Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022838.1 Corchorus olitorius cultivar O-4 contig22871, 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: 118318
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:1801 original size:120 final size:120
Alignment explanation
Indices: 1395--1812 Score: 528
Period size: 119 Copynumber: 3.5 Consensus size: 120
1385 TACTCATTGT
* * * * *
1395 GTCACGAATAATTGAACA-TTTACTTATTTTTTGTGACGATCAACAACTT-TTAGTGACGTTATA
1 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAA-TTGTTAGTGACGTTATA
* * * * * * * * *
1458 -AATA-CATATTGCATGACGAAAC-TTACGTCACCTATTCTTGTGACGTTCTGAA-ATTC
65 TTATAGTATTTTG--TGAC-ACACATTCCGTCACCTATACATGTGACGTTC-CAATTTTC
** * * * *
1514 GTCAGGAATAAT-GAAAATTTTCCTCATATTTTGTGACAATCAACAAATGTAAGTGACGTTATAT
1 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAATTGTTAGTGACGTTATAT
*
1578 TTTAGTATTTTGTGACACACATTCCGTCACCTATACATGTGAC-TTCCAATTTTC
66 TATAGTATTTTGTGACACACATTCCGTCACCTATACATGTGACGTTCCAATTTTC
*
1632 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAGTCAACAATTGTTAGTGACGTTATAT
1 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAATTGTTAGTGACGTTATAT
*
1697 TGTAGTATTTTGTGACACACATTCCGTCACCTATACATGTGACGTTCCAATTTTC
66 TATAGTATTTTGTGACACACATTCCGTCACCTATACATGTGACGTTCCAATTTTC
1752 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAATTGTTAGTGACGTT
1 GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAATTGTTAGTGACGTT
1813 GATCGAGCTA
Statistics
Matches: 264, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
117 2 0.01
118 24 0.09
119 160 0.61
120 73 0.28
121 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (120 bp):
GTCACAAATAATGGAACATTTTCCTCATTTTTTGTGACAATCAACAATTGTTAGTGACGTTATAT
TATAGTATTTTGTGACACACATTCCGTCACCTATACATGTGACGTTCCAATTTTC
Found at i:2074 original size:19 final size:18
Alignment explanation
Indices: 2050--2085 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2040 TGAAGATTTA
2050 TTGAAGACAATTTGAAGAT
1 TTGAAGACAA-TTGAAGAT
*
2069 TTGAAGACCATTGAAGA
1 TTGAAGACAATTGAAGA
2086 ATTATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (18 bp):
TTGAAGACAATTGAAGAT
Found at i:26507 original size:72 final size:71
Alignment explanation
Indices: 26375--26565 Score: 197
Period size: 72 Copynumber: 2.7 Consensus size: 71
26365 AGGTAGTAGC
* * * * *
26375 AAGGGTTGTGTGAAGGACTGCC-AATGGGGGAATTGCCTCGGCTACAATCGTAATGAGGAAGATA
1 AAGGGTTGTGCGAAGGACTGCCAAATGTGGGAAATGCCTC-GCTACAACCGCAATGAGGAAGATA
*
26439 ATCGCAT
65 ATCACAT
26446 AAGGGTTGTGCGAAGGACTGCCAAATGTGGGAAATGCCTCGACTACAACCGCAAT-ATGGAAGAT
1 AAGGGTTGTGCGAAGGACTGCCAAATGTGGGAAATGCCTCG-CTACAACCGCAATGA-GGAAGAT
* * **
26510 GATTATGT
64 AATCACAT
* * * * *
26518 AAGGATTGAGCAAAGGGCTGCCAAATGTGGGAACTGCCTCCGCTACAA
1 AAGGGTTGTGCGAAGGACTGCCAAATGTGGGAAATGCCT-CGCTACAA
26566 TCGTAATGGA
Statistics
Matches: 101, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
71 23 0.23
72 76 0.75
73 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.21
Consensus pattern (71 bp):
AAGGGTTGTGCGAAGGACTGCCAAATGTGGGAAATGCCTCGCTACAACCGCAATGAGGAAGATAA
TCACAT
Found at i:33557 original size:19 final size:18
Alignment explanation
Indices: 33533--33572 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33523 GAAGTTCGTG
*
33533 ATTGAAGATAATTTGAAGA
1 ATTGAAGACAA-TTGAAGA
*
33552 ATTGAAGACCATTGAAGA
1 ATTGAAGACAATTGAAGA
33570 ATT
1 ATT
33573 ATTTCAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
ATTGAAGACAATTGAAGA
Found at i:38266 original size:21 final size:21
Alignment explanation
Indices: 38232--38286 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
38222 TCGGCCATCA
* **
38232 CCATGCCAAGACCGGTTAAGC
1 CCATGCCAACACCGGCCAAGC
* *
38253 CCATGCCACCACCGGCCATGC
1 CCATGCCAACACCGGCCAAGC
*
38274 CCATGCCATCACC
1 CCATGCCAACACC
38287 ATTCTGTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.45, G:0.18, T:0.13
Consensus pattern (21 bp):
CCATGCCAACACCGGCCAAGC
Found at i:39506 original size:127 final size:126
Alignment explanation
Indices: 39362--39661 Score: 401
Period size: 124 Copynumber: 2.4 Consensus size: 126
39352 GGTGTTTCTT
* *
39362 TATATATAATCTTATCCAAATAATAGAAATTCGGTGAAACTAGTAAAAACATCATTTCTTGATGG
1 TATATATAATCTTATCCAAAGAATAGAAATTTGGTGAAACTA-TAAAAACATCATTTCTTGATGG
** ** * * *
39427 GAATAGCGGCGTTTC-TCCTATGAAACACCACT-ATTTAGTGGCGTTTCTAGAGTAAACGCCGC
65 GAATAGCGGCGTTTCAT-AGAAAAAACACCACTAAATT-GTGGCATTTCTAAAGTAAACGCCGC
* * *
39489 TATATATAATCTTATCCAAAGAATAGAAATTTGGTGCAAC--TAAAAACATTATTTCTTGTTGGG
1 TATATATAATCTTATCCAAAGAATAGAAATTTGGTGAAACTATAAAAACATCATTTCTTGATGGG
*
39552 AATAGCGGCGTTTCATAGAAAAAACGCCACTAAATTGTGGCATTTCTAAAGTAAACGCCGC
66 AATAGCGGCGTTTCATAGAAAAAACACCACTAAATTGTGGCATTTCTAAAGTAAACGCCGC
* *
39613 TATATATAATCTTATCCAAAGAATAGAAATTTTGTAAAACTAATAAAAA
1 TATATATAATCTTATCCAAAGAATAGAAATTTGGTGAAACT-ATAAAAA
39662 TTTATTTATA
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
124 105 0.69
125 4 0.03
127 43 0.28
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (126 bp):
TATATATAATCTTATCCAAAGAATAGAAATTTGGTGAAACTATAAAAACATCATTTCTTGATGGG
AATAGCGGCGTTTCATAGAAAAAACACCACTAAATTGTGGCATTTCTAAAGTAAACGCCGC
Found at i:45166 original size:91 final size:92
Alignment explanation
Indices: 45028--45208 Score: 285
Period size: 91 Copynumber: 2.0 Consensus size: 92
45018 TGATTTATTT
* *
45028 AGATTTAATTGATAACTAAATATGATAGCAGTTTTTAATTTAAATTTATATGTGTTTTAAATATT
1 AGATTTAATTGATAACTAAATATGATAGCAGTTTTTAATTTAAATTTATATATATTTTAAATATT
*
45093 TTATTGTGAGTCACCGAG-TTGTGTGG
