Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 64 of 279
Found at i:21397324 original size:43 final size:43
Alignment explanation
Indices: 21397263--21397376 Score: 192
Period size: 43 Copynumber: 2.7 Consensus size: 43
21397253 CACCGGCATT
*
21397263 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACTAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* * *
21397306 AAGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCATG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
21397349 AAGCCTGCTAGGCACGAAGGCCCGAATA
1 AAGCCTGCTAGGCACGAAGGCCCGAATA
21397377 TGTGGCCACT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
Found at i:21409766 original size:54 final size:55
Alignment explanation
Indices: 21409572--21409766 Score: 157
Period size: 55 Copynumber: 3.6 Consensus size: 55
21409562 CTTACCATTT
* * * * * * * *
21409572 CCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCCTAT-G-AA-TTCACCATTG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTT-ATCAATG
* * * **
21409625 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATCAATG
** * * * *
21409680 CCATTTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA-AAACTTA-CAAATG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATC-AATG
*
21409734 CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
21409767 AAGCCCTAAT
Statistics
Matches: 110, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 33 0.30
54 36 0.33
55 39 0.35
56 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (55 bp):
CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATCAATG
Found at i:21414310 original size:21 final size:21
Alignment explanation
Indices: 21414259--21414312 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
21414249 ACAGAATTAA
*
21414259 AAGAATTGAAAGCTCAGTTGC
1 AAGAATTGAGAGCTCAGTTGC
21414280 AAGAATTGAGAGCTCAGTTGC
1 AAGAATTGAGAGCTCAGTTGC
21414301 AAGAATTGAGAG
1 AAGAATTGAGAG
21414313 ATAGAGGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (21 bp):
AAGAATTGAGAGCTCAGTTGC
Found at i:21416587 original size:58 final size:58
Alignment explanation
Indices: 21416497--21416614 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
21416487 AAACGTAAAG
21416497 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
1 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
* * *
21416555 ACATAGAATTTCAGATTGGAGATAAAGTCTTCTTGAAATCCTCACCATGGAAGAAAAT
1 ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
21416613 AC
1 AC
21416615 TCAGATTTGG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (58 bp):
ACATAAAATTTCAGATTGGAGATAAAGTCTTCTTAAAAGCCTCACCATGGAAGAAAAT
Found at i:21418607 original size:54 final size:54
Alignment explanation
Indices: 21418543--21418648 Score: 203
Period size: 54 Copynumber: 2.0 Consensus size: 54
21418533 ACATACGCGC
*
21418543 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTCCGT
1 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCCGT
21418597 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCC
1 GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCC
21418649 ATGTTCTGTA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (54 bp):
GACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTCCGT
Found at i:21419954 original size:25 final size:25
Alignment explanation
Indices: 21419926--21419995 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
21419916 CTCTTTTAAT
*
21419926 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21419951 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21419976 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21419996 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:21421744 original size:27 final size:26
Alignment explanation
Indices: 21421700--21421751 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21421690 CTCGCTGAAA
*
21421700 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
21421727 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
21421752 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:21426177 original size:47 final size:46
Alignment explanation
Indices: 21426123--21426266 Score: 189
Period size: 47 Copynumber: 3.1 Consensus size: 46
21426113 TTAGGATTTG
21426123 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAA-GTGTATATATGAGATAAGGCCGAATGGCAA
* * * *
21426170 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAA-GTGTATATATGAGATAAGGCCGAATGGCAA
* * * *
21426217 ATGTGATGAATGTGGAAGTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAAGTGTATATATGAGATAAGGCCGAATGGCAA
21426264 ATG
1 ATG
21426267 CAAAATGTGT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
47 81 0.96
48 3 0.04
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (46 bp):
ATGTGATGAATGTGAAGTGTATATATGAGATAAGGCCGAATGGCAA
Found at i:21426422 original size:46 final size:46
Alignment explanation
Indices: 21426240--21426404 Score: 276
Period size: 46 Copynumber: 3.6 Consensus size: 46
21426230 GGAAGTGTAT
* *
21426240 ATATGTGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
21426286 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
*
21426332 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
* **
21426378 ATATGTGGTAAAGCTAAATGGCTAATG
1 ATATGAGGTAAAGCCGAATGGCTAATG
21426405 TGAGATATGT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
Found at i:21433131 original size:27 final size:27
Alignment explanation
Indices: 21433101--21433165 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
21433091 TGGCCTAGCT
21433101 ACAATATCTGTATCTGGTGACTTCGTC
1 ACAATATCTGTATCTGGTGACTTCGTC
21433128 ACAATATCTGTATCTGGTGACTTCGTC
1 ACAATATCTGTATCTGGTGACTTCGTC
*
21433155 ACAATTTCTGT
1 ACAATATCTGT
21433166 GGTGTGTAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
ACAATATCTGTATCTGGTGACTTCGTC
Found at i:21434100 original size:27 final size:27
Alignment explanation
Indices: 21433865--21434093 Score: 332
Period size: 27 Copynumber: 8.5 Consensus size: 27
21433855 GGGTGTTACA
*
21433865 TCTACCCTACAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21433892 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
21433919 TCTACCCTACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* **
21433946 TCTACCCTACAGGGTTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21433973 CCTACCCTACAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCGGTAAT
**
21434000 TCTACCCTACAAAGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21434027 TCTACCCTACAGGGATATTTCGGTAAC
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21434054 TCTACCCTACAAGGGTATTTTGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21434081 TCTACGCTACAGG
1 TCTACCCTACAGG
21434094 CACATTTCGA
Statistics
Matches: 177, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCGGTAAT
Found at i:21434168 original size:27 final size:27
Alignment explanation
Indices: 21434112--21434196 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
21434102 GATATTTTAC
* * * **
21434112 AAATCGAGAGTATTTTGATAATTTCAT
1 AAATCAAGGGTATTTTGGTAATTTTGT
*
21434139 AAATCAGGGGTATTTTGGTAATTTTGT
1 AAATCAAGGGTATTTTGGTAATTTTGT
* **
21434166 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAATCAAGGGTATTTTGGTAATTTTGT
21434193 AAAT
1 AAAT
21434197 TGAGGGTAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATCAAGGGTATTTTGGTAATTTTGT
Found at i:21434202 original size:27 final size:27
Alignment explanation
Indices: 21434146--21434231 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
21434136 CATAAATCAG
* ***
21434146 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTGTAAATTGA
*
21434173 GGGTATTTCAGTAATTTTGTAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATTGA
*** * *
21434200 GGGTAAAACGGTAATTCTATAAATTGA
1 GGGTATTTCGGTAATTTTGTAAATTGA
21434227 GGGTA
1 GGGTA
21434232 AAATGGTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAATTGA
Found at i:21434755 original size:27 final size:27
Alignment explanation
Indices: 21434183--21434744 Score: 647
Period size: 27 Copynumber: 20.8 Consensus size: 27
21434173 GGGTATTTCA
* * *
21434183 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434210 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434237 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * *
21434264 ATAATTCTATAAATAGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434291 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434318 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * *
21434345 ATAATTCTATAAATAGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434372 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434399 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * *
21434426 ATAATTCTATAAATAGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434453 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434480 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * *
21434507 ATAATTCTATAAATAGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434534 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434561 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * * *
21434588 ATAATTCTATAAATAGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
21434615 ATAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
** *
21434642 GTAATTCTGTAAATCGAAAGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
21434669 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
21434696 GTAATGCTATAAATCGAGGATAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
21434723 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
21434745 CTTTGGTAAT
Statistics
Matches: 452, Mismatches: 83, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 452 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:21434769 original size:81 final size:81
Alignment explanation
Indices: 21434192--21434740 Score: 945
Period size: 81 Copynumber: 6.8 Consensus size: 81
21434182 AGTAATTTTG
* * * *
21434192 TAAATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
21434257 TAAAATGATAATTCTA
66 TAAAATGATAATTCTA
21434273 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
21434338 TAAAATGATAATTCTA
66 TAAAATGATAATTCTA
