Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001931.1 Hibiscus syriacus cultivar Beakdansim tig00003909_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: 147640
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:8249 original size:21 final size:21
Alignment explanation
Indices: 8223--8273 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
8213 GTGCGATTCC
8223 ATTGCTTCAAATTCATAAACT
1 ATTGCTTCAAATTCATAAACT
*
8244 ATTGCTTCAAATTCATAAATT
1 ATTGCTTCAAATTCATAAACT
8265 ATTGCTTCA
1 ATTGCTTCA
8274 TCTGTCGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (21 bp):
ATTGCTTCAAATTCATAAACT
Found at i:10414 original size:28 final size:28
Alignment explanation
Indices: 10378--10478 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 28
10368 CATTAAAAAT
*
10378 ATATATTTTATTCTTATCATATATTAAA
1 ATATATTTTATTCTTATTATATATTAAA
* *
10406 ATATATTTTATTCTTATTTTAAATTAAAA
1 ATATATTTTATTCTTATTATATATT-AAA
*
10435 ATATATTTTAATTTTTATTA-ACT-TTAAA
1 ATATATTTT-ATTCTTATTATA-TATTAAA
* *
10463 ACATAATTTATTCTTA
1 ATATATTTTATTCTTA
10479 CTTTAATTGA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 6 0.10
28 32 0.52
29 15 0.25
30 8 0.13
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (28 bp):
ATATATTTTATTCTTATTATATATTAAA
Found at i:10462 original size:57 final size:59
Alignment explanation
Indices: 10369--10501 Score: 148
Period size: 57 Copynumber: 2.3 Consensus size: 59
10359 ACATCTAAAC
* * * *
10369 ATTAAAAATATATATTTTATTCTTATCATATATTAAAATATATTTTATTCTTATTTTAA
1 ATTAAAAATATATATTTAATTCTTATCATATATTAAAACATAATTTATTCTTACTTTAA
* *
10428 ATTAAAAATATAT-TTTAATTTTTATTA-ACT-TTAAAACATAATTTATTCTTACTTT-A
1 ATTAAAAATATATATTTAATTCTTATCATA-TATTAAAACATAATTTATTCTTACTTTAA
* *
10484 ATTGAAATATTTATATTT
1 ATT-AAAAATATATATTT
10502 TCTGGTAATA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
56 4 0.06
57 31 0.49
58 15 0.24
59 13 0.21
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (59 bp):
ATTAAAAATATATATTTAATTCTTATCATATATTAAAACATAATTTATTCTTACTTTAA
Found at i:10676 original size:30 final size:30
Alignment explanation
Indices: 10642--10761 Score: 109
Period size: 30 Copynumber: 4.0 Consensus size: 30
10632 TAACGATTAA
*
10642 TTAATAATTTAAGGTAAGACTAGAATATAT
1 TTAATAATTTAAGGTAAGAATAGAATATAT
* *
10672 TTAATAATTTAAGTTAAGAATATAATATAT
1 TTAATAATTTAAGGTAAGAATAGAATATAT
* **
10702 GTAATAATTTAAAATAA-AATA-AACTATATT
1 TTAATAATTTAAGGTAAGAATAGAA-TATA-T
* * * * *
10732 TTTATAAGTTAAGATAAAAATAAAATATAT
1 TTAATAATTTAAGGTAAGAATAGAATATAT
10762 ATTTTTAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
28 2 0.03
29 8 0.11
30 56 0.74
31 8 0.11
32 2 0.03
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (30 bp):
TTAATAATTTAAGGTAAGAATAGAATATAT
Found at i:10753 original size:31 final size:31
Alignment explanation
Indices: 10717--10790 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
10707 AATTTAAAAT
* *
10717 AAAATAAACTATAT-TTTTATAAGTTAAGATA
1 AAAATAAAATATATATTTT-TAAGATAAGATA
10748 AAAATAAAATATATATTTTTAAGATAAGATA
1 AAAATAAAATATATATTTTTAAGATAAGATA
* *
10779 AGATTAAAATAT
1 AAAATAAAATAT
10791 GTTAAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (31 bp):
AAAATAAAATATATATTTTTAAGATAAGATA
Found at i:10890 original size:29 final size:29
Alignment explanation
Indices: 10865--10938 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
10855 TATAATATAT
10865 ATAAAATATATTTTTAATTTAAAATAAGA
1 ATAAAATATATTTTTAATTTAAAATAAGA
* * *
10894 ATAAAATATATTTTAAAGTTAAGATAAGA
1 ATAAAATATATTTTTAATTTAAAATAAGA
10923 ATAAAATATATATTTT
1 ATAAAATATAT-TTTT
10939 TAATGTTTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 37 0.93
30 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (29 bp):
ATAAAATATATTTTTAATTTAAAATAAGA
Found at i:12058 original size:23 final size:22
Alignment explanation
Indices: 12014--12076 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
12004 CATAATATTT
*
12014 TATA-TATATTAACCTAACAAA
1 TATATTATATTAACTTAACAAA
* **
12035 TATTTTTATATTAACTTATTAAA
1 TA-TATTATATTAACTTAACAAA
12058 TATATTACTATTAACTTAA
1 TATATTA-TATTAACTTAA
12077 TTTAAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 26 0.79
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATTATATTAACTTAACAAA
Found at i:12081 original size:25 final size:23
Alignment explanation
Indices: 12043--12088 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
12033 AATATTTTTA
*
12043 TATTAACTTATTAAATATATTAC
1 TATTAACTTATTAAAAATATTAC
12066 TATTAACTTAATTTAAAAATATT
1 TATTAACTT-A-TTAAAAATATT
12089 TTATTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAACTTATTAAAAATATTAC
Found at i:14318 original size:3 final size:3
Alignment explanation
Indices: 14303--14387 Score: 86
Period size: 3 Copynumber: 29.0 Consensus size: 3
14293 TTATATCATT
* * *
14303 TTA TTA GTA TTA TTA TTT TTA TTA TTAA TT- TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* * *
14348 TTT TTA TTA TTG TTA TTA -TG TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14388 AATAATAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 5 0.08
3 58 0.88
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14336 original size:30 final size:30
Alignment explanation
Indices: 14300--14358 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
14290 TTTTTATATC
*
14300 ATTTTATTAGTATTATTATTTTTATTATTA
1 ATTTTATTAGTATTAATATTTTTATTATTA
*
14330 ATTTTATTATTATTAATATTTTTATTATT
1 ATTTTATTAGTATTAATATTTTTATTATT
14359 GTTATTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (30 bp):
ATTTTATTAGTATTAATATTTTTATTATTA
Found at i:15693 original size:25 final size:27
Alignment explanation
Indices: 15634--15697 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
15624 ATACTATAGT
15634 TTTAATT-TTATTTATTTTAGTCACTG
1 TTTAATTATTATTTATTTTAGTCACTG
*
15660 TTTAGTTATTATTTAATTTTA-T-A-TG
1 TTTAATTATTATTT-ATTTTAGTCACTG
15685 TTTAATTATTATT
1 TTTAATTATTATT
15698 ATTATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 14 0.41
26 7 0.21
27 7 0.21
28 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTAATTATTATTTATTTTAGTCACTG
Found at i:16621 original size:2 final size:2
Alignment explanation
Indices: 16614--16650 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16604 TTTATACTAT
16614 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 T
16651 TCTTCTTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18005 original size:43 final size:44
Alignment explanation
Indices: 17944--18027 Score: 125
Period size: 43 Copynumber: 1.9 Consensus size: 44
17934 TGGCTTTAGA
* *
17944 GAAGTTAGGAGGGAAAGTTATCCCCTATATGT-AAAGTTTTATT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTATT
* *
17987 GAAGTTAGGACTGAAAGTTGTCCCCTACATGTAAAAGTTTT
1 GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTT
18028 GTTTGATGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 28 0.78
44 8 0.22
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (44 bp):
GAAGTTAGGACGGAAAGTTATCCCCTACATGTAAAAGTTTTATT
Found at i:18128 original size:8 final size:7
Alignment explanation
Indices: 18104--18144 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
18094 TTTTCGTACA
18104 TGCA-TT
1 TGCATTT
18110 TGCATTT
1 TGCATTT
18117 TGCATCTT
1 TGCAT-TT
18125 TGCATTT
1 TGCATTT
*
18132 T-CATAT
1 TGCATTT
18138 TGCATTT
1 TGCATTT
18145 ATTGTTTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 9 0.30
7 14 0.47
8 7 0.23
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.54
Consensus pattern (7 bp):
TGCATTT
Found at i:18266 original size:20 final size:20
Alignment explanation
Indices: 18203--18271 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
18193 CATTCACATC
18203 TTTGCATTTGA-ATTTTCA--
1 TTTGCATTT-ACATTTTCATG
* *
18221 TTTGCATCTTTTCATTTTTATG
1 TTTGCA--TTTACATTTTCATG
* *
18243 TTTGTATTTACATTTTCATT
1 TTTGCATTTACATTTTCATG
18263 TTTGCATTT
1 TTTGCATTT
18272 GCATCTTTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.15
20 28 0.72
22 5 0.13
ACGTcount: A:0.17, C:0.12, G:0.09, T:0.62
Consensus pattern (20 bp):
TTTGCATTTACATTTTCATG
Found at i:24709 original size:75 final size:76
Alignment explanation
Indices: 24577--24738 Score: 227
Period size: 75 Copynumber: 2.1 Consensus size: 76