66 TAATTGTGAGTCACCGAGTTTGTGTGG
* *
45119 AGATTTAATTGATAACTAATTATGAT-GACAGTTTTTAATTTGAATTTATATATATTTTAAATAT
1 AGATTTAATTGATAACTAAATATGATAG-CAGTTTTTAATTTAAATTTATATATATTTTAAATAT
*
45183 TTAATTGTGAGTCATCGAGTTTGTGT
65 TTAATTGTGAGTCACCGAGTTTGTGT
45209 CGCGAGTCAA
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
90 1 0.01
91 75 0.91
92 6 0.07
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.46
Consensus pattern (92 bp):
AGATTTAATTGATAACTAAATATGATAGCAGTTTTTAATTTAAATTTATATATATTTTAAATATT
TAATTGTGAGTCACCGAGTTTGTGTGG
Found at i:45620 original size:2 final size:2
Alignment explanation
Indices: 45609--45641 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
45599 TAATAGAATG
45609 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45642 TCAATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:47381 original size:19 final size:18
Alignment explanation
Indices: 47357--47396 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47347 TTGAAGATTT
*
47357 ATTGAAGATAATTTGAAGA
1 ATTGAAGACAA-TTGAAGA
*
47376 ATTGAAGACCATTGAAGA
1 ATTGAAGACAATTGAAGA
47394 ATT
1 ATT
47397 ATTTCAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
ATTGAAGACAATTGAAGA
Found at i:51142 original size:52 final size:52
Alignment explanation
Indices: 51063--51250 Score: 261
Period size: 52 Copynumber: 3.6 Consensus size: 52
51053 TAAAAAAGAA
* * *
51063 TTCCCTTCAAAGTATTCAAAGTATTCAATTTAGGTCTTTTCAAATTGGGAAAG
1 TTCCCATC-AAGTTTTCAAAGTATTCAATTTAGATCTTTTCAAATTGGGAAAG
* *
51116 TTCCCATCAAGTTTTCAAAGTGTTCAATTT-GCTCCTTTTCAAATTGGGAAAG
1 TTCCCATCAAGTTTTCAAAGTATTCAATTTAGAT-CTTTTCAAATTGGGAAAG
* *
51168 TTCGCATCAAGTTTTTCAAAAGTATTCAATTTAGATCTTTTCAAAGTGGGAAAG
1 TTCCCATCAAG-TTTTC-AAAGTATTCAATTTAGATCTTTTCAAATTGGGAAAG
*
51222 TTCCCATCAAGTTTTCAAAGTATCCAATT
1 TTCCCATCAAGTTTTCAAAGTATTCAATT
51251 GAAGTTTTTC
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
51 2 0.02
52 60 0.50
53 17 0.14
54 40 0.33
55 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (52 bp):
TTCCCATCAAGTTTTCAAAGTATTCAATTTAGATCTTTTCAAATTGGGAAAG
Found at i:55079 original size:16 final size:16
Alignment explanation
Indices: 55043--55089 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
55033 GGAGGTCGTC
* *
55043 GAAGGACGTCGTTTGAT
1 GAAGGAAGTCG-TTGAA
55060 GAAGGAAGTCGTTGAA
1 GAAGGAAGTCGTTGAA
*
55076 GAAGGAAGTAGTTG
1 GAAGGAAGTCGTTG
55090 GTGTGGGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.32, C:0.06, G:0.38, T:0.23
Consensus pattern (16 bp):
GAAGGAAGTCGTTGAA
Found at i:57144 original size:20 final size:21
Alignment explanation
Indices: 57109--57149 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
57099 ATAGTTTAGA
57109 TTTAGTTTAATTTTGTTTTATT
1 TTTAGTTTAA-TTTGTTTTATT
57131 TTTAGTTTAA-TTGTTTTAT
1 TTTAGTTTAATTTGTTTTAT
57150 AGGGGATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.71
Consensus pattern (21 bp):
TTTAGTTTAATTTGTTTTATT
Found at i:61713 original size:54 final size:54
Alignment explanation
Indices: 61655--62260 Score: 638
Period size: 54 Copynumber: 11.1 Consensus size: 54
61645 TATTACTGCT
* * * * * * * *
61655 TTTTACTTTTTAGTTTAGTTACTCTGAACTAAACTAAGTATTGCTTAC-TCTTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTC-TTC
* *
61709 TTTTACTCTTTAGCTTAATTACCCAGAATTAAACTAATTACTGTTTAC-TCTTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTC-TTC
* * *
61763 TTTTATTCTTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTGCTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTCTTC
* * *
61817 TTTTACTATTTAGTTTAATTTCCCAGAATTAAACTAGTCACTGTTTACTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTCTTC
*
61871 TTTTACTCTTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTCTTC
* * * * *
61925 TCTTACTATTTAGTTTAATTGCCCAAAATAAAACTAACTT-CTGTTTACTCCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAA-TTACTGTTTACTTCTTC
* * *
61979 TTTTACTATTTA-TAGTCAACTGCCCAGAATTAAACTAACTT-CTGCTTTACTTCTTC
1 TTTTACTATTTAGT--TTAATTACCCAGAATTAAACTAA-TTACTG-TTTACTTCTTC
* * * * *
62035 TTTTACTCTTTTTTTAGTTCAATTGCCCATAATTAAACTAGCTT-CTGTTTACTTCTTC
1 TTTTA--C--TATTTAGTTTAATTACCCAGAATTAAACTA-ATTACTGTTTACTTCTTC
* * *
62093 TTTTACTTTTTAGTTTAACTACCCAAAATTAAACTAACCTT--TGTTTACTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAA--TTACTGTTTACTTCTTC
* * ** *
62147 TTTTACTCTTTAGTTTAATTACCCAAAATTAAACTAGCCT-CTGTTTATTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTA-ATTACTGTTTACTTCTTC
* *
62201 TTTTACTTTTTAGTTTAATTACCCAGAATTAAACTAACCT-CTGTTTACTTCTTC
1 TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAA-TTACTGTTTACTTCTTC
62255 TTTTAC
1 TTTTAC
62261 CCTTGATTAC
Statistics
Matches: 484, Mismatches: 52, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.00
54 387 0.80
55 31 0.06
56 16 0.03
58 17 0.04
59 25 0.05
60 5 0.01
61 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (54 bp):
TTTTACTATTTAGTTTAATTACCCAGAATTAAACTAATTACTGTTTACTTCTTC
Found at i:62125 original size:276 final size:271
Alignment explanation
Indices: 61730--62260 Score: 728
Period size: 276 Copynumber: 1.9 Consensus size: 271
61720 AGCTTAATTA
*
61730 CCCAGAATTAAACTAATTACTGTTTACTCTTTCTTTTATTCTTTAGTTTAATTACCCAGAATTAA
1 CCCAGAATTAAACTAATTACTGTTTACTCTTTCTTTTATTCTTTAGTTCAATTACCCAGAATTAA
* * * * **
61795 ACTAATTACTGTTTGCTTCTTCTTTTACTATTTAGTTTAATTTCCCAGAATTAAACTAGTCACTG
66 ACTAATTACTGTTTACTTCTTCTTTTACTATTTAGTTTAACTACCCAAAATTAAACTAACCACTG
* *
61860 TTTACTTCTTCTTTTACTCTTTAGTTTAATTACCCAGAATTAAACTA-ATTACTGTTTACTTCTT
131 TTTACTTCTTCTTTTACTCTTTAGTTTAATTACCCAAAATTAAACTAGACT-CTGTTTACTTCTT