21434354 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
21434419 TAAAATGATAATTCTA
66 TAAAATGATAATTCTA
21434435 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
21434500 TAAAATGATAATTCTA
66 TAAAATGATAATTCTA
21434516 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
21434581 TAAAATGATAATTCTA
66 TAAAATGATAATTCTA
**
21434597 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAAAG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
* *
21434662 TAAAACGGTAATTCTA
66 TAAAATGATAATTCTA
* * * * * * * * *
21434678 TAAATCGAGGGTAAAATGGTAATGCTATAAATCGAGGATAAAACGGTAATTCTGTAAATCGAG
1 TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAG
21434741 GGTACTTTGG
Statistics
Matches: 450, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 450 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (81 bp):
TAAATAGAGGATAAAACGATAATTCTGTAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGTG
TAAAATGATAATTCTA
Found at i:21437459 original size:43 final size:43
Alignment explanation
Indices: 21437304--21437457 Score: 254
Period size: 43 Copynumber: 3.6 Consensus size: 43
21437294 CGGCATTACT
21437304 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* *
21437347 CCTGCTAGGCACGAAGCCCCAAATACACATCACCGGCACGAAG
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
* * *
21437390 CCTGCTAGGCACGAAGGCCCGAATATACATCACTGGCACGAAA
1 CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
*
21437433 CCTGCTAGGCACAAAGGCCCGAATA
1 CCTGCTAGGCACGAAGGCCCGAATA
21437458 TAATACCAGC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.32, C:0.34, G:0.23, T:0.11
Consensus pattern (43 bp):
CCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAG
Found at i:21437497 original size:38 final size:38
Alignment explanation
Indices: 21437455--21437573 Score: 121
Period size: 38 Copynumber: 3.1 Consensus size: 38
21437445 AAAGGCCCGA
* * * * *
21437455 ATATAATACCAGCAATAGGCCTGCGGGATTTATCCCTG
1 ATATAATACCAGCAAGAAGCCTACGGGATTTAACCCAG
*
21437493 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCAG
1 ATATAATACCAGCAAGAAGCCTACGGGATTTAACCCAG
** * * *
21437531 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCAG
1 ATATAATACCAGCAAGAAGCCTACGGG-ATTTAA-CCCAG
21437571 ATA
1 ATA
21437574 CACATCAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
38 56 0.81
39 5 0.07
40 8 0.12
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCAAGAAGCCTACGGGATTTAACCCAG
Found at i:21440281 original size:14 final size:13
Alignment explanation
Indices: 21440264--21440293 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21440254 CCCAATTTCG
21440264 AAAAAAGAAAGAAA
1 AAAAAAGAAA-AAA
21440278 AAAAAAGAAAAAA
1 AAAAAAGAAAAAA
21440291 AAA
1 AAA
21440294 TAACAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAA
Found at i:21440284 original size:10 final size:10
Alignment explanation
Indices: 21440263--21440293 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
21440253 CCCCAATTTC
21440263 GAAAAAAGAAA
1 GAAAAAA-AAA
21440274 GAAAAAAAAA
1 GAAAAAAAAA
21440284 GAAAAAAAAA
1 GAAAAAAAAA
21440294 TAACAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.65
11 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:21441258 original size:25 final size:25
Alignment explanation
Indices: 21441230--21441299 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21441220 CTCTTTTAAT
*
21441230 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21441255 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
21441280 AACTTGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21441300 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:21441540 original size:27 final size:27
Alignment explanation
Indices: 21441510--21441772 Score: 391
Period size: 27 Copynumber: 9.7 Consensus size: 27
21441500 ATGGTTATTT
* * *
21441510 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
21441537 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
21441564 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
21441591 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
21441618 TACCATACAGGGGTATTTTGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
21441645 TACCCTACAAGGTTATTTCGGTAATCC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
21441672 TACCCGACATGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
21441699 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
21441726 TACCCTACAAGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
21441753 TACCCTACAGGGGTATTTCG
1 TACCCTACAGGGGTATTTCG
21441773 ATATTTTACA
Statistics
Matches: 210, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 210 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:21441813 original size:27 final size:27
Alignment explanation
Indices: 21441765--21441832 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
21441755 CCCTACAGGG
* *
21441765 GTATTTCGAT-ATTTTACAAATCGAGA
1 GTATTTCGATAATTTCACAAATCAAGA
*
21441791 GTATTTCGATAATTTCACAAATCAAGG
1 GTATTTCGATAATTTCACAAATCAAGA
* *
21441818 GTATTTTGGTAATTT
1 GTATTTCGATAATTT
21441833 TGTAAACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 10 0.28
27 26 0.72
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (27 bp):
GTATTTCGATAATTTCACAAATCAAGA
Found at i:21441874 original size:27 final size:27
Alignment explanation
Indices: 21441813--21441865 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
21441803 TTTCACAAAT
*
21441813 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAC
21441840 CAAGGGTATTTTAGTAATTTTGTAAA
1 CAAGGGTATTTTAGTAATTTTGTAAA
21441866 TTGAGGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:21441883 original size:54 final size:54
Alignment explanation
Indices: 21441853--21442087 Score: 319
Period size: 54 Copynumber: 4.4 Consensus size: 54
21441843 GGGTATTTTA
* * *
21441853 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTTT-TAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* *
21441906 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* * * *
21441960 GTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* * ***
21442014 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
* *
21442068 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
21442088 CATTTCAGTA
Statistics
Matches: 162, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 32 0.20
54 130 0.80
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATG
Found at i:21442075 original size:27 final size:27
Alignment explanation
Indices: 21441853--21442062 Score: 305
Period size: 27 Copynumber: 7.8 Consensus size: 27
21441843 GGGTATTTTA
* *
21441853 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
21441880 GTAATTTT-TAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
21441906 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * *
21441933 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
* * *
21441960 GTAATTCTGTAAATCGAGAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
* *
21441987 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACG
*
21442014 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACG
*
21442041 GTAATTTTGTAAATCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
21442063 CTTTGGTAAT
Statistics
Matches: 168, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 25 0.15
27 143 0.85
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAACG
Found at i:21442081 original size:27 final size:27
Alignment explanation
Indices: 21441853--21442087 Score: 283
Period size: 27 Copynumber: 8.7 Consensus size: 27
21441843 GGGTATTTTA
* * *
21441853 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
21441880 GTAATTTT-TAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
21441906 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21441933 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * *
21441960 GTAATTCTGTAAATCGAGAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
21441987 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21442014 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* ***
21442041 GTAATTTTGTAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21442068 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
21442088 CATTTCAGTA
Statistics
Matches: 186, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 25 0.13
27 161 0.87
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:21442087 original size:81 final size:81
Alignment explanation
Indices: 21441853--21442062 Score: 341
Period size: 81 Copynumber: 2.6 Consensus size: 81
21441843 GGGTATTTTA
* *
21441853 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTTT-TAAATCGAGGGTAAAACGGTAATTTTATA
1 GTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
21441917 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * *
21441933 GTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTATA
1 GTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
*
21441998 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
*
21442014 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
1 GTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
21442063 CTTTGGTAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 31 0.26
81 87 0.74
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATA
AATCGAGGGTAAAACG
Found at i:21442100 original size:81 final size:81
Alignment explanation
Indices: 21441825--21442062 Score: 309
Period size: 81 Copynumber: 3.0 Consensus size: 81
21441815 AGGGTATTTT
* * * ** * * *
21441825 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTTT-T
1 GGTAATTTTATAAATCGAGGGTAAATCAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGT
21441889 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
21441905 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGT
1 GGTAATTTTATAAATCGAGGGTAAATCAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGT
*
21441970 AAATCGAGAGTAAAAC
66 AAATCGAGGGTAAAAC
* * *
21441986 GGTAATTCTATAAATCGAGGGTAAAAT-GGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTG
1 GGTAATTTTATAAATCGAGGGT-AAATCAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTG
21442050 TAAATCGAGGGTA
65 TAAATCGAGGGTA
21442063 CTTTGGTAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 51 0.37
