Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006139.1 Hibiscus syriacus cultivar Beakdansim tig00014565_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 118571
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:1605 original size:12 final size:12
Alignment explanation
Indices: 1588--1617 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1578 TAAATTAATA
1588 ATAATAATAAAC
1 ATAATAATAAAC
*
1600 ATAATAATAAAT
1 ATAATAATAAAC
1612 ATAATA
1 ATAATA
1618 TTTTTGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAATAAAC
Found at i:3082 original size:23 final size:23
Alignment explanation
Indices: 3052--3095 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
3042 CGTATAAATG
*
3052 CACCGAAGTGCCATGTAGAATTT
1 CACCGAAGTGCCACGTAGAATTT
3075 CACCGAAGTGCCACGTAGAAT
1 CACCGAAGTGCCACGTAGAAT
3096 GCACCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
CACCGAAGTGCCACGTAGAATTT
Found at i:17498 original size:3 final size:3
Alignment explanation
Indices: 17490--17520 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
17480 GTTTTAAAAT
17490 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17521 AATGTTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:34036 original size:18 final size:18
Alignment explanation
Indices: 34013--34052 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34003 TGGTAGATTT
34013 CATGATTTATGTTATAAG
1 CATGATTTATGTTATAAG
34031 CATGATTTATGTTATAAG
1 CATGATTTATGTTATAAG
34049 CATG
1 CATG
34053 GTATAAAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (18 bp):
CATGATTTATGTTATAAG
Found at i:41972 original size:20 final size:21
Alignment explanation
Indices: 41947--41998 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
41937 TTTTCCCAAT
41947 TCGCAATGCGAATAAGT-AAA
1 TCGCAATGCGAATAAGTAAAA
* **
41967 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAAA
41988 TCGCAATGCGA
1 TCGCAATGCGA
41999 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:42012 original size:20 final size:20
Alignment explanation
Indices: 41988--42080 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
41978 ATTGGTAAAA
* *
41988 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTT
*
42008 TCGCAGCGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
42028 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
42048 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
*
42068 TCGCAACGAGATA
1 TCGCAACGCGATA
42081 ATACAGAATC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:42445 original size:20 final size:20
Alignment explanation
Indices: 42416--42453 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42406 ATTCATTTGA
* *
42416 CTATCGCAACGCGAAAATGG
1 CTATCCCAACGAGAAAATGG
42436 CTATCCCAACGAGAAAAT
1 CTATCCCAACGAGAAAAT
42454 CGCAATGCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
CTATCCCAACGAGAAAATGG
Found at i:42513 original size:19 final size:19
Alignment explanation
Indices: 42472--42555 Score: 133
Period size: 19 Copynumber: 4.7 Consensus size: 19
42462 GAAATGAAAA
42472 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
42488 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
42505 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
42524 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
42543 TCGCATTGCGATT
1 TCGCATTGCGATT
42556 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.17
16 3 0.05
17 3 0.05
19 46 0.73
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:42542 original size:38 final size:33
Alignment explanation
Indices: 42472--42568 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 33
42462 GAAATGAAAA
42472 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
42505 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
*
42543 TCGCATTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGATTTTCTCGTTGCGAT
42569 AGTCAGTTTC
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
33 23 0.40
35 3 0.05
36 3 0.05
38 29 0.50
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:42714 original size:14 final size:14
Alignment explanation
Indices: 42695--42731 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
42685 CATCAATTAA
42695 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
42709 ACAAATCATCTTTT
1 ACAAATCAACATTT
42723 ACAAATCAA
1 ACAAATCAA
42732 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:43817 original size:21 final size:20
Alignment explanation
Indices: 43793--43852 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
43783 AACGGTGGGG
43793 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
43814 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
43835 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
43853 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:44242 original size:20 final size:19
Alignment explanation
Indices: 44219--44286 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
44209 GAAACTTAAA
