Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003188.1 Hibiscus syriacus cultivar Beakdansim tig00006705_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: 84636
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:7765 original size:22 final size:22
Alignment explanation
Indices: 7740--7785 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7730 AATGTACTTC
7740 GATGGGGCATCCAATGCATTAG
1 GATGGGGCATCCAATGCATTAG
7762 GATGGGGCATCCAATGCATTAG
1 GATGGGGCATCCAATGCATTAG
7784 GA
1 GA
7786 CATGGCATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (22 bp):
GATGGGGCATCCAATGCATTAG
Found at i:7792 original size:22 final size:22
Alignment explanation
Indices: 7744--7794 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
7734 TACTTCGATG
**
7744 GGGCATCCAATGCATTAGGATG
1 GGGCATCCAATGCATTAGGACA
7766 GGGCATCCAATGCATTAGGACA
1 GGGCATCCAATGCATTAGGACA
*
7788 TGGCATC
1 GGGCATC
7795 GGGGCAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (22 bp):
GGGCATCCAATGCATTAGGACA
Found at i:9376 original size:21 final size:21
Alignment explanation
Indices: 9316--9376 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
9306 TTGGTGCAGA
9316 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCC-TGAAG
* * *
9338 GGGAACCGATTCCCCCTGTAG
1 GGGAATCGATACCCCCTGAAG
9359 GGGAATCGATACCCCCTG
1 GGGAATCGATACCCCCTG
9377 GGGTTCTGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGAAG
Found at i:12725 original size:16 final size:16
Alignment explanation
Indices: 12704--12771 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
12694 GATATATATA
*
12704 TATATAAACTATAAGG
1 TATATAAACTATAAAG
* *
12720 TATATATACTTTAAAG
1 TATATAAACTATAAAG
** *
12736 TATA-AAGTGTATATA-
1 TATATAA-ACTATAAAG
12751 TATATATAACTATAAAG
1 TATATA-AACTATAAAG
12768 TATA
1 TATA
12772 AGTATATTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
15 5 0.14
16 27 0.73
17 5 0.14
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (16 bp):
TATATAAACTATAAAG
Found at i:12740 original size:30 final size:28
Alignment explanation
Indices: 12695--12908 Score: 108
Period size: 30 Copynumber: 7.5 Consensus size: 28
12685 TATATATATG
*
12695 ATATA-TATATATATAAACTATAAGGTAT
1 ATATACTATAAATATAAACTATAA-GTAT
* * *
12723 ATATACTTTAAAGTATAAAGTGT-A-TAT
1 ATATACTATAAA-TATAAACTATAAGTAT
* *
12750 ATATA-TATAACTATAAAGTATAAGTAT
1 ATATACTATAAATATAAACTATAAGTAT
* *
12777 ATTATAAGTATACATATAAACTATAAAGTAT
1 A-TAT-ACTATAAATATAAACTAT-AAGTAT
* *
12808 ATATACTTTATACTA-AAACTTATATA-TAAT
1 ATATACTATA-AATATAAAC-TATA-AGT-AT
*
12838 ATATA-TATATATATATATA-TATATA-TAT
1 ATATACTATA-A-ATATAAACTATA-AGTAT
*
12866 ATATA-TATATAATATAAAGTATAAGTAT
1 ATATACTATA-AATATAAACTATAAGTAT
*
12894 ATTATA-TATATATAT
1 A-TATACTATAAATAT
12909 TATAGTTTAT
Statistics
Matches: 150, Mismatches: 19, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
25 9 0.06
26 5 0.03
27 19 0.13
28 33 0.22
29 36 0.24
30 39 0.26
31 9 0.06
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (28 bp):
ATATACTATAAATATAAACTATAAGTAT
Found at i:12764 original size:85 final size:83
Alignment explanation
Indices: 12646--12888 Score: 268
Period size: 85 Copynumber: 2.9 Consensus size: 83
12636 ATATACAAAA
* *
12646 AAAGTAT-AAGTATATATATAAAGAGTAAACTATAAAGTATATATATATGATATATATATATATA
1 AAAGTATAAAGT-TATATATATATA-T-AACTATAAAGTATATATATAT-ATATATATATATATA
*
12710 AACTATAAGGTATATATACTTT
62 AACTATAAAGTATATATACTTT
*
12732 AAAGTATAAAGTGTATATATATATATAACTATAAAGTATA-AGTATAT-TATAAGTATACATATA
1 AAAGTATAAAGT-TATATATATATATAACTATAAAGTATATA-TATATATAT-A-TATATATATA
12795 AACTATAAAGTATATATACTTT
62 AACTATAAAGTATATATACTTT
* * * *
12817 ATACTA-AAACTTATATATA-ATATATA-TATATA-TATATATATATATATATATATATATATAA
1 AAAGTATAAAGTTATATATATATATA-ACTATAAAGTATATATATATATATATATATATATA-AA
12878 -TATAAAGTATA
64 CTATAAAGTATA
12889 AGTATATTAT
Statistics
Matches: 139, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
80 20 0.14
81 12 0.09
82 14 0.10
83 12 0.09
84 6 0.04
85 53 0.38
86 8 0.06
87 14 0.10
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (83 bp):
AAAGTATAAAGTTATATATATATATAACTATAAAGTATATATATATATATATATATATATAAACT
ATAAAGTATATATACTTT
Found at i:12796 original size:55 final size:56
Alignment explanation
Indices: 12674--12778 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 56
12664 TAAAGAGTAA
*
12674 ACTATAAAGTAT--A-TATATATGATATATATATATATAAACTATAAGGTATATAT
1 ACTATAAAGTATAAAGTGTATATGATATATATATATATAAACTATAAGGTATATAT
* *
12727 ACTTTAAAGTATAAAGTGTATAT-ATATATATA-ACTATAAAGTATAA-GTATAT
1 ACTATAAAGTATAAAGTGTATATGATATATATATA-TATAAACTATAAGGTATAT
12779 TATAAGTATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
53 11 0.24
54 7 0.16
55 21 0.47
56 6 0.13
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (56 bp):
ACTATAAAGTATAAAGTGTATATGATATATATATATATAAACTATAAGGTATATAT
Found at i:12835 original size:2 final size:2
Alignment explanation
Indices: 12828--13486 Score: 221
Period size: 2 Copynumber: 325.5 Consensus size: 2
12818 TACTAAAACT
12828 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
12869 TA TA TA TA -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * * *
12909 TA TA GTT TA TA TA TA CTT TA CTT TA TA GTT TA TA TA TA TA TA CA
1 TA TA -TA TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA
* * * *
12953 TA CT- TA TA CTT TA TA T- TA TG TA TA TG TG TA TA TA TA TA TA TA
1 TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
12995 TA TA TA TA TA TA TA TA TA T- TA T- TG TT TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
13035 TA CTT TA TA TT TA AA CTA TA TA AA CTA TA TA -A TT TA TA CA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
13077 GTA TA TA TA -A TT TA TA -A T- TA TA CA TA -A TA TA TA AA TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
13116 -A GT- TG TA TA TA TT TA -A CTA TA GTT TA TA TG TA GT- TCA -A TA
1 TA -TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA -TA T-A TA TA
* * * * * *
13156 GT- TCA TA TA TA AA CTC TA TA GTT TA TA CA TGG TA TA TA TA GTT
1 -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA T-A TA TA TA TA -TA
* *
13199 TA TA CA TA -A TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
13239 TA TA TA TA GTA TA TA -A TA TA AA TA AA CTA TA TA GTT TT TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* * * * *
13281 TA TA -A TA TA TA TA CTT TA TA TT TA CA CTT TA TA TA TA CA CTA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
13323 TA TA GTT TA TA T- TA -A TA AA CTA TA CA GTT TA TA TA TA TA -A
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * **
13363 TT TA TA TA TA CGA TA TA TA TA CTT TA TA TA TA CA CTA TA TA GC
1 TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA
* * * * *
13406 T- TA TA TA TA GTT TA TA T- TA -A TA AA CTA TA TGG TT TA TA CA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA T-A TA TA TA TA
13446 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13487 TTAATTGGCT
Statistics
Matches: 480, Mismatches: 105, Indels: 144
0.66 0.14 0.20
Matches are distributed among these distances:
1 32 0.07
2 411 0.86
3 37 0.08
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:13103 original size:17 final size:17
Alignment explanation
Indices: 13063--13115 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
13053 TATAAACTAT
*
13063 ATAATTTATACATAGTATAT
1 ATAATTTATA-AT--TATAC
13083 ATAATTTATAATTATAC
1 ATAATTTATAATTATAC
* *
13100 ATAATATATAAATATA
1 ATAATTTATAATTATA
13116 AGTTGTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
19 2 0.07
20 10 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAATTTATAATTATAC
Found at i:13247 original size:110 final size:109
Alignment explanation
Indices: 13051--13253 Score: 252
Period size: 110 Copynumber: 1.8 Consensus size: 109
13041 ATATTTAAAC
13051 TATATAAACTATATAATTTATACATAGTATATATAATTTATAATTATACATAATATATAAATATA
1 TATATAAACTATATAATTTATACATAGTATATATAATTTATAATTATACATAATATATAAATATA
* *
13116 AGTTGTATATATTTAACTATAGTTTATATGTAGTTCAATAGTTCA
66 AG-TATATATATTTAACTATAGTATATATGTAGTTCAATAGTTCA
* * * * * *
13161 TATATAAACTCTATAGTTTATACATGGTATATATAGTTTATACA-TA-ATATAATATAATATATA
1 TATATAAACTATATAATTTATACATAGTATATATAATTTATA-ATTATACATAATAT-ATAAATA
13224 TATA-TATATATAGTTTATA-TATAGTATATA
64 TA-AGTATATATA-TTTA-ACTATAGTATATA
13254 ATATAAATAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
109 15 0.19
110 62 0.77
111 3 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (109 bp):
TATATAAACTATATAATTTATACATAGTATATATAATTTATAATTATACATAATATATAAATATA
AGTATATATATTTAACTATAGTATATATGTAGTTCAATAGTTCA
Found at i:13358 original size:77 final size:76
Alignment explanation
Indices: 13254--13412 Score: 221
Period size: 77 Copynumber: 2.1 Consensus size: 76
13244 ATAGTATATA
* * * *
13254 ATATAAATAAACTATATAGTTTTTATATATAA-TATATATACTTTATATTTACACTTTATATATA
1 ATATAAATAAACTATACAGTTTATATATATAATTATATATAC--GATATATACACTTTATATATA
*
13318 CACTATATAGTTT
64 CACTATATAGCTT
* *
13331 ATATTAATAAACTATACAGTTTATATATATAATTTATATATACGATATATATACTTTATATATAC
1 ATATAAATAAACTATACAGTTTATATATATAA-TTATATATACGATATATACACTTTATATATAC
13396 ACTATATAGCTT
65 ACTATATAGCTT
13408 ATATA
1 ATATA
13413 TAGTTTATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
77 63 0.88
79 9 0.12
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (76 bp):
ATATAAATAAACTATACAGTTTATATATATAATTATATATACGATATATACACTTTATATATACA
CTATATAGCTT
Found at i:15702 original size:131 final size:131
Alignment explanation
Indices: 15453--15799 Score: 359
Period size: 131 Copynumber: 2.6 Consensus size: 131
15443 CTTTATCATA
* * * *
15453 TTTAATATATATT-TATTTTCAATATTAAAAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTC
1 TTTAATATAT-TTATTTTTTAAATATTAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTTTC
* *
15517 TGATATTTTTAAATAAATGTTTTATTTTATAAATTATATATATTAATCGA-TTT-TTAGATAAAT
65 TGATATTTTTAAATAAATGATTTATTTTATAAATTATATATATTAATCAATTTTATTAGATAAAT
15580 AT
130 AT
15582 TTATCAATATATTTATTTTTTAAATATTAGGAAAGGGCAGTCTTAAA-CAACTGGATGTCCATTT
1 TT-T-AATATATTTATTTTTTAAATATTA-GAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTT
* *
15646 TCTG-TTTTTTTTAATAAAT-ATTTACTTTTATAAATTATA-ATATTAATCAATTTTTTTATTAG
63 TCTGATATTTTTAAATAAATGATTTA-TTTTATAAATTATATATATTAATCAA---TTTTATTAG
*
15708 ATAAATGT
124 ATAAATAT
* * ** * * ** * *
15716 TTTATTAATATTTATTTTTTTAATATTAAGAAATGAACTGTCTTAAAGCACCTAAAAG-CCCTTT
1 TTTAAT-ATATTTATTTTTTAAATATT-AGAAA-GGGCAGTCTTAAAGCAACTGGATGTCCATTT
*
15780 TCTGATATTTCTAAATAAAT
63 TCTGATATTTTTAAATAAAT
15800 AAATATCTTA
Statistics
Matches: 181, Mismatches: 22, Indels: 24
0.80 0.10 0.11
Matches are distributed among these distances:
129 16 0.09
130 30 0.17
131 39 0.22
132 18 0.10
133 27 0.15
134 33 0.18
135 18 0.10
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (131 bp):
TTTAATATATTTATTTTTTAAATATTAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATTTTCT
GATATTTTTAAATAAATGATTTATTTTATAAATTATATATATTAATCAATTTTATTAGATAAATA
T
Found at i:15781 original size:134 final size:131
Alignment explanation
Indices: 15459--15799 Score: 313
Period size: 134 Copynumber: 2.6 Consensus size: 131
15449 CATATTTAAT
* ** ** * *
15459 ATATATTTA--TTTTCAATATTAA-AAAGGGCAGTCTTAAAGCAACTGGATGTTCATTTTCTGAT
1 ATATATTTATTTTTTAAATATTAAGAAAGAACAGTCTTAAA-CAACTAAAAGTCCATTTTCTGAT
* *
15521 ATTTTTAAATAAATGTTTTATTTTATAAATTATATATATTAATCGATTTTTAGATAAATATTTAT
65 ATTTTTAAATAAATGATTTATTTTATAAATTATATATATTAATCAATTTTTAGATAAATATTTAT
15586 CA
130 CA
* ** ** * *
15588 ATATATTTATTTTTTAAATATTAGGAAAGGGCAGTCTTAAACAACTGGATGTCCATTTTCTG-TT
1 ATATATTTATTTTTTAAATATTAAGAAAGAACAGTCTTAAACAACTAAAAGTCCATTTTCTGATA
* *
15652 TTTTTTAATAAAT-ATTTACTTTTATAAATTATA-ATATTAATCAATTTTTTTATTAGATAAATG
66 TTTTTAAATAAATGATTTA-TTTTATAAATTATATATATTAATCAA----TTT-TTAGATAAATA
15715 TTT-T-A
125 TTTATCA
* * * * *
15720 TTAATATTTATTTTTTTAATATTAAGAAATGAACTGTCTTAAAGCACCTAAAAG-CCCTTTTCTG
1 AT-ATATTTATTTTTTAAATATTAAGAAA-GAACAGTCTTAAA-CAACTAAAAGTCCATTTTCTG
*
15784 ATATTTCTAAATAAAT
63 ATATTTTTAAATAAAT
15800 AAATATCTTA
Statistics
Matches: 177, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
129 23 0.13
130 27 0.15
131 31 0.18
132 18 0.10
133 28 0.16
134 32 0.18
135 18 0.10
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (131 bp):
ATATATTTATTTTTTAAATATTAAGAAAGAACAGTCTTAAACAACTAAAAGTCCATTTTCTGATA
TTTTTAAATAAATGATTTATTTTATAAATTATATATATTAATCAATTTTTAGATAAATATTTATC
A
Found at i:15826 original size:21 final size:20
Alignment explanation
Indices: 15798--15844 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
15788 TTCTAAATAA
15798 ATAAATATCTTAT-TTAAAA-T
1 ATAAATAT-TT-TCTTAAAATT
15818 ATAATATATTTTCTTAAAATT
1 ATAA-ATATTTTCTTAAAATT
15839 ATAAAT
1 ATAAAT
15845 TTGAAATAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAATATTTTCTTAAAATT
Found at i:19491 original size:72 final size:72
Alignment explanation
Indices: 19374--19517 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 72
19364 ATACAATAAA
* ** *
19374 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATTACCCCGGCTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGGCTTTATGGATAATATTCAGCTAAT
19439 CTGTTAT
66 CTGTTAT
* * * * *
19446 GCTTGAGTTGTCCCTCTAGAGCAAATGGTTAACAACCCCGGCTTTATGGATGATATTTAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGGCTTTATGGATAATATTCAGCTAAT
19511 CTGTTAT
66 CTGTTAT
19518 ACTATTATAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAAATGGTTAACAACCCCGGCTTTATGGATAATATTCAGCTAAT
CTGTTAT
Found at i:23386 original size:22 final size:22
Alignment explanation
Indices: 23361--23437 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
23351 ATCTACACTT
23361 TTCAAAGATGATAGACTCTTTC
1 TTCAAAGATGATAGACTCTTTC
* * *
23383 TTCAAAGATGATAGCCTATCTC
1 TTCAAAGATGATAGACTCTTTC
* *
23405 TTTAAAGATGATAGATTCTCTT-
1 TTCAAAGATGATAGACTCT-TTC
*
23427 TTCAAATATGA
1 TTCAAAGATGA
23438 AAGCTTTATT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
22 43 0.98
23 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGACTCTTTC
Found at i:24601 original size:73 final size:73
Alignment explanation
Indices: 24140--24586 Score: 795
Period size: 73 Copynumber: 6.1 Consensus size: 73
24130 GCCGGATGTT
*
24140 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAGAACAAAATTTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24205 CAGTTTCA
66 CAGTTTCA
24213 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24278 CAGTTTCA
66 CAGTTTCA
*
24286 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTAAAAACAAAATTTGTCTCCCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24351 CAGTTTCA
66 CAGTTTCA
**
24359 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTTGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24424 CAGTTTCA
66 CAGTTTCA
* *
24432 CTCGAAACAGAACTTTATCTCACTTGAGATTATTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24497 CAGTTTCA
66 CAGTTTCA
* * * *
24505 CTCGAAACAGAAGTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTTGAGA
1 CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
24570 CAGTTTCA
66 CAGTTTCA
*
24578 CTAGAAACA
1 CTCGAAACA
24587 AAAATTTCCA
Statistics
Matches: 362, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 362 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (73 bp):
CTCGAAACAGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCCCTTGAGA
CAGTTTCA
Found at i:24748 original size:3 final size:3
Alignment explanation
Indices: 24740--24823 Score: 73
Period size: 3 Copynumber: 28.3 Consensus size: 3
24730 TTTTACTTAA
** * * *
24740 ATT ATT ATT -TT AAA ATT ATT ATT ATT ATT ATT ACTA AAT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
24785 ATT ATT ATA ATT ATT ATA AAT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24824 ATAAAATAAT
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
2 4 0.06
3 56 0.90
4 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:26142 original size:11 final size:11
Alignment explanation
Indices: 26091--26186 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 11
26081 TTAATTTCTT
*
26091 TTATTTTGATCA
1 TTATTTT-ATTA
*
26103 TTATTTAATTA
1 TTATTTTATTA
**
26114 CAATTTTATT-
1 TTATTTTATTA
*
26124 TTGTTTTTATTA
1 TT-ATTTTATTA
*
26136 TTATTTT-TGA
1 TTATTTTATTA
*
26146 TATATTTAAATTA
1 T-TATTT-TATTA
*
26159 TTATTTTCATGA
1 TTATTTT-ATTA
26171 TTATTTTATTA
1 TTATTTTATTA
26182 TTATT
1 TTATT
26187 ATCTTAAGTC
Statistics
Matches: 63, Mismatches: 15, Indels: 13
0.69 0.16 0.14
Matches are distributed among these distances:
10 3 0.05
11 34 0.54
12 23 0.37
13 3 0.05
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:26158 original size:23 final size:22
Alignment explanation
Indices: 26091--26186 Score: 70
Period size: 23 Copynumber: 4.2 Consensus size: 22
26081 TTAATTTCTT
*
26091 TTATTTTGATCATTATTTAATTA
1 TTATTTT-ATGATTATTTAATTA
** * * *
26114 CAATTTTAT-TTTGTTTTTATTA
1 TTATTTTATGATT-ATTTAATTA
26136 TTATTTT-TGATATATTTAAATTA
1 TTATTTTATGAT-TATTT-AATTA
*
26159 TTATTTTCATGATTATTTTATTA
1 TTATTTT-ATGATTATTTAATTA
26182 TTATT
1 TTATT
26187 ATCTTAAGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.05
22 18 0.32
23 26 0.46
24 5 0.09
25 4 0.07
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (22 bp):
TTATTTTATGATTATTTAATTA
Found at i:26289 original size:13 final size:14
Alignment explanation
Indices: 26260--26301 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
26250 TAAAATTCTA
26260 TTTATAAATTTAAT
1 TTTATAAATTTAAT
*
26274 TTTATAAA-TTACT
1 TTTATAAATTTAAT
*
26287 TTTATCATATTTAAT
1 TTTAT-AAATTTAAT
26302 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 10 0.43
15 4 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAAATTTAAT
Found at i:26634 original size:137 final size:135
Alignment explanation
Indices: 26296--26653 Score: 437
Period size: 136 Copynumber: 2.7 Consensus size: 135
26286 TTTTATCATA
* *
26296 TTTA-ATATATATTTA-TTTTTCAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATGTCCATT
1 TTTATATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCATT
* *
26359 TTCTGATA-TTTTTAAATAAATATTTTATTTTTATAAATTATATATATTAATCGATTTTTAGATA
66 TTCTGATATTTTTTAAATAAATATTTTACTTTTATAAATTATATATATTAATCAATTTTTAGATA
26423 AATAT
131 AATAT
* *
26428 TTTATCAATATATATTTATTTTTTAAATATTAGGAAAGGGCAGCCTTAAAGCAACTGGATATCCA
1 TTTAT--ATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCA
* *
26493 TTTTCTGATATTTTTTTAATAAATATTTTACTTTTATAGATTATA-ATATTAATCAAAAATTTTA
64 TTTTCTGATATTTTTTAAATAAATATTTTACTTTTATAAATTATATATATTAATC---AA-TTT-
*
26557 TTAGATAAATGT
124 TTAGATAAATAT
* * * * *
26569 TTTAT-TA-ATATTTATTTTTTTAATATTAAGAAATGAGCTGTCTTAAAGC-ACATAGA-ATCCC
1 TTTATATATATATTTATTTTTTAAATATTAAGAAA-GGGCAGTCTTAAAGCAAC-TGGATATCCA
*
26630 TTTTCTGATA-TTTCTAAATAAATA
64 TTTTCTGATATTTTTTAAATAAATA
26654 AATATCTTAT
Statistics
Matches: 196, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
132 4 0.02
135 11 0.06
136 73 0.37
137 71 0.36
138 17 0.09
139 1 0.01
140 3 0.02
141 16 0.08
ACGTcount: A:0.37, C:0.08, G:0.09, T:0.46
Consensus pattern (135 bp):
TTTATATATATATTTATTTTTTAAATATTAAGAAAGGGCAGTCTTAAAGCAACTGGATATCCATT
TTCTGATATTTTTTAAATAAATATTTTACTTTTATAAATTATATATATTAATCAATTTTTAGATA
AATAT
Found at i:28140 original size:127 final size:128
Alignment explanation
Indices: 27979--28234 Score: 417
Period size: 126 Copynumber: 2.0 Consensus size: 128
27969 GATACAAAAT
*
27979 TTATATTATATATTTTATAAGGTATTAGAAGTATGATAGAAATAAAAGTATAGATACCATCAAAA
1 TTATATTATATATTTCATAAGGTATTAGAAGTATGATA-AAATAAAAGTATAGATACCATCAAAA
* **
28044 TTGTATTTATAATTTGATGAA-GG-ACATTTATAAATACATTTAATACATGATTATTAAATCAA
65 TTGTATTTATAATTTGATGAAGGGTACAATTATAAATACATAAAATACATGATTATTAAATCAA
*
28106 TTATATTATATATTTCATAAGGTATTAGAAGTATGATAAAATAAAAGTGTAGATACCATCAAAAT
1 TTATATTATATATTTCATAAGGTATTAGAAGTATGATAAAATAAAAGTATAGATACCATCAAAAT
** *
28171 TGTATTTATAATTTGATGAAGGGTGTAATTATAAATGCATAAAATACATGATTATTAAATCAA
66 TGTATTTATAATTTGATGAAGGGTACAATTATAAATACATAAAATACATGATTATTAAATCAA
28234 T
1 T
28235 CACATAGAGC
Statistics
Matches: 119, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
126 46 0.39
127 39 0.33
128 34 0.29
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (128 bp):
TTATATTATATATTTCATAAGGTATTAGAAGTATGATAAAATAAAAGTATAGATACCATCAAAAT
TGTATTTATAATTTGATGAAGGGTACAATTATAAATACATAAAATACATGATTATTAAATCAA
Found at i:33625 original size:4 final size:4
Alignment explanation
Indices: 33609--33712 Score: 66
Period size: 4 Copynumber: 24.8 Consensus size: 4
33599 GGAGGTAATT
* * * *
33609 TTTA TTTA CTTA TTTA TTTA CTTG TTTA TTT- TTATCA TTTA TTTA TTTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-T-A TTTA TTTA TTTA
* * * * *
33658 TGTA ATCA TTTA TTTCAA ATTA TTTA TTTA TTTTGA ATTA TTTA TTTA
1 TTTA TTTA TTTA TTT--A TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA
33706 TTTA TTT
1 TTTA TTT
33713 CAAGGGGTAT
Statistics
Matches: 75, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
3 2 0.03
4 61 0.81
5 6 0.08
6 6 0.08
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:33688 original size:18 final size:18
Alignment explanation
Indices: 33665--33708 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
33655 TTCTGTAATC
33665 ATTTATTTCAAATTATTT
1 ATTTATTTCAAATTATTT
**
33683 ATTTATTTTGAATTATTT
1 ATTTATTTCAAATTATTT
33701 ATTTATTT
1 ATTTATTT
33709 ATTTCAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTATTTCAAATTATTT
Found at i:35821 original size:22 final size:22
Alignment explanation
Indices: 35796--35845 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
35786 ATTTGTACTT
*
35796 TTTTTTAGTTAATCGAACTACA
1 TTTTCTAGTTAATCGAACTACA
35818 TTTTCTAGTTAATCGAACTACA
1 TTTTCTAGTTAATCGAACTACA
35840 TTTTCT
1 TTTTCT
35846 TTTTTAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (22 bp):
TTTTCTAGTTAATCGAACTACA
Found at i:36059 original size:37 final size:36
Alignment explanation
Indices: 35919--36183 Score: 218
Period size: 37 Copynumber: 7.1 Consensus size: 36
35909 GTTTTTTATT
* * *
35919 TATATATTATATAATTTTGAAAACATTTTTG-AAAA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
* *
35954 TATATGATATATAGTTTTTTAAAACA-TTTTAAAAACA
1 TATATAATATATAG-TTTTTAAAACATTTTTGAAAA-A
* *
35991 TTTATATATTATATAG-TTTTAAAACGTTTTTGAAAAGA
1 --TATATAATATATAGTTTTTAAAACATTTTTGAAAA-A
* * *
36029 AACATAATATATAGTTTTCAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAA-A
* *
36066 TATATATTATATAGTTTTTAAAAC-GTTTTGAAAATAGA
1 TATATAATATATAGTTTTTAAAACATTTTTG-AAA-A-A
* *
36104 TATATAATATATAATTTTTTGAAAAACA-TTTTGAAAGCA
1 TATATAATATAT-AGTTTTT--AAAACATTTTTGAAA-AA
* *
36143 TATATAATATGTAATTTTTAAAACATTTTT-AAAAA
1 TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
36178 TTATAT
1 -TATAT
36184 GGTTTTTAAA
Statistics
Matches: 186, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
35 16 0.09
36 43 0.23
37 56 0.30
38 28 0.15
39 30 0.16
40 3 0.02
41 10 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTTGAAAAA
Found at i:36114 original size:73 final size:74
Alignment explanation
Indices: 35919--36176 Score: 217
Period size: 73 Copynumber: 3.5 Consensus size: 74
35909 GTTTTTTATT
* * * *
35919 TATATATTATATAATTTTGAAAACATTTTTGAAAAT-ATATGAT-ATATAGTTTTTTAAAACATT
1 TATATATTATATAGTTTTTAAAAC-GTTTTGAAAATAATAT-ATAATATAGTTTTTCAAAACATT
*
35982 TTAAAAACATT
64 TTAAAAACATA
* *
35993 TATATATTATATAG-TTTTAAAACGTTTTTGAAAAGAA-ACATAATATA-TAGTTTTCAAAACAT
1 TATATATTATATAGTTTTTAAAACG-TTTTGAAAATAATATATAATATAGT--TTTTCAAAACAT
**
36055 TTTTGAAA-ATA
63 TTTAAAAACATA
* *
36066 TATATATTATATAGTTTTTAAAACGTTTTGAAAATAGATATATAATATATAATTTTTTGAAAAAC
1 TATATATTATATAGTTTTTAAAACGTTTTGAAAATA-ATATAT-A-ATAT-AGTTTTT-CAAAAC
* *
36131 ATTTTGAAAGCATA
61 ATTTTAAAAACATA
* * * *
36145 TATA-A-TATGTAATTTTTAAAACATTTTTAAAA
1 TATATATTATATAGTTTTTAAAACGTTTTGAAAA
36177 ATTATATGGT
Statistics
Matches: 151, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
72 3 0.02
73 49 0.32
74 42 0.28
75 3 0.02
76 1 0.01
77 31 0.21
78 14 0.09
79 8 0.05
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (74 bp):
TATATATTATATAGTTTTTAAAACGTTTTGAAAATAATATATAATATAGTTTTTCAAAACATTTT
AAAAACATA
Found at i:36223 original size:33 final size:33
Alignment explanation
Indices: 36162--36228 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
36152 TGTAATTTTT
**
36162 AAAACATTTTTAAAAATTATATGGTTTTTAAAA
1 AAAACATTTTTAAAAATTATATAATTTTTAAAA
* *
36195 AAAACATTTTTGAAAATTATATAATTTTTTAAA
1 AAAACATTTTTAAAAATTATATAATTTTTAAAA
36228 A
1 A
36229 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (33 bp):
AAAACATTTTTAAAAATTATATAATTTTTAAAA
Found at i:36315 original size:3 final size:3
Alignment explanation
Indices: 36307--36374 Score: 70
Period size: 3 Copynumber: 22.7 Consensus size: 3
36297 GTTTGTATAT
* *
36307 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TT- TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
36352 TTA TTTA CTTA TT- TTA TT- TTA TT
1 TTA -TTA -TTA TTA TTA TTA TTA TT
36375 TTTTCCCGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 6 0.11
3 41 0.73
4 9 0.16
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:42703 original size:164 final size:164
Alignment explanation
Indices: 42426--43113 Score: 1064
Period size: 164 Copynumber: 4.2 Consensus size: 164
42416 TTTAAACAAA
* * * *
42426 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
42491 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
42556 CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
42590 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * * *
42655 CTCAGTTCCAAGGTACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
42720 CCGAGTTCGATTACACTCAGCTTCGAGGGAATAT
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
42754 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
42819 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGATATCTGCC----A-CC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
42879 CCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
* * *
42913 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGATCAAAGACCTTTGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* *
42978 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCT
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
* * * * * *
43043 TCGAGTTCGATTATATTCAACTTAGA-GGCAAAT
131 CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
* * * * *
43076 CAAGCTTACAGAATAGCTCAAGGCAAGAAGGGCTATCT
1 C-A-TTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
43114 ATCAATAAAA
Statistics
Matches: 482, Mismatches: 35, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
159 150 0.31
160 1 0.00
163 8 0.02
164 294 0.61
165 29 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
CCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
Found at i:42938 original size:76 final size:75
Alignment explanation
Indices: 42805--43033 Score: 206
Period size: 83 Copynumber: 2.9 Consensus size: 75
42795 CAAAGACCTT
* * * * *
42805 CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGATA
1 CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGATA
42870 TCTGCCACCC
66 TCTGCCACCC
* * * *
42880 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
1 CGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGAT
* *
42945 ATCTGTGATCAAAGACCTT
65 ATC--TG--C---CACC-C
* * * * * * * *
42964 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
1 CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGATA
43029 TCTGC
66 TCTGC
43034 TAAAGACCTT
Statistics
Matches: 123, Mismatches: 22, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
75 18 0.15
76 40 0.33
78 2 0.02
79 1 0.01
80 1 0.01
81 2 0.02
83 42 0.34
84 17 0.14
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (75 bp):
CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGATA
TCTGCCACCC
Found at i:43025 original size:323 final size:324
Alignment explanation
Indices: 42422--43113 Score: 1066
Period size: 323 Copynumber: 2.1 Consensus size: 324
42412 TTTTTTTAAA
*
42422 CAAA-CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGA
1 CAAATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGA
*
42486 CTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
66 CTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCC--A
*
42551 GACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGA
129 -ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGA
* * *
42616 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGTTCCAAGGTACATCATTTGTA
193 AGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
* *
42681 GCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGA
258 GCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAACTTAGA
42746 GG
323 GG
* * *
42748 GAATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCG
1 CAA-ATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCG
* *
42813 ACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCTAGAAGGGATATCTGCC-A
65 ACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAA
42877 -CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
130 CCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAG
* * *
42941 GGTTATCTGTGATCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
195 GGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGC
* * ** * *
43006 ATAGCTTAAGTCGAGAAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTATATTCAACTTAGAGG
260 ATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAACTTAGAGG
* * * * *
43071 CAAATCAAGCTTACAGAATAGCTCAAGGCAAGAAGGGCTATCT
1 CAAATC-A-TTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
43114 ATCAATAAAA
Statistics
Matches: 334, Mismatches: 28, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
322 3 0.01
323 182 0.54
324 30 0.09
326 2 0.01
327 1 0.00
328 116 0.35
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (324 bp):
CAAATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGA
CTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTGCCAAC
CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGG
GTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCA
TAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAACTTAGAGG
Found at i:43843 original size:37 final size:37
Alignment explanation
Indices: 43685--43949 Score: 227
Period size: 37 Copynumber: 7.1 Consensus size: 37
43675 GTTTTTTATT
* * * *
43685 TATATATTATATAATTTTGAAAACATTTTT-GAAA-A
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAATA
* * *
43720 TATATGATATATAGTTTTTTAAAACATTTTAAAAACATT
1 TATATAATATATAG-TTTTTAAAACATTTTTAAAA-ATA
* * *
43759 TATATATTATATAG-TTTTAAAACGTTTTTAAAAAGA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAATA
* * * *
43795 AACATAATATATAGTTTTCAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAATA
* *
43832 TATATATTATATAGTTTTTAAAAC-GTTTTAAAAATAGA
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAAT--A
* * **
43870 TATATAATATATAATTTTTTGAAAAACA-TTTTGAAAGCA
1 TATATAATATAT-AGTTTTT--AAAACATTTTTAAAAATA
* *
43909 TATATAATATGTAATTTTTAAAACATTTTTAAAAAT-
1 TATATAATATATAGTTTTTAAAACATTTTTAAAAATA
43945 TATAT
1 TATAT
43950 GGTTTTTAAA
Statistics
Matches: 182, Mismatches: 36, Indels: 23
0.76 0.15 0.10
Matches are distributed among these distances:
35 11 0.06
36 46 0.25
37 64 0.35
38 19 0.10
39 30 0.16
41 12 0.07
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TATATAATATATAGTTTTTAAAACATTTTTAAAAATA
Found at i:43989 original size:33 final size:33
Alignment explanation
Indices: 43928--43994 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
43918 TGTAATTTTT
**
43928 AAAACATTTTTAAAAATTATATGGTTTTTAAAA
1 AAAACATTTTTAAAAATTATATAATTTTTAAAA
* *
43961 AAAACATTTTTGAAAATTATATAATTTTTTAAA
1 AAAACATTTTTAAAAATTATATAATTTTTAAAA
43994 A
1 A
43995 TATTTTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (33 bp):
AAAACATTTTTAAAAATTATATAATTTTTAAAA
Found at i:44081 original size:3 final size:3
Alignment explanation
Indices: 44073--44137 Score: 64
Period size: 3 Copynumber: 21.7 Consensus size: 3
44063 GTTTGTATAT
* *
44073 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTTA TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
44118 TTTA CTTA TT- TTA TT- TTA TT
1 -TTA -TTA TTA TTA TTA TTA TT
44138 TTTTTCCGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
2 6 0.11
3 38 0.72
4 9 0.17
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:52724 original size:18 final size:18
Alignment explanation
Indices: 52701--52743 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
52691 AGGGATTTAC
*
52701 AGTGGTCCTTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
52719 AGTGGTCATTCGGGATAT
1 AGTGGTCATTCGGGACAT
52737 AGTGGTC
1 AGTGGTC
52744 TTACGAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:53065 original size:21 final size:20
Alignment explanation
Indices: 53037--53075 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
53027 GTAAGAAGAT
53037 TAAGTATAAGAATAAATAAC
1 TAAGTATAAGAATAAATAAC
*
53057 TAAGATATAAGAATGAATA
1 TAAG-TATAAGAATAAATA
53076 TAATATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.26
Consensus pattern (20 bp):
TAAGTATAAGAATAAATAAC
Found at i:54836 original size:81 final size:81
Alignment explanation
Indices: 53646--54828 Score: 1576
Period size: 81 Copynumber: 14.6 Consensus size: 81
53636 GGTGTTACAA
* * * *
53646 TGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGATTAATTGCCTAACTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
53711 GCATTTGACATAAAAG
66 GCATTTGACAGAAAGG
* * * * * *
53727 TTTCCATTATGTCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGC
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
53792 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * * * *
53808 TGTCAATTATGCCAGTTAGATTAAAGGTTAAATGCCTTTGTGTAAAATATTAATTTCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
*
53873 TCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* ** * * *
53889 TGTCAATTATGCCAGTTATATGAAAGTTTAAATACCTTTGAGTAAAATATTAATTGCCTAGATGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
53954 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * *
53970 TGTCAATTATGCCAGTTAGATGAAAGACTACATGCCTTTGAGTTAAAGATTAAATGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* * *
54035 GCAATCGGCAGAAAGG
66 GCATTTGACAGAAAGG
* *
54051 TGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
54116 GCATCTGACAGAAATG
66 GCATTTGACAGAAAGG
* * * * * *
54132 TGTCAATTATGCCGGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATTTCCTAGTTGC
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
*
54197 GTATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * *
54213 TGTCAATTATGCCAGTTAGATTAAAGGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
*
54278 GCATTTGATAGAAAGG
66 GCATTTGACAGAAAGG
* * *
54294 TGTCAATTATGCCAGTTATATGAAAGTCTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
54359 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
54375 TGTCAATTATGCCATTTAGATGAAAGGCTAAATTCCTTTGAGTTAAAGATTAAATGCCTAGATGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
54440 GCAATTGGCAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
54456 TGTCAATCATGCAAGTTAGATGAAAGGCTAAATGCCTTTTAGTAAAAGATTAATTGGCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
54521 GCATTTGATAGAAATG
66 GCATTTGACAGAAAGG
* * * *
54537 TGCCAATTATGCCAGTTAGATGAAAGACTAAATGCCTTTGAGTTAAAGATTAAATGCCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* *