81 83 0.61
82 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (81 bp):
GGTAATTTTATAAATCGAGGGTAAATCAGTAATTCTATAAATTGAGGGTAAAACGGTAATTTTGT
AAATCGAGGGTAAAAC
Found at i:21446295 original size:15 final size:16
Alignment explanation
Indices: 21446259--21446297 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
21446249 GCATATTTTC
21446259 ATTCAAACATTACCAT
1 ATTCAAACATTACCAT
*
21446275 A-CCAAA-ATTACCAT
1 ATTCAAACATTACCAT
21446289 ATTCAAACA
1 ATTCAAACA
21446298 CATATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
14 9 0.47
15 8 0.42
16 2 0.11
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (16 bp):
ATTCAAACATTACCAT
Found at i:21446995 original size:23 final size:22
Alignment explanation
Indices: 21446893--21447022 Score: 109
Period size: 23 Copynumber: 5.5 Consensus size: 22
21446883 GAGTCATGGT
21446893 CAGTAAGCTCTTACTGAGCTGATAAA
1 CAGTAAGCTCTT--TGAGCTG--AAA
*
21446919 CAGTAAGCTCTATTGAGCTAAAAA
1 CAGTAAGCTCT-TTGAGCT-GAAA
* *
21446943 CGGTAAGCTCTATTGAACT-AAA
1 CAGTAAGCTCT-TTGAGCTGAAA
*
21446965 CAGTAAGCTCTTTCGAGCTGAAT
1 CAGTAAGCTCTTT-GAGCTGAAA
* **
21446988 CAGTAAGCCCCAATGAGCTGAAA
1 CAGTAAG-CTCTTTGAGCTGAAA
21447011 CAGTAAGCTCTT
1 CAGTAAGCTCTT
21447023 ACAAGCTATG
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.02
22 19 0.22
23 24 0.28
24 23 0.27
25 6 0.07
26 11 0.13
27 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (22 bp):
CAGTAAGCTCTTTGAGCTGAAA
Found at i:21450897 original size:46 final size:51
Alignment explanation
Indices: 21450847--21450953 Score: 134
Period size: 53 Copynumber: 2.2 Consensus size: 51
21450837 TAGCCGTGCC
*
21450847 ATGGTCTTACACGG-ATCACA-TAT-A-AT-ACCGATGCCATATCCCAGAT
1 ATGGTCTTACACGGAATCACATTATCACATCACCGATGCCATAGCCCAGAT
* *
21450893 ATGGTCTTATACGGAATCACATTATCACATCACACCGATGCCATAGCCCAGCT
1 ATGGTCTTACACGGAATCACATTATCACAT--CACCGATGCCATAGCCCAGAT
21450946 ATGGTCTT
1 ATGGTCTT
21450954 TTACGGGAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
46 13 0.25
47 6 0.12
48 3 0.06
49 1 0.02
50 2 0.04
53 26 0.51
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (51 bp):
ATGGTCTTACACGGAATCACATTATCACATCACCGATGCCATAGCCCAGAT
Found at i:21450943 original size:53 final size:51
Alignment explanation
Indices: 21450873--21451026 Score: 168
Period size: 53 Copynumber: 3.0 Consensus size: 51
21450863 CACATATAAT
21450873 ACCGATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATCAC
1 ACCGATGCCATA-CCCAGATATGGTCTTATACGGGAA-CACA-TATCACATCAC
* * * **
21450926 ACCGATGCCATAGCCCAGCTATGGTCTTTTACGGGAACACGTATCACATTGC
1 ACCGATGCCATA-CCCAGATATGGTCTTATACGGGAACACATATCACATCAC
* * * *
21450978 ACCGATGCGATACCCA-ACTATAGTCTTAAACGGGCACACATATCACATC
1 ACCGATGCCATACCCAGA-TATGGTCTTATACGGGAACACATATCACATC
21451027 TTTTCCGTCA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 29 0.34
52 20 0.24
53 32 0.38
54 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
ACCGATGCCATACCCAGATATGGTCTTATACGGGAACACATATCACATCAC
Found at i:21454870 original size:117 final size:116
Alignment explanation
Indices: 21454716--21454948 Score: 439
Period size: 117 Copynumber: 2.0 Consensus size: 116
21454706 AAGCTTCCGT
21454716 AAAACAATTGCGAATACGTGATGTTTTGAACAACAGTAGTTGCTTTGGAAAATCGTGTTCTAGTA
1 AAAACAATTGCGAATACGTGATGTTTTGAACAACAGTAGTTGCTTTGGAAAATCGTGTTCTAGTA
21454781 CTAGCAATTATAATAAAAATAAATAAAATTCCAAATTTGAAATCCAGAAAA
66 CTAGCAATTATAATAAAAATAAATAAAATTCCAAATTTGAAATCCAGAAAA
* *
21454832 AAAAGCAATTGTGGATACGTGATGTTTTGAACAACAGTAGTTGCTTTGGAAAATCGTGTTCTAGT
1 AAAA-CAATTGCGAATACGTGATGTTTTGAACAACAGTAGTTGCTTTGGAAAATCGTGTTCTAGT
21454897 ACTAGCAATTATAATAAAAATAAATAAAATTCCAAATTTGAAATCCAGAAAA
65 ACTAGCAATTATAATAAAAATAAATAAAATTCCAAATTTGAAATCCAGAAAA
21454949 TTACAACGGC
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
116 4 0.04
117 110 0.96
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (116 bp):
AAAACAATTGCGAATACGTGATGTTTTGAACAACAGTAGTTGCTTTGGAAAATCGTGTTCTAGTA
CTAGCAATTATAATAAAAATAAATAAAATTCCAAATTTGAAATCCAGAAAA
Found at i:21455372 original size:251 final size:251
Alignment explanation
Indices: 21454929--21455429 Score: 876
Period size: 251 Copynumber: 2.0 Consensus size: 251
21454919 AATAAAATTC
*
21454929 CAAATTTGAAATCCAGAAAATTACAACGGCTTTACTACAACCCACATAAAAAAATTTAAAAGTAA
1 CAAATTTGAAATCCAAAAAATTACAACGGCTTTACTACAACCCACATAAAAAAATTTAAAAGTAA
* * * *
21454994 TAATCAAAACTATAACATAAACAGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAGCTCTGATCCGT
66 TAATCAAAACTATAAAATAAACAGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAACTCCGATCCGC
* * * *
21455059 CTAAGGCTGGAAATTACTTGAAAGGTTAATAAACGGGGTTAGTTTACGAAAACTCAGTGTGAAAT
131 CTAAGGCTGAAAATTACCTGAAAGGTTAATAAACGGGGTGAGTTTACAAAAACTCAGTGTGAAAT
*
21455124 CTCCTACTATATAAAAGGAATAGTCAGTCATATAAAAGAATTAAAAGTCTGGCCCT
196 CTCCTACTATATAAAAGGAACAGTCAGTCATATAAAAGAATTAAAAGTCTGGCCCT
* *
21455180 CAAATTTGAAATCCAAAAAATTACTACGGCTTTACTACAACCCACATAAAATAATTTAAAAGTAA
1 CAAATTTGAAATCCAAAAAATTACAACGGCTTTACTACAACCCACATAAAAAAATTTAAAAGTAA
*
21455245 TAATCAAAACTATAAAATAAACAGTGTGTGTGGCTTCCTTCGAGCCCCTCGCAACTCCGATCCGC
66 TAATCAAAACTATAAAATAAACAGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAACTCCGATCCGC
21455310 CTAAGGCTGAAAATTACCTGAAAGGTTAATAAACGGGGTGAGTTTACAAAAACTCAGTGTGAAAT
131 CTAAGGCTGAAAATTACCTGAAAGGTTAATAAACGGGGTGAGTTTACAAAAACTCAGTGTGAAAT
*
21455375 CTCCTACTATATAAAAGGAACAGTCAGTCGTATAAAAGAATTAAAAGTCTGGCCC
196 CTCCTACTATATAAAAGGAACAGTCAGTCATATAAAAGAATTAAAAGTCTGGCCC
21455430 CAGCCCTACT
Statistics
Matches: 236, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
251 236 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (251 bp):
CAAATTTGAAATCCAAAAAATTACAACGGCTTTACTACAACCCACATAAAAAAATTTAAAAGTAA
TAATCAAAACTATAAAATAAACAGTGTGTGTGGCTTCCTCCGAGCCCCTCGCAACTCCGATCCGC
CTAAGGCTGAAAATTACCTGAAAGGTTAATAAACGGGGTGAGTTTACAAAAACTCAGTGTGAAAT
CTCCTACTATATAAAAGGAACAGTCAGTCATATAAAAGAATTAAAAGTCTGGCCCT
Found at i:21455555 original size:6 final size:6
Alignment explanation
Indices: 21455525--21455681 Score: 58
Period size: 6 Copynumber: 25.3 Consensus size: 6
21455515 AAGAAACATT
* * *
21455525 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGGTGA A--AGA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA---GA ATCAGA ATCAGA
* * * *
21455574 ATCAGA ATCAGA ATTAG- GTCACAGA ATCAGA ATAAGT ATCAGGTA A-CAGA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
21455624 ATCAGA ATTAG- GTGACAAA ATCAGA ATCAGT ATCAGGCA A-CAGA ATCAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
21455674 ATCAGA AT
1 ATCAGA AT
21455682 GTGAATGCAA
Statistics
Matches: 111, Mismatches: 21, Indels: 38
0.65 0.12 0.22
Matches are distributed among these distances:
4 3 0.03
5 7 0.06
6 83 0.75
7 11 0.10
8 4 0.04
9 3 0.03
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:21455599 original size:25 final size:25
Alignment explanation
Indices: 21455571--21455681 Score: 101
Period size: 25 Copynumber: 4.7 Consensus size: 25
21455561 TGAAAGAATT
*
21455571 AGAATCAGAATCAGAATTAGGTCAC
1 AGAATCAGAATCAGAATCAGGTCAC
* *
21455596 AGAATCAGAATAAGTATCAGGT---
1 AGAATCAGAATCAGAATCAGGTCAC
* *
21455618 --AA-CAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTCAC
* *
21455640 AAAATCAGAATCAGTATCAGG-CAAC
1 AGAATCAGAATCAGAATCAGGTC-AC
21455665 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
21455682 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.21
20 2 0.03
24 2 0.03
25 50 0.74
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTCAC
Found at i:21455600 original size:19 final size:19
Alignment explanation
Indices: 21455576--21455650 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 19
21455566 GAATTAGAAT
*
21455576 CAGAATCAGAATTAGGTCA
1 CAGAATCAGAATTAGGTAA
21455595 CAGAATCAGAATAAGTATCAGGTAA
1 CAGAATCAG---AA-T-T-AGGTAA
*
21455620 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATTAGGTAA
*
21455639 CAAAATCAGAAT
1 CAGAATCAGAAT
21455651 CAGTATCAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
19 25 0.53
20 1 0.02
21 1 0.02
22 4 0.09
23 1 0.02
24 1 0.02
25 14 0.30
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:21455606 original size:31 final size:31
Alignment explanation
Indices: 21455534--21455615 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
21455524 TATCAGAACT
* * *
21455534 AGAATCAAAATGAGAATCAGAATCAGGTGAA
1 AGAATCAGAATAAGAATCAGAATCAGGTCAA
* * * *
21455565 AGAATTAGAATCAGAATCAGAATTAGGTCAC
1 AGAATCAGAATAAGAATCAGAATCAGGTCAA
*
21455596 AGAATCAGAATAAGTATCAG
1 AGAATCAGAATAAGAATCAG
21455616 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATAAGAATCAGAATCAGGTCAA
Found at i:21455624 original size:44 final size:44
Alignment explanation
Indices: 21455576--21455675 Score: 164
Period size: 44 Copynumber: 2.3 Consensus size: 44
21455566 GAATTAGAAT
* *
21455576 CAGAATCAGAATTAGGTCACAGAATCAGAATAAGTATCAGGTAA
1 CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
* *
21455620 CAGAATCAGAATTAGGTGACAAAATCAGAATCAGTATCAGGCAA
1 CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
21455664 CAGAATCAGAAT
1 CAGAATCAGAAT
21455676 CAGAATGTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (44 bp):
CAGAATCAGAATTAGGTCACAAAATCAGAATAAGTATCAGGCAA
Found at i:21455887 original size:6 final size:6
Alignment explanation
Indices: 21455831--21456027 Score: 109
Period size: 6 Copynumber: 32.0 Consensus size: 6
21455821 TAGCCCATTA
* * * * *
21455831 CAGAAT AAGAAA CAGTAT CAGAA- CTAGAAT CAAAAT CAGAAT CAAAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT C-AGAAT CAGAAT CAGAAT CAGAAT
* * * *
21455879 CAGAAT CAG-GT GACAGAAT CAGAAT CAGAAT CAAAAT TATGTGA- CAGAAT
1 CAGAAT CAGAAT --CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT
* *
21455929 CAGAAT CAGAAT CAGGTAA- CAAAAT CAGAAT CAGAAT TAGAAT CAGAAT
1 CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
* * * * *
21455978 TAG-GT GACAGAAT CAGAAT CAGTAT TAGGTAA- CAGAAT CAGAAT TAGAAT
1 CAGAAT --CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
21456028 GTGAATGCAA
Statistics
Matches: 143, Mismatches: 31, Indels: 34
0.69 0.15 0.16
Matches are distributed among these distances:
5 8 0.06
6 117 0.82
7 12 0.08