44219 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
44239 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
44259 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
44278 ATCGCAACG
1 ATCGCAACG
44287 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:44294 original size:14 final size:14
Alignment explanation
Indices: 44275--44365 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
44265 ATGCGAAATG
44275 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
44289 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
44308 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
44322 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
44338 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
44354 AAAATCACAACG
1 AAAATCGCAACG
44366 CGAAACACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 30 0.49
15 1 0.02
16 9 0.15
17 1 0.02
18 10 0.16
19 10 0.16
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:44301 original size:33 final size:33
Alignment explanation
Indices: 44259--44370 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
44249 GGAAATGGCT
44259 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
44292 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
44325 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
44357 ATCACAACGCGAAA
1 ATCGCAATGCGAAA
44371 CACAAATCGC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 27 0.36
33 48 0.64
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:44378 original size:65 final size:66
Alignment explanation
Indices: 44259--44381 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
44249 GGAAATGGCT
* * *
44259 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAATGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCAAAATCGCAATGACAA
44324 A
66 A
44325 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCACAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCA-AAATCGCA
44382 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.68
66 16 0.30
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGCGAAATCAAAATCGCAATGACAA
A
Found at i:44399 original size:19 final size:19
Alignment explanation
Indices: 44377--44473 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
44367 GAAACACAAA
44377 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
44396 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
44412 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
44429 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
44445 TCG--TTACGATTTTCATT
1 TCGCATTGCGATTTTCATT
44462 TCGCATTGCGAT
1 TCGCATTGCGAT
44474 AGCCATTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 11 0.18
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 22 0.36
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:44418 original size:14 final size:14
Alignment explanation
Indices: 44399--44457 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
44389 TTTCATTTCG
44399 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
44413 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
44430 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
44446 CGTTACGATTTT
1 CGTTGCGATTTT
44458 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:44424 original size:33 final size:33
Alignment explanation
Indices: 44382--44473 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
44372 ACAAATCGCA
*
44382 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
44415 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
44448 TTACGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
44474 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:44492 original size:20 final size:19
Alignment explanation
Indices: 44458--44512 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
44448 TTACGATTTT
*
44458 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
44477 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
44497 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
44513 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:46407 original size:20 final size:20
Alignment explanation
Indices: 46359--46412 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
46349 AATAGTTTCT
**
46359 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
46379 GAAAATGACTATCGCAACAC
1 GAAAATGACTATCGCAACAC
**
46399 GAATTTGACTATCG
1 GAAAATGACTATCG
46413 AAACGAGAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:46707 original size:22 final size:22
Alignment explanation
Indices: 46680--46723 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
46670 GATGGAGATA
*
46680 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
46702 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
46724 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:46998 original size:61 final size:61
Alignment explanation
Indices: 46933--47049 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