* *
61924 CTCTTACTATTTAGTTTAATTGCCCAAAATAAAACTAACTTCTGTTTACTCCTTCTTTTACTATT
195 CTCTTACTATTTAGTTTAATTACCCAAAATAAAACTAACCTCTGTTTACTCCTTCTTTTACTATT
61989 TATAGTCAACTG
260 TATAGTCAACTG
* *
62001 CCCAGAATTAAACTAACTT-CTGCTTTACT-TCTTCTTTTACTCTTTTTTTAGTTCAATTGCCCA
1 CCCAGAATTAAACTAA-TTACTG-TTTACTCT-TTCTTTTA----TTCTTTAGTTCAATTACCCA
* * *
62064 TAATTAAACTAGCTT-CTGTTTACTTCTTCTTTTACTTTTTAGTTTAACTACCCAAAATTAAACT
59 GAATTAAACTA-ATTACTGTTTACTTCTTCTTTTACTATTTAGTTTAACTACCCAAAATTAAACT
** *
62128 AACCTTTGTTTACTTCTTCTTTTACTCTTTAGTTTAATTACCCAAAATTAAACTAGCCTCTGTTT
123 AACCACTGTTTACTTCTTCTTTTACTCTTTAGTTTAATTACCCAAAATTAAACTAGACTCTGTTT
* * * * * *
62193 ATTTCTTCTTTTACTTTTTAGTTTAATTACCCAGAATTAAACTAACCTCTGTTTACTTCTTCTTT
188 ACTTCTTCTCTTACTATTTAGTTTAATTACCCAAAATAAAACTAACCTCTGTTTACTCCTTCTTT
62258 TAC
253 TAC
62261 CCTTGATTAC
Statistics
Matches: 226, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
271 20 0.09
272 16 0.07
276 187 0.83
277 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.47
Consensus pattern (271 bp):
CCCAGAATTAAACTAATTACTGTTTACTCTTTCTTTTATTCTTTAGTTCAATTACCCAGAATTAA
ACTAATTACTGTTTACTTCTTCTTTTACTATTTAGTTTAACTACCCAAAATTAAACTAACCACTG
TTTACTTCTTCTTTTACTCTTTAGTTTAATTACCCAAAATTAAACTAGACTCTGTTTACTTCTTC
TCTTACTATTTAGTTTAATTACCCAAAATAAAACTAACCTCTGTTTACTCCTTCTTTTACTATTT
ATAGTCAACTG
Found at i:62348 original size:22 final size:22
Alignment explanation
Indices: 62245--62349 Score: 72
Period size: 22 Copynumber: 4.8 Consensus size: 22
62235 TAACCTCTGT
62245 TTACTTCTT-CTTTTAC-CCTTGA
1 TTACTT-TTCCTTTTACTCC-TGA
* **
62267 TTACTTTTTCTTTTACT-CTTT
1 TTACTTTTCCTTTTACTCCTGA
* * ** *
62288 TTACTCTCCCTTCAACTTCTGA
1 TTACTTTTCCTTTTACTCCTGA
* * *
62310 TTACTCTTCCCTCTACTCCTGA
1 TTACTTTTCCTTTTACTCCTGA
62332 TTACTTTTCCTTTTACTC
1 TTACTTTTCCTTTTACTC
62350 TTTTTAGCTT
Statistics
Matches: 64, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
21 15 0.23
22 49 0.77
ACGTcount: A:0.13, C:0.30, G:0.03, T:0.53
Consensus pattern (22 bp):
TTACTTTTCCTTTTACTCCTGA
Found at i:62410 original size:57 final size:58
Alignment explanation
Indices: 62328--62451 Score: 214
Period size: 57 Copynumber: 2.2 Consensus size: 58
62318 CCCTCTACTC
62328 CTGATTACTTTTCCTTTTACTCTTTTTAGCTTAATTACTCGTGAATTAAACTAATCTT
1 CTGATTACTTTTCCTTTTACTCTTTTTAGCTTAATTACTCGTGAATTAAACTAATCTT
* *
62386 CTGATTACTTTT-TTTTTACTCTTTTTAGCTTAATTACTCTTGAATTAAACTAATCTT
1 CTGATTACTTTTCCTTTTACTCTTTTTAGCTTAATTACTCGTGAATTAAACTAATCTT
*
62443 TTGATTACT
1 CTGATTACT
62452 CCCCCTTTCA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
57 51 0.81
58 12 0.19
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.52
Consensus pattern (58 bp):
CTGATTACTTTTCCTTTTACTCTTTTTAGCTTAATTACTCGTGAATTAAACTAATCTT
Found at i:66690 original size:38 final size:38
Alignment explanation
Indices: 66600--66916 Score: 361
Period size: 38 Copynumber: 8.3 Consensus size: 38
66590 AAACTAATGG
* * *
66600 AAGATAACCTGTTTCCAGTCAACTTCGATAACTGTTG-
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
*
66637 AAGATGACATGTTTCCAGTCAACTTTGATAATTGTTGA
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
** * * * *
66675 TTGATGACCTGTTTCCAATCGACTTTGATAAATGCTGA
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
* * *
66713 AAGATGACCTGTTTCTAGTCAACCTTTGATCATTCTTGA
1 AAGATGACCTGTTTCCAGTCAA-CTTTGATAATTGTTGA
* ** *
66752 AAGATGACCTCTTTCCAGTCAAC-TTGATGGTTGCTGA
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
* *
66789 AAGATGACCTGTTTCCAGTCAACCTTTGATAATTCTGGA
1 AAGATGACCTGTTTCCAGTCAA-CTTTGATAATTGTTGA
* *
66828 AAGATGACCTGTTTCCAGTCAACTTTGATGATTGCTGA
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
* * * *
66866 AAGATGACTTGTTTCCAGTCAACCTTGATAACTGCTGA
1 AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
66904 AAGA-GAACCTGTT
1 AAGATG-ACCTGTT
66917 CCGAGGTTAA
Statistics
Matches: 234, Mismatches: 41, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
37 65 0.28
38 106 0.45
39 63 0.27
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (38 bp):
AAGATGACCTGTTTCCAGTCAACTTTGATAATTGTTGA
Found at i:69970 original size:243 final size:243
Alignment explanation
Indices: 69542--70029 Score: 958
Period size: 243 Copynumber: 2.0 Consensus size: 243
69532 GCCCTTTTCG
69542 GGTTTTCACCCTAGAACTCTATCTTTTCTTTTTCTTTTTTTCATTATTATTATTATTTTTTGACT
1 GGTTTTCACCCTAGAACTCTATCTTTTCTTTTTCTTTTTTTCATTATTATTATTATTTTTTGACT
*
69607 AGTTGTTTCACCATGCACCTGCATTTGAAAAACTTTTGAAAGTATTTTTCCTAAAATCCTTTTTG
66 AGTTGCTTCACCATGCACCTGCATTTGAAAAACTTTTGAAAGTATTTTTCCTAAAATCCTTTTTG
69672 AGGAAAACATTTTTCTCTTTTGCAAAACAATTTATTGTTATTGGAAGGTGCTTTCACCTTCAATA
131 AGGAAAACATTTTTCTCTTTTGCAAAACAATTTATTGTTATTGGAAGGTGCTTTCACCTTCAATA
69737 TCCCTATTTGATCAAAGATGGACTTTATTAGGCACGTAACGGGGGATT
196 TCCCTATTTGATCAAAGATGGACTTTATTAGGCACGTAACGGGGGATT
69785 GGTTTTCACCCTAGAACTCTATCTTTTCTTTTTCTTTTTTTCATTATTATTATTATTTTTTGACT
1 GGTTTTCACCCTAGAACTCTATCTTTTCTTTTTCTTTTTTTCATTATTATTATTATTTTTTGACT
69850 AGTTGCTTCACCATGCACCTGCATTTGAAAAACTTTTGAAAGTATTTTTCCTAAAATCCTTTTTG
66 AGTTGCTTCACCATGCACCTGCATTTGAAAAACTTTTGAAAGTATTTTTCCTAAAATCCTTTTTG
69915 AGGAAAACATTTTTCTCTTTTGCAAAACAATTTATTGTTATTGGAAGGTGCTTTCACCTTCAATA
131 AGGAAAACATTTTTCTCTTTTGCAAAACAATTTATTGTTATTGGAAGGTGCTTTCACCTTCAATA
*
69980 TCCCTATTTGATCAAAGATGGACTTTATTAGGCACGTAACGTGGGATT
196 TCCCTATTTGATCAAAGATGGACTTTATTAGGCACGTAACGGGGGATT
70028 GG
1 GG
70030 GTTAGGGGTG
Statistics
Matches: 243, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 243 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (243 bp):
GGTTTTCACCCTAGAACTCTATCTTTTCTTTTTCTTTTTTTCATTATTATTATTATTTTTTGACT
AGTTGCTTCACCATGCACCTGCATTTGAAAAACTTTTGAAAGTATTTTTCCTAAAATCCTTTTTG
AGGAAAACATTTTTCTCTTTTGCAAAACAATTTATTGTTATTGGAAGGTGCTTTCACCTTCAATA
TCCCTATTTGATCAAAGATGGACTTTATTAGGCACGTAACGGGGGATT
Found at i:74560 original size:21 final size:21
Alignment explanation
Indices: 74527--74575 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
74517 CACCTGGGTG
* * * *
74527 CCCATATGGTTTGTCTGAGGA
1 CCCATGTGATTTGCCTGAGCA
*
74548 CCCATGTGATTTGCCTGATCA
1 CCCATGTGATTTGCCTGAGCA
74569 CCCATGT
1 CCCATGT
74576 AGGCTGTGTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (21 bp):
CCCATGTGATTTGCCTGAGCA
Found at i:79659 original size:15 final size:15
Alignment explanation
Indices: 79618--79659 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
79608 AAATAAAGGC
79618 AAAGAGTAAAAAATTA
1 AAAGAGT-AAAAATTA
*
79634 AAA-AGGGAAAAATTA
1 AAAGA-GTAAAAATTA
79649 AAAGAGTAAAA
1 AAAGAGTAAAA
79660 TGAATTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (15 bp):
AAAGAGTAAAAATTA
Found at i:79739 original size:27 final size:28
Alignment explanation
Indices: 79704--79854 Score: 165
Period size: 27 Copynumber: 5.6 Consensus size: 28
79694 GTTAATTTGA
* * *
79704 TAATCAAAAG-GTAAAAAATGAATTTGG
1 TAATTAAAAGAGTAAAAAAGGAAATTGG
* *
79731 TGATAAAAAAGAGT-AAAAAGGAAATTGG
1 TAAT-TAAAAGAGTAAAAAAGGAAATTGG
*
79759 TAATTAAAAGA-TAAACAAGGAAATTGG
1 TAATTAAAAGAGTAAAAAAGGAAATTGG
79786 TAATTAAAAGAGT--AAAAGGAAATTGG
1 TAATTAAAAGAGTAAAAAAGGAAATTGG
*
79812 TAATTAAAA-AGT-AAAAATGAAATTGGG
1 TAATTAAAAGAGTAAAAAAGGAAATT-GG
79839 TAATTAAAA-AGTAAAA
1 TAATTAAAAGAGTAAAA
79855 TGAAATTGGA
Statistics
Matches: 108, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.03
26 32 0.30
27 47 0.44
28 24 0.22
29 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.19, T:0.23
Consensus pattern (28 bp):
TAATTAAAAGAGTAAAAAAGGAAATTGG
Found at i:79810 original size:53 final size:53
Alignment explanation
Indices: 79737--80256 Score: 250
Period size: 53 Copynumber: 9.5 Consensus size: 53
79727 TTGGTGATAA
79737 AAAAGAGTAAAAAGGAAATTGGTAATT-AAAAGATAAACAAGGAAATT-GGTAATT
1 AAAAGAGT-AAAAGGAAATTGGTAATTAAAAAG-TAAA-AAGGAAATTGGGTAATT
*
79791 AAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAATGAAATTGGGTAATT
1 AAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAAGGAAATTGGGTAATT
* *
79844 AAAA-AGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATTAAAGAGTACAATGAAATTGGG
1 AAAAGAGTAAAAGGAAATTGG-TAA-T--TAAA---AAGT-A--AAA-AG------GAAATTGGG
79908 TAATT
49 TAATT
* * *** *
79913 AAAA-AGTAAAATGAAATTGGGTAATT----GGT--AAA--TTTTTAGGTAATT
1 AAAAGAGTAAAAGGAAATT-GGTAATTAAAAAGTAAAAAGGAAATTGGGTAATT
*
79958 AAAAGA-TAACAAGGAAATTGGTAATTACAAGAGT-AAAAGGAAATT-GGTAATT
1 AAAAGAGTAA-AAGGAAATTGGTAATTA-AAAAGTAAAAAGGAAATTGGGTAATT
* *
80010 AAAA-AGTAAAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATTGGTAATTTGA
1 AAAAGAGT-AAAAGGAAATT-GGTAATTAAAAAGTAAAAAGGAAATT--G-----GGTAA--T--
80074 GT
53 -T
* * * *
80076 AATTAAAGAGTACAATGAAATTGGGTAATTTAAAAGT-AAAATGAAATTGGGTAATT
1 -A--AAAGAGTAAAAGGAAATT-GGTAATTAAAAAGTAAAAAGGAAATTGGGTAATT
***
80132 ----G-GT-AAA--TTTTTGGGTAATT-AAAAGATAAACAAGGAAATT-GGTAATT
1 AAAAGAGTAAAAGGAAATT-GGTAATTAAAAAG-TAAA-AAGGAAATTGGGTAATT
*
80178 AAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAATGAAATTGGGTAATT
1 AAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAAGGAAATTGGGTAATT
*
80231 AAAA-AGTAAAATGAAATTGGATAATT
1 AAAAGAGTAAAAGGAAATTGG-TAATT
80257 GGTAAATTTG
Statistics
Matches: 372, Mismatches: 29, Indels: 131
0.70 0.05 0.25
Matches are distributed among these distances:
44 5 0.01
45 34 0.09
46 18 0.05
47 10 0.03
48 2 0.01
49 1 0.00
50 3 0.01
51 6 0.02
52 74 0.20
53 86 0.23
54 23 0.06
56 5 0.01
59 6 0.02
60 1 0.00
61 10 0.03
62 3 0.01
63 2 0.01
66 3 0.01
67 1 0.00
68 12 0.03
69 62 0.17
70 5 0.01
ACGTcount: A:0.51, C:0.01, G:0.20, T:0.28
Consensus pattern (53 bp):
AAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAAGGAAATTGGGTAATT
Found at i:79811 original size:26 final size:27
Alignment explanation
Indices: 79737--79869 Score: 186
Period size: 26 Copynumber: 5.0 Consensus size: 27
79727 TTGGTGATAA
79737 AAAAGAGTAAAAAGGAAATTGGTAATT
1 AAAAGAGTAAAAAGGAAATTGGTAATT
79764 AAAAGA-TAAACAAGGAAATTGGTAATT
1 AAAAGAGTAAA-AAGGAAATTGGTAATT
79791 AAAAGAGT-AAAAGGAAATTGGTAATT
1 AAAAGAGTAAAAAGGAAATTGGTAATT
*
79817 AAAA-AGTAAAAATGAAATTGGGTAATT
1 AAAAGAGTAAAAAGGAAATT-GGTAATT
*
79844 AAAA-AGT-AAAATGAAATTGGATAATT
1 AAAAGAGTAAAAAGGAAATTGG-TAATT
79870 GGTAAATTTG
Statistics
Matches: 100, Mismatches: 1, Indels: 11
0.89 0.01 0.10
Matches are distributed among these distances:
25 5 0.05
26 50 0.50
27 44 0.44
28 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAAGAGTAAAAAGGAAATTGGTAATT
Found at i:79911 original size:26 final size:26
Alignment explanation
Indices: 79881--79938 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
79871 GTAAATTTGA
* *
79881 GTAATTAAAGAGTACAATGAAATTGG
1 GTAATTAAAAAGTAAAATGAAATTGG
79907 GTAATTAAAAAGTAAAATGAAATTGG
1 GTAATTAAAAAGTAAAATGAAATTGG
79933 GTAATT
1 GTAATT
79939 GGTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (26 bp):
GTAATTAAAAAGTAAAATGAAATTGG
Found at i:79923 original size:69 final size:70
Alignment explanation
Indices: 79810--80009 Score: 273
Period size: 69 Copynumber: 2.8 Consensus size: 70
79800 AAAGGAAATT
*
79810 GGTAATTAAAAAGTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAA
1 GGTAATT-AAAAGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGG-TAATTGGTAA
79875 A-TTTGA
64 ATTTTGA
79881 -GTAATTAAAGAGT-ACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAA
1 GGTAATTAAA-AGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATT-GGTAATTGGTAA
*
79944 ATTTTTA
64 ATTTTGA
* * *
79951 GGTAATTAAAAGATAACAAGGAAATT-GGTAATTACAAGAGTAAAAGGAAATTGGTAATT
1 GGTAATTAAAAG-TAACAATGAAATTGGGTAATTA-AAAAGTAAAATGAAATTGGTAATT
80010 AAAAAGTAAA
Statistics
Matches: 117, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
69 50 0.43
70 17 0.15
71 25 0.21
72 25 0.21
ACGTcount: A:0.48, C:0.01, G:0.20, T:0.29
Consensus pattern (70 bp):
GGTAATTAAAAGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGTAATTGGTAAAT
TTTGA
Found at i:79980 original size:26 final size:27
Alignment explanation
Indices: 79951--80063 Score: 144
Period size: 26 Copynumber: 4.3 Consensus size: 27
79941 TAAATTTTTA
*
79951 GGTAATT-AAAAGATAACAAGGAAATT-
1 GGTAATTAAAAAG-TAAAAAGGAAATTG
*
79977 GGTAATTACAAGAGT-AAAAGGAAATT-
1 GGTAATTA-AAAAGTAAAAAGGAAATTG
*
80003 GGTAATTAAAAAGTAAAAATGAAATTG
1 GGTAATTAAAAAGTAAAAAGGAAATTG
*
80030 GGTAATTAAAAAGTAAAAATGAAATTG
1 GGTAATTAAAAAGTAAAAAGGAAATTG
80057 GGTAATT
1 GGTAATT
80064 GGTAATTTGA
Statistics
Matches: 79, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.06
26 35 0.44
27 35 0.44
28 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.26
Consensus pattern (27 bp):
GGTAATTAAAAAGTAAAAAGGAAATTG
Found at i:80080 original size:167 final size:159
Alignment explanation
Indices: 79784--80230 Score: 404
Period size: 167 Copynumber: 2.7 Consensus size: 159
79774 CAAGGAAATT
* *
79784 GGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAAGTAAAAATGAAATTGGGTAATTAAAAA
1 GGTAATTAAAAGA-TAAAAGGAAATTGGTAATTAAAGAGTAAAAAGGAAATT-GGTAATTAAAAA
* * ** ** * * * *
79849 GTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATTAAA--GAGTACAATGAAATTGGGTAAT
64 GTAAAATGAAATTGGGTAATT--AAAAAGT-AAAAATGAAATTGGGTA-ATTGAAATTGAGTAAT
**
79912 TAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTA
125 TAAAAAGTAAAATGAAATTGGGTAATT--TAAA--AGTA
79951 GGTAATTAAAAGATAACAAGGAAATTGGTAATTACAAGAGT-AAAAGGAAATTGGTAATTAAAAA
1 GGTAATTAAAAGATAA-AAGGAAATTGGTAATTA-AAGAGTAAAAAGGAAATTGGTAATTAAAAA
*
80015 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATTGGTAATTTGAGTAATT
64 GT-AAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATT-G-AAATTGAGTAATT
* *
80080 AAAGAGTACAATGAAATTGGGTAATTTAAAAGTA
126 AAAAAGTAAAATGAAATTGGGTAATTTAAAAGTA
* * * * **
80114 --AAATGAAATTGGGTAATTGGTAAATTTTTGGGTAATTAAA-AGATAAACAAGGAAATTGGTAA
1 GGTAATTAAA--AGATAAAAGG-AAA---TT-GGTAATTAAAGAG-TAAA-AAGGAAATTGGTAA
*
80176 TTAAAAGAGTAAAAGGAAATT-GGTAATTAAAAAGTAAAAATGAAATTGGGTAATT
57 TTAAAA-AGTAAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATT
80231 AAAAAGTAAA
Statistics
Matches: 238, Mismatches: 24, Indels: 36
0.80 0.08 0.12
Matches are distributed among these distances:
161 6 0.03
162 2 0.01
163 9 0.04
164 7 0.03
165 12 0.05
166 27 0.11
167 137 0.58
168 35 0.15
169 3 0.01
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.29
Consensus pattern (159 bp):
GGTAATTAAAAGATAAAAGGAAATTGGTAATTAAAGAGTAAAAAGGAAATTGGTAATTAAAAAGT
AAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATTGAAATTGAGTAATTAAAAA
GTAAAATGAAATTGGGTAATTTAAAAGTA
Found at i:80104 original size:26 final size:25
Alignment explanation
Indices: 80074--80131 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 25
80064 GGTAATTTGA
*
80074 GTAATTAAAGAGTACAATGAAATTGG
1 GTAATTAAA-AGTAAAATGAAATTGG
80100 GTAATTTAAAAGTAAAATGAAATTGG
1 GTAA-TTAAAAGTAAAATGAAATTGG
80126 GTAATT
1 GTAATT
80132 GGTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 23 0.77
27 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.21, T:0.31
Consensus pattern (25 bp):
GTAATTAAAAGTAAAATGAAATTGG
Found at i:80174 original size:27 final size:27
Alignment explanation
Indices: 80144--80256 Score: 146
Period size: 26 Copynumber: 4.3 Consensus size: 27
80134 TAAATTTTTG
80144 GGTAATTAAAAGA-TAAACAAGGAAATT
1 GGTAATTAAAAGAGTAAA-AAGGAAATT
80171 GGTAATTAAAAGAGT-AAAAGGAAATT
1 GGTAATTAAAAGAGTAAAAAGGAAATT
*
80197 GGTAATTAAAA-AGTAAAAATGAAATT
1 GGTAATTAAAAGAGTAAAAAGGAAATT
*
80223 GGGTAATTAAAA-AGT-AAAATGAAATT
1 -GGTAATTAAAAGAGTAAAAAGGAAATT
80249 GGATAATT
1 GG-TAATT
80257 GGTAAATTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 9
0.89 0.01 0.10
Matches are distributed among these distances:
25 5 0.06
26 46 0.57
27 29 0.36
28 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.19, T:0.26
Consensus pattern (27 bp):
GGTAATTAAAAGAGTAAAAAGGAAATT
Found at i:80191 original size:194 final size:194
Alignment explanation
Indices: 79757--80431 Score: 1200
Period size: 193 Copynumber: 3.5 Consensus size: 194
79747 AAAGGAAATT
79757 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
1 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
79822 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATT
66 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATT
*
79887 AAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTA
131 AAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTG
*
79951 GGTAATTAAAAGAT-AACAAGGAAATTGGTAATTACAAGAGTAAAAGGAAATTGGTAATTAAAAA
1 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
*
80015 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAAATGAAATTGGGTAATTGGT-AATTTGAGTAAT
66 GTAAAAATGAAATTGGGTAATTAAAAAGT-AAAATGAAATTGGATAATTGGTAAATTTGAGTAAT
*