24567 ACAAGAAGCA
* * * *
24577 AATGATGGAGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATTGACACA-TTTTGAACGT
1 AATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACACATTTTTGAACGT
*
24641 TTGTATTAACC
66 TTGTACTAACC
* ***
24652 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATCAAGAATATTGATGTATTTTTGAACGT
1 AATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACACATTTTTGAACGT
*
24717 TTGTACTAGCC
66 TTGTACTAACC
24728 AATGTTGGGGC
1 AATGTTGGGGC
24739 TTGTTGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 46 0.61
76 30 0.39
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (76 bp):
AATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATCAAGAATATTGACACATTTTTGAACGT
TTGTACTAACC
Found at i:25040 original size:14 final size:14
Alignment explanation
Indices: 25021--25048 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25011 GGTCCCCATG
25021 TAGACCATTCGATC
1 TAGACCATTCGATC
25035 TAGACCATTCGATC
1 TAGACCATTCGATC
25049 CAGGATTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
TAGACCATTCGATC
Found at i:26128 original size:22 final size:22
Alignment explanation
Indices: 26106--26294 Score: 274
Period size: 22 Copynumber: 8.6 Consensus size: 22
26096 ATATCTACAT
* *
26106 TCTTCAAAGATGATAGCTACAT-
1 TCTTCAAAGATGATAGATTC-TC
26128 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
26150 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
26172 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
26194 TCTTCAAAGATGATAGCTACAT-
1 TCTTCAAAGATGATAGATTC-TC
*
26216 TCTTCAAAGATGATAGCTTCTC
1 TCTTCAAAGATGATAGATTCTC
*
26238 TCTTCAAAGAAGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
26260 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
26282 TTTTCAAAGATGA
1 TCTTCAAAGATGA
26295 AAGCTTTATT
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
21 2 0.01
22 150 0.98
23 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:26255 original size:88 final size:88
Alignment explanation
Indices: 26106--26299 Score: 343
Period size: 88 Copynumber: 2.2 Consensus size: 88
26096 ATATCTACAT
*
26106 TCTTCAAAGATGATAGCTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGATGATAGATTCT
1 TCTTCAAAGATGATAGCTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGAAGATAGATTCT
*
26171 CTCTTCAAAGATGATATATTCTC
66 CTCTTCAAAGATGATAGATTCTC
*
26194 TCTTCAAAGATGATAGCTACATTCTTCAAAGATGATAGCTTCTCTCTTCAAAGAAGATAGATTCT
1 TCTTCAAAGATGATAGCTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGAAGATAGATTCT
26259 CTCTTCAAAGATGATAGATTCTC
66 CTCTTCAAAGATGATAGATTCTC
* *
26282 TTTTCAAAGATGAAAGCT
1 TCTTCAAAGATGATAGCT
26300 TTATTAGATT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 101 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (88 bp):
TCTTCAAAGATGATAGCTACATTCTTCAAAGATGATAGATTCTCTCTTCAAAGAAGATAGATTCT
CTCTTCAAAGATGATAGATTCTC
Found at i:27772 original size:3 final size:3
Alignment explanation
Indices: 27757--27823 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
27747 TTATATCATT
* * * *
27757 TTA TTA GTA TTA TTA TTT TTA TTA TTA TTA ATA TTA TTA TTA TTA -TG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27804 TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
27824 AATAATAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 3 0.06
3 51 0.94
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:29131 original size:3 final size:3
Alignment explanation
Indices: 29123--29152 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
29113 TTTAAATGTT
29123 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29153 GTTAGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:29467 original size:146 final size:147
Alignment explanation
Indices: 29256--29524 Score: 402
Period size: 146 Copynumber: 1.8 Consensus size: 147
29246 AATCATATTT
* *
29256 TTAATATTTATTTATTTTTTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTATAAATCCTTTT
1 TTAATATTTATTTAATTTTTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTATAAATCATTTT
* * *
29321 CTGATA-TTCTTAAATAAATAAATATCCTATTTTTATAAATTAT-ATATTAATTTATTTTAATTA
66 CTGATATTTC-TAAATAAATAAATATCCTATTTATA-AAATTATAAAATTAATATATTTTAATTA
29384 CTTTTAGAGAAATGTTTTA
129 CTTTTAGAGAAATGTTTTA
* *
29403 TTAATATTTATTTAATTTTTAATATT-AAGAAATA-GGATGTCTTAAAGCACCTATAAGTCATTT
1 TTAATATTTATTTAATTTTTAATATTAAAGAAA-AGGGATGTCTTAAAGCAACTATAAATCATTT
* *
29466 TCTGATATTTCTAAGTAAATAAATATCTTATTTATAAAATTATAAAATTAATATATTTT
65 TCTGATATTTCTAAATAAATAAATATCCTATTTATAAAATTATAAAATTAATATATTTT
29525 TTCTTAAAAT
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
145 7 0.06
146 74 0.67
147 29 0.26
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (147 bp):
TTAATATTTATTTAATTTTTAATATTAAAGAAAAGGGATGTCTTAAAGCAACTATAAATCATTTT
CTGATATTTCTAAATAAATAAATATCCTATTTATAAAATTATAAAATTAATATATTTTAATTACT
TTTAGAGAAATGTTTTA
Found at i:29513 original size:28 final size:30
Alignment explanation
Indices: 29481--29547 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
29471 TATTTCTAAG
*
29481 TAAATAAATATCTTATTT-ATAAAATTATA
1 TAAATAAATATATTATTTCATAAAATTATA
* * *
29510 -AAATTAATATATTTTTTCTTAAAATTATA
1 TAAATAAATATATTATTTCATAAAATTATA
*
29539 TTAATAAAT
1 TAAATAAAT
29548 TTGAAATAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 14 0.47
29 10 0.33
30 6 0.20
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (30 bp):
TAAATAAATATATTATTTCATAAAATTATA
Found at i:35076 original size:20 final size:20
Alignment explanation
Indices: 35051--35092 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
35041 AGATAAACAA
*
35051 AAACAATGGTAAAAAACCGT
1 AAACAATGGCAAAAAACCGT
35071 AAACAATGGCAAAAAACCGT
1 AAACAATGGCAAAAAACCGT
35091 AA
1 AA
35093 GCTACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.17, G:0.14, T:0.12
Consensus pattern (20 bp):
AAACAATGGCAAAAAACCGT
Found at i:38598 original size:17 final size:18
Alignment explanation
Indices: 38559--38600 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
38549 GTGTAAAACT
38559 GTTGACTGACCGTTGACC
1 GTTGACTGACCGTTGACC
* * *
38577 ATTGACT-ACTGTTGATC
1 GTTGACTGACCGTTGACC
38594 GTTGACT
1 GTTGACT
38601 TTGATCAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (18 bp):
GTTGACTGACCGTTGACC
Found at i:39181 original size:26 final size:24
Alignment explanation
Indices: 39139--39191 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
39129 ATATTAAAGG
* *
39139 TACTCAGATGAGAAATTATGAGAA
1 TACTCAGATGAGAAATTACGAAAA
*
39163 TACTCTAGTTGAGTAAATTACGAAAA
1 TACTC-AGATGAG-AAATTACGAAAA
39189 TAC
1 TAC
39192 CCTTAAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (24 bp):
TACTCAGATGAGAAATTACGAAAA
Found at i:40901 original size:24 final size:24
Alignment explanation
Indices: 40874--40935 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
40864 CTGAATTTTG
*
40874 TTCTGATTTCTGATCTGGATCCTA
1 TTCTGATTTCTGATCTGAATCCTA
* * *
40898 TTCTGATATCTGATCTGAATTCTG
1 TTCTGATTTCTGATCTGAATCCTA
*
40922 TTTTGATTTCTGAT
1 TTCTGATTTCTGAT
40936 ATCCCCGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (24 bp):
TTCTGATTTCTGATCTGAATCCTA
Found at i:40905 original size:48 final size:49
Alignment explanation
Indices: 40827--40935 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 49
40817 AAATATTTTA
* * * *
40827 TCTGATTTCTGA-CTTGAATTCTGTTATGATA-CATTACCTGAATTTTGT
1 TCTGATTTCTGATCTTGAATCCTATTATGATATC-TGACCTGAATTCTGT
* * *
40875 TCTGATTTCTGATC-TGGATCCTATTCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATCCTATTATGATATCTGACCTGAATTCTGT
*
40923 TTTGATTTCTGAT
1 TCTGATTTCTGAT
40936 ATCCCCGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
48 49 0.96
49 2 0.04
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATCCTATTATGATATCTGACCTGAATTCTGT
Found at i:41102 original size:2 final size:2
Alignment explanation
Indices: 41095--41125 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
41085 GATGGGGGTG
41095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41126 TTTAAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42438 original size:20 final size:20
Alignment explanation
Indices: 42413--42453 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