46923 GAAAGTCAGA
* * * *
46933 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* *
46994 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
47050 CCCAATTCGC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:47046 original size:20 final size:20
Alignment explanation
Indices: 46892--47046 Score: 152
Period size: 20 Copynumber: 7.7 Consensus size: 20
46882 CGCTTAGAAA
*
46892 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
46913 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
46933 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
46953 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
46973 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
46994 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
47014 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
47034 ATCGCATTGCGAT
1 ATCGCATTGCGAT
47047 TTTCCCAATT
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 5 0.04
20 84 0.74
21 23 0.20
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:47065 original size:61 final size:61
Alignment explanation
Indices: 46933--47067 Score: 173
Period size: 61 Copynumber: 2.2 Consensus size: 61
46923 GAAAGTCAGA
* * * * ** *
46933 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* *
46994 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
47056 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
47068 TTACTTATTC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
61 61 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:47157 original size:21 final size:21
Alignment explanation
Indices: 47117--47157 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
47107 ACTGTAGACC
** *
47117 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
47138 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
47158 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:47835 original size:66 final size:66
Alignment explanation
Indices: 47751--47886 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
47741 GATGGCATGT
*
47751 TTGGCAGGCTAGGAAGTGGAGGTAGAGCTCCAGGCTTTGGTAACGATGGCTGAGTTGTCGGCAAA
1 TTGGCAGGCTAGGAAGTGGAGGTAGAGCTCCAGGCTTTGGTAACGAAGGCTGAGTTGTCGGCAAA
47816 G
66 G
* *
47817 TTGGCATGG-TAGGAAGTGGAGGTAGAGCTCCAGGCTTTGGTAATGAAGGCTGTGTTGTCGGCAA
1 TTGGCA-GGCTAGGAAGTGGAGGTAGAGCTCCAGGCTTTGGTAACGAAGGCTGAGTTGTCGGCAA
*
47881 TG
65 AG
47883 TTGG
1 TTGG
47887 TTGTGGAAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 63 0.97
67 2 0.03
ACGTcount: A:0.21, C:0.13, G:0.40, T:0.26
Consensus pattern (66 bp):
TTGGCAGGCTAGGAAGTGGAGGTAGAGCTCCAGGCTTTGGTAACGAAGGCTGAGTTGTCGGCAAA
G
Found at i:49175 original size:14 final size:14
Alignment explanation
Indices: 49140--49181 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
49130 TGTTTCTGTC
*
49140 TATATGCAGAGATT
1 TATATGCAGGGATT
*
49154 TGTATGCAGGGATT
1 TATATGCAGGGATT
*
49168 TATTTGCAGGGATT
1 TATATGCAGGGATT
49182 ACTCCCCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.29, T:0.38
Consensus pattern (14 bp):
TATATGCAGGGATT
Found at i:49781 original size:20 final size:20
Alignment explanation
Indices: 49753--49802 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
49743 AGGTAAAAAT
*
49753 ATGATAAAACCGGTCTCACG
1 ATGACAAAACCGGTCTCACG
*
49773 ATGACAAAACCGGTCTCCCG
1 ATGACAAAACCGGTCTCACG
49793 ATGACAAAAC
1 ATGACAAAAC
49803 TGATAAAGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.16
Consensus pattern (20 bp):
ATGACAAAACCGGTCTCACG
Found at i:49950 original size:169 final size:175
Alignment explanation
Indices: 49533--50133 Score: 624
Period size: 182 Copynumber: 3.4 Consensus size: 175
49523 ATACAAATAA
* * *
49533 AAAATTTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACCA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
* * ** ** **** * * *
49598 AACCGGTAAAGCGTTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCCACACTATT
66 AACAGGT--A-C--TACCCGA-ATGTACAAAGACTCGATAAAGCAATATAAGGATCGACACTTTT
* *
49663 GGAATTTAAAAGACAAGCAGTAATAGCGCCTATAGAGTGTCGATATTTTAT
125 GGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
49714 AAGAATGTATTGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-ACGATGAC
1 AA-AATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATGAC
* ** **
49778 AAAACCGGT-CT-CCCG-ATG-ACAAA-ACT-GATAAAGCGCTA-CCGGATCGACACTTTTGGAA
64 AAAACAGGTACTACCCGAATGTACAAAGACTCGATAAAGCAATATAAGGATCGACACTTTTGGAA
*
49836 TTTAAAAGACAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTTAT
129 TTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* ** *
49883 ACAAATGTATCGATCCATAACAATATAACAGTTAAAAATATGACAAAATGGGTCTCGAAACGACA
1 A-AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* ** ** * ** *
49948 AAACAGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACATTAATATAAGTATCGACACTTT
65 AAACAGGT----A-CTACCCGA-ATGTACAAAGACTCGATAAAGCAATATAAGGATCGACACTTT
* *
50013 TGGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
124 TGGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
*
50065 AAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
50130 AACA
66 AACA
50134 TCGATCCTTA
Statistics
Matches: 349, Mismatches: 54, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
169 120 0.34
170 8 0.02
171 1 0.00
172 3 0.01
173 3 0.01
175 5 0.01
176 4 0.01
178 4 0.01
179 3 0.01
180 1 0.00
181 73 0.21
182 124 0.36
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.25
Consensus pattern (175 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAA
AACAGGTACTACCCGAATGTACAAAGACTCGATAAAGCAATATAAGGATCGACACTTTTGGAATT
TAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:50667 original size:198 final size:199
Alignment explanation
Indices: 50200--50699 Score: 659
Period size: 199 Copynumber: 2.5 Consensus size: 199
50190 GTAAACATAT
*
50200 GTGTCGATACATTTTATAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACA-TTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* *
50265 GGTAAA-TTACAATGTAACCGGTATAAATATATCGATTAATTACAAAACAGGTCAACATAATATA
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTAATGACAAAACAGGTCAACATAATATA
*
50329 TCGACACTTGTGGAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGC
130 TCGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGC
50394 ATAAA
195 ATAAA
* * *
50399 GAGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTAAAATTTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * * * * * *
50464 GGTAAATTTACAATGTAACCGGTAGAAATCTACCGGTTTTATGAGAGAATAGGTCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACC-GATTAATGACAAAACAGGTCAACATAATAT
* * * * * * **
50529 ATCGACACTTTTTAAATTTGTGTCGATACTT-TTTTCCAGAATGAATGTCC-AAGGAGGTGC-TC
129 ATCGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCAT-
50591 GCATAAA
193 GCATAAA
* * *
50598 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAGA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * *
50662 GGTAAATTTTCAATGTTACCGGTATAAATAAACCGATT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGATT
50700 TAGTTAGAAA
Statistics
Matches: 261, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
197 6 0.02
198 74 0.28
199 91 0.35
200 41 0.16
201 49 0.19
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGATTAATGACAAAACAGGTCAACATAATATAT
CGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGCA
TAAA
Found at i:50715 original size:198 final size:199
Alignment explanation
Indices: 50200--50723 Score: 689
Period size: 198 Copynumber: 2.6 Consensus size: 199
50190 GTAAACATAT
*
50200 GTGTCGATACATTTTATAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACA-TTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * *
50265 GGTAAA-TTACAATGTAACCGGTATAAATATATCGATTAATTACAAAACAGGTCAACATAATATA
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTATTAGAAAATAGGTCAACATAATATA
*
50329 TCGACACTTGTGGAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGC
130 TCGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGC
50394 ATAAA
195 ATAAA
* * *
50399 GAGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTAAAATTTAATA
1 GTGTCGATACATTTA-TAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * * * *
50464 GGTAAATTTACAATGTAACCGGTAGAAATCTACCGGTTTTATGAGAGAATAGGTCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACC-GATTTATTAGAAAATAGGTCAACATAATAT
* * * * * * **
50529 ATCGACACTTTTTAAATTTGTGTCGATACTT-TTTTCCAGAATGAATGTCC-AAGGAGGTGC-TC
129 ATCGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCAT-
50591 GCATAAA
193 GCATAAA
* * *
50598 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAGA
1 GTGTCGATACATTTATAAA-AGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATA
* * * *
50662 GGTAAATTTTCAATGTTACCGGTATAAATAAACCGATTTAGTTAGAAAATAGGTCAATATAA
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGATTTA-TTAGAAAATAGGTCAACATAA
50724 GCGCTACCTG
Statistics
Matches: 281, Mismatches: 38, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
197 8 0.03
198 92 0.33
199 91 0.32
200 41 0.15
201 49 0.17
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGATTTATTAGAAAATAGGTCAACATAATATAT
CGACACTTGTGAAATTTATGTCAATACTTATTGTCCAGAATGAATGCCCAAACAAGGTGCATGCA
TAAA
Found at i:50829 original size:23 final size:23
Alignment explanation
Indices: 50779--50823 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
50769 TGCTTATTTT
*
50779 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
50802 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
50824 TGTTATTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:53055 original size:90 final size:90
Alignment explanation
Indices: 52902--53072 Score: 279
Period size: 90 Copynumber: 1.9 Consensus size: 90
52892 CCGAATATTT
* *
52902 AATTCCAATTAATTAAATATAGATTTAATTAGTTTGAAATAATAAAATCCCTAATATGATTAGGG
1 AATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCGAATATGATTAGGG
**
52967 TAACTTGGATATAAAATGATTGTTA
66 TAACTCAGATATAAAATGATTