Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3200
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: 37717
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:8463 original size:46 final size:46
Alignment explanation
Indices: 8396--8567 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
8386 AACCCGCCCC
* *
8396 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
8442 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * ** *
8490 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
8535 TAGGTGAACTCGGACTCCACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
8568 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 57 0.55
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:8509 original size:93 final size:93
Alignment explanation
Indices: 8401--8571 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
8391 GCCCCTAAGT
** *
8401 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8466 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
8494 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAGGTGAACTCGGACTCCACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8559 CGAGTTCGGATGC
66 CGAGTTCGGATGC
8572 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11376 original size:29 final size:29
Alignment explanation
Indices: 11340--11401 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
11330 AAAATTCAAA
* *
11340 AAATAGCAAACGATGCCAAGCTGAAAACT
1 AAATAGCAAACAATGCCAAGCCGAAAACT
11369 AAATAGCAAACAATGCCAAGCCGAAAACT
1 AAATAGCAAACAATGCCAAGCCGAAAACT
11398 AAAT
1 AAAT
11402 TCCTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.21, G:0.15, T:0.13
Consensus pattern (29 bp):
AAATAGCAAACAATGCCAAGCCGAAAACT
Found at i:13445 original size:16 final size:17
Alignment explanation
Indices: 13418--13453 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
13408 ATTGTTTGCT
13418 TATATCTTATTATATTA
1 TATATCTTATTATATTA
13435 TATAT-TTATTATATTA
1 TATATCTTATTATATTA
13451 TAT
1 TAT
13454 TTATGTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TATATCTTATTATATTA
Found at i:15923 original size:21 final size:21
Alignment explanation
Indices: 15875--15923 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15865 GTGTTATTAC
15875 AGTT-ATTTTAAAGTTTCGAT
1 AGTTAATTTTAAAGTTTCGAT
***
15895 AAAAAATTTTAAAGTTTCGAT
1 AGTTAATTTTAAAGTTTCGAT
15916 AGTTAATT
1 AGTTAATT
15924 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (21 bp):
AGTTAATTTTAAAGTTTCGAT
Found at i:17243 original size:18 final size:17
Alignment explanation
Indices: 17217--17250 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17207 AAATATAATT
17217 ATTAGTTTTATTATTATG
1 ATTAGTTTTATT-TTATG
*
17235 ATTATTTTTATTTTAT
1 ATTAGTTTTATTTTAT
17251 TATTCTCTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
ATTAGTTTTATTTTATG
Found at i:17291 original size:14 final size:14
Alignment explanation
Indices: 17272--17304 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17262 GATGTTCTCA
17272 TTCTTTTT-TTTGCT
1 TTCTTTTTGTTTG-T
17286 TTCTTTTTGTTTGT
1 TTCTTTTTGTTTGT
17300 TTCTT
1 TTCTT
17305 CTTCTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (14 bp):
TTCTTTTTGTTTGT
Found at i:21557 original size:29 final size:30
Alignment explanation
Indices: 21501--21560 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
21491 TTCCCGAGCC
21501 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
21531 TAGGGGCAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21560 T
1 T
21561 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:22370 original size:64 final size:64
Alignment explanation
Indices: 22290--22473 Score: 189
Period size: 67 Copynumber: 2.8 Consensus size: 64
22280 AGACATTATG
* * *
22290 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * *
22354 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAAG-ACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--T--ATGTACACCATGTAGACAAGAGAGCTACGAGA
22418 TAA
62 TAA
* * *
22421 ACTG--GCTAGGTCACATGGGTGGTACTCA-GTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACT-ATATGTACACCATGTAG-ACAAGAGAGC
22474 CGAACTATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
62 2 0.02
63 18 0.18
64 25 0.25
66 20 0.20
67 31 0.31
68 4 0.04
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATATGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:26599 original size:64 final size:64
Alignment explanation
Indices: 26518--26701 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
26508 AGACATTATG
* * *
26518 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
26582 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
26647 AA
63 AA
* * *
26649 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
26702 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:27397 original size:9 final size:9
Alignment explanation
Indices: 27383--27407 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27373 AGTGAGAGAG
27383 GTCAGAACT
1 GTCAGAACT
27392 GTCAGAACT
1 GTCAGAACT
27401 GTCAGAA
1 GTCAGAA
27408 AGTGAAACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (9 bp):
GTCAGAACT
Found at i:34116 original size:526 final size:527
Alignment explanation
Indices: 33110--34159 Score: 1467
Period size: 526 Copynumber: 2.0 Consensus size: 527
33100 ATGGCTCAAC
* **
33110 TTGTAGCACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTAACAGACTTAATTCC
1 TTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTAACAGACCAAATTCC
* * * *
33175 CTTATTTTTACAGTCCATTTTAAAAATTTCCAGACTAGCTGGCTAACTGCGTCACTGTCACCTTA
66 CTTACTATCACAGTCCATTTTAAAAATTTCCAGACTAGCTGGCTAACTGCGACACTGTCACCTTA
33240 AAAATCATATCTTGAGTTCCAAAACTCGAAAATCAGTTTCATAAATTTTCCCTGAAACTAGACTC
131 AAAATCATATCTTGAGTTCCAAAACTCGAAAATCAGTTTCATAAATTTTCCCTGAAACTAGACTC
* * *
33305 ATATATCCATCTAAAAATTTTTTTTTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTT
196 ATATACCCATCTAAAAATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTC
* * * * * * *
33370 AAAGTCTCCCCTATTTCAGGGTTCGACTGCTCTGACCTTCATGCATTATGACTTATATATCTCCC
261 AAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTCATGCATTACGACTTAGATATCTCCC
* * * * *
33435 TGTACAGGGCTTCAATACTTATGGCATTTGTTTCTAAAGAAACTGGACTCGAAAAGGAATCTATA
326 TGCACAGAGCTTCAATACTGATGCCATTTGTTTCTAAAGAAACTAGACTCGAAAAGGAATCTATA
* * *
33500 CATATATGGCATGACTTCTAACTATCTCTGGTTAATTTATAATGAATTTCCTAAGTCCGAACAGG
391 AATATATGGCATGACTCCTAACTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCCGAACAGG
* * * * *
33565 GAATCCAGAAACAGCTCTGGCCCTGTTTCACAAAAACTTTAAAATCTCATAAAATACTGTTCATA
456 GAATCCAGAAACAGCTCTAGCCCTGTCTCACAAAAACCTGAAAATCTCATAAAATACTGTCCATA
33630 TGATCAT
521 TGATCAT
* * * *
33637 TTGTAACACCCCGTACCTGAGACCGTTGCCGGATTCGGACACGAGGGGTTCACAGACCAAATTCG
1 TTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTAACAGACCAAATTCC
* * *
33702 CTTACTATCACAGTCCATTTTAAAATTTTCCAGGC-AGTTGGCTAACTGCGACACTGTCACCTTA
66 CTTACTATCACAGTCCATTTTAAAAATTTCCAGACTAGCTGGCTAACTGCGACACTGTCACCTTA
* * * * *
33766 AAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTCGTAATTTTTCCCTGAAACTAGGCTC
131 AAAATCATATCTTGAGTTCCAAAACTCGAAAATCAGTTTCATAAATTTTCCCTGAAACTAGACTC
* * *
33831 ATATGCCCATCTACATATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTC
196 ATATACCCATCTAAAAATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTC
* * * *
33896 AAAGTCTCGCATGTTACAGGGATCGACTACACTGACCTT-TTCGCATTACGACTTGGATATCTCC
261 AAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTCAT-GCATTACGACTTAGATATCTCC
* * * *
33960 CTGCACAGAGCTTCAATTCTGATGCCGTTTGTTTCTATAGAAACTAGACTC-AGAGAGGAATCTA
325 CTGCACAGAGCTTCAATACTGATGCCATTTGTTTCTAAAGAAACTAGACTCGA-AAAGGAATCTA
* * * * * *
34024 TAAATATATGGCATGAGTCCTGATTATCTCTGGTTAATTTATAATGAATTTCCAAATTCGGAAGA
389 TAAATATATGGCATGACTCCTAACTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCCGAACA
* * * * * * *
34089 GGGAATCCAGAAACCGTTCTAGCCCTGTCTCACGAGAACCTGAATATCTCTTAACATACTGTCCA
454 GGGAATCCAGAAACAGCTCTAGCCCTGTCTCACAAAAACCTGAAAATCTCATAAAATACTGTCCA
34154 TATGAT
519 TATGAT
34160 TGTTTCGTTA
Statistics
Matches: 455, Mismatches: 66, Indels: 5
0.87 0.13 0.01
Matches are distributed among these distances:
525 2 0.00
526 365 0.80
527 88 0.19
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (527 bp):
TTGTAACACCCCGTACCCGAGACCGTTGCCGGAGTCGGACACGAGGGGTTAACAGACCAAATTCC
CTTACTATCACAGTCCATTTTAAAAATTTCCAGACTAGCTGGCTAACTGCGACACTGTCACCTTA
AAAATCATATCTTGAGTTCCAAAACTCGAAAATCAGTTTCATAAATTTTCCCTGAAACTAGACTC
ATATACCCATCTAAAAATTTTTTTCTAGAATTTTTGGTCAGGCCAATTAGTACAGTTTATTAGTC
AAAGTCTCCCATATTACAGGGATCGACTACACTGACCTTCATGCATTACGACTTAGATATCTCCC
TGCACAGAGCTTCAATACTGATGCCATTTGTTTCTAAAGAAACTAGACTCGAAAAGGAATCTATA
AATATATGGCATGACTCCTAACTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCCGAACAGG
GAATCCAGAAACAGCTCTAGCCCTGTCTCACAAAAACCTGAAAATCTCATAAAATACTGTCCATA
TGATCAT
Found at i:35047 original size:37 final size:37
Alignment explanation
Indices: 34997--35075 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34987 TTATTACGAA
* *
34997 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
35034 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
35071 GTCTT
1 GTCTT
35076 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:35309 original size:47 final size:47
Alignment explanation
Indices: 35192--35506 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
35182 CCCTTCGGGA
* * * * * * **
35192 CTTATCACATTTGTGCACTTTCACATCCATCACGTTGGCCA-CGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35238 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35285 CTTATCACATATATACACTTTCACATTCATCAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATC-ACATCGGCCATTAGGC
* * *
35333 CTTATTACATAATATACACTTTCACATTCATCACACCGGCTATTAGGC
1 CTTATCACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35381 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35428 CTTATCCACA-ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35475 CTTATCACA-ATATACAC-TTCACA-TCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
35507 GTGATTGTCC
Statistics
Matches: 246, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
44 9 0.04
45 6 0.02
46 45 0.18
47 114 0.46
48 51 0.21
49 21 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35378 original size:96 final size:94
Alignment explanation
Indices: 35244--35503 Score: 420
Period size: 96 Copynumber: 2.8 Consensus size: 94
35234 GGGCCCTGTC
35244 ACAT-ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 ACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACACTTTCA
35308 CATTCATCAACATCGGCCATTAGGCCTTATT
65 CATTCATCAACATCGGCCATTAGGCCTTA-T
* *
35339 ACATAATATACACTTTCACATTCATCACACCGGCTATTAGGCCTTATCACACATATACACTTTCA
1 ACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATACACTTTCA
*
35404 CATTCATC-ACATCGGCTATTAGGCCTTAT
65 CATTCATCAACATCGGCCATTAGGCCTTAT
* *
35433 CCACAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACAC-TTCAC
1 ACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCAC
35497 A-TCATCA
66 ATTCATCA
35504 CATGTGATTG
Statistics
Matches: 155, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
91 5 0.03
92 6 0.04
93 8 0.05
94 48 0.31
95 23 0.15
96 65 0.42
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.31
Consensus pattern (94 bp):
ACATAATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATACACTTTCAC
ATTCATCAACATCGGCCATTAGGCCTTAT
Found at i:37596 original size:93 final size:95
Alignment explanation
Indices: 37495--37707 Score: 358
Period size: 93 Copynumber: 2.3 Consensus size: 95
37485 CAGCCAAGAC
* * * *
37495 AGTGTATATATGTGATAAGGCGTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTG-TGATA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTTGATA
*
37559 A-GCCTAATGGCCGATGTGATGAATGTGAA
66 AGGCCTAATAGCCGATGTGATGAATGTGAA
37588 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTTGATA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTTGATA
37653 AGGCCTAATAGCCGATGTGATGAATGTGAA
66 AGGCCTAATAGCCGATGTGATGAATGTGAA
37683 AGTGTATATTATGTGATAAGGCCTA
1 AGTGTATA-TATGTGATAAGGCCTA
37708 CTAAAGCCCG
Statistics
Matches: 112, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
93 55 0.49
94 6 0.05
95 35 0.31
96 16 0.14
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (95 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTTGATA
AGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:37676 original size:48 final size:47
Alignment explanation
Indices: 37495--37707 Score: 356
Period size: 47 Copynumber: 4.5 Consensus size: 47
37485 CAGCCAAGAC
* *
37495 AGTGTATATATGTGATAAGGCGTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37542 AGTGTATATGTGTGATAA-GCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37588 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37635 AGTGTATATATGTTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATG-TGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37683 AGTGTATATTATGTGATAAGGCCTA
1 AGTGTATA-TATGTGATAAGGCCTA
37708 CTAAAGCCCG
Statistics
Matches: 157, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
46 44 0.28
47 55 0.35
48 54 0.34
49 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Done.