42403 CCATTTGTCA
42413 TAAATCATTATCGTTCGTCG
1 TAAATCATTATCGTTCGTCG
* *
42433 TAAATCGTTGTCGTTCGTCG
1 TAAATCATTATCGTTCGTCG
42453 T
1 T
42454 TAATTTCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
TAAATCATTATCGTTCGTCG
Found at i:45254 original size:24 final size:24
Alignment explanation
Indices: 45224--45294 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
45214 ATACATTACT
45224 TGAATTATGTTTTGATTTCTGATC
1 TGAATTATGTTTTGATTTCTGATC
* * *
45248 TGGATTATGTTCTGATATCTGATC
1 TGAATTATGTTTTGATTTCTGATC
*
45272 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTATGTTTTGATTTCTGAT
45295 ATCTTCGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.20, C:0.10, G:0.18, T:0.52
Consensus pattern (24 bp):
TGAATTATGTTTTGATTTCTGATC
Found at i:47778 original size:20 final size:20
Alignment explanation
Indices: 47755--47793 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47745 TGGTTATAAA
47755 TATTATATTATAATTATTAC
1 TATTATATTATAATTATTAC
*
47775 TATTATATTATTATTATTA
1 TATTATATTATAATTATTA
47794 TTATAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATATTATAATTATTAC
Found at i:47786 original size:3 final size:3
Alignment explanation
Indices: 47755--47797 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
47745 TGGTTATAAA
* *
47755 TAT TA- TAT TAT AAT TAT TAC TAT TA- TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47798 AACAATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:47789 original size:17 final size:14
Alignment explanation
Indices: 47748--47810 Score: 63
Period size: 14 Copynumber: 4.2 Consensus size: 14
47738 TTTGTCATGG
*
47748 TTATAAATATTATA
1 TTATAATTATTATA
47762 TTATAATTATTACTA
1 TTATAATTATTA-TA
47777 TTATATTATTATTATTA
1 TTATA--ATTATTA-TA
**
47794 TTATAACAATTATA
1 TTATAATTATTATA
47808 TTA
1 TTA
47811 GTATTAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 16 0.38
15 12 0.29
17 14 0.33
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATTATA
Found at i:47796 original size:26 final size:25
Alignment explanation
Indices: 47754--47816 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
47744 ATGGTTATAA
* *
47754 ATATTATATTATAATTATTACTATT
1 ATATTATATTATAATTATAACAATT
*
47779 ATATTATTATTATTATTATAACAATT
1 ATATTA-TATTATAATTATAACAATT
47805 ATATTAGTATTA
1 ATATTA-TATTA
47817 ATATCATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 6 0.18
26 27 0.82
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (25 bp):
ATATTATATTATAATTATAACAATT
Found at i:61708 original size:48 final size:48
Alignment explanation
Indices: 61648--61749 Score: 197
Period size: 48 Copynumber: 2.1 Consensus size: 48
61638 TATTGTCACC
61648 AACTAATGGCATAATTGTAGCCTATTTCTATTTGATCATTGTTTTGTT
1 AACTAATGGCATAATTGTAGCCTATTTCTATTTGATCATTGTTTTGTT
61696 AACTAATGGCATAATTGTAGCCTATTTCTATTTGATCATTGTTTTGTT
1 AACTAATGGCATAATTGTAGCCTATTTCTATTTGATCATTGTTTTGTT
61744 AA-TAAT
1 AACTAAT
61750 TATGACAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 4 0.07
48 50 0.93
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (48 bp):
AACTAATGGCATAATTGTAGCCTATTTCTATTTGATCATTGTTTTGTT
Found at i:63956 original size:106 final size:104
Alignment explanation
Indices: 63807--64266 Score: 438
Period size: 106 Copynumber: 4.4 Consensus size: 104
63797 ATTGATTATT
* * * * * * * * *
63807 AAAAATACCTAGTGTGGCACCATTGATGGTCACATAATGTATTTTCAGTGTCGAACAAATTCGTC
1 AAAAATACTTAATGTGACAACATTGATGGTCACAAAATATATTTTTAGTGTCAAACAAATTCATC
* * * **
63872 ATAATTTCTATTCATAATAGTGTCAAACATTTGGTTGCTA
66 ACAATTT-TATTGATAATAGTATCAAACATTTGGTCACTA
* * * * * *
63912 CAAAAATAATTATTGTGATAATATTTATGGTCACAAAATATATTTTAAGTGTCAAACAAAGTT-A
1 -AAAAATACTTAATGTGACAACATTGATGGTCACAAAATATATTTTTAGTGTCAAACAAA-TTCA
* * * * * *
63976 TCACAATTTTTATTGGTTATAGTACCGAACATGTGATCACTA
64 TCACAA-TTTTATTGATAATAGTATCAAACATTTGGTCACTA
* * *
64018 AAACAATATTTAATGTGGCAACATTGATGGTCACAAAATAAATTTTTAG-GTCAAACAAATTCAT
1 AAA-AATACTTAATGTGACAACATTGATGGTCACAAAATATATTTTTAGTGTCAAACAAATTCAT
* * * * *
64082 CACAAATTTTATTGAGAGTAGTGTCGAATATTTGGTCACTA
65 CAC-AATTTTATTGATAATAGTATCAAACATTTGGTCACTA
* * * * *
64123 GAATAATACTTAATGTGACAACATTGATGGTCACAAAATAGATTTTTAGTGTTAAATAAATTTAT
1 -AAAAATACTTAATGTGACAACATTGATGGTCACAAAATATATTTTTAGTGTCAAACAAATTCAT
* *
64188 CACAATTTGTATTGATAATAGTATCAAATATTTGGTCATTA
65 CACAATTT-TATTGATAATAGTATCAAACATTTGGTCACTA
* *
64229 AAAAATACTTAGTGTGACAATATTGATGGTCACGAAAA
1 AAAAATACTTAATGTGACAACATTGATGGTCAC-AAAA
64267 AAATGACCAA
Statistics
Matches: 289, Mismatches: 56, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
104 2 0.01
105 121 0.42
106 161 0.56
107 5 0.02
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (104 bp):
AAAAATACTTAATGTGACAACATTGATGGTCACAAAATATATTTTTAGTGTCAAACAAATTCATC
ACAATTTTATTGATAATAGTATCAAACATTTGGTCACTA
Found at i:64156 original size:211 final size:211
Alignment explanation
Indices: 63807--64270 Score: 502
Period size: 211 Copynumber: 2.2 Consensus size: 211
63797 ATTGATTATT
* * * * ** * *
63807 AAAAATACCTAGTGTGGCACCATTGATGGTCACATAATGTATTTTCAGTGTCGAACAAATTCGTC
1 AAAAATACTTAATGTGGCAACATTGATGGTCACAAAATAAATTTTCAGTGTCAAACAAATTCATC
* * ** * * *
63872 ATAATTTCTATTCATAATAGTGTCAAACATTTGGTTGCTACAAAAATAATTATTGTGATAATATT
66 AAAATTTCTATTCAGAATAGTGTCAAACATTTGGTCACTACAAAAATAATTAATGTGACAACATT
* * * * *
63937 TATGGTCACAAAATATATTTTAAGTGTCAAACAAAGTTATCACAATTTTTATTGGTTATAGTACC
131 GATGGTCACAAAATAGATTTTAAGTGTCAAACAAAGTTATCACAATTTGTATTGATAATAGTACC
*
64002 GAACATGTGATCACTA
196 AAACATGTGATCACTA
* *
64018 AAACAATATTTAATGTGGCAACATTGATGGTCACAAAATAAATTTTTAG-GTCAAACAAATTCAT
1 AAA-AATACTTAATGTGGCAACATTGATGGTCACAAAATAAATTTTCAGTGTCAAACAAATTCAT
* * * * * * *
64082 CACAAATTT-TATTGAGAGTAGTGTCGAATATTTGGTCACTAGAATAATACTTAATGTGACAACA
65 CA-AAATTTCTATTCAGAATAGTGTCAAACATTTGGTCACTACAAAAATAATTAATGTGACAACA
* * * *
64146 TTGATGGTCACAAAATAGATTTTTAGTGTTAAATAAATTTATCACAATTTGTATTGATAATAGTA
129 TTGATGGTCACAAAATAGATTTTAAGTGTCAAACAAAGTTATCACAATTTGTATTGATAATAGTA
* * * * *
64211 TCAAATATTTGGTCATTA
194 CCAAACATGTGATCACTA
* * *
64229 AAAAATACTTAGTGTGACAATATTGATGGTCACGAAAA-AAAT
1 AAAAATACTTAATGTGGCAACATTGATGGTCAC-AAAATAAAT
64271 GACCAATTGT
Statistics
Matches: 207, Mismatches: 43, Indels: 7
0.81 0.17 0.03
Matches are distributed among these distances:
210 30 0.14
211 135 0.65
212 42 0.20
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (211 bp):
AAAAATACTTAATGTGGCAACATTGATGGTCACAAAATAAATTTTCAGTGTCAAACAAATTCATC
AAAATTTCTATTCAGAATAGTGTCAAACATTTGGTCACTACAAAAATAATTAATGTGACAACATT
GATGGTCACAAAATAGATTTTAAGTGTCAAACAAAGTTATCACAATTTGTATTGATAATAGTACC
AAACATGTGATCACTA
Found at i:69611 original size:20 final size:20
Alignment explanation
Indices: 69586--69678 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
69576 TTTTCCCAAT
69586 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
69606 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
69626 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
69647 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
69668 TCGCAATGCGA
1 TCGCAATGCGA
69679 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:69628 original size:41 final size:41
Alignment explanation
Indices: 69583--69678 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
69573 CGATTTTCCC
69583 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
69624 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
69665 AAATCGCAATGCGA
1 AATTCGCAATGCGA
69679 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:69632 original size:21 final size:20
Alignment explanation
Indices: 69586--69678 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
69576 TTTTCCCAAT
*
69586 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
69606 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
69626 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
69647 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
69668 TCGCAATGCGA
1 TCGCAATGCGA
69679 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:69692 original size:20 final size:20
Alignment explanation
Indices: 69667--69760 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
69657 AATTGGGAAA
*
69667 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
