignment explanation
Indices: 62011--62235 Score: 312
Period size: 85 Copynumber: 2.6 Consensus size: 86
62001 CTTGAGAACT
* * * * *
62011 AAAAACGCCGCAATAGGTCAAGAACTATAGCGGCATTTTTGGA-ACAAATGTCGCAAAAGGTCGA
1 AAAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCGA
**
62075 GATCTATAGCGGCGTTT-TTGG
65 GATCTATAGCGGCGTTTGTTCC
* *
62096 AACAAACACCGCAAAAGGTCAGATCTATAGCGGCGTTTTAGGATACAAACGCCGCAAAAGGTC-A
1 AA-AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCGA
62160 GATCTATAGCGGCGTTTGTTCC
65 GATCTATAGCGGCGTTTGTTCC
* *
62182 AAAAACGCCGCAAAAGGTCAAATCTATAACGGCGTTTTTGGATACAAACGCCGC
1 AAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGC
62236 TAATTACCTT
Statistics
Matches: 124, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
85 88 0.71
86 36 0.29
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (86 bp):
AAAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTCGAG
ATCTATAGCGGCGTTTGTTCC
Found at i:64794 original size:43 final size:43
Alignment explanation
Indices: 64680--64874 Score: 209
Period size: 43 Copynumber: 4.6 Consensus size: 43
64670 TATCCAAAAC
* * * * *
64680 TTGCGGCGTTTGTATTTAAAAACGCCACTACTTCACTTACTTA
1 TTGCGACGTTTGTATTTAAAAACGCCACTAATGCACTGATTTA
* *
64723 TTGCGGCGTTTG--TTTAAAAATGCCACTAATGCACTGATTTA
1 TTGCGACGTTTGTATTTAAAAACGCCACTAATGCACTGATTTA
* * *
64764 TTGCGACGTTTGTATCTAAAAATGCCACTAATACACTGATTTA
1 TTGCGACGTTTGTATTTAAAAACGCCACTAATGCACTGATTTA
* * *
64807 TTGC-AGCGTTTGTATTTAGAAACGTCGCTAATGCACTGATTTA
1 TTGCGA-CGTTTGTATTTAAAAACGCCACTAATGCACTGATTTA
** *
64850 TTATGGCGTTTGT-TTTAAAAACGCC
1 TTGCGACGTTTGTATTTAAAAACGCC
64875 GTAAAAGATT
Statistics
Matches: 129, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
41 35 0.27
42 11 0.09
43 83 0.64
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (43 bp):
TTGCGACGTTTGTATTTAAAAACGCCACTAATGCACTGATTTA
Found at i:70762 original size:6 final size:6
Alignment explanation
Indices: 70751--70775 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
70741 GAAAATTGCA
70751 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
70776 TTCGATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:73402 original size:13 final size:13
Alignment explanation
Indices: 73384--73459 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 13
73374 CAATCAGAAC
73384 AAAAAAAAAGAG-
1 AAAAAAAAAGAGA
73396 AAAAAAAAAG-GA
1 AAAAAAAAAGAGA
**
73408 AAAAGCAAAGAGA
1 AAAAAAAAAGAGA
*
73421 AAATAAAAAGAGA
1 AAAAAAAAAGAGA
73434 AACTAAAACAAAG-GA
1 AA--AAAA-AAAGAGA
*
73449 AAAAAAGAAGA
1 AAAAAAAAAGA
73460 CAAGACACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
11 1 0.02
12 21 0.41
13 18 0.35
15 7 0.14
16 4 0.08
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAGAGA
Found at i:73441 original size:12 final size:13
Alignment explanation
Indices: 73384--73441 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
73374 CAATCAGAAC
73384 AAAA-AAAAAGAG
1 AAAATAAAAAGAG
73396 AAAA-AAAAAG-G
1 AAAATAAAAAGAG
*
73407 AAAA-AGCAAAGAG
1 AAAATA-AAAAGAG
73420 AAAATAAAAAGAG
1 AAAATAAAAAGAG
*
73433 AAACTAAAA
1 AAAATAAAA
73442 CAAAGGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 6 0.15
12 14 0.35
13 19 0.47
14 1 0.03
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (13 bp):
AAAATAAAAAGAG
Found at i:73453 original size:12 final size:12
Alignment explanation
Indices: 73384--73435 Score: 70
Period size: 12 Copynumber: 4.2 Consensus size: 12
73374 CAATCAGAAC
73384 AAAAAAAAAGAG
1 AAAAAAAAAGAG
73396 AAAAAAAAAG-G
1 AAAAAAAAAGAG
*
73407 AAAAAGCAAAGAG
1 AAAAA-AAAAGAG
73420 AAAATAAAAAGAG
1 AAAA-AAAAAGAG
73433 AAA
1 AAA
73436 CTAAAACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 6 0.17
12 14 0.40
13 14 0.40
14 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:75132 original size:37 final size:36
Alignment explanation
Indices: 75091--75169 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
75081 GTCATCTCAT
*
75091 TTGAGATTAATTT-ACTCAAAACAAAATTTTGTCTCTC
1 TTGAGA-TAATTTCACTCAAAAC-AAATTTTGTCTCCC
* * **
75128 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 TTGAGATAATTTCACTCAAAACAAATTTTGTCTCCC
75164 TTGAGA
1 TTGAGA
75170 AAGTTTCTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 24 0.67
37 12 0.33
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (36 bp):
TTGAGATAATTTCACTCAAAACAAATTTTGTCTCCC
Found at i:75161 original size:36 final size:36
Alignment explanation
Indices: 75109--75188 Score: 124
Period size: 36 Copynumber: 2.2 Consensus size: 36
75099 AATTTACTCA
* *
75109 AAACAAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAAC-AAATTTTGTCTCCCTTGAGAAAGTTTCCCTTG
*
75146 AAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTG
1 AAACAAATTTTGTCTCCCTTGAGAAAGTTTCCCTTG
75182 AAACAAA
1 AAACAAA
75189 AAATCTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (36 bp):
AAACAAATTTTGTCTCCCTTGAGAAAGTTTCCCTTG
Found at i:75305 original size:68 final size:67
Alignment explanation
Indices: 75128--75298 Score: 211
Period size: 68 Copynumber: 2.5 Consensus size: 67
75118 TTTGTCTCTC
*
75128 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAAACAAAAAAT
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCATGAAACAAAAAAT
75193 CT
66 CT
* * **
75195 TTGA-ATTTA-TTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAACA
1 TTGAGA--TAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGAAAGTTTCTCATGAAACAA-A
75258 AATATCT
62 AA-ATCT
* * *
75265 TTGAGATCGTTTCCCTTGAAACGAATTCTGTCTC
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTC
75299 TTTGAGATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
66 1 0.01
67 16 0.18
68 36 0.41
69 13 0.15
70 20 0.23
71 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (67 bp):
TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCATGAAACAAAAAAT
CT
Found at i:75314 original size:68 final size:66
Alignment explanation
Indices: 75128--75319 Score: 201
Period size: 68 Copynumber: 2.8 Consensus size: 66
75118 TTTGTCTCTC
75128 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAAACAAAAAAT
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAA-TTTCTCTTGAAACAAAAAAT
75193 CT
65 CT
* * ** *
75195 TTGA-ATTTA-TTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAACA
1 TTGAGA--TAGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGA-AATTTCTCTTGAAACAA-A
75258 AATATCT
61 AA-ATCT
* * * * *
75265 TTGAGATCGTTTCCCTTGAAACGAATTCTGTCT-CTTTGAGATAACTTCTCTTGAA
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGA-AATTTCTCTTGAA
75320 GCATCATCTG
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
66 1 0.01
67 16 0.16
68 51 0.50
69 12 0.12
70 20 0.20
71 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (66 bp):
TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAATTTCTCTTGAAACAAAAAATC
T
Found at i:82413 original size:39 final size:39
Alignment explanation
Indices: 82370--82467 Score: 196
Period size: 39 Copynumber: 2.5 Consensus size: 39
82360 AGGTTGAACA
82370 AGTTCTTCTCATTATGAACTTCTTCACCCTCGTCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCACCCTCGTCGGATG
82409 AGTTCTTCTCATTATGAACTTCTTCACCCTCGTCGGATG
1 AGTTCTTCTCATTATGAACTTCTTCACCCTCGTCGGATG
82448 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
82468 CTCTACTGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCACCCTCGTCGGATG
Found at i:82884 original size:139 final size:139
Alignment explanation
Indices: 82634--83004 Score: 602
Period size: 139 Copynumber: 2.7 Consensus size: 139
82624 GATGGAAAGA
* * *
82634 AGCTAAGGTTGAGCAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGATGAGTTCTTCTCA
1 AGCTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCA
* * *
82699 TTATGAACTCTCCACTGGAAAGGTTGATCCCTCGAGTGAGGTGTTGCTGATTCAACTCCATATGT
66 TTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGT
82764 GAAGAATCG
131 GAAGAATCG
* * *
82773 AGCTAAGGTTGAACAAATTCTTTTCATTATGAACTTATTCTCCTTTATCGGATGCA-TTCTTCTC
1 AGCTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTTATCGGATG-AGTTCTTCTC
*
82837 ATTATGAACTCTCTATTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATG
65 ATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATG
*
82902 TGATGAATCG
130 TGAAGAATCG
*
82912 AGCTAAGGTTGAACAAGTT-TTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
1 AGCTAAGGTTGAACAAGTTCTTT-TCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTC
82976 ATTATGAACTCTCCATTGGAAATGTTGAT
65 ATTATGAACTCTCCATTGGAAATGTTGAT
83005 TGGTTTTCCC
Statistics
Matches: 213, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
138 4 0.02
139 208 0.98
140 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (139 bp):
AGCTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTCCCTTATCGGATGAGTTCTTCTCA
TTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGT
GAAGAATCG
Found at i:97405 original size:17 final size:17
Alignment explanation
Indices: 97383--97424 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
97373 AGGCTCTTAA
*
97383 AGTTTGACTGAATAGTC
1 AGTTTGACTAAATAGTC
97400 AGTTTGACTAAATAGTC
1 AGTTTGACTAAATAGTC
*
97417 AATTTGAC
1 AGTTTGAC
97425 CCATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTTTGACTAAATAGTC
Found at i:98428 original size:8 final size:8
Alignment explanation
Indices: 98415--98449 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
98405 TTATTGTTAG
98415 AAAACAAC
1 AAAACAAC
98423 AAAACAAC
1 AAAACAAC
*
98431 GAAACAAC
1 AAAACAAC
98439 AACAACAAC
1 AA-AACAAC
98448 AA
1 AA
98450 GATCGCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.71, C:0.26, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAACAAC
Found at i:98839 original size:18 final size:18
Alignment explanation
Indices: 98816--98852 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
98806 TTTGAGACAA
98816 ACTCAAATTCAATGAAAC
1 ACTCAAATTCAATGAAAC
*
98834 ACTCAAATTCGATGAAAC
1 ACTCAAATTCAATGAAAC
98852 A
1 A
98853 ATTCTTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
ACTCAAATTCAATGAAAC
Found at i:102836 original size:17 final size:17
Alignment explanation
Indices: 102814--102855 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
102804 AGGCTCTTAA
*
102814 AGTTTGACTGAATAGTC
1 AGTTTGACTAAATAGTC
102831 AGTTTGACTAAATAGTC
1 AGTTTGACTAAATAGTC
*
102848 AATTTGAC
1 AGTTTGAC
102856 CCATATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTTTGACTAAATAGTC
Found at i:103859 original size:8 final size:8
Alignment explanation
Indices: 103846--103882 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
103836 TTATTGTTAG
103846 AAAACAAC
1 AAAACAAC
103854 AAAACAAC
1 AAAACAAC
*
103862 GAAACAAC
1 AAAACAAC
103870 AACAACAAC
1 AA-AACAAC
103879 AAAA
1 AAAA
103883 TCGCAAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.73, C:0.24, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAACAAC
Found at i:104269 original size:18 final size:18
Alignment explanation
Indices: 104246--104282 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
104236 TTTGAGACAA
104246 ACTCAAATTCAATGAAAC
1 ACTCAAATTCAATGAAAC
*
104264 ACTCAAATTCGATGAAAC
1 ACTCAAATTCAATGAAAC
104282 A
1 A
104283 ATTCTTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
ACTCAAATTCAATGAAAC
Found at i:108263 original size:17 final size:17
Alignment explanation
Indices: 108241--108282 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
108231 AGGCTCTTAA
*
108241 AGTTTGACTGAATAGTC
1 AGTTTGACTAAATAGTC
108258 AGTTTGACTAAATAGTC
1 AGTTTGACTAAATAGTC
*
108275 AATTTGAC
1 AGTTTGAC
108283 CCATATTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTTTGACTAAATAGTC
Found at i:109697 original size:18 final size:18
Alignment explanation
Indices: 109674--109710 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
109664 TTTGAGACAA
109674 ACTCAAATTCAATGAAAC
1 ACTCAAATTCAATGAAAC
*
109692 ACTCAAATTCGATGAAAC
1 ACTCAAATTCAATGAAAC
109710 A
1 A
109711 ATTCTTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.08, T:0.22
Consensus pattern (18 bp):
ACTCAAATTCAATGAAAC
Found at i:118413 original size:27 final size:27
Alignment explanation
Indices: 118375--118434 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
118365 TTCCAAGGAA
*
118375 AAAGTTGCTTCACCACCTGTAGCGGAT
1 AAAGTTGCTTCACCACCTGTAGCGAAT
118402 AAAGTTGCTTCACCACCTGTAGCGAAT
1 AAAGTTGCTTCACCACCTGTAGCGAAT
118429 AAAGTT
1 AAAGTT
118435 AGACCTCCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (27 bp):
AAAGTTGCTTCACCACCTGTAGCGAAT
Found at i:122794 original size:17 final size:17
Alignment explanation
Indices: 122757--122797 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
122747 TACTATAATT
* * *
122757 TGTTCTACTATCTTTTC
1 TGTTCTACTATATGTTA
122774 TGTTCTACTATATGTTA
1 TGTTCTACTATATGTTA
122791 TGTTCTA
1 TGTTCTA
122798 TTCTAGTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (17 bp):
TGTTCTACTATATGTTA
Found at i:123389 original size:20 final size:21
Alignment explanation
Indices: 123341--123398 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
123331 ACTATCCCTG
* *
123341 GAGTATCGATACTCCTGCTAA
1 GAGTATCGATACTCTTGCAAA
*
123362 -AGTTTCGATACTCTTG-AAA
1 GAGTATCGATACTCTTGCAAA
123381 GAGTATCGATACTCTTGC
1 GAGTATCGATACTCTTGC
123399 CTAGAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
GAGTATCGATACTCTTGCAAA
Found at i:131434 original size:22 final size:21
Alignment explanation
Indices: 131392--131431 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
131382 GAGTTTGTTT
*
131392 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
131413 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
131432 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:142693 original size:18 final size:18
Alignment explanation
Indices: 142670--142704 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
142660 TGTTGTTGTT
142670 TTTCATTT-TTCATTTTAA
1 TTTCATTTGTT-ATTTTAA
142688 TTTCATTTGTTATTTTA
1 TTTCATTTGTTATTTTA
142705 TTTGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.20, C:0.09, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTCATTTGTTATTTTAA
Found at i:144913 original size:18 final size:19
Alignment explanation
Indices: 144890--144929 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
144880 TTGCCTATTC
144890 TTTAATTTATTT-GAT-AAT
1 TTTAATTT-TTTCGATGAAT
144908 TTTAATTTTTTCGATGAAT
1 TTTAATTTTTTCGATGAAT
144927 TTT
1 TTT
144930 GATCTTGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.15
18 11 0.55
19 6 0.30
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTAATTTTTTCGATGAAT
Found at i:146399 original size:21 final size:22
Alignment explanation
Indices: 146373--146414 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
146363 TTTTAAGTTC
*
146373 AAGTTT-AGGAATTATCTTTTT
1 AAGTTTAAAGAATTATCTTTTT
*
146394 AAGTTTAAATAATTATCTTTT
1 AAGTTTAAAGAATTATCTTTT
146415 ATATTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (22 bp):
AAGTTTAAAGAATTATCTTTTT
Found at i:148284 original size:21 final size:21
Alignment explanation
Indices: 148231--148295 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
148221 CTAGCTGTTG
* *
148231 CAGCCTTCATGCATGGATGCA
1 CAGCCTTGATGCATCGATGCA
* **
148252 CA-TCAGGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
148272 CAGCCTTGATGCATCGATGCA
1 CAGCCTTGATGCATCGATGCA
148293 CAG
1 CAG
148296 AAGGATACAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.22
Consensus pattern (21 bp):
CAGCCTTGATGCATCGATGCA
Found at i:148291 original size:41 final size:41
Alignment explanation
Indices: 148231--148310 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
148221 CTAGCTGTTG
* ** *
148231 CAGCCTTCATGCATGGATGCACATCAGGATGCATCGATGCA
1 CAGCCTTCATGCATCGATGCACAGAAGGATACATCGATGCA
*
148272 CAGCCTTGATGCATCGATGCACAGAAGGATACATCGATG
1 CAGCCTTCATGCATCGATGCACAGAAGGATACATCGATG
148311 TACTAATTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (41 bp):
CAGCCTTCATGCATCGATGCACAGAAGGATACATCGATGCA
Found at i:148308 original size:20 final size:20
Alignment explanation
Indices: 148239--148310 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
148229 TGCAGCCTTC
* *
148239 ATGCATGGATGCACATCAGG
1 ATGCATCGATGCACAGCAGG
**
148259 ATGCATCGATGCACAGCCTTG
1 ATGCATCGATGCACAG-CAGG
*
148280 ATGCATCGATGCACAGAAGG
1 ATGCATCGATGCACAGCAGG
*
148300 ATACATCGATG
1 ATGCATCGATG
148311 TACTAATTGC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 25 0.58
21 18 0.42
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACAGCAGG
Found at i:148381 original size:22 final size:23
Alignment explanation
Indices: 148348--148390 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
148338 ATGAATGCAC
148348 TGCATGGTGCATCG-ATGCACTAG
1 TGCATGGTGCAT-GTATGCACTAG
148371 TGCA-GGTGCATGTATGCACT
1 TGCATGGTGCATGTATGCACT
148391 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 1 0.05
22 14 0.74
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (23 bp):
TGCATGGTGCATGTATGCACTAG
Found at i:148403 original size:21 final size:20
Alignment explanation
Indices: 148334--148432 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 20
148324 TGGTCTTTGA
* *
148334 GTGCATGAATGCACTGCATG
1 GTGCATGGATGCACTGCAGG
*
148354 GTGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
*
148376 GTGCATGTATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
148396 GATGCATGGATGCACTGCAGGG
1 G-TGCATGGATGCACTGCA-GG
*
148418 GTGTATGGATGCACT
1 GTGCATGGATGCACT
148433 TTGACACCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.06
20 14 0.21
21 29 0.43
22 16 0.24
23 4 0.06
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Found at i:148533 original size:29 final size:29
Alignment explanation
Indices: 148512--148569 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
148502 AAACTTTGAA
148512 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
148541 TAAATTCAATTCAAGTCCAAAAATCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
148570 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:148559 original size:30 final size:30
Alignment explanation
Indices: 148512--148571 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
148502 AAACTTTGAA
148512 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAATCATTTTG
148541 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATT-AAGTCCAAAAATCATTTTG
148572 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAATCATTTTG
Found at i:149880 original size:19 final size:20
Alignment explanation
Indices: 149837--149884 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
149827 TCTAAATCCT
*
149837 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
149857 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
149876 TTTTCAAAA
1 TTTTCAAAA
149885 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:151123 original size:21 final size:21
Alignment explanation
Indices: 151097--151144 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
151087 CATAACATGG
151097 TGCATCAGTGCACTATCAAGC
1 TGCATCAGTGCACTATCAAGC
*
151118 TGCATCAGTGCACTATCAAGG
1 TGCATCAGTGCACTATCAAGC
151139 TGCATC
1 TGCATC
151145 GATACCCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (21 bp):
TGCATCAGTGCACTATCAAGC
Found at i:151220 original size:20 final size:20
Alignment explanation
Indices: 151191--151261 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
151181 GCAGCCTTCT
* *
151191 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
**
151211 TGCATCGATGCACAACCTTGA
1 TGCATCGATGCAC-ACCAGGA
**
151232 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACACCAGGA
151252 TGCATCGATG
1 TGCATCGATG
151262 TACTAATTGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:151355 original size:21 final size:21
Alignment explanation
Indices: 151286--151446 Score: 198
Period size: 21 Copynumber: 7.7 Consensus size: 21
151276 GGTGTTTGAG
* * *
151286 TGCATGAATGCACTGCATGG-
1 TGCATGGATGCACTACAGGGA
* ** *
151306 TGCATCGATGCACTAGTGCAGA
1 TGCATGGATGCACTACAG-GGA
*
151328 TGTATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
151349 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
* *
151370 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTACAGGGA
151391 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
* *
151412 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTACAGGGA
151433 TGCATGGATGCACT
1 TGCATGGATGCACT
151447 TTGACACCCT
Statistics
Matches: 120, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
20 12 0.10
21 94 0.78
22 14 0.12
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:151377 original size:42 final size:42
Alignment explanation
Indices: 151286--151446 Score: 225
Period size: 42 Copynumber: 3.8 Consensus size: 42
151276 GGTGTTTGAG
* * * ** *
151286 TGCATGAATGCACTGCA-TGGTGCATCGATGCACTAGTGCAGA
1 TGCATGGATGCACTGCAGGGGTGCATGGATGCACTACAG-GGA
* * *
151328 TGTATGGATGCACTACAGGGATGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTGCAGGGGTGCATGGATGCACTACAGGGA
151370 TGCATGGATGCACTGCAGGGGTGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTGCAGGGGTGCATGGATGCACTACAGGGA
151412 TGCATGGATGCACTGCAGGGGTGCATGGATGCACT
1 TGCATGGATGCACTGCAGGGGTGCATGGATGCACT
151447 TTGACACCCT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 90 0.85
43 16 0.15
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (42 bp):
TGCATGGATGCACTGCAGGGGTGCATGGATGCACTACAGGGA
Found at i:151547 original size:29 final size:29
Alignment explanation
Indices: 151526--151583 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
151516 AAACTTTGAA
151526 TAAATTCAATT-AA-TCCCAAAAACATTTTG
1 TAAATTCAATTCAAGT-CCAAAAACA-TTTG
151555 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
151584 TGCCTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 11 0.42
30 12 0.46
31 3 0.12
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:151577 original size:30 final size:30
Alignment explanation
Indices: 151526--151585 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
151516 AAACTTTGAA
151526 TAAATTCAATTAATCCCAAAAA-CATTTTG
1 TAAATTCAATTAATCCCAAAAACCATTTTG
151555 TAAATTCAATTCAAGT-CCAAAAACCATTTTG
1 TAAATTCAATT-AA-TCCCAAAAACCATTTTG
151586 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 11 0.39
30 9 0.32
31 8 0.29
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAATCCCAAAAACCATTTTG
Found at i:152897 original size:19 final size:20
Alignment explanation
Indices: 152854--152901 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
152844 TCTAAATCCT
*
152854 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
152874 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
152893 TTTTCAAAA
1 TTTTCAAAA
152902 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:154139 original size:21 final size:21
Alignment explanation
Indices: 154113--154160 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
154103 CATAACATGG
154113 TGCATCAGTGCACTATCAAGC
1 TGCATCAGTGCACTATCAAGC
* *
154134 TGCATCAGTGCACTGTCAAGG
1 TGCATCAGTGCACTATCAAGC
154155 TGCATC
1 TGCATC
154161 GAAACCCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (21 bp):
TGCATCAGTGCACTATCAAGC
Found at i:154236 original size:20 final size:20
Alignment explanation
Indices: 154207--154277 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
154197 GCAGCCTTCG
* *
154207 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
* **
154227 TGCATCGATGCATAGCCTTGA
1 TGCATCGATGCACA-CCAGGA
**
154248 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACACCAGGA
154268 TGCATCGATG
1 TGCATCGATG
154278 TACTAATTGC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:154258 original size:41 final size:41
Alignment explanation
Indices: 154199--154277 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
154189 TAGTTGTTGC
* **
154199 AGCCTTCGTGCATGGATGCACATCAGGATGCATCGATGCAT
1 AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
154240 AGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATG
1 AGCCTTCG-TGCATCGATGCACAGAAGGATGCATCGATG
154278 TACTAATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (41 bp):
AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
Found at i:154348 original size:22 final size:23
Alignment explanation
Indices: 154315--154358 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
154305 ATAAATGCAC
154315 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
154338 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCGATGCACTA
154359 CAGGGATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:154370 original size:21 final size:21
Alignment explanation
Indices: 154344--154462 Score: 202
Period size: 21 Copynumber: 5.7 Consensus size: 21
154334 CTAGTGCAGG
154344 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
* *
154365 TGCATGGATGCACTGCAGAGA
1 TGCATGGATGCACTACAGGGA
154386 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
154407 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
* *
154428 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTACAGGGA
154449 TGCATGGATGCACT
1 TGCATGGATGCACT
154463 TTGACACCCT
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.20
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:154376 original size:63 final size:61
Alignment explanation
Indices: 154309--154462 Score: 213
Period size: 63 Copynumber: 2.4 Consensus size: 61
154299 GAGTGCATAA
*
154309 ATGCACTGCATGGTGCATCGATGCACTAGTGCA-GG-TGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTGCA-GGTGCATGGATGCACTA---CAGGGATGCATGGATGCACTACAGGGATGCATGG
154372 ATGCACTGCAGAGATGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTGCAG-G-TGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
154435 ATGCACTGCAGGGGTGCATGGATGCACT
1 ATGCACTGCA--GGTGCATGGATGCACT
154463 TTGACACCCT
Statistics
Matches: 84, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
61 2 0.02
62 3 0.04
63 63 0.75
64 15 0.18
65 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (61 bp):
ATGCACTGCAGGTGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
Found at i:154390 original size:42 final size:42
Alignment explanation
Indices: 154309--154462 Score: 202
Period size: 42 Copynumber: 3.7 Consensus size: 42
154299 GAGTGCATAA
* * * ** *
154309 ATGCACTGCATGG-TGCATCGATGCACTAGTGCAGGTGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAG-AGATGCATGG
*
154351 ATGCACTACAGGGATGCATGGATGCACTGCAGAGATGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
*
154393 ATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
* *
154435 ATGCACTGCAGGGGTGCATGGATGCACT
1 ATGCACTACAGGGATGCATGGATGCACT
154463 TTGACACCCT
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 86 0.86
43 14 0.14
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
Found at i:154563 original size:29 final size:29
Alignment explanation
Indices: 154542--154599 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
154532 AAACTTTGAA
154542 TAAATTCAATT-AA-TCCCAAAAACATTTTG
1 TAAATTCAATTCAAGT-CCAAAAACA-TTTG
154571 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
154600 TTCCTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 11 0.42
30 12 0.46
31 3 0.12
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:154593 original size:30 final size:30
Alignment explanation
Indices: 154542--154600 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
154532 AAACTTTGAA
154542 TAAATTCAATTAATCCCAAAAA-CATTTTG
1 TAAATTCAATTAATCCCAAAAACCATTTTG
154571 TAAATTCAATTCAAGT-CCAAAAACCATTTT
1 TAAATTCAATT-AA-TCCCAAAAACCATTTT
154601 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAATCCCAAAAACCATTTTG
Found at i:155075 original size:25 final size:26
Alignment explanation
Indices: 155047--155098 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
155037 ACTAAAATAC
*
155047 TTTAT-GCAATACCAATTGTTGAAAT
1 TTTATAGCAATACCAATTGTTAAAAT
* *
155072 TTTATATCAATACCATTTGTTAAAAT
1 TTTATAGCAATACCAATTGTTAAAAT
155098 T
1 T
155099 AAGTGCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (26 bp):
TTTATAGCAATACCAATTGTTAAAAT
Found at i:155912 original size:19 final size:20
Alignment explanation
Indices: 155869--155916 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
155859 TCTAAATCCT
*
155869 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
155889 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
155908 TTTTCAAAA
1 TTTTCAAAA
155917 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:156819 original size:32 final size:33
Alignment explanation
Indices: 156775--156844 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
156765 CCTTACAAAC
* *
156775 TCCCTA-GTTTTTACGGGCTAA-ACTAGAACCTT
1 TCCCTAGGTTTTAACGGGATAAGA-TAGAACCTT
156807 TCCCTAGGTTTTACACGGGATAAGATAGAACCTT
1 TCCCTAGGTTTTA-ACGGGATAAGATAGAACCTT
156841 TCCC
1 TCCC
156845 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 6 0.18
33 5 0.15
34 21 0.64
35 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (33 bp):
TCCCTAGGTTTTAACGGGATAAGATAGAACCTT
Found at i:157152 original size:21 final size:21
Alignment explanation
Indices: 157126--157173 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
157116 CATAACATGG
157126 TGCATCAGTGCACTATCAAGC
1 TGCATCAGTGCACTATCAAGC
* *
157147 TGCATCAGTGCACTGTCAAGG
1 TGCATCAGTGCACTATCAAGC
157168 TGCATC
1 TGCATC
157174 GAAACCCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (21 bp):
TGCATCAGTGCACTATCAAGC
Found at i:157249 original size:20 final size:20
Alignment explanation
Indices: 157220--157290 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
157210 GCAGCCTTCG
* *
157220 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
* **
157240 TGCATCGATGCATAGCCTTGA
1 TGCATCGATGCACA-CCAGGA
**
157261 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACACCAGGA
157281 TGCATCGATG
1 TGCATCGATG
157291 TACTAATTGC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:157271 original size:41 final size:41
Alignment explanation
Indices: 157212--157290 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
157202 TAGTTGTTGC
* **
157212 AGCCTTCGTGCATGGATGCACATCAGGATGCATCGATGCAT
1 AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
157253 AGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATG
1 AGCCTTCG-TGCATCGATGCACAGAAGGATGCATCGATG
157291 TACTAATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (41 bp):
AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
Found at i:157361 original size:22 final size:23
Alignment explanation
Indices: 157328--157371 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
157318 ATAAATGCAC
157328 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
157351 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCGATGCACTA
157372 CAGGGATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:157383 original size:21 final size:21
Alignment explanation
Indices: 157357--157474 Score: 193
Period size: 21 Copynumber: 5.7 Consensus size: 21
157347 CTAGTGCAGG
157357 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
* **
157378 TGCATGGATGCACTGCAGATA
1 TGCATGGATGCACTACAGGGA
157399 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
157420 TGCATGGATGCACTACAGGGA
1 TGCATGGATGCACTACAGGGA
*
157441 TGCATGGATGCACTGCAGGG-
1 TGCATGGATGCACTACAGGGA
157461 TGCATGGATGCACT
1 TGCATGGATGCACT
157475 TTGACACCCT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
20 14 0.16
21 76 0.84
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.21
Consensus pattern (21 bp):
TGCATGGATGCACTACAGGGA
Found at i:157389 original size:63 final size:61
Alignment explanation
Indices: 157322--157474 Score: 211
Period size: 63 Copynumber: 2.4 Consensus size: 61
157312 GAGTGCATAA
*
157322 ATGCACTGCATGGTGCATCGATGCACTAGTGCA-GG-TGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTGCA-GGTGCATGGATGCACTA---CAGGGATGCATGGATGCACTACAGGGATGCATGG
*
157385 ATGCACTGCAGATATGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTGCAG--GTGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
157448 ATGCACTGCAGGGTGCATGGATGCACT
1 ATGCACTGCA-GGTGCATGGATGCACT
157475 TTGACACCCT
Statistics
Matches: 82, Mismatches: 3, Indels: 11
0.85 0.03 0.11
Matches are distributed among these distances:
61 2 0.02
62 17 0.21
63 48 0.59
64 15 0.18
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (61 bp):
ATGCACTGCAGGTGCATGGATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