8 6 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:21455898 original size:25 final size:25
Alignment explanation
Indices: 21455867--21455965 Score: 108
Period size: 25 Copynumber: 3.7 Consensus size: 25
21455857 GAATCAAAAT
*
21455867 CAGAATCAAAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTGA
*
21455892 CAGAATCAGAATCAGAATCAAAATTATGTGA
1 CAGAATCAGAATCAGAATC------AGGTGA
*
21455923 CAGAATCAGAATCAGAATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTGA
*
21455948 CAAAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
21455966 TAGAATCAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
25 39 0.62
31 24 0.38
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTGA
Found at i:21455901 original size:31 final size:31
Alignment explanation
Indices: 21455864--21455999 Score: 152
Period size: 31 Copynumber: 4.4 Consensus size: 31
21455854 CTAGAATCAA
*
21455864 AATCAGAATCAAAATCAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGGTGACAG
* * *
21455895 AATCAGAATCAGAATCAAAATTATGTGACAG
1 AATCAGAATCAGAATCAGAATCAGGTGACAG
**
21455926 AATCAGAATCAGAATCAGGTAA-CA--AAATCAG
1 AATCAGAATCAGAATCA-G-AATCAGGTGA-CAG
* *
21455957 AATCAGAATTAGAATCAGAATTAGGTGACAG
1 AATCAGAATCAGAATCAGAATCAGGTGACAG
21455988 AATCAGAATCAG
1 AATCAGAATCAG
21456000 TATTAGGTAA
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
29 2 0.02
30 3 0.03
31 77 0.90
32 2 0.02
33 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGAATCAGGTGACAG
Found at i:21455988 original size:25 final size:25
Alignment explanation
Indices: 21455960--21456027 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
21455950 AAATCAGAAT
* *
21455960 CAGAATTAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
21455985 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
21456010 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
21456028 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.24
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:21456005 original size:37 final size:37
Alignment explanation
Indices: 21455847--21456018 Score: 124
Period size: 37 Copynumber: 4.6 Consensus size: 37
21455837 AAGAAACAGT
* *
21455847 ATCAGAACTAGAATCAAAATCA-G-AATCAAAATCAGA
1 ATCAGAATTAGAATCAGAATCAGGTAA-CAAAATCAGA
* * * *
21455883 ATCAG-GTGACAGAATCAGAATCA-G-AATCAAAATTATGTG
1 ATCAGAAT--TAGAATCAGAATCAGGTAA-CAAAATCA-G-A
*
21455922 A-CAGAATCAGAATCAGAATCAGGTAACAAAATCAGA
1 ATCAGAATTAGAATCAGAATCAGGTAACAAAATCAGA
* * *
21455958 ATCAGAATTAGAATCAGAATTAGGTGACAGAATCAGA
1 ATCAGAATTAGAATCAGAATCAGGTAACAAAATCAGA
*
21455995 ATCAGTATTAGGTAA-CAGAATCAG
1 ATCAGAATTA-G-AATCAGAATCAG
21456019 AATTAGAATG
Statistics
Matches: 111, Mismatches: 15, Indels: 18
0.77 0.10 0.12
Matches are distributed among these distances:
36 6 0.05
37 78 0.70
38 21 0.19
39 6 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
ATCAGAATTAGAATCAGAATCAGGTAACAAAATCAGA
Found at i:21456008 original size:62 final size:62
Alignment explanation
Indices: 21455892--21456027 Score: 209
Period size: 62 Copynumber: 2.2 Consensus size: 62
21455882 AATCAGGTGA
*
21455892 CAGAATCAGAATCAGAATCAAAATTATGTGACAGAATCAGAATCAGAATCAGGTAACAAAAT
1 CAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAAT
* * * * *
21455954 CAGAATCAGAATTAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATTAGGTAACAGAAT
1 CAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAAT
*
21456016 CAGAATTAGAAT
1 CAGAATCAGAAT
21456028 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (62 bp):
CAGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGAATCAGGTAACAAAAT
Found at i:21456020 original size:31 final size:31
Alignment explanation
Indices: 21455830--21456027 Score: 144
Period size: 31 Copynumber: 6.6 Consensus size: 31
21455820 TTAGCCCATT
* * * *
21455830 ACAGAATAAGAAACAGTATCAGAACTA-G-A
1 ACAGAATCAGAATCAGAATCAGAATTAGGTA
* * * *
21455859 ATCAAAATCAGAATCAAAATCAGAATCAGGTG
1 A-CAGAATCAGAATCAGAATCAGAATTAGGTA
* * *
21455891 ACAGAATCAGAATCAGAATCAAAATTATGTG
1 ACAGAATCAGAATCAGAATCAGAATTAGGTA
* * ***
21455922 ACAGAATCAGAATCAGAATCAG-GTAACAAA
1 ACAGAATCAGAATCAGAATCAGAATTAGGTA
*
21455952 ATCAGAATCAGAATTAGAATCAGAATTAGGT-
1 A-CAGAATCAGAATCAGAATCAGAATTAGGTA
*
21455983 ---G-A-CAGAATCAGAATCAGTATTAGGTA
1 ACAGAATCAGAATCAGAATCAGAATTAGGTA
*
21456009 ACAGAATCAGAATTAGAAT
1 ACAGAATCAGAATCAGAAT
21456028 GTGAATGCAA
Statistics
Matches: 129, Mismatches: 29, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
25 21 0.16
26 1 0.01
27 1 0.01
29 2 0.02
30 23 0.18
31 78 0.60
32 3 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
ACAGAATCAGAATCAGAATCAGAATTAGGTA
Found at i:21456287 original size:27 final size:26
Alignment explanation
Indices: 21456250--21456347 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
21456240 AGCATGGCTG
**
21456250 CCAGAACAGATATTGTGACAGAGTTA
1 CCAGAACAGATATTGTGACAGAGACA
*
21456276 CCAGATACAGATATTGTGACAGGGACA
1 CCAGA-ACAGATATTGTGACAGAGACA
* *
21456303 CCAGAACAGATATT-TGTAGCATAGCCA
1 CCAGAACAGATATTGTG-A-CAGAGACA
*
21456330 CCAGAAACAGATAATGTG
1 CCAG-AACAGATATTGTG
21456348 GCAAAGCCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.03
26 15 0.25
27 32 0.53
28 9 0.15
29 2 0.03
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGACA
Found at i:21456355 original size:27 final size:27
Alignment explanation
Indices: 21456301--21456357 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
21456291 GTGACAGGGA
* *
21456301 CACCAGAACAGATATTTGTAGCATAGC
1 CACCAGAACAGATATATGTAGCAAAGC
*
21456328 CACCAGAAACAGATA-ATGTGGCAAAGC
1 CACCAG-AACAGATATATGTAGCAAAGC
21456355 CAC
1 CAC
21456358 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (27 bp):
CACCAGAACAGATATATGTAGCAAAGC
Found at i:21456544 original size:22 final size:22
Alignment explanation
Indices: 21456516--21456580 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
21456506 GCAAATACGT
*
21456516 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
21456538 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
21456560 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
21456581 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:21457054 original size:27 final size:27
Alignment explanation
Indices: 21457013--21457098 Score: 145
Period size: 27 Copynumber: 3.2 Consensus size: 27
21457003 GGTATTTTGA
*
21457013 TATTTCGGTATTTCTACCCTACAAGGG
1 TATTTCGGTAATTCTACCCTACAAGGG
* *
21457040 TATTTCGATAATTCTACCCTACAGGGG
1 TATTTCGGTAATTCTACCCTACAAGGG
21457067 TATTTCGGTAATTCTACCCTACAAGGG
1 TATTTCGGTAATTCTACCCTACAAGGG
21457094 TATTT
1 TATTT
21457099 TGACAATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
TATTTCGGTAATTCTACCCTACAAGGG
Found at i:21457120 original size:27 final size:27
Alignment explanation
Indices: 21457090--21457154 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
21457080 CTACCCTACA
*
21457090 AGGGTATTTTGACAATTTTGTAAATTG
1 AGGGTAATTTGACAATTTTGTAAATTG
*** **
21457117 AGGGTAAAGCGGTAATTTTGTAAATTG
1 AGGGTAATTTGACAATTTTGTAAATTG
*
21457144 AGGGTACTTTG
1 AGGGTAATTTG
21457155 GTAATTTTAC
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.05, G:0.28, T:0.38
Consensus pattern (27 bp):
AGGGTAATTTGACAATTTTGTAAATTG
Found at i:21457275 original size:27 final size:26
Alignment explanation
Indices: 21457143--21457322 Score: 137
Period size: 27 Copynumber: 6.7 Consensus size: 26
21457133 TTTGTAAATT
* * *
21457143 GAGGGTACTTTGGTAATTTTACAAGTC
1 GAGGGTATTTTAGTAATTTTACAA-AC
* **
21457170 GAGGGTATTTCAGTAATTTTACAGGTC
1 GAGGGTATTTTAGTAATTTTACA-AAC
* *
21457197 GAGGGTATTTCAGTAATTTCACAAATC
1 GAGGGTATTTTAGTAATTTTACAAA-C
* * *
21457224 -AGCGATATTTTGGTTATTTTACAAAC
1 GAG-GGTATTTTAGTAATTTTACAAAC
* *
21457250 TAGTGGTATTTTGGTAATTTTACAAAC
1 GAG-GGTATTTTAGTAATTTTACAAAC
* * *
21457277 CAGGGGTATTTTTGTAATTTTATAAACC
1 GA-GGGTATTTTAGTAATTTTACAAA-C
*
21457305 AAGGGTATTTTAGTAATT
1 GAGGGTATTTTAGTAATT
21457323 CTACCCTACA
Statistics
Matches: 127, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
26 3 0.02
27 121 0.95
28 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (26 bp):
GAGGGTATTTTAGTAATTTTACAAAC
Found at i:21458552 original size:44 final size:44
Alignment explanation
Indices: 21458467--21458554 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
21458457 TATGGACAAT
*
21458467 TAACTCGATTTAACCCAAGATCTTACTCTTTCCTAGATCTAGGC
1 TAACTCGATTTAACCCAAGATCTTACTCTTTCCCAGATCTAGGC
*
21458511 TAACTCGATTTAACCCAAGATCTTCCTCTTTCCCCAG-TCTAGGC
1 TAACTCGATTTAACCCAAGATCTTACTCTTT-CCCAGATCTAGGC
21458555 CCAGACTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 37 0.90
45 4 0.10
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (44 bp):
TAACTCGATTTAACCCAAGATCTTACTCTTTCCCAGATCTAGGC
Found at i:21464885 original size:26 final size:26
Alignment explanation
Indices: 21464856--21464908 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21464846 TGATAAAAAT
21464856 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21464882 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21464908 T
1 T
21464909 ATGGGCATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21474185 original size:8 final size:8
Alignment explanation
Indices: 21474172--21474207 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
21474162 CTAGATCGGC
21474172 AAAAGCCG
1 AAAAGCCG
21474180 AAAAGCCG
1 AAAAGCCG
*
21474188 AAATGCCG
1 AAAAGCCG
*
21474196 AAATGCCG
1 AAAAGCCG
21474204 AAAA
1 AAAA
21474208 CTGGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (8 bp):
AAAAGCCG
Found at i:21481686 original size:34 final size:34
Alignment explanation
Indices: 21481643--21481709 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
21481633 TGAACAAAAT
21481643 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
1 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
* * *
21481677 AGTCTGGGCCTTAGCCCATTTTAGTAACAGTAG
1 AGTCTGGGCCTAAGCCCATATCAGTAACAGTAG
21481710 TTGTGGCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (34 bp):
AGTCTGGGCCTAAGCCCATATCAGTAACAGTAGC
Found at i:21495989 original size:43 final size:43
Alignment explanation
Indices: 21495942--21496024 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
21495932 GTTTCAAGCT
21495942 TTTTTTAAATTAAT-TCTTTTAATTAATAAATATATTATTTTCA