80079 TAAAGAGTACAATGAAATTGGGTAATTTAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTG
130 TAAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTG
80144 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
1 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
80209 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATT
66 GTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATT
80274 AAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAA--TTTG
131 AAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTG
* * * *
80336 GGTAATTAAAAGATAAACAATGAATTTGGTAATTAAAAGAGTAAAAGGAGATTAGTAATTAAAAA
1 GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
* *
80401 GGT-AAAATG-AATTTGGTAATTAAAGAGTAAA
66 -GTAAAAATGAAATTGGGTAATTAAAAAGTAAA
80432 GTAAAATGAA
Statistics
Matches: 464, Mismatches: 13, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
191 20 0.04
192 71 0.15
193 190 0.41
194 183 0.39
ACGTcount: A:0.50, C:0.01, G:0.21, T:0.29
Consensus pattern (194 bp):
GGTAATTAAAAGATAAACAAGGAAATTGGTAATTAAAAGAGTAAAAGGAAATTGGTAATTAAAAA
GTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAATTTGAGTAATT
AAAGAGTACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAATTTTTG
Found at i:80298 original size:26 final size:26
Alignment explanation
Indices: 80268--80325 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
80258 GTAAATTTGA
* *
80268 GTAATTAAAGAGTACAATGAAATTGG
1 GTAATTAAAAAGTAAAATGAAATTGG
80294 GTAATTAAAAAGTAAAATGAAATTGG
1 GTAATTAAAAAGTAAAATGAAATTGG
80320 GTAATT
1 GTAATT
80326 GGTAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (26 bp):
GTAATTAAAAAGTAAAATGAAATTGG
Found at i:80310 original size:69 final size:69
Alignment explanation
Indices: 80198--80381 Score: 273
Period size: 69 Copynumber: 2.6 Consensus size: 69
80188 AAGGAAATTG
*
80198 GTAATTAAAAAGTAAAAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAA
1 GTAATT-AAAAGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAA
80263 TTTGA
65 TTTGA
*
80268 GTAATTAAAGAGT-ACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGGTAATTGGTAAA
1 GTAATTAAA-AGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAA
*
80332 TTTGG
65 TTTGA
*
80337 GTAATTAAAAGATAAACAATG-AATTTGGTAATTAAAAGAGTAAAA
1 GTAATTAAAAG-T-AACAATGAAATTGGGTAATTAAAA-AGTAAAA
80382 GGAGATTAGT
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
68 2 0.02
69 66 0.63
70 24 0.23
71 13 0.12
ACGTcount: A:0.50, C:0.01, G:0.20, T:0.29
Consensus pattern (69 bp):
GTAATTAAAAGTAACAATGAAATTGGGTAATTAAAAAGTAAAATGAAATTGGATAATTGGTAAAT
TTGA
Found at i:80405 original size:26 final size:27
Alignment explanation
Indices: 80357--80463 Score: 89
Period size: 26 Copynumber: 4.0 Consensus size: 27
80347 GATAAACAAT
*
80357 GAATTTGGTAATT-AAAAGAGTAAAAG
1 GAATTTAGTAATTAAAAAGAGTAAAAG
*
80383 GAGA-TTAGTAATTAAAAAG-GTAAAAT
1 GA-ATTTAGTAATTAAAAAGAGTAAAAG
* * *
80409 GAATTTGGTAATTAAAGAGTAAAGTAAAAT
1 GAATTTAGTAATTAAA-A--AGAGTAAAAG
*
80439 GAATTTGGTAATT--AAAGAGTAAAAG
1 GAATTTAGTAATTAAAAAGAGTAAAAG
80464 TGGGTATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
25 9 0.13
26 29 0.43
27 8 0.12
28 1 0.01
29 1 0.01
30 20 0.29
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.28
Consensus pattern (27 bp):
GAATTTAGTAATTAAAAAGAGTAAAAG
Found at i:80438 original size:30 final size:30
Alignment explanation
Indices: 80402--80461 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
80392 AATTAAAAAG
80402 GTAAAATGAATTTGGTAATTAAAGAGTAAA
1 GTAAAATGAATTTGGTAATTAAAGAGTAAA
80432 GTAAAATGAATTTGGTAATTAAAGAGTAAA
1 GTAAAATGAATTTGGTAATTAAAGAGTAAA
80462 AGTGGGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (30 bp):
GTAAAATGAATTTGGTAATTAAAGAGTAAA
Found at i:80647 original size:18 final size:18
Alignment explanation
Indices: 80624--80670 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
80614 TGGATGATAG
80624 TGATAGTGACGCTATTGA
1 TGATAGTGACGCTATTGA
80642 TGATAGTGACGCTATTGA
1 TGATAGTGACGCTATTGA
80660 TGATAGTGACG
1 TGATAGTGACG
80671 ATATCGATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.32
Consensus pattern (18 bp):
TGATAGTGACGCTATTGA
Found at i:80995 original size:52 final size:52
Alignment explanation
Indices: 80911--81094 Score: 269
Period size: 52 Copynumber: 3.4 Consensus size: 52
80901 AGATGTTCCA
*
80911 TTAATTTGGTAGTTAAAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGG
1 TTAATTTGGTAATT-AAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGG
80964 TTAATTTGGTAATTAAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGG
1 TTAATTTGGTAATTAAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGG
* *
81016 TTAATTTGGTAATTAAAAAGTAAAATGAACTTGGCAATCAAAGGGTAAAAGGAAATTGG
1 TTAATTTGGTAATTAAAAAG---AAT----TTGGCAATTAAAGAGTAAAAGGAAATTGG
81075 TTAATTTGGTAATTAAAAAG
1 TTAATTTGGTAATTAAAAAG
81095 TAAAATGAAA
Statistics
Matches: 121, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
52 58 0.48
53 13 0.11
55 3 0.02
59 47 0.39
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (52 bp):
TTAATTTGGTAATTAAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGG
Found at i:81013 original size:26 final size:26
Alignment explanation
Indices: 80932--81013 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
80922 GTTAAAAAAG
80932 AATTTGGCAATTAAAGAGTAAAAGGA
1 AATTTGGCAATTAAAGAGTAAAAGGA
* ** * *
80958 AA-TTGGTTAATT-TGGTAATTAAAAAG-
1 AATTTGG-CAATTAAAG--AGTAAAAGGA
80984 AATTTGGCAATTAAAGAGTAAAAGGA
1 AATTTGGCAATTAAAGAGTAAAAGGA
81010 AATT
1 AATT
81014 GGTTAATTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 12 0.30