Found at i:157403 original size:42 final size:42
Alignment explanation
Indices: 157322--157474 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
157312 GAGTGCATAA
* * * ** *
157322 ATGCACTGCATGG-TGCATCGATGCACTAGTGCAGGTGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAG-AGATGCATGG
* *
157364 ATGCACTACAGGGATGCATGGATGCACTGCAGATATGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
*
157406 ATGCACTACAGGGATGCATGGATGCACTACAGGGATGCATGG
1 ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
*
157448 ATGCACTGCAGGG-TGCATGGATGCACT
1 ATGCACTACAGGGATGCATGGATGCACT
157475 TTGACACCCT
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
41 14 0.14
42 70 0.71
43 14 0.14
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (42 bp):
ATGCACTACAGGGATGCATGGATGCACTACAGAGATGCATGG
Found at i:157575 original size:29 final size:30
Alignment explanation
Indices: 157543--157611 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
157533 GAAACCTTTT
157543 AAAAC-TTTGAATAAATTCAATT-AA-TCCCA
1 AAAACATTT-AATAAATTCAATTCAAGT-CCA
**
157572 AAAACATTTTTTAAATTCAATTCAAGTCCA
1 AAAACATTTAATAAATTCAATTCAAGTCCA
157602 AAAACCATTT
1 AAAA-CATTT
157612 TGCCTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 16 0.47
30 12 0.35
31 6 0.18
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.33
Consensus pattern (30 bp):
AAAACATTTAATAAATTCAATTCAAGTCCA
Found at i:157605 original size:30 final size:30
Alignment explanation
Indices: 157554--157612 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
157544 AAACTTTGAA
157554 TAAATTCAATTAATCCCAAAAA-CATTTTT
1 TAAATTCAATTAATCCCAAAAACCATTTTT
157583 TAAATTCAATTCAAGT-CCAAAAACCATTTT
1 TAAATTCAATT-AA-TCCCAAAAACCATTTT
157613 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 11 0.41
30 9 0.33
31 7 0.26
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAATCCCAAAAACCATTTTT
Found at i:157612 original size:29 final size:28
Alignment explanation
Indices: 157554--157612 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 28
157544 AAACTTTGAA
157554 TAAATTCAATTAATCCCAAAAACATTTTT
1 TAAATTCAATTAATCCCAAAAACA-TTTT
157583 TAAATTCAATTCAAGT-CCAAAAACCATTTT
1 TAAATTCAATT-AA-TCCCAAAAA-CATTTT
157613 GCCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 11 0.41
30 13 0.48
31 3 0.11
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.36
Consensus pattern (28 bp):
TAAATTCAATTAATCCCAAAAACATTTT
Found at i:158922 original size:19 final size:20
Alignment explanation
Indices: 158879--158926 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
158869 TCTAAATCCT
*
158879 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
158899 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
158918 TTTTCAAAA
1 TTTTCAAAA
158927 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:160164 original size:21 final size:21
Alignment explanation
Indices: 160138--160185 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
160128 CATAACATGG
160138 TGCATCAGTGCACTATCAAGC
1 TGCATCAGTGCACTATCAAGC
* *
160159 TGCATCAGTGCACTGTCAAGG
1 TGCATCAGTGCACTATCAAGC
160180 TGCATC
1 TGCATC
160186 GATACCCCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (21 bp):
TGCATCAGTGCACTATCAAGC
Found at i:160261 original size:20 final size:20
Alignment explanation
Indices: 160232--160302 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
160222 GCAGCCTTCG
* *
160232 TGCATGGATGCACATCAGGA
1 TGCATCGATGCACACCAGGA
* **
160252 TGCATCGATGCATAGCCTTGA
1 TGCATCGATGCACA-CCAGGA
**
160273 TGCATCGATGCACAGAAGGA
1 TGCATCGATGCACACCAGGA
160293 TGCATCGATG
1 TGCATCGATG
160303 TACTAATTGC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACACCAGGA
Found at i:160283 original size:41 final size:41
Alignment explanation
Indices: 160224--160302 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
160214 TAGTTGTTGC
* **
160224 AGCCTTCGTGCATGGATGCACATCAGGATGCATCGATGCAT
1 AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
160265 AGCCTT-GATGCATCGATGCACAGAAGGATGCATCGATG
1 AGCCTTCG-TGCATCGATGCACAGAAGGATGCATCGATG
160303 TACTAATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (41 bp):
AGCCTTCGTGCATCGATGCACAGAAGGATGCATCGATGCAT
Found at i:160373 original size:22 final size:23
Alignment explanation
Indices: 160340--160383 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
160330 ATAAATGCAC
160340 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
160363 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCGATGCACTA
160384 CAGGGATGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Done.