1 TTTTTTAAATTAATAT-TTTTAATTAATAAATATATTATTTTCA
* * * *
21495985 TTTTTTTAATTCATATTTTTAATTAATAATTATTTTATTT
1 TTTTTTAAATTAATATTTTTAATTAATAAATATATTATTT
21496025 ATAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.63
Consensus pattern (43 bp):
TTTTTTAAATTAATATTTTTAATTAATAAATATATTATTTTCA
Found at i:21496108 original size:51 final size:50
Alignment explanation
Indices: 21496053--21496150 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
21496043 TGCAAATATC
* *
21496053 ATTAATTGAAAG-ATGAATTAAAAATAAAAAAATCTTGAAAATAATATATTT
1 ATTAATTGAAAGAAT-AATTAAAAATAAAAAAAGCTT-AAAACAATATATTT
*
21496104 ATTAATTTAAAGCAATAATTAAAAATAAAAAAAGCTTAAAACAATAT
1 ATTAATTGAAAG-AATAATTAAAAATAAAAAAAGCTTAAAACAATAT
21496151 GAAATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 20 0.48
52 20 0.48
53 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (50 bp):
ATTAATTGAAAGAATAATTAAAAATAAAAAAAGCTTAAAACAATATATTT
Found at i:21498562 original size:43 final size:43
Alignment explanation
Indices: 21498515--21498597 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
21498505 GTTTCAAGCT
21498515 TTTTTTAAATTAAT-TCTTTTAATTAATAAATATATTATTTTCA
1 TTTTTTAAATTAATAT-TTTTAATTAATAAATATATTATTTTCA
* * * *
21498558 TTTTTTTAATTCATATTTTTAATTAATAATTATTTTATTT
1 TTTTTTAAATTAATATTTTTAATTAATAAATATATTATTT
21498598 ATAAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.63
Consensus pattern (43 bp):
TTTTTTAAATTAATATTTTTAATTAATAAATATATTATTTTCA
Found at i:21498681 original size:51 final size:50
Alignment explanation
Indices: 21498626--21498723 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
21498616 TGCAAATATC
* *
21498626 ATTAATTGAAAG-ATGAATTAAAAATAAAAAAATCTTGAAAATAATATATTT
1 ATTAATTGAAAGAAT-AATTAAAAATAAAAAAAGCTT-AAAACAATATATTT
*
21498677 ATTAATTTAAAGCAATAATTAAAAATAAAAAAAGCTTAAAACAATAT
1 ATTAATTGAAAG-AATAATTAAAAATAAAAAAAGCTTAAAACAATAT
21498724 GAAATAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 20 0.48
52 20 0.48
53 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (50 bp):
ATTAATTGAAAGAATAATTAAAAATAAAAAAAGCTTAAAACAATATATTT
Found at i:21499413 original size:31 final size:31
Alignment explanation
Indices: 21499377--21499475 Score: 87
Period size: 33 Copynumber: 3.1 Consensus size: 31
21499367 TTTTACATGC
*
21499377 CATTTACACCTCATTTAATTAGATTTTTAAT
1 CATTTACACATCATTTAATTAGATTTTTAAT
* *
21499408 CATTTA-ATGA-CATGTCAATTA-ATTTTTACATCT
1 CATTTACA-CATCAT-TTAATTAGATTTTTA-A--T
*
21499441 CATTTACACATAATTTAATTAGATTTTTTAAT
1 CATTTACACATCATTTAATTAGA-TTTTTAAT
21499473 CAT
1 CAT
21499476 AAATCCCTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
30 11 0.21
31 13 0.25
32 4 0.08
33 14 0.26
34 5 0.09
35 6 0.11
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.47
Consensus pattern (31 bp):
CATTTACACATCATTTAATTAGATTTTTAAT
Found at i:21499445 original size:64 final size:65
Alignment explanation
Indices: 21499341--21499475 Score: 193
Period size: 64 Copynumber: 2.1 Consensus size: 65
21499331 GTCCCTTCCC
* * * * *
21499341 AATCAATTAATGACATGTCAGCTATTTTTTACATGCCATTTACACCTCATTTAATTAGA-TTTTT
1 AATCATTTAATGACATGTCAACTAATTTTTACATGCCATTTACACATAATTTAATTAGATTTTTT
*
21499405 AATCATTTAATGACATGTCAATTAATTTTTACAT-CTCATTTACACATAATTTAATTAGATTTTT
1 AATCATTTAATGACATGTCAACTAATTTTTACATGC-CATTTACACATAATTTAATTAGATTTTT
21499469 T
65 T
21499470 AATCAT
1 AATCAT
21499476 AAATCCCTAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 1 0.02
64 51 0.81
65 11 0.17
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (65 bp):
AATCATTTAATGACATGTCAACTAATTTTTACATGCCATTTACACATAATTTAATTAGATTTTTT
Found at i:21499549 original size:19 final size:19
Alignment explanation
Indices: 21499527--21499580 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
21499517 AATGTTCTAT
*
21499527 CTTCACGTCTCTGTTGCTA
1 CTTCACGTCTCTGCTGCTA
* *
21499546 CTTCATGTCTCTGCTGCTG
1 CTTCACGTCTCTGCTGCTA
* *
21499565 CTTTACGTCCCTGCTG
1 CTTCACGTCTCTGCTG
21499581 TTATATTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.07, C:0.33, G:0.19, T:0.41
Consensus pattern (19 bp):
CTTCACGTCTCTGCTGCTA
Found at i:21504174 original size:62 final size:64
Alignment explanation
Indices: 21504079--21504211 Score: 155
Period size: 64 Copynumber: 2.1 Consensus size: 64
21504069 TTAGGGATTT
* * * * *
21504079 ATGATTAAAAAATCTAATTAACTAATGTGTAAAT-G-AGATAAAAATTAATTGACATGTCATTAA
1 ATGATTAAAAAATCTAATTAAATAAGGTATAAATGGCAG-TAAAAAATAACTGACATGTCATTAA
* *
21504142 ATGATT-AAAAATCTAATTAAATGAGGTATAAATGGCATGTAAAAAATAGCTGACATGTCATTAA
1 ATGATTAAAAAATCTAATTAAATAAGGTATAAATGGCA-GTAAAAAATAACTGACATGTCATTAA
*
21504206 TTGATT
1 ATGATT
21504212 GGGAAGGGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
62 23 0.39
63 7 0.12
64 28 0.47
65 1 0.02
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.33
Consensus pattern (64 bp):
ATGATTAAAAAATCTAATTAAATAAGGTATAAATGGCAGTAAAAAATAACTGACATGTCATTAA
Found at i:21504299 original size:16 final size:16
Alignment explanation
Indices: 21504278--21504319 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21504268 TACCTGCTCA
21504278 TTTTCTTTCACTTTTT
1 TTTTCTTTCACTTTTT
**
21504294 TTTTCTTTCTTTTTTT
1 TTTTCTTTCACTTTTT
21504310 TTTTACTTTC
1 TTTT-CTTTC
21504320 TCTAACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTTTCACTTTTT
Found at i:21504928 original size:11 final size:11
Alignment explanation
Indices: 21504914--21504954 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
21504904 TATTTCCTTC
21504914 CTATTTTGCTA
1 CTATTTTGCTA
*
21504925 CTATTTTACTA
1 CTATTTTGCTA
*
21504936 CTATGTTGCTA
1 CTATTTTGCTA
21504947 CTATTTTG
1 CTATTTTG
21504955 TTGTTATTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.54
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:21505028 original size:30 final size:31
Alignment explanation
Indices: 21504992--21505055 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
21504982 ACTTATTTTA
21504992 TTGTTAA-TTTTCTTATTATTTTAAAGACAT
1 TTGTTAATTTTTCTTATTATTTTAAAGACAT
* * *
21505022 TTGTTAATTTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTTCTTATTATTTTAAAGACAT
21505053 TTG
1 TTG
21505056 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTATTTTAAAGACAT
Found at i:21506513 original size:12 final size:12
Alignment explanation
Indices: 21506496--21506520 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21506486 TTTTGATACA
21506496 TTTTATAATTTT
1 TTTTATAATTTT
21506508 TTTTATAATTTT
1 TTTTATAATTTT
21506520 T
1 T
21506521 AATTAATTTA
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:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:21506523 original size:19 final size:21
Alignment explanation
Indices: 21506485--21506524 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21506475 TTAAAGGGCC
21506485 TTTTTGATACATTTTATAATT
1 TTTTTGATACATTTTATAATT
*
21506506 TTTTTTATA-ATTTT-TAATT
1 TTTTTGATACATTTTATAATT
21506525 AATTTAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTGATACATTTTATAATT
Found at i:21506869 original size:88 final size:89
Alignment explanation
Indices: 21506665--21506892 Score: 246
Period size: 88 Copynumber: 2.5 Consensus size: 89
21506655 GTCAAATGGC
* * * * * *
21506665 CTTTTTGATACATTTTGATACTTCAAGTACCCAATTGAGAGCAAAAAAAAAGCAGGGGCTTAATT
1 CTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTG---AAAAAAAGCAGGAGCTTAATT
* *
21506730 GCTTTTTGTTTAAAAAAGTTTGAAAAT
63 GCATTTTGTTTAAAAAAGTTTCAAAAT
* * * *
21506757 CTTTTTGATGTATTTCGAATGTTTAAGTACCCAATTGAGTGAAAGAAAA-CATGAGCTTAATTGC
1 CTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAA-AAAAGCAGGAGCTTAATTGC
* **
21506821 ATTTT-TTTGAAAAAG-TTCAAGGGT
65 ATTTTGTTTAAAAAAGTTTCAA-AAT
*
21506845 CTTTTTGATGCATTTTAAAAGTTTAAGTACCCAATTGAGTGAAAAAAA
1 CTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAA
21506893 TACATTTTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
87 8 0.07
88 50 0.43
89 20 0.17
90 4 0.03
92 33 0.29
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (89 bp):
CTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGAAAAAAAGCAGGAGCTTAATTGCA
TTTTGTTTAAAAAAGTTTCAAAAT
Found at i:21506912 original size:20 final size:20
Alignment explanation
Indices: 21506884--21506934 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
21506874 CCCAATTGAG
*
21506884 TGAAAAAAATACATTTTTTTT
1 TGAAAAAAATACA-TTTTTAT
21506905 TGAAAAAAATACATTTTTAT
1 TGAAAAAAATACATTTTTAT
21506925 TGAAAAAAAT
1 TGAAAAAAAT
21506935 TGTGAACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (20 bp):
TGAAAAAAATACATTTTTAT
Found at i:21510286 original size:24 final size:24
Alignment explanation
Indices: 21510259--21510332 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 24
21510249 AATCTTTAAC
21510259 TCCACCTGAGCTAAATGATAGAAA
1 TCCACCTGAGCTAAATGATAGAAA
* * ** *
21510283 TCCATCCT--GCTGAAT-CTTTAAC
1 TCCA-CCTGAGCTAAATGATAGAAA
21510305 TCCACCTGAGCTAAATGATAGAAA
1 TCCACCTGAGCTAAATGATAGAAA
21510329 TCCA
1 TCCA
21510333 TAATTTTTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 12 0.33
24 11 0.31
25 3 0.08
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (24 bp):
TCCACCTGAGCTAAATGATAGAAA
Found at i:21510308 original size:46 final size:46
Alignment explanation
Indices: 21510241--21510333 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
21510231 ATTCTCCAAC
21510241 TCCTGCAGAATCTTTAACTCCACCTGAGCTAAATGATAGAAATCCA
1 TCCTGCAGAATCTTTAACTCCACCTGAGCTAAATGATAGAAATCCA
*
21510287 TCCTGCTGAATCTTTAACTCCACCTGAGCTAAATGATAGAAATCCA
1 TCCTGCAGAATCTTTAACTCCACCTGAGCTAAATGATAGAAATCCA
21510333 T
1 T
21510334 AATTTTTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (46 bp):
TCCTGCAGAATCTTTAACTCCACCTGAGCTAAATGATAGAAATCCA
Found at i:21510312 original size:21 final size:21
Alignment explanation
Indices: 21510242--21510312 Score: 52
Period size: 23 Copynumber: 3.2 Consensus size: 21
21510232 TTCTCCAACT
*
21510242 CCTGCAGAATCTTTAACTCCA
1 CCTGCTGAATCTTTAACTCCA
* * ** *
21510263 CCTGAGCTAAATGATAGAAATCCA
1 CCT--GCTGAAT-CTTTAACTCCA
21510287 TCCTGCTGAATCTTTAACTCCA
1 -CCTGCTGAATCTTTAACTCCA
21510309 CCTG
1 CCTG
21510313 AGCTAAATGA
Statistics
Matches: 35, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 7 0.20