26 16 0.40
27 12 0.30
ACGTcount: A:0.48, C:0.02, G:0.21, T:0.29
Consensus pattern (26 bp):
AATTTGGCAATTAAAGAGTAAAAGGA
Found at i:81021 original size:26 final size:26
Alignment explanation
Indices: 80940--81021 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
80930 AGAATTTGGC
80940 AATTAAAGAGTAAAAGGAAATTGGTT
1 AATTAAAGAGTAAAAGGAAATTGGTT
** * * * *
80966 AATT-TGGTAATTAAAAAGAATTTGG-C
1 AATTAAAG--AGTAAAAGGAAATTGGTT
80992 AATTAAAGAGTAAAAGGAAATTGGTT
1 AATTAAAGAGTAAAAGGAAATTGGTT
81018 AATT
1 AATT
81022 TGGTAATTAA
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
25 14 0.35
26 12 0.30
27 14 0.35
ACGTcount: A:0.48, C:0.01, G:0.21, T:0.30
Consensus pattern (26 bp):
AATTAAAGAGTAAAAGGAAATTGGTT
Found at i:81030 original size:34 final size:34
Alignment explanation
Indices: 80984--81114 Score: 127
Period size: 34 Copynumber: 4.1 Consensus size: 34
80974 AATTAAAAAG
*
80984 AATTTGGCAATTAAAGAGTAAAAGGAAATTGGTT
1 AATTTGGCAATTAAAAAGTAAAAGGAAATTGGTT
*
81018 AATTTGGTAATTAAAAAGT---A--AAA-T-G--
1 AATTTGGCAATTAAAAAGTAAAAGGAAATTGGTT
* * **
81043 AACTTGGCAATCAAAGGGTAAAAGGAAATTGGTT
1 AATTTGGCAATTAAAAAGTAAAAGGAAATTGGTT
* *
81077 AATTTGGTAATTAAAAAGTAAAATGAAATTGGTT
1 AATTTGGCAATTAAAAAGTAAAAGGAAATTGGTT
81111 AATT
1 AATT
81115 AAAGAGTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
25 14 0.19
27 1 0.01
28 2 0.03
29 3 0.04
30 3 0.04
31 2 0.03
32 1 0.01
34 49 0.65
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (34 bp):
AATTTGGCAATTAAAAAGTAAAAGGAAATTGGTT
Found at i:81069 original size:59 final size:58
Alignment explanation
Indices: 80926--81123 Score: 282
Period size: 59 Copynumber: 3.4 Consensus size: 58
80916 TTGGTAGTTA
*
80926 AAAAAGAATTTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAG-
1 AAAATGAA-TTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
80984 --AAT---TTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
1 AAAATGAATTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
* *
81037 AAAATGAACTTGGCAATCAAAGGGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
1 AAAATGAA-TTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
*
81096 AAAATGAAATTGGTTAATTAAAGAGTAA
1 AAAATG-AATTGG-CAATTAAAGAGTAA
81124 TTGGTAAAAT
Statistics
Matches: 125, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
52 49 0.39
55 3 0.02
56 2 0.02
59 58 0.46
60 13 0.10
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.29
Consensus pattern (58 bp):
AAAATGAATTGGCAATTAAAGAGTAAAAGGAAATTGGTTAATTTGGTAATTAAAAAGT
Found at i:86035 original size:76 final size:76
Alignment explanation
Indices: 85896--86036 Score: 176
Period size: 76 Copynumber: 1.9 Consensus size: 76
85886 TGTCAAGGGC
* * * * *
85896 CCCGACTCCTCCTGGCCGCCTACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTTAAGACCCAG
1 CCCGACTCCACCTGGCCGCCCACATGGTTGCCTTGAGCACCCATGTGATTTGCCTGAACACCCAG
85961 CTGGGCAGTGT
66 CTGGGCAGTGT
** * * *
85972 CCCGACTCCACCTGGGTGCCCACATGGTTTGTCTT-AGGACCCATGTGATTTGCCTGATCACCCA
1 CCCGACTCCACCTGGCCGCCCACATGG-TTGCCTTGAGCACCCATGTGATTTGCCTGAACACCCA
86036 G
65 G
86037 GTAGGCTGTG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
76 48 0.89
77 6 0.11
ACGTcount: A:0.16, C:0.34, G:0.25, T:0.26
Consensus pattern (76 bp):
CCCGACTCCACCTGGCCGCCCACATGGTTGCCTTGAGCACCCATGTGATTTGCCTGAACACCCAG
CTGGGCAGTGT
Found at i:87803 original size:45 final size:42
Alignment explanation
Indices: 87736--87831 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 42
87726 AGCAACAATT
** *
87736 AATATTAACTTTATTTTAATGAATTATCTAGAGATTGAGGAGTAG
1 AATATTAGGTTTATTTTAATGAATTACCTAGAGA-T--GGAGTAG
*
87781 AATATTAGGTTTATTTTGATGAATTACCTAGAGATGGAGTAG
1 AATATTAGGTTTATTTTAATGAATTACCTAGAGATGGAGTAG
87823 AAT-TTAGGT
1 AATATTAGGT
87832 AATGCTCTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 6 0.13
42 10 0.21
44 1 0.02
45 30 0.64
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (42 bp):
AATATTAGGTTTATTTTAATGAATTACCTAGAGATGGAGTAG
Found at i:97761 original size:28 final size:30
Alignment explanation
Indices: 97720--97778 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
97710 TAAATAAAAA
* *
97720 TCCAAAACG-GAAAATAAGA-AATTTTTTT
1 TCCAAAACGCAAAAACAAGAGAATTTTTTT
*
97748 TCCAAAATGCAAAAACAAGAGAATTTTTTT
1 TCCAAAACGCAAAAACAAGAGAATTTTTTT
97778 T
1 T
97779 AACGCAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 8 0.31
30 10 0.38
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (30 bp):
TCCAAAACGCAAAAACAAGAGAATTTTTTT
Found at i:100916 original size:50 final size:50
Alignment explanation
Indices: 100862--101005 Score: 227
Period size: 50 Copynumber: 2.9 Consensus size: 50
100852 GAAGTTTTAC
100862 AATAAAATTGCTTTCCATTTGTGAGTTCAAGATCAAAATTCGCTTTTCAA
1 AATAAAATTGCTTTCCATTTGTGAGTTCAAGATCAAAATTCGCTTTTCAA
*
100912 AATAAAATTGCTTTCCATTTGTGAGTCCAAGATCAAAATTCGCTTTTCAA
1 AATAAAATTGCTTTCCATTTGTGAGTTCAAGATCAAAATTCGCTTTTCAA
* * * *
100962 AGTTAGATTGCATTCCATTTGTGAG-TCTAAGATCAAAATTCGCT
1 AATAAAATTGCTTTCCATTTGTGAGTTC-AAGATCAAAATTCGCT
101006 CTTCGAGGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 1 0.01
50 86 0.99
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.37
Consensus pattern (50 bp):
AATAAAATTGCTTTCCATTTGTGAGTTCAAGATCAAAATTCGCTTTTCAA
Found at i:102025 original size:69 final size:69
Alignment explanation
Indices: 101946--102419 Score: 684
Period size: 69 Copynumber: 6.9 Consensus size: 69
101936 TCAATTAGCA
* *
101946 ACATAGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTTCATCCA
1 ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
102011 AGCC
66 AGCC
102015 ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
1 ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
102080 AGCC
66 AGCC
*
102084 ACATAGGCTTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCC
1 ACATGGGC-TTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCC
*
102149 AAACC
65 AAGCC
* * * *
102154 ACATAGGCTTTTCCACAAGCCAAACTTGTTTCCATGCGAGTCAGTTTAAGCCTTGGTTCTATCCA
1 ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
102219 AGCC
66 AGCC
* * * * * * *
102223 ACATGTGCTTTTCCATAAGCCAAAGTCATTTCCGTACGAGTCAGTTCAAGCCTTGATTCCATCCA
1 ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
102288 AG-C
66 AGCC
* * * *
102291 A-GTAGGGTCTTTTCCACAAGCTAAACTCGTTGCCATACGAGTCAGTTCAAGCCTTGGTTCCATC
1 ACAT-GGG-CTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATC
102355 CAAG-C
64 CAAGCC
* * * *
102360 AGCATGGGCTTTTCCACAAGCCAAACTCGTCTCCATACGAGTCAATTCAAGCTTTGGTTC
1 A-CATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTC
102420 TATTCAGGCA
Statistics
Matches: 366, Mismatches: 34, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
67 1 0.00
68 4 0.01
69 289 0.79
70 71 0.19
71 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (69 bp):
ACATGGGCTTTTCCACAAGCCAAACTCGTTTCCATACGAGTCAGTTTAAGCCTTGGTTCCATCCA
AGCC
Found at i:103163 original size:27 final size:27
Alignment explanation
Indices: 103133--103208 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 27
103123 GGGATCACCT
103133 AGGGGCATTTTGGTCATT-TGCATATTA
1 AGGGGCATTTTGGTCATTGTGCAT-TTA
103160 AGGGGCATTTTGGTCATTTGTGCATTTA
1 AGGGGCATTTTGGTCA-TTGTGCATTTA
*
103188 GGGGAGCATTTTGGTCATTGT
1 AGGG-GCATTTTGGTCATTGT
103209 AGTCCATAGC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 16 0.36
28 12 0.27
29 17 0.38
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.41
Consensus pattern (27 bp):
AGGGGCATTTTGGTCATTGTGCATTTA
Found at i:107725 original size:13 final size:13
Alignment explanation
Indices: 107707--107731 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107697 AAGAGGTAAT
107707 AAAAGGTTTTTCA
1 AAAAGGTTTTTCA
107720 AAAAGGTTTTTC
1 AAAAGGTTTTTC
107732 TCAAATCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
AAAAGGTTTTTCA
Found at i:108960 original size:15 final size:15
Alignment explanation
Indices: 108942--108992 Score: 84
Period size: 15 Copynumber: 3.3 Consensus size: 15
108932 GCATGTTGCA
108942 TGATTTGATATGTTT
1 TGATTTGATATGTTT
108957 TGATATTTGATATGTTT
1 TG--ATTTGATATGTTT
108974 TGATTTGATATGTTT
1 TGATTTGATATGTTT
108989 TGAT
1 TGAT
108993 ACTCGTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 19 0.56
17 15 0.44
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (15 bp):
TGATTTGATATGTTT
Found at i:109358 original size:42 final size:43
Alignment explanation
Indices: 109307--109400 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 43
109297 AGTGCATTAC
*
109307 CTAA-ATTCTA-CTCCATCTCTAGGTAATTCATCAAAATAAAG
1 CTAATATTCTACCTCCATCTCTAGATAATTCATCAAAATAAAG
*
109348 CTAATATTCTACTCCTCCATCTCTAGATAATTCATCAAAATAAAT
1 CTAATATTCTA--CCTCCATCTCTAGATAATTCATCAAAATAAAG
109393 CTAATATT
1 CTAATATT
109401 AATTGTTGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
41 4 0.09
42 6 0.13
45 37 0.79
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.35
Consensus pattern (43 bp):
CTAATATTCTACCTCCATCTCTAGATAATTCATCAAAATAAAG
Found at i:110554 original size:12 final size:12
Alignment explanation
Indices: 110537--110561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110527 GTAGCTATGA
110537 GTGCCAATTAGC
1 GTGCCAATTAGC
110549 GTGCCAATTAGC
1 GTGCCAATTAGC
110561 G
1 G
110562 ATACCCACGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (12 bp):
GTGCCAATTAGC
Found at i:110828 original size:2 final size:2
Alignment explanation
Indices: 110816--110856 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
110806 TATATTTTTG
110816 TA TA T- 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
110857 CATACCGTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112646 original size:2 final size:2
Alignment explanation
Indices: 112639--112675 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
112629 CATATACTTT
112639 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
112676 GAGATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:112786 original size:18 final size:18
Alignment explanation
Indices: 112763--112803 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
112753 ATAAGAGATC
112763 ATTTTCCCTTAACATGTA
1 ATTTTCCCTTAACATGTA
112781 ATTTTCCCTTAACATGTA
1 ATTTTCCCTTAACATGTA
112799 ATTTT
1 ATTTT
112804 TCACAAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.49
Consensus pattern (18 bp):
ATTTTCCCTTAACATGTA
Found at i:114482 original size:79 final size:79
Alignment explanation
Indices: 114351--114505 Score: 310
Period size: 79 Copynumber: 2.0 Consensus size: 79
114341 TTCTTGAGTA
114351 TCCAATCATTGATTATTTTTGTTGCATTGCTTCATATAATACGAATCATCCACCACAATTTTCAT
1 TCCAATCATTGATTATTTTTGTTGCATTGCTTCATATAATACGAATCATCCACCACAATTTTCAT
114416 TTTTCTGTTTGCTT
66 TTTTCTGTTTGCTT
114430 TCCAATCATTGATTATTTTTGTTGCATTGCTTCATATAATACGAATCATCCACCACAATTTTCAT
1 TCCAATCATTGATTATTTTTGTTGCATTGCTTCATATAATACGAATCATCCACCACAATTTTCAT
114495 TTTTCTGTTTG
66 TTTTCTGTTTG
114506 GCCGAACAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (79 bp):
TCCAATCATTGATTATTTTTGTTGCATTGCTTCATATAATACGAATCATCCACCACAATTTTCAT
TTTTCTGTTTGCTT
Done.