54602 GCAATTGGCAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
54618 TGTCACTCATGCAAGTTAGATGAAAGGCTAAATGTCTTTGAGTAAAAGATTAATTGTCTAGCTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
54683 GCATTTGACAGAAAGG
66 GCATTTGACAGAAAGG
* * * * *
54699 TGTCAATTATGCTAGTTAGATGAAAGGCTAATTGCCTTTGAGTTAAAGATTAAATGCCTAGTTGT
1 TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
* * *
54764 GCAATTGGCATAAAGG
66 GCATTTGACAGAAAGG
* *
54780 TGTCAA-TATTGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAAAGA
1 TGTCAATTA-TGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGA
54829 CTAAATGCTT
Statistics
Matches: 966, Mismatches: 135, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
80 2 0.00
81 964 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (81 bp):
TGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATTGCCTAGCTGT
GCATTTGACAGAAAGG
Found at i:55895 original size:22 final size:22
Alignment explanation
Indices: 55867--55916 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
55857 AGAGAAATTG
*
55867 GAGGGCATATTTTCATTACTTC
1 GAGGGCATATTTTAATTACTTC
55889 GAGGGCATATTTTAATTACTTC
1 GAGGGCATATTTTAATTACTTC
55911 GAGGGC
1 GAGGGC
55917 GAGCTTGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (22 bp):
GAGGGCATATTTTAATTACTTC
Found at i:65262 original size:61 final size:61
Alignment explanation
Indices: 65166--65317 Score: 205
Period size: 61 Copynumber: 2.5 Consensus size: 61
65156 GTGTTATCAC
* * * * *
65166 ACATAATGTCCTGCCCACCACATGCACTAAGTTTACACTCTACTGCTAATCCGGATATGAA
1 ACATAAGGTCGTGCCCACCACCTACACTAAATTTACACTCTACTGCTAATCCGGATATGAA
* * * * *
65227 ACATAAGGTCGTGCCCACCACCTACACTAAATTTACACTCTAGTGTTGATTCGGATATGAC
1 ACATAAGGTCGTGCCCACCACCTACACTAAATTTACACTCTACTGCTAATCCGGATATGAA
*
65288 ATATAAGGTCGTGCCCACCACCTACACTAA
1 ACATAAGGTCGTGCCCACCACCTACACTAA
65318 GTTTCCTTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (61 bp):
ACATAAGGTCGTGCCCACCACCTACACTAAATTTACACTCTACTGCTAATCCGGATATGAA
Found at i:66682 original size:58 final size:57
Alignment explanation
Indices: 66504--66956 Score: 316
Period size: 59 Copynumber: 7.7 Consensus size: 57
66494 TCTGAAAGAT
* * **
66504 CATACACTCAGTATGATTTCTCTT-TCATTTTAGTACA-TGAAGTGCCCTAT-TCAAAAATC
1 CATACACTTAGTATGA-TTC-CTTATCA-TTTAGCACACT-AAGTGCCCTATAT-GGAAATC
* * *
66563 CATAC-CATTAGTATGAATTCATTACCATTTTAGCACACGAAGTGCCCTATAT-GAAATTC
1 CATACAC-TTAGTATG-ATTCCTTATCA-TTTAGCACACTAAGTGCCCTATATGGAAA-TC
* * ** *
66622 CATACCCTTAGTATGATCTCCTTATCATTTAGCACACTCAGTGCTTTATCTGGAAATC
1 CATACACTTAGTATGAT-TCCTTATCATTTAGCACACTAAGTGCCCTATATGGAAATC
* * **
66680 CATACACTCAGTATGATTCCTTTACCATTTTAGCACA-TAAAGTGCCCTATCCGGAAATC
1 CATACACTTAGTATGATTCC-TTATCA-TTTAGCACACT-AAGTGCCCTATATGGAAATC
* * * *
66739 CATATA-TTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCC-ATATGGAAATT
1 CATACACTT-AGTATGAT-TCCTTATCATTTAGCACACTAAGTGC-CCTATATGGAAATC
* * * * * *
66797 TATACACTCAGTATAATTCCTTTACCATTTTAGCACA-TAAAGTGCCCTATCTGAAAATC
1 CATACACTTAGTATGATTCC-TTATCA-TTTAGCACACT-AAGTGCCCTATATGGAAATC
* * *
66856 CATATA-TTCAATATGATCTCCTTATCATTTAGCACACTTAGTGCTCC-ATATGGAAATC
1 CATACACTT-AGTATGAT-TCCTTATCATTTAGCACACTAAGTGC-CCTATATGGAAATC
* * * * *
66914 CATACACTCAGTATGATTTCCTGATCCTTTATCACACAAAGTG
1 CATACACTTAGTATGA-TTCCTTATCATTTAGCACACTAAGTG
66957 ACATTTGGAA
Statistics
Matches: 312, Mismatches: 55, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
57 6 0.02
58 146 0.47
59 151 0.48
60 9 0.03
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (57 bp):
CATACACTTAGTATGATTCCTTATCATTTAGCACACTAAGTGCCCTATATGGAAATC
Found at i:66709 original size:117 final size:116
Alignment explanation
Indices: 66558--66931 Score: 529
Period size: 117 Copynumber: 3.2 Consensus size: 116
66548 CCCTATTCAA
* * ** *
66558 AAATCCATAC-CATTAGTATGAATT-CATTACCATTTTAGCACACGAAGTGCCCTATATGAAATT
1 AAATCCATACAC-TCAGTATG-ATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCTGAAA-T
** * ** *
66621 CCATACCCTT-AGTATGATCTCCTTATCATTTAGCACACTCAGTGCTTTATCTGG
63 CCATA-TATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
*
66675 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCC
1 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTAT-CTGAAATCC
66740 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
65 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
** *
66792 AAATTTATACACTCAGTATAATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCTGAAAATCC
1 AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCTG-AAATCC
*
66857 ATATATTCAATATGATCTCCTTATCATTTAGCACACTTAGTGCTCCATATGG
65 ATATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
66909 AAATCCATACACTCAGTATGATT
1 AAATCCATACACTCAGTATGATT
66932 TCCTGATCCT
Statistics
Matches: 232, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
116 7 0.03
117 220 0.95
118 5 0.02
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (116 bp):
AAATCCATACACTCAGTATGATTCCTTTACCATTTTAGCACATAAAGTGCCCTATCTGAAATCCA
TATATTCAATATGATCTCCTTATCATTTAGCACACTCAGTGCTCCATATGG
Found at i:66831 original size:176 final size:175
Alignment explanation
Indices: 66455--66891 Score: 437
Period size: 176 Copynumber: 2.5 Consensus size: 175
66445 CATACAATTT
* * *
66455 GTATAATTTCCTTACAATATTAGCACTCTCAGTGCTTTATCTGAAAGAT-CATACACTCAGTATG
1 GTATAA-TTCCTTACCATTTTAGCACACTCAGTGCTTTATCTGAAA-ATCCATACACTCAGTATG
* * * *
66519 ATTTCTCTTT-CATTTTAGTACATGAAGTGCCCTATTCAAAAATCCATACCATTAGTATGAATTC
64 A-TTC-CTTTACATTTTAGCACATAAAGTGCCCTATCCAAAAATCCATACCATTAATATGAATTC
* *
66583 ATTACCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACCCTTA
127 ATTACCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACACTCA
* * *
66632 GTATGATCTCCTTATCA-TTTAGCACACTCAGTGCTTTATCTGGAAATCCATACACTCAGTATGA
1 GTATAAT-TCCTTACCATTTTAGCACACTCAGTGCTTTATCTGAAAATCCATACACTCAGTATGA
** *
66696 TTCCTTTACCATTTTAGCACATAAAGTGCCCTATCCGGAAATCCATA-TATTCAATATG-ATCTC
65 TTCCTTTA-CATTTTAGCACATAAAGTGCCCTATCCAAAAATCCATACCATT-AATATGAAT-TC
* * ** *
66759 CTTATCA-TTTAGCACACTCAGTGCTCC-ATATGGAAATT-TATACACTCA
127 ATTACCATTTTAGCACACGAAGTGC-CCTATAT-GAAATTCCATACACTCA
* ** * * *
66807 GTATAATTCCTTTACCATTTTAGCACA-TAAAGTGCCCTATCTGAAAATCCATATATTCAATATG
1 GTATAATTCC-TTACCATTTTAGCACACT-CAGTGCTTTATCTGAAAATCCATACACTCAGTATG
66871 ATCTCC-TTATCA-TTTAGCACA
64 AT-TCCTTTA-CATTTTAGCACA
66892 CTTAGTGCTC
Statistics
Matches: 218, Mismatches: 30, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
174 7 0.03
175 57 0.26
176 139 0.64
177 15 0.07
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (175 bp):
GTATAATTCCTTACCATTTTAGCACACTCAGTGCTTTATCTGAAAATCCATACACTCAGTATGAT
TCCTTTACATTTTAGCACATAAAGTGCCCTATCCAAAAATCCATACCATTAATATGAATTCATTA
CCATTTTAGCACACGAAGTGCCCTATATGAAATTCCATACACTCA
Found at i:69087 original size:29 final size:30
Alignment explanation
Indices: 69024--69087 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
69014 TTACATAACA
* * * *
69024 ATCCATAACTTTTCCAAAATTATAAATTTG
1 ATCCCTAACTTTTCAAAAATTACAAATATG
69054 ATCCCTAACTTTTCAAAAATTACAAA-ATG
1 ATCCCTAACTTTTCAAAAATTACAAATATG
*
69083 GTCCC
1 ATCCC
69088 CCAAATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (30 bp):
ATCCCTAACTTTTCAAAAATTACAAATATG
Found at i:71620 original size:20 final size:20
Alignment explanation
Indices: 71595--71637 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
71585 GTGATTTTCT
71595 AAATTCGCAACAAAGAAGTC
1 AAATTCGCAACAAAGAAGTC
*
71615 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACAAAGAAGTC
71635 AAA
1 AAA
71638 GCGCGTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.21, G:0.14, T:0.14
Consensus pattern (20 bp):
AAATTCGCAACAAAGAAGTC
Found at i:72220 original size:34 final size:34
Alignment explanation
Indices: 72182--72252 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
72172 GCAAATTTAG
72182 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
1 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
*
72216 TTTCGTGTTACGATTTTGTCGTTGCGATTTTCAT
1 TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
72250 TTT
1 TTT
72253 TGCATTGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.11, C:0.15, G:0.20, T:0.54
Consensus pattern (34 bp):
TTTCGCGTTACGATTTTGTCGTTGCGATTTTCAT
Found at i:73989 original size:21 final size:21
Alignment explanation
Indices: 73965--74005 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73955 GAGTTAAGTG
* *
73965 ATGAGGTTGGTGCTTTACGTC
1 ATGAGGTCGGTACTTTACGTC
73986 ATGAGGTCGGTACTTTACGT
1 ATGAGGTCGGTACTTTACGT
74006 GAAGACAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.15, G:0.32, T:0.37
Consensus pattern (21 bp):
ATGAGGTCGGTACTTTACGTC
Found at i:74106 original size:62 final size:61
Alignment explanation
Indices: 73999--74117 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
73989 AGGTCGGTAC
* *
73999 TTTACGTGAAGACAATGGTGCGCTACGTGATGAGGTACGGTCTTTACATGGTGAGGTGGATT
1 TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTAC-GTCTTTACATGATGAGGTGGATT
* * *
74061 TTTACGCGATGACAATGGTGCGCTACGTGGTGAGGTATC-TACTTTACGTGATGAGGT
1 TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTA-CGT-CTTTACATGATGAGGT
74118 AGCCGCTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
61 1 0.02
62 48 0.96
63 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (61 bp):
TTTACGCGAAGACAATGGTGCGCTACGTGATGAGGTACGTCTTTACATGATGAGGTGGATT
Found at i:74455 original size:21 final size:21
Alignment explanation
Indices: 74441--74511 Score: 142
Period size: 21 Copynumber: 3.4 Consensus size: 21
74431 CCTCCTATCA
74441 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
74462 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
74483 TTCAAGAGGCCCCTCTCATCG
1 TTCAAGAGGCCCCTCTCATCG
74504 TTCAAGAG
1 TTCAAGAG
74512 CCTGATTCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCTCATCG
Found at i:76082 original size:20 final size:20
Alignment explanation
Indices: 76053--76108 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
76043 TTTTTCGTTA
*
76053 CGATAATCAAATTCGCAACG
1 CGATAGTCAAATTCGCAACG
* *
76073 CGATAGTCAAATTCGTAATG
1 CGATAGTCAAATTCGCAACG
*
76093 CGAAAGTCAAATTCGC
1 CGATAGTCAAATTCGC
76109 GTTTCGATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (20 bp):
CGATAGTCAAATTCGCAACG
Found at i:76503 original size:6 final size:6
Alignment explanation
Indices: 76494--76528 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
76484 TTGTGATTAG
**
76494 GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
76529 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:77351 original size:21 final size:20
Alignment explanation
Indices: 77265--77358 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
77255 AACTAAAACC
* *
77265 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAATTTGAAAATCG
**
77284 TGTTGCGAATTCAAAAATCG
1 TGTTGCGAATTTGAAAATCG
* *
77304 AGTTGCGAATTCGAAAATCG
1 TGTTGCGAATTTGAAAATCG
* *
77324 AGTTGCGAATTTGAAATTCAG
1 TGTTGCGAATTTGAAAATC-G
77345 TGTTGCGAATTTGA
1 TGTTGCGAATTTGA
77359 CTTCTTTGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
19 10 0.15
20 41 0.63
21 14 0.22
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
TGTTGCGAATTTGAAAATCG
Found at i:78675 original size:2 final size:2
Alignment explanation
Indices: 78670--78714 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
78660 TACTTTTTTA
78670 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78712 AT A
1 AT A
78715 AAGATGAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81990 original size:21 final size:21
Alignment explanation
Indices: 81966--82007 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
81956 TTTTTATTAA
81966 AATATGAATT-AAATCATATTT
1 AATATG-ATTCAAATCATATTT
81987 AATATGATTCAAATCATATTT
1 AATATGATTCAAATCATATTT
82008 TACGGGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
AATATGATTCAAATCATATTT
Done.