22 7 0.20
23 11 0.31
24 7 0.20
25 3 0.09
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (21 bp):
CCTGCTGAATCTTTAACTCCA
Found at i:21511435 original size:50 final size:49
Alignment explanation
Indices: 21511360--21511459 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 49
21511350 AAGATTCAAA
*
21511360 TTTGAAATGAATTTAGCCATTTCCTTCATAGATTTGGCTAACGGTACTT
1 TTTGAAATGAATTTAGACATTTCCTTCATAGATTTGGCTAACGGTACTT
21511409 NTTTGAAATGAATTTAGACATTTCCTTCATAGATTTGGCTAACGGTACTT
1 -TTTGAAATGAATTTAGACATTTCCTTCATAGATTTGGCTAACGGTACTT
21511459 T
1 T
21511460 AGAATTCCCG
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 1 0.02
50 48 0.98
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.41
Consensus pattern (49 bp):
TTTGAAATGAATTTAGACATTTCCTTCATAGATTTGGCTAACGGTACTT
Found at i:21514301 original size:40 final size:39
Alignment explanation
Indices: 21514246--21514380 Score: 171
Period size: 40 Copynumber: 3.3 Consensus size: 39
21514236 CAGCTACATG
*
21514246 TGGCACTTAGTGTGCGATTCGGAATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATTC-GAATAGCTTTGGCTATGTA
* **
21514286 TGGCACTTAGTGTGCGATTCGAGATAGCTTCGATTATGTA
1 TGGCACTTAGTGTGCGATTCGA-ATAGCTTTGGCTATGTA
**
21514326 TGGCACTTAGTGTGCGAGATTAAAATAGCTTTGGCTATGTAA
1 TGGCACTTAGTGTGC--GATTCGAATAGCTTTGGCTATGT-A
21514368 TGGCACTTAGTGT
1 TGGCACTTAGTGT
21514381 ACGAGATATC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.02
40 48 0.59
41 13 0.16
42 19 0.23
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (39 bp):
TGGCACTTAGTGTGCGATTCGAATAGCTTTGGCTATGTA
Found at i:21518176 original size:12 final size:12
Alignment explanation
Indices: 21518161--21518185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21518151 AAATGGAAGA
21518161 TGAGTTGGAATT
1 TGAGTTGGAATT
21518173 TGAGTTGGAATT
1 TGAGTTGGAATT
21518185 T
1 T
21518186 ATAAGATATA
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:0.00, G:0.32, T:0.44
Consensus pattern (12 bp):
TGAGTTGGAATT
Found at i:21522349 original size:28 final size:28
Alignment explanation
Indices: 21522318--21522412 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
21522308 GATGTCTTGT
21522318 ACACTAAGTGCCATCTTCAATAATTTGC
1 ACACTAAGTGCCATCTTCAATAATTTGC
* * *
21522346 ACACTAAGTGCTAT-TTCTGGAT-GTTTCGC
1 ACACTAAGTGCCATCTTC--AATAATTT-GC
* * *
21522375 ACACTAAGTTCCATCCTCAATAATTCGC
1 ACACTAAGTGCCATCTTCAATAATTTGC
21522403 ACACTAAGTG
1 ACACTAAGTG
21522413 TCGTTTTCAC
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.06
28 29 0.56
29 18 0.35
30 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (28 bp):
ACACTAAGTGCCATCTTCAATAATTTGC
Found at i:21522389 original size:57 final size:56
Alignment explanation
Indices: 21522286--21522412 Score: 175
Period size: 57 Copynumber: 2.2 Consensus size: 56
21522276 CACGGACGTA
* *
21522286 TCGCACACTAAGTGCCATCCTGGATGTCTTGTACACTAAGTGCCATCTTCAATAAT
1 TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATCCTCAATAAT
* * * *
21522342 TTGCACACTAAGTGCTATTTCTGGATGT-TTCGCACACTAAGTTCCATCCTCAATAAT
1 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GCACACTAAGTGCCATCCTCAATAAT
21522399 TCGCACACTAAGTG
1 TCGCACACTAAGTG
21522413 TCGTTTTCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 17 0.27
57 45 0.73
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (56 bp):
TCGCACACTAAGTGCCATCCTGGATGTCTTGCACACTAAGTGCCATCCTCAATAAT
Found at i:21527163 original size:47 final size:47
Alignment explanation
Indices: 21527105--21527408 Score: 536
Period size: 47 Copynumber: 6.5 Consensus size: 47
21527095 ATTCAGCCAA
21527105 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
21527152 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
21527199 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
21527246 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
21527293 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
21527340 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
21527387 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
21527409 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 247 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:21527616 original size:117 final size:117
Alignment explanation
Indices: 21527410--21527635 Score: 452
Period size: 117 Copynumber: 1.9 Consensus size: 117
21527400 TGTGATAAGT
21527410 CCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAAGCTTTATGCGAGAATAT
1 CCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAAGCTTTATGCGAGAATAT
21527475 TATCACTGATTAATGTCCGTAAGCTTCGTGCTCGTACTATATCCAAGCTCTA
66 TATCACTGATTAATGTCCGTAAGCTTCGTGCTCGTACTATATCCAAGCTCTA
21527527 CCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAAGCTTTATGCGAGAATAT
1 CCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAAGCTTTATGCGAGAATAT
21527592 TATCACTGATTAATGTCCGTAAGCTTCGTGCTCGTACTATATCC
66 TATCACTGATTAATGTCCGTAAGCTTCGTGCTCGTACTATATCC
21527636 GTCCGGGTAA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 109 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (117 bp):
CCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTAAAACCCCGCAAGCTTTATGCGAGAATAT
TATCACTGATTAATGTCCGTAAGCTTCGTGCTCGTACTATATCCAAGCTCTA
Found at i:21527686 original size:37 final size:37
Alignment explanation
Indices: 21527636--21527708 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
21527626 TACTATATCC
*
21527636 GTCCGGGTAAGACCCGATGACTACGTGTGGAGATTTT
1 GTCCGGGTAAGACCCGATAACTACGTGTGGAGATTTT
*
21527673 GTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 GTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
21527709 CGTCTGAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
GTCCGGGTAAGACCCGATAACTACGTGTGGAGATTTT
Found at i:21529032 original size:40 final size:40
Alignment explanation
Indices: 21528986--21529144 Score: 237
Period size: 40 Copynumber: 4.0 Consensus size: 40
21528976 GAGTGAAATG
21528986 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
21529026 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
21529066 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
21529106 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGATGT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGT
21529145 GTATTCGGGC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:21530825 original size:112 final size:112
Alignment explanation
Indices: 21530628--21530853 Score: 409
Period size: 112 Copynumber: 2.0 Consensus size: 112
21530618 AAACTTTGGA
21530628 AATGTGATAGGTTAAATGGTAGTGGGAAAATAATGCATAGTGGAAAAAAATGTAGACTTGCATGT
1 AATGTGATAGGTTAAATGGTAGTGGGAAAATAATGCATAGTGGAAAAAAATGTAGACTTGCATGT
21530693 CAAATTCCCCACTTTAGAGGAAGTGGCCGGCCATGATGGTATGGGAT
66 CAAATTCCCCACTTTAGAGGAAGTGGCCGGCCATGATGGTATGGGAT
* * *
21530740 AATGTGATAGGTTAAATGGTAGTGGGCAAATCATGCATAGTGGAAAAGCAA-GTAGACTTGCATG
1 AATGTGATAGGTTAAATGGTAGTGGGAAAATAATGCATAGTGGAAAA-AAATGTAGACTTGCATG
21530804 TCAAATTCCCCACTTTAGAGGAAGTGGCCGGCCATGATGGTATGGGAT
65 TCAAATTCCCCACTTTAGAGGAAGTGGCCGGCCATGATGGTATGGGAT
21530852 AA
1 AA
21530854 AAAAATATAT
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
112 108 0.98
113 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (112 bp):
AATGTGATAGGTTAAATGGTAGTGGGAAAATAATGCATAGTGGAAAAAAATGTAGACTTGCATGT
CAAATTCCCCACTTTAGAGGAAGTGGCCGGCCATGATGGTATGGGAT
Found at i:21532040 original size:77 final size:77
Alignment explanation
Indices: 21531913--21532061 Score: 298
Period size: 77 Copynumber: 1.9 Consensus size: 77
21531903 CTTCACCTTT
21531913 TTGCCAAAATCGATAGCTAGCTCCGAATCCGATTGCTCCAATGATTCATGCTTTTGATCCAACGC
1 TTGCCAAAATCGATAGCTAGCTCCGAATCCGATTGCTCCAATGATTCATGCTTTTGATCCAACGC
21531978 TTAACAATACTC
66 TTAACAATACTC
21531990 TTGCCAAAATCGATAGCTAGCTCCGAATCCGATTGCTCCAATGATTCATGCTTTTGATCCAACGC
1 TTGCCAAAATCGATAGCTAGCTCCGAATCCGATTGCTCCAATGATTCATGCTTTTGATCCAACGC
21532055 TTAACAA
66 TTAACAA
21532062 AACTTTAATC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (77 bp):
TTGCCAAAATCGATAGCTAGCTCCGAATCCGATTGCTCCAATGATTCATGCTTTTGATCCAACGC
TTAACAATACTC
Found at i:21542255 original size:31 final size:31
Alignment explanation
Indices: 21542219--21542281 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
21542209 ACCCACTCAC
21542219 AAAGTCCATTGTCACTCTGTCCCACTTCTAT
1 AAAGTCCATTGTCACTCTGTCCCACTTCTAT
* *
21542250 AAAGTCCATTGTCCCTCTTTCCCACTTCTAT
1 AAAGTCCATTGTCACTCTGTCCCACTTCTAT
21542281 A
1 A
21542282 GCGGAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (31 bp):
AAAGTCCATTGTCACTCTGTCCCACTTCTAT
Found at i:21544054 original size:19 final size:19
Alignment explanation
Indices: 21544030--21544067 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
21544020 TAATCCAGGA
21544030 AGCTCTTCCGAAAAAACAT
1 AGCTCTTCCGAAAAAACAT
*
21544049 AGCTCTTCCGGAAAAACAT
1 AGCTCTTCCGAAAAAACAT
21544068 CCTGGAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.21
Consensus pattern (19 bp):
AGCTCTTCCGAAAAAACAT
Found at i:21548257 original size:48 final size:48
Alignment explanation
Indices: 21548130--21548370 Score: 430
Period size: 48 Copynumber: 5.0 Consensus size: 48
21548120 CAAGATAAAT
21548130 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
21548178 ATATGTAT-TGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
21548225 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
21548273 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
21548321 ATATGTATATGTGGTAAAGCCGAAGGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
21548369 AT
1 AT
21548371 GTGTGTATAT
Statistics
Matches: 185, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 46 0.25
48 139 0.75
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:21548401 original size:143 final size:142
Alignment explanation
Indices: 21548130--21548405 Score: 410
Period size: 143 Copynumber: 1.9 Consensus size: 142
21548120 CAAGATAAAT
*
21548130 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATTGTGGTAAA
1 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTATTGTGGTAAA
* * * * * *
21548195 GCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
66 GCCGAAGGGCTAATGTGAAATATGTAGGAGATATGTATATATGGT-AAGCCGAATGCCAAATGTG
21548260 AAATATGTATGAG
130 AAATATGTATGAG