69687 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
69708 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
69728 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
69748 TTCGCAACGCGAT
1 ATCGCAACGCGAT
69761 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:69741 original size:41 final size:41
Alignment explanation
Indices: 69664--69741 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
69654 GCGAATTGGG
* * **
69664 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
69705 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
69742 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:70337 original size:18 final size:19
Alignment explanation
Indices: 70314--70357 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
70304 GCAACGAGAT
*
70314 AATCGCAACGCGAAA-TAA
1 AATCGCAACGCGAAACCAA
70332 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
70351 AATCGCA
1 AATCGCA
70358 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:70375 original size:19 final size:19
Alignment explanation
Indices: 70353--70537 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
70343 GAAACCAAAA
*
70353 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
70372 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
70391 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
70410 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
70430 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
70446 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
70463 TCACGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
70477 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
70496 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
70516 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
70536 TC
1 TC
70538 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
19 60 0.44
20 49 0.36
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:70430 original size:39 final size:38
Alignment explanation
Indices: 70353--70442 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 38
70343 GAAACCAAAA
* *
70353 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
70391 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATT
70430 TCGCGTTGCGATT
1 TCGCGTTGCGATT
70443 GTCTGGTCGC
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 21 0.43
39 28 0.57
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (38 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATT
Found at i:70462 original size:33 final size:33
Alignment explanation
Indices: 70425--70512 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
70415 GTTGCGATTT
* *
70425 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* *
70458 TCATTTCACGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
70491 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
70513 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:70514 original size:20 final size:20
Alignment explanation
Indices: 70480--70537 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
70470 GCGATTCTCT
**
70480 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
70500 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
70520 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
70538 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:72615 original size:21 final size:21
Alignment explanation
Indices: 72591--72657 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
72581 TCATTCCTCG
72591 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
72612 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
72633 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
72654 AGAG
1 AGAG
72658 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:72615 original size:42 final size:42
Alignment explanation
Indices: 72564--72657 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
72554 CCACTCATAT
* *
72564 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
72606 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
72648 CATTCAAGAG
1 CGTTCAAGAG
72658 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:75171 original size:21 final size:21
Alignment explanation
Indices: 75105--75171 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
75095 GTGAATCGGG
*
75105 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
75125 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
75147 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
75168 CTCT
1 CTCT
75172 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:77340 original size:19 final size:19
Alignment explanation
Indices: 77223--77407 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
77213 TCTTTTGGTT
*
77223 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
77242 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
77262 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
77280 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
77296 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
77314 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
77329 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
77349 AAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
77368 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
77387 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
77406 GA
1 GA
77408 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 61 0.45
20 44 0.32
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:77372 original size:39 final size:38
Alignment explanation
Indices: 77223--77407 Score: 158
Period size: 33 Copynumber: 5.1 Consensus size: 38
77213 TCTTTTGGTT
*
77223 GAAATGAAAATCGCAACG-AGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCA-A-AATGAAAATCGCAACGC
** *
77262 GGAAATGACTATCGCAACG----A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCAAAATGAAAATCGCAACGC
** * *
77296 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCAAAATGAAAATCGCAACGC
*
77329 GAAATGAAAATCGCAACCGCAAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCAAAATGAAAATCGCAACGC
* *
77368 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCAAAATGAAAATCGCAACGC
77406 GA
1 GA
77408 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
33 43 0.34
34 15 0.12
35 2 0.02
38 22 0.17
39 28 0.22
40 16 0.13
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCAAAATGAAAATCGCAACGC
Found at i:77436 original size:19 final size:19
Alignment explanation
Indices: 77403--77447 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
77393 AAAATCGCAA
*
77403 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
77422 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
77441 TGCGATT
1 TGCGATT
77448 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:78083 original size:20 final size:20
Alignment explanation
Indices: 77998--78091 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
77988 CGCTAAGTAA
*
77998 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
78018 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
78038 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
78059 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
78079 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
78092 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:78110 original size:41 final size:41
Alignment explanation
Indices: 78080--78175 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
78070 ATAGTCAGTA
* * *
78080 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
78121 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
78162 TCGCATTGCGAATT
1 TCGCATTGCGAATT
78176 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:78124 original size:20 final size:20
Alignment explanation
Indices: 78080--78172 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
78070 ATAGTCAGTA
* **
78080 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
78101 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
78121 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
78142 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
78162 TCGCATTGCGA
1 TCGCATTGCGA
78173 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:80558 original size:13 final size:13
Alignment explanation
Indices: 80550--80585 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
80540 TCTATGACGT
80550 ACATTTATGACAC
1 ACATTTATGACAC
80563 ACATTTATGACAC
1 ACATTTATGACAC
* *
80576 TCATTAATGA
1 ACATTTATGA
80586 TGTTCATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (13 bp):
ACATTTATGACAC
Found at i:80757 original size:2 final size:2
Alignment explanation
Indices: 80750--80828 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
80740 TTTCATAAAT
80750 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80792 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 T
80829 TAGATTGACA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84049 original size:91 final size:91
Alignment explanation
Indices: 83884--84053 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 91
83874 ACCTTCAAGA
*
83884 AAAAAACAACAACAAATGATGTAAAACAGTTGACAATGAATATATACTTAACATATTTGTTTAAG
1 AAAAAACAACAACAAAAGATGTAAAACAGTTGACAATGAATATATACTTAACATATTTGTTTAAG
83949 GCCTACATAAAAGAATGAAAGATCAT
66 GCCTACATAAAAGAATGAAAGATCAT
* * * *
83975 AAAATACAACAACAAAAGATGTCAAACAGTTGA-TATGTAAT-TAATATTTAACATATTTGTTTA
1 AAAAAACAACAACAAAAGATGTAAAACAGTTGACAATG-AATAT-ATACTTAACATATTTGTTTA
*
84038 AGGCCTGCATAAAAGA
64 AGGCCTACATAAAAGA
84054 TCATAAACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
90 4 0.06
91 67 0.94
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (91 bp):
AAAAAACAACAACAAAAGATGTAAAACAGTTGACAATGAATATATACTTAACATATTTGTTTAAG
GCCTACATAAAAGAATGAAAGATCAT
Found at i:90639 original size:21 final size:21
Alignment explanation
Indices: 90607--90647 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
90597 AAATGATGAA
90607 TGATGTTGTGTTAATACTATG
1 TGATGTTGTGTTAATACTATG
*
90628 TGATGCTT-TGTTAATTCTAT
1 TGATG-TTGTGTTAATACTAT
90648 CCGAGTGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (21 bp):
TGATGTTGTGTTAATACTATG
Found at i:92807 original size:64 final size:64
Alignment explanation
Indices: 92730--92856 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
92720 TCCATCGATT
*
92730 ATCTTTAATATGTTGTAATTGTTTAAGCTGTAAATATTTTGAATTTAAACATTCTTGATAGTTG
1 ATCTTTAACATGTTGTAATTGTTTAAGCTGTAAATATTTTGAATTTAAACATTCTTGATAGTTG
92794 ATCTTTAACATGTTGTAATTGTTTAAGCTGTAAATATTTTGAATTTAAACATTCTTGATAGTT
1 ATCTTTAACATGTTGTAATTGTTTAAGCTGTAAATATTTTGAATTTAAACATTCTTGATAGTT
92857 AAATTGCATG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (64 bp):
ATCTTTAACATGTTGTAATTGTTTAAGCTGTAAATATTTTGAATTTAAACATTCTTGATAGTTG
Found at i:94376 original size:26 final size:26
Alignment explanation
Indices: 94346--94399 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
94336 TTAGTTTTGC
94346 TTTGTTACTTTGTTTTAATAAAAGTT
1 TTTGTTACTTTGTTTTAATAAAAGTT
94372 TTTGTTACTTTGTTTTAATAAAAGTT
1 TTTGTTACTTTGTTTTAATAAAAGTT
94398 TT
1 TT
94400 CTCTTTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.59
Consensus pattern (26 bp):
TTTGTTACTTTGTTTTAATAAAAGTT
Found at i:101771 original size:3 final size:3
Alignment explanation
Indices: 101755--101836 Score: 85
Period size: 3 Copynumber: 26.7 Consensus size: 3
101745 TTTGGGCTTG
* * * *
101755 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAT TAC TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
101802 TAA TAA TTA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
101837 TTTAAATGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
2 2 0.03
3 57 0.86
4 7 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:102297 original size:116 final size:115
Alignment explanation
Indices: 102093--102470 Score: 557
Period size: 116 Copynumber: 3.3 Consensus size: 115
102083 TTGTGAACTT
* * * * *
102093 CTTCTTCAGAT--GAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAGTGAT
1 CTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGAT
* * * * * * *
102155 GGATTTGAGCAAAAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTT
65 GAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
102206 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGAT
1 CTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGAT
* *
102271 GAATTCAAACAAAATGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
65 GAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
102322 CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGAT
1 CTTCTTCAGATGA-GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGAT
*
102387 GAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC
65 GAATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
*
102438 CTTCTTCAGATGA-TGTTCTTCTCATTATGAACT
1 CTTCTTCAGATGAGAGTTCTTCTCATTATGAACT
102471 TCTTCTTCCT
Statistics
Matches: 244, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
113 11 0.05
114 19 0.08
116 212 0.87
117 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (115 bp):
CTTCTTCAGATGAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATG
AATTTAAACAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
Found at i:102456 original size:41 final size:40
Alignment explanation
Indices: 102409--102511 Score: 188
Period size: 41 Copynumber: 2.5 Consensus size: 40
102399 AAAGTTGAAC
102409 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
102449 GATGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
1 -AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
102490 AAGTTCTTCTCATTATGAACTT
1 AAGTTCTTCTCATTATGAACTT
102512 TCTCTTGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
40 21 0.35
41 39 0.65
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (40 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:102551 original size:154 final size:157
Alignment explanation
Indices: 102296--102626 Score: 544
Period size: 154 Copynumber: 2.1 Consensus size: 157
102286 GTTGAACAAA
102296 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCTAC
* * *
102361 CTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
65 CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
*
102426 AACTTCTTCTTCCTTCTTCAGATGA-TG
130 AACTTCTTCTTCCTTCTTCAGATGACAG
*
102453 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-AGTTCTTCTCATTATGAACT-TTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTAC-
* *
102515 CTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
65 CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
102580 AACTTCTTCTTCCTTCTTCAGATGACGAG
130 AACTTCTTCTTCCTTCTTCAGATGAC-AG
102609 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
102627 CTACCTGGCA
Statistics
Matches: 164, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
153 2 0.01
154 105 0.64
156 20 0.12
157 37 0.23
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.40
Consensus pattern (157 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTACC
TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGACAG
Found at i:102578 original size:113 final size:113
Alignment explanation
Indices: 102452--102780 Score: 480
Period size: 116 Copynumber: 2.9 Consensus size: 113
102442 TTCAGATGAT
*
102452 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-AAGTTCTTCTCATTATGAACTTTCTC
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAAGTTCTTCTCATTATGAACTTAC-C
* *
102516 TTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAA
65 TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
102565 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTA
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA--AGTTCTTCTCATTATGAACT-TA
* * *
102630 CCTGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAAGTTGAACAA
63 CCTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
*
102681 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGTTCTTCTCATTATGAACTTGACC
1 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAAGTTCTTCTCATTATGAACTT-ACC
* * * ** * *
102746 TAGTAATGTTGATCCATTGAATGATGGATTTAAAC
65 TGGAAATGATGATCCATCAAATGATGAATTCAAAC
102781 TTTGCTAAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
113 39 0.20
114 53 0.27
116 105 0.53
117 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (113 bp):
GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAAGTTCTTCTCATTATGAACTTACCT
GGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAA
Found at i:102664 original size:270 final size:272
Alignment explanation
Indices: 102180--102741 Score: 1004
Period size: 270 Copynumber: 2.1 Consensus size: 272
102170 GTTGAATAAA
* *
102180 TTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC-AGTTCTTCTCATTATGAACTCTAC
* * *
102245 CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAATGTTGAACAAATTCTTCTCATTATG
65 CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATG
102310 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGAT
130 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGAT
102375 CCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
195 CCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
102440 TCTTCAGATGATG
260 TCTTCAGATGATG
*
102453 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A-AGTTCTTCTCATTATGAACT-TTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTAC-
* * *
102515 CTTGAAATGATGATCCATCGAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
65 CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATG
102580 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGAT
130 AACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGAT
102645 CCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
195 CCATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCT
102710 TCTTCAGATGATG
260 TCTTCAGATGATG
102723 TTCTTCTCATTATGAACTT
1 TTCTTCTCATTATGAACTT
102742 GACCTAGTAA
Statistics
Matches: 279, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
269 2 0.01
270 241 0.86
272 1 0.00
273 35 0.13
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (272 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACAGTTCTTCTCATTATGAACTCTACC
TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATC
CATCAAATGATGAATTTAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
CTTCAGATGATG
Found at i:103203 original size:22 final size:22
Alignment explanation
Indices: 103178--103232 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
103168 GATAAAGCTT
*
103178 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
103200 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
103222 TCGTCTTTGAA
1 TCATCTTTGAA
103233 GAGTGTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:103682 original size:54 final size:54
Alignment explanation
Indices: 103600--103755 Score: 258
Period size: 54 Copynumber: 2.9 Consensus size: 54
103590 ATAATAGCAG
* ** *
103600 GTTCGTAAAACATTTGACAGCGTATTCATCCTTTCATGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
103654 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTATGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
*
103708 GTTCGTAAAATATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
103756 CAAGATTTCT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:108220 original size:18 final size:19
Alignment explanation
Indices: 108185--108222 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
108175 CTTGATTCAA
* *
108185 TTTTTTTCTTTTTCTTCTT
1 TTTTTTTCCTTCTCTTCTT
108204 TTTTTTTCCTTCT-TTCTT
1 TTTTTTTCCTTCTCTTCTT
108222 T
1 T
108223 GCTGGATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTTCCTTCTCTTCTT
Found at i:111461 original size:14 final size:14
Alignment explanation
Indices: 111419--111461 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
111409 CAAAGATGCC
*
111419 AAATGCAAATGTAA
1 AAATGTAAATGTAA
* * *
111433 ATATGTGAATATAA
1 AAATGTAAATGTAA
111447 AAATGTAAATGTAA
1 AAATGTAAATGTAA
111461 A
1 A
111462 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.14, T:0.28
Consensus pattern (14 bp):
AAATGTAAATGTAA
Found at i:115238 original size:3 final size:3
Alignment explanation
Indices: 115222--115308 Score: 88
Period size: 3 Copynumber: 28.7 Consensus size: 3
115212 TTTGGGCTTG
* * * *
115222 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAT TAC TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
*
115269 TAA TAA TTA TAA TAA TAA TAA TAA T-A TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
115309 TTTAAATGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
2 4 0.06
3 59 0.84
4 7 0.10
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:118745 original size:29 final size:29
Alignment explanation
Indices: 118689--118745 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
118679 ATATTTTTAT
* *
118689 CCCTTAAAATTTTATAAGTTTAAATTCAC
1 CCCTTAAAATTTTATAAATTCAAATTCAC
*
118718 CCCTTAAAATTTTATAAATTCAACTTCA
1 CCCTTAAAATTTTATAAATTCAAATTCA
118746 TTCATCCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.19, G:0.02, T:0.40
Consensus pattern (29 bp):
CCCTTAAAATTTTATAAATTCAAATTCAC
Found at i:119285 original size:3 final size:3
Alignment explanation
Indices: 119277--119343 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
119267 AGAGATGCAA
119277 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
119325 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
119344 GTTTTTATCC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:122303 original size:20 final size:20
Alignment explanation
Indices: 122278--122329 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
122268 AATTGTCCCT
* *
122278 AGTATCGATACTA-ACCCTTG
1 AGTATCGATACCAGACCC-CG
122298 AGTATCGATACCAGACCCCG
1 AGTATCGATACCAGACCCCG
122318 AGTATCGATACC
1 AGTATCGATACC
122330 CCTTGAAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (20 bp):
AGTATCGATACCAGACCCCG
Found at i:124630 original size:34 final size:34
Alignment explanation
Indices: 124587--124670 Score: 150
Period size: 34 Copynumber: 2.5 Consensus size: 34
124577 ACCCGACCCG
*
124587 AAATATTATATATATAATTAATATAAAATATAAA
1 AAATATTATATATATAATTAATATAAAAAATAAA
*
124621 AAATATTATATATCTAATTAATATAAAAAATAAA
1 AAATATTATATATATAATTAATATAAAAAATAAA
124655 AAATATTATATATATA
1 AAATATTATATATATA
124671 TAATCAGGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATATTATATATATAATTAATATAAAAAATAAA
Found at i:126364 original size:20 final size:20
Alignment explanation
Indices: 126339--126630 Score: 261
Period size: 20 Copynumber: 14.5 Consensus size: 20
126329 GATTTTCCAG
* *
126339 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGTA
* **
126359 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAATACGTA
*
126379 AATCGCAACGCG-ATTC-TGA
1 AATCGCAACGCGAATACGT-A
* * * *
126398 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATACGT-A
* *
126420 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGTA
126440 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACGT-A
*
126461 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
*
126481 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGTA
*
126501 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GTA
* *
126521 AATCGCAACGAGAATATGTA
1 AATCGCAACGCGAATACGTA
*
126541 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
126561 AATCTCAATGCAAATACGTA
1 AATCGCAACGCGAATACGTA
*
126581 AATCGCAATGCGAATACGTA
1 AATCGCAACGCGAATACGTA
* * *
126601 AATCGCAATGCAAATATGTA
1 AATCGCAACGCGAATACGTA
126621 AATCGCAACG
1 AATCGCAACG
126631 AGATTCTGAC
Statistics
Matches: 229, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.00
19 3 0.01
20 186 0.81
21 37 0.16
22 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATACGTA
Found at i:127506 original size:24 final size:24
Alignment explanation
Indices: 127488--127534 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
127478 AGTCAGTATT
127488 CGAAATTTGATCTTGGTCAATACC
1 CGAAATTTGATCTTGGTCAATACC
* *
127512 CGGACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
127535 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:127539 original size:24 final size:24
Alignment explanation
Indices: 127493--127546 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
127483 GTATTCGAAA
127493 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
127517 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
127541 TTTGAT
1 TTTGAT
127547 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:130101 original size:14 final size:14
Alignment explanation
Indices: 130082--130168 Score: 57
Period size: 14 Copynumber: 5.5 Consensus size: 14
130072 GGAAATTACT
130082 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
130096 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
130115 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
130129 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
*
130148 ATCGCAACGAGGGA
1 ATCGCAACGAGAGA
130162 ATCGCAA
1 ATCGCAA
130169 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 26 0.45
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.44, C:0.20, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:130119 original size:19 final size:19
Alignment explanation
Indices: 130095--130187 Score: 89
Period size: 19 Copynumber: 5.4 Consensus size: 19
130085 GCAACGAGAG
130095 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
130114 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
130128 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
**
130147 AATCGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
130161 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
130180 AATCGCAA
1 AATCGCAA
130188 CACGAATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 19 0.33
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 27 0.47
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:130119 original size:33 final size:33
Alignment explanation
Indices: 130082--130188 Score: 205
Period size: 33 Copynumber: 3.2 Consensus size: 33
130072 GGAAATTACT
130082 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
130115 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
*
130148 ATCGCAACGAGGGAATCGCAATGCGAAATGAAA
1 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
130181 ATCGCAAC
1 ATCGCAAC
130189 ACGAATTTAG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 73 1.00
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:130216 original size:19 final size:19
Alignment explanation
Indices: 130194--130265 Score: 82
Period size: 19 Copynumber: 4.1 Consensus size: 19
130184 GCAACACGAA
130194 TTTAGTTTCGCGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
*
130213 TTTAGTTTCGCGTTGCAAT
1 TTTAGTTTCGCGTTGCGAT
130232 TTT-G--T--CGTTGCGAT
1 TTTAGTTTCGCGTTGCGAT
* *
130246 TTTAATTTCGCATTGCGAT
1 TTTAGTTTCGCGTTGCGAT
130265 T
1 T
130266 CTCTTGTTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 11 0.25
16 1 0.02
17 1 0.02
18 1 0.02
19 30 0.68
ACGTcount: A:0.14, C:0.15, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTAGTTTCGCGTTGCGAT
Found at i:130295 original size:33 final size:32
Alignment explanation
Indices: 130204--130297 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 32
130194 TTTAGTTTCG
* * * *
130204 CGTTGCGATTTTAGTTTCGCGTTGCAATTTTGT
1 CGTTGCGATTTTA-TTTCGCATTGCGATTCTCT
130237 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTT-ATTTCGCATTGCGATTCTCT
*
130270 TGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTT-ATTTCGCATTGCGAT
130298 AGTAATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 53 0.98
34 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.47
Consensus pattern (32 bp):
CGTTGCGATTTTATTTCGCATTGCGATTCTCT
Found at i:130296 original size:19 final size:19
Alignment explanation
Indices: 130239--130297 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
130229 AATTTTGTCG
*
130239 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
130258 TTGCGATTCTC--TT-G--
1 TTGCGATTTTCATTTCGCA
130272 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
130291 TTGCGAT
1 TTGCGAT
130298 AGTAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
16 3 0.09
17 3 0.09
19 16 0.50
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:130423 original size:14 final size:14
Alignment explanation
Indices: 130404--130440 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
130394 CATCAATTAA
130404 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
130418 ACAAATCATCTTTT
1 ACAAATCAACTTTT
130432 ACAAATCAA
1 ACAAATCAA
130441 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:131856 original size:21 final size:21
Alignment explanation
Indices: 131790--131856 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
131780 GTGAATCGGG
*
131790 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
131810 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
131832 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
131853 CTCT
1 CTCT
131857 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:131875 original size:42 final size:41
Alignment explanation
Indices: 131790--131912 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
131780 GTGAATCGGG
* * * *
131790 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
131832 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
131874 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
131913 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:133905 original size:20 final size:20
Alignment explanation
Indices: 133880--133961 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
133870 TTTTGGTTGA
133880 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
133900 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
** *
133919 AAATGACTATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
133939 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
133959 AAT
1 AAT
133962 CGCAACGCGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.32
20 36 0.68
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:133922 original size:40 final size:39
Alignment explanation
Indices: 133878--133954 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 39
133868 TCTTTTGGTT
133878 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGCG
1 GAAATGAAAATCGCAACGAGA-AATGAAAATCGCAACGCG
** *
133918 GAAATGACTATCGCAACGCGAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACG
133955 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.47
40 18 0.53
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAAATGAAAATCGCAACGCG
Found at i:133942 original size:19 final size:19
Alignment explanation
Indices: 133878--134018 Score: 140
Period size: 19 Copynumber: 7.8 Consensus size: 19
133868 TCTTTTGGTT
*
133878 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
133897 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
133917 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
133937 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
133954 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
133970 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
133987 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
134003 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
134019 TGTGATTTTG
Statistics
Matches: 99, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.19
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 35 0.35
20 31 0.31
21 2 0.02
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:133964 original size:14 final size:14
Alignment explanation
Indices: 133945--134001 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
133935 GCGAAATGAA
133945 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
133959 AATCGCAACGCGAAATTAA
1 AATCGCAA--CG--A-GAG
133978 AATCGCAACGAGAG
1 AATCGCAACGAGAG
133992 AATCGCAACG
1 AATCGCAACG
134002 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:133969 original size:33 final size:33
Alignment explanation
Indices: 133886--134018 Score: 176
Period size: 33 Copynumber: 3.8 Consensus size: 33
133876 TTGAAATGAA
* *
133886 AATCGCAACGAGAGAATGAAAATCGCAACGCGGAAATG
1 AATCGCAACGCGA-AATGAAAATCGCAA--C-GAGA-G
133924 ACTATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 A--ATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
133959 AATCGCAACGCGAAATTAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
133992 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
134019 TGTGATTTTG
Statistics
Matches: 89, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
33 57 0.64
35 2 0.02
36 3 0.03
37 1 0.01
38 1 0.01
39 14 0.16
40 11 0.12
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:134067 original size:33 final size:33
Alignment explanation
Indices: 134019--134086 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
134009 AAAATCGCAA
**
134019 TGTGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGTGATTTTCATTTCGCGTTGCGATTATCTCGT
*
134052 TGTGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGTGATTTTCATTTCGCGTTGCGATTATCTCGT
134085 TG
1 TG
134087 CGATAGTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.49
Consensus pattern (33 bp):
TGTGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:134097 original size:33 final size:33
Alignment explanation
Indices: 134030--134098 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
134020 GTGATTTTGG
* **
134030 TTTCGCGTTGCGATTATCTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCA
*
134063 TTTCGCGTTGCGATTCTCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTATCTCGTTGCGATAGTCA
134096 TTT
1 TTT
134099 TCGTATTGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTATCTCGTTGCGATAGTCA
Found at i:134127 original size:20 final size:20
Alignment explanation
Indices: 134083--134133 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
134073 CGATTCTCTC
** *
134083 GTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCAT
*
134103 ATTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
*
134123 GTTGCAATTTT
1 GTTGCGATTTT
134134 AAGTTTAGAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:134722 original size:20 final size:20
Alignment explanation
Indices: 134697--134868 Score: 202
Period size: 20 Copynumber: 8.5 Consensus size: 20
134687 TTTAAAAATT
134697 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
134717 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAC
134737 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAC
* * *
134758 GCATTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* *
134778 TCGTTGCGATTTACAGATAC
1 GCGTTGCGATTTACGGATAC
* *
134798 GCGTTGCGATTTACGTATTC
1 GCGTTGCGATTTACGGATAC
* *
134818 TCGTTGCGATTTATGGATAC
1 GCGTTGCGATTTACGGATAC
134838 GCGTTGCGATTTTACGGATAC
1 GCGTTGCGA-TTTACGGATAC
*
134859 TCGTTGCGAT
1 GCGTTGCGAT
134869 AGTCAGAATC
Statistics
Matches: 125, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
20 90 0.72
21 35 0.28
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:134782 original size:40 final size:41
Alignment explanation
Indices: 134698--134868 Score: 274
Period size: 40 Copynumber: 4.2 Consensus size: 41
134688 TTAAAAATTG
*
134698 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
134739 CGTTGCGATTTACGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
*
134779 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
134819 CGTTGCGATTTATGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
134860 CGTTGCGAT
1 CGTTGCGAT
134869 AGTCAGAATC
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 75 0.62
41 46 0.38
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:134852 original size:81 final size:80
Alignment explanation
Indices: 134698--134910 Score: 277
Period size: 81 Copynumber: 2.6 Consensus size: 80
134688 TTAAAAATTG
* *
134698 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCATT
* *
134763 GCGATTTACGTATTCT
65 GCGATTTACGGATACT
* *
134779 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTATGGATACGCGTTG
1 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCATTG
134844 CGATTTTACGGATACT
66 CGA-TTTACGGATACT
* ** * *
134860 CGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTCGCGTTGCGATTT
1 CGTTGCGAT-TTACAGATA-CGCGTTGCGATTTACGTATTCTCGTTGCGATTT
134911 TCATATTCGC
Statistics
Matches: 118, Mismatches: 11, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
80 38 0.32
81 79 0.67
82 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (80 bp):
CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCATTG
CGATTTACGGATACT
Found at i:134900 original size:20 final size:20
Alignment explanation
Indices: 134877--134929 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
134867 ATAGTCAGAA
*
134877 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
134897 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
134917 TCGCGATGCGATT
1 TCGCGTTGCGATT
134930 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:134921 original size:40 final size:40
Alignment explanation
Indices: 134697--134929 Score: 177
Period size: 40 Copynumber: 5.8 Consensus size: 40
134687 TTTAAAAATT
* * *
134697 GCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGTATT
1 GCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT-TC
* * ** *
134737 GTCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTC
1 G-CGTTGCGATTTACAGATACGCGTTGCGATTTATATGTTC
* ** *
134778 TCGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTC
1 GCGTTGCGATTTACAGATACGCGTTGCGATTTATATGTTC
* ** * *
134818 TCGTTGCGATTTATGGATACGCGTTGCGATTT-TACGGATAC
1 GCGTTGCGATTTACAGATACGCGTTGCGATTTATA-TG-TTC
* *
134859 TCGTTGCGATAGT-CAGA-ATCGCGTTGCGATTTATATGTTC
1 GCGTTGCGAT-TTACAGATA-CGCGTTGCGATTTATATGTTC
* * * *
134899 GCGTTGCGATTTTCATATTCGCGATGCGATT
1 GCGTTGCGATTTACAGATACGCGTTGCGATT
134930 CTGGAAAATC
Statistics
Matches: 158, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 94 0.59
41 59 0.37
42 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (40 bp):
GCGTTGCGATTTACAGATACGCGTTGCGATTTATATGTTC
Found at i:137654 original size:43 final size:43
Alignment explanation
Indices: 137603--137689 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
137593 ATAATAGTAC
137603 TAATATGAGGGTGGTATACTACTATGGTTTTATTAGTAGTTTA
1 TAATATGAGGGTGGTATACTACTATGGTTTTATTAGTAGTTTA
137646 TAATATGAGGGTGGTATACTACTATGGTTTTATTAGTAGTTTA
1 TAATATGAGGGTGGTATACTACTATGGTTTTATTAGTAGTTTA
137689 T
1 T
137690 GTATTTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (43 bp):
TAATATGAGGGTGGTATACTACTATGGTTTTATTAGTAGTTTA
Found at i:141828 original size:33 final size:34
Alignment explanation
Indices: 141769--141871 Score: 136
Period size: 34 Copynumber: 3.1 Consensus size: 34
141759 TATTTTAGTC
**
141769 TTAAATTCGTATTTTTATTTTTTAAATTCATATA
1 TTAAATTCACATTTTTATTTTTTAAATTCATATA
* * * *
141803 TTAAATTTACA-TTTTATTTTCTAAATTTATATC
1 TTAAATTCACATTTTTATTTTTTAAATTCATATA
*
141836 TTAAATTCATATTTTTATTTTTTAAATTCATATA
1 TTAAATTCACATTTTTATTTTTTAAATTCATATA
141870 TT
1 TT
141872 TTATTATTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 28 0.49
34 29 0.51
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (34 bp):
TTAAATTCACATTTTTATTTTTTAAATTCATATA
Found at i:141852 original size:21 final size:22
Alignment explanation
Indices: 141828--141875 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
141818 ATTTTCTAAA
141828 TTTATATCTTAAATTCATAT-T
1 TTTATATCTTAAATTCATATAT
* *
141849 TTTATTTTTTAAATTCATATAT
1 TTTATATCTTAAATTCATATAT
141871 TTTAT
1 TTTAT
141876 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTATATCTTAAATTCATATAT
Found at i:141887 original size:25 final size:21
Alignment explanation
Indices: 141836--141881 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
141826 AATTTATATC
141836 TTAAATTCATATTTTTATTTT
1 TTAAATTCATATTTTTATTTT
141857 TTAAATTCATATATTTTATTATT
1 TTAAATTCATAT-TTTTATT-TT
141880 TT
1 TT
141882 TTAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
TTAAATTCATATTTTTATTTT
Found at i:141894 original size:10 final size:10
Alignment explanation
Indices: 141881--141938 Score: 52
Period size: 10 Copynumber: 6.2 Consensus size: 10
141871 TTTATTATTT
141881 TTTAAATATA
1 TTTAAATATA
141891 TTTAAATAT-
1 TTTAAATATA
141900 TTTAAATAT-
1 TTTAAATATA
*
141909 TATAAA-A-A
1 TTTAAATATA
** *
141917 TAAAAATATT
1 TTTAAATATA
141927 TTTAAATATA
1 TTTAAATATA
141937 TT
1 TT
141939 GTTAGGCTCG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.15
9 15 0.38
10 18 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTAAATATA
Found at i:141905 original size:9 final size:9
Alignment explanation
Indices: 141880--141914 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
141870 TTTTATTATT
141880 TTTTAAATA
1 TTTTAAATA
141889 TATTTAAATA
1 T-TTTAAATA
141899 TTTTAAATA
1 TTTTAAATA
*
141908 TTATAAA
1 TTTTAAA
141915 AATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTTTAAATA
Done.