21548273 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTAT-TGTGGTAA
* * * * *
21548338 AGCCGAAGGGCTAGTGTGAAATATGTAGGAGATGTGTGTATATTGT-GGCCGAATGACCAAATGT
65 AGCCGAAGGGCTAATGTGAAATATGTAGGAGATATGTATATATGGTAAGCCGAATG-CCAAATGT
21548402 GAAA
129 GAAA
21548406 GGTGTGTATT
Statistics
Matches: 119, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
142 8 0.07
143 65 0.55
144 46 0.39
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.31
Consensus pattern (142 bp):
ATATGTATATGTGGTAAAGCCGAATAGCTAATGTGAAATATGTATGAGATATGTATTGTGGTAAA
GCCGAAGGGCTAATGTGAAATATGTAGGAGATATGTATATATGGTAAGCCGAATGCCAAATGTGA
AATATGTATGAG
Found at i:21559798 original size:40 final size:39
Alignment explanation
Indices: 21559767--21559976 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
21559757 GGACTAAGAT
* *
21559767 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
21559807 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
21559847 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
21559887 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
21559927 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
21559966 CCGAAGGCATT
1 CCGAAGGCATT
21559977 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:21559930 original size:120 final size:120
Alignment explanation
Indices: 21559714--21559976 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
21559704 TTGAATGCTG
* *
21559714 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
21559778 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
21559834 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
21559897 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
21559953 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21559977 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21559996 original size:79 final size:80
Alignment explanation
Indices: 21559715--21560011 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
21559705 TGAATGCTGT
* ** * * * **
21559715 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
21559778 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
21559795 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
21559859 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
21559875 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
21559939 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
21559954 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
21560012 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:21568166 original size:43 final size:43
Alignment explanation
Indices: 21568018--21568166 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 43
21568008 TCTGTGACAT
** *
21568018 CGTGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACACAGGCATCGATATTGA-A-TTA
* * ** *
21568061 CGTATAAGACCATGTCTGGGACATTGGCATC-ATATCT-AATTT
1 CGTGTAAGACCACGTCTGGGACACAGGCATCGATAT-TGAATTA
* * *
21568103 CGTGTAAGACC-CTTTTTGGGACAGAGGCATCGATATTGAATTA
1 CGTGTAAGACCAC-GTCTGGGACACAGGCATCGATATTGAATTA
*
21568146 CATGTAAGACCACGTCTGGGA
1 CGTGTAAGACCACGTCTGGGA
21568167 TGTCGGCATT
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
42 27 0.33
43 51 0.61
44 4 0.05
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACACAGGCATCGATATTGAATTA
Found at i:21568175 original size:85 final size:85
Alignment explanation
Indices: 21568017--21568175 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
21568007 GTCTGTGACA
* * * *
21568017 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
*
21568082 CATTGGCATCATATCTAATT
66 CATCGGCATCATATCTAATT
* * * *
21568102 TCGTGTAAGACCCTTTTTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
**
21568165 GATGTCGGCAT
64 GACATCGGCAT
21568176 TGTACTTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGCATCATATCTAATT
Found at i:21584269 original size:16 final size:16
Alignment explanation
Indices: 21584244--21584275 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21584234 AAGATAACTT
*
21584244 ACAATTTAATCACAAA
1 ACAATCTAATCACAAA
21584260 ACAATCTAATCACAAA
1 ACAATCTAATCACAAA
21584276 TCAGGTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (16 bp):
ACAATCTAATCACAAA
Found at i:21584661 original size:25 final size:25
Alignment explanation
Indices: 21584633--21584689 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
21584623 TGTTTACACA
* *
21584633 AGCTGTGAATCGGTATGCTCTCATG
1 AGCTGTGAATCAGTATGCTCTCACG
*
21584658 AGCTGTAAATCAGTATGCTCTCACG
1 AGCTGTGAATCAGTATGCTCTCACG
21584683 AGCTGTG
1 AGCTGTG
21584690 GGCCAGAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (25 bp):
AGCTGTGAATCAGTATGCTCTCACG
Found at i:21591230 original size:20 final size:20
Alignment explanation
Indices: 21591189--21591230 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21591179 TGAAATTGAT
* *
21591189 AAATATAAAATAAAATTCTA
1 AAATATAAAAAAAAAATCTA
21591209 AAATATAATAAAAAAAAT-TA
1 AAATATAA-AAAAAAAATCTA
21591229 AA
1 AA
21591231 TAAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATATAAAAAAAAAATCTA
Found at i:21603544 original size:39 final size:39
Alignment explanation
Indices: 21603481--21603703 Score: 290
Period size: 39 Copynumber: 5.7 Consensus size: 39
21603471 TTCCAACACA
*
21603481 AATGCCTTCGGGACTTAGCTCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
21603520 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
21603559 AATGCCTTCGTGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
** * * *
21603598 AATGCCTTCAAGACTTAGCCCAGACATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
21603637 AATGCCTTCGGGACTTAGCCTGGATATAA-ATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATATAACA-C-CAGCACG
* * * *
21603675 AAGGCCTGCGGGTCTTAGCCCGGTTATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
21603704 TCCTCAATTA
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
38 25 0.15
39 135 0.83
40 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:21604177 original size:2 final size:2
Alignment explanation
Indices: 21604170--21604196 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21604160 TTCCAATATG
21604170 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
21604197 ATTTTCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21607518 original size:79 final size:82
Alignment explanation
Indices: 21607374--21607557 Score: 215
Period size: 79 Copynumber: 2.3 Consensus size: 82
21607364 GCTCCTCGTT
* *
21607374 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
21607438 GAT-TTAGTAAC-TCGCA
66 GATATT-GTAACTTAGCA
* **
21607454 CAAATGTCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
21607515 CGGATATTGTCACTTAGCA
64 CGGATATTGTAACTTAGCA
21607534 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21607558 TAGCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 13 0.14
79 56 0.62
80 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATATTGTAACTTAGCA
Found at i:21607559 original size:39 final size:41
Alignment explanation
Indices: 21607374--21607559 Score: 203
Period size: 40 Copynumber: 4.7 Consensus size: 41
21607364 GCTCCTCGTT
* * *
21607374 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACTTCGCA
*
21607414 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ACTTCGCA
*
21607454 CAAATGTCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACT-TCGCA
* *
21607493 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGT-ACTTCGCA
21607534 C-AA-GCCTTCGGGACTTAGCCCGGATA
1 CAAATGCCTTCGGGACTTAGCCCGGATA
21607560 GCATTCAAAT
Statistics
Matches: 125, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 63 0.50
41 10 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTACTTCGCA
Found at i:21617099 original size:6 final size:6
Alignment explanation
Indices: 21617088--21617112 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21617078 ACAAATAAAC
21617088 GCCACA GCCACA GCCACA GCCACA G
1 GCCACA GCCACA GCCACA GCCACA G
21617113 GATCCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.48, G:0.20, T:0.00
Consensus pattern (6 bp):
GCCACA
Found at i:21617529 original size:22 final size:22
Alignment explanation
Indices: 21617501--21617549 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
21617491 TGGGATGAAT
21617501 TTTTTTTTAAAGCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
21617523 TTTTTTTTAAAGCTTAATTGTA
1 TTTTTTTTAAAGCTTAATTGTA
21617545 TTTTT
1 TTTTT
21617550 ACTTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.63
Consensus pattern (22 bp):
TTTTTTTTAAAGCTTAATTGTA
Found at i:21618019 original size:31 final size:31
Alignment explanation
Indices: 21617978--21618041 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
21617968 TTTTTTGTCC
21617978 AATTTCGTACCCAAACTTAACACTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
* * * **
21618009 AATTTGGTACCTAAACTTGACTTTTTTTCTT
1 AATTTCGTACCCAAACTTAACACTTTTTCTT
21618040 AA
1 AA
21618042 GTTGATACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (31 bp):
AATTTCGTACCCAAACTTAACACTTTTTCTT
Found at i:21619712 original size:29 final size:29
Alignment explanation
Indices: 21619670--21619732 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
21619660 CTGTGTGGGT
** *
21619670 ACACGGTTGTGTGGCTCACATGGTCTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
* *
21619699 ACACGGTCATGTGGCTCATACGGTTTGGC
1 ACACGGTCATGTGGCTCACACGGTCTGGC
21619728 ACACG
1 ACACG
21619733 ACCGTCGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.25
Consensus pattern (29 bp):
ACACGGTCATGTGGCTCACACGGTCTGGC
Found at i:21621182 original size:93 final size:93
Alignment explanation
Indices: 21621075--21621245 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
21621065 GCCCCTAAGT
* *
21621075 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21621140 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
21621168 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21621233 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21621246 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21621242 original size:46 final size:46
Alignment explanation
Indices: 21621070--21621242 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
21621060 TAACAGCCCC
* * *
21621070 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
21621116 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
21621164 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
21621209 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21621243 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:21623678 original size:15 final size:15
Alignment explanation
Indices: 21623630--21623692 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
21623620 CAAAGATAAT
*
21623630 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21623644 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
21623659 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
21623674 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
21623689 AAGA
1 AAGA
21623693 GATCTAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 31 0.76
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21626531 original size:46 final size:46
Alignment explanation
Indices: 21626464--21626688 Score: 337
Period size: 46 Copynumber: 4.7 Consensus size: 46
21626454 TGTAACCCGC
21626464 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
21626510 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
21626560 CTC-TCGAACGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 C-CAT--AA-GTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
21626609 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
21626655 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
21626689 AGATGCCCAA
Statistics
Matches: 164, Mismatches: 4, Indels: 22
0.86 0.02 0.12
Matches are distributed among these distances:
46 109 0.66
47 2 0.01
48 5 0.03
49 6 0.04
50 6 0.04
51 5 0.03
52 2 0.01
53 29 0.18
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:21631357 original size:39 final size:39
Alignment explanation
Indices: 21631314--21631494 Score: 299
Period size: 39 Copynumber: 4.6 Consensus size: 39
21631304 AACAGAAATG
*
21631314 CCTTCGGGACTTAGCCCGGATATAACACCAACACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
21631353 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* *
21631392 CCTTCGTGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * * *
21631431 CCTTCGGGACTTAGCCTGGACATAACACTAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
21631470 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
21631495 ATCTCACACA
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 133 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:21631571 original size:18 final size:17
Alignment explanation
Indices: 21631548--21631582 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
21631538 AATTATCATG
21631548 CACATATATATATCATAA
1 CACATATATATAT-ATAA
21631566 CACATATATATATATAA
1 CACATATATATATATAA
21631583 TCCTCAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (17 bp):
CACATATATATATATAA
Found at i:21636012 original size:220 final size:220
Alignment explanation
Indices: 21635630--21636032 Score: 770
Period size: 220 Copynumber: 1.8 Consensus size: 220
21635620 AAGATAAAGA
* *
21635630 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACCAAGAGGTACACTAACAC
1 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
21635695 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
66 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
*
21635760 ATCTAGCCACTGGCCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
131 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
21635825 CTCACTAATAGAATAGTTGTCTAAC
196 CTCACTAATAGAATAGTTGTCTAAC
21635850 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
1 ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
*
21635915 ACAACCAACCATCAGACTAATGGCACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
66 ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
21635980 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTC
131 ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTC
21636033 CCACTAATAG
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 179 1.00
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.21
Consensus pattern (220 bp):
ACAAAATAATTTCTCAAAACACACACATGAGGATTCGAACCCAGAACAAAAAGGTACACTAACAC
ACAACCAACCATCAGACTAATGACACATTCTGACATCAGAACACAAAAACAAATTCAAATGTCCG
ATCTAGCCACTGACCCTACTTATAAATCTCAAAAACTTCTAACCCCAAATTTCAAGGTGTTACAA
CTCACTAATAGAATAGTTGTCTAAC
Found at i:21640030 original size:27 final size:27
Alignment explanation
Indices: 21640000--21640177 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21639990 ATATTGAGTC
* * * *
21640000 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21640027 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21640054 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21640082 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21640109 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21640136 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21640163 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21640178 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21640139 original size:82 final size:81
Alignment explanation
Indices: 21640021--21640176 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21640011 TGCTATATAA
* *
21640021 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21640086 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21640103 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21640167 CACTTAGTGC
65 CACTTAGTGC
21640177 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21641365 original size:196 final size:196
Alignment explanation
Indices: 21641031--21641423 Score: 707
Period size: 196 Copynumber: 2.0 Consensus size: 196
21641021 CAAAGTCAAC
*
21641031 CATCTCCATACCTCATCACCAAAGACATCAAAATACCAACCAAGAATGTAACATTCATGGCCGAA
1 CATCTCCATACCTCATCACCAAAGACATCAAAATACCAACCAAGAACGTAACATTCATGGCCGAA
21641096 TATCATCTCCATCATTTAACAAAGTTTGAACCATGGCTAGGTAGATTTCAAGCTCACAACTTAAA
66 TATCATCTCCATCATTTAACAAAGTTTGAACCATGGCTAGGTAGATTTCAAGCTCACAACTTAAA
*
21641161 ATATACATGAATCTCAAAGAATAATATCAAACATACCTCAATCTAGTTACATGCATGGCCAAACT
131 ATATACATGAATCTCAAAGAATAACATCAAACATACCTCAATCTAGTTACATGCATGGCCAAACT
21641226 T
196 T
*
21641227 CATCTCCTTACCTCATCACCAAAGACATCAAAATACCAACCAAGAACGTAACATTCATGGCCGAA
1 CATCTCCATACCTCATCACCAAAGACATCAAAATACCAACCAAGAACGTAACATTCATGGCCGAA
* * *
21641292 TGTCATCTCCATCATTTAACAAAGTTTGAACCATGGCTAGGTAGATTTTGAA-CTTACAACTTAA
66 TATCATCTCCATCATTTAACAAAGTTTGAACCATGGCTAGGTAGA-TTTCAAGCTCACAACTTAA
*
21641356 AATATACATGAATCTCAAAGAATAACATTAAACATACCTCAATCTAGTTACATGCATGGCCAAAC
130 AATATACATGAATCTCAAAGAATAACATCAAACATACCTCAATCTAGTTACATGCATGGCCAAAC
21641421 TT
195 TT
21641423 C
1 C
21641424 CTCCTAATCC
Statistics
Matches: 189, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
196 184 0.97
197 5 0.03
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.26
Consensus pattern (196 bp):
CATCTCCATACCTCATCACCAAAGACATCAAAATACCAACCAAGAACGTAACATTCATGGCCGAA
TATCATCTCCATCATTTAACAAAGTTTGAACCATGGCTAGGTAGATTTCAAGCTCACAACTTAAA
ATATACATGAATCTCAAAGAATAACATCAAACATACCTCAATCTAGTTACATGCATGGCCAAACT
T
Found at i:21645168 original size:76 final size:76
Alignment explanation
Indices: 21645042--21645192 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
21645032 TTAAGTCCGT
*
21645042 AGACTCAATTCGAATTATCTCGTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCA
1 AGACTCAACTCGAATTATCTCGTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCA
21645107 CAACCGCATCC
66 CAACCGCATCC
* * *
21645118 AGACTCAACTCGGATTATTTCGTTATTTGCGCACCTCAAATCGATAGTCTTGCTTTTGCAATTCA
1 AGACTCAACTCGAATTATCTCGTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCA
21645183 CAACCGCATC
66 CAACCGCATC
21645193 ATGCGAGGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.33
Consensus pattern (76 bp):
AGACTCAACTCGAATTATCTCGTTATTTGCGCACCTCAAATCAATAGTCTTGCTTTTGCAATTCA
CAACCGCATCC
Found at i:21647783 original size:20 final size:20
Alignment explanation
Indices: 21647758--21647798 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21647748 AACCATGACG
21647758 TATGGCATAAAAAGGTCGAA
1 TATGGCATAAAAAGGTCGAA
21647778 TATGGCATAAAAAGGTCGAA
1 TATGGCATAAAAAGGTCGAA
21647798 T
1 T
21647799 TATCAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
TATGGCATAAAAAGGTCGAA
Found at i:21648531 original size:29 final size:30
Alignment explanation
Indices: 21648497--21648569 Score: 107
Period size: 29 Copynumber: 2.5 Consensus size: 30
21648487 AATCAACCAT
*
21648497 GCACACTTAGTGCCATGTAC-TTTAAACTC
1 GCACACTTAGTGCCATGTACATTTAAACCC
21648526 GCACACTTAGTG-C-TGTACAATTTAAACCC
1 GCACACTTAGTGCCATGTAC-ATTTAAACCC
21648555 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
21648570 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 5 0.13
28 1 0.03
29 32 0.82
30 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
GCACACTTAGTGCCATGTACATTTAAACCC
Found at i:21652793 original size:31 final size:31
Alignment explanation
Indices: 21652755--21652817 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
21652745 CTTTTCACAC
*
21652755 TTCATATTTCATAATACTGGGCCGAAGCCTT
1 TTCATATTTCATAATACTAGGCCGAAGCCTT
*
21652786 TTCATATTTCATATTACTAGGCCGAAGCCTT
1 TTCATATTTCATAATACTAGGCCGAAGCCTT
21652817 T
1 T
21652818 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTCATATTTCATAATACTAGGCCGAAGCCTT
Found at i:21653062 original size:24 final size:24
Alignment explanation
Indices: 21653011--21653202 Score: 341
Period size: 24 Copynumber: 8.0 Consensus size: 24
21653001 GCTTTATCAT
*
21653011 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
21653036 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653060 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653084 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653108 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653132 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653156 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
21653180 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
21653203 GCACTTCCTC
Statistics
Matches: 163, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
24 151 0.93
25 12 0.07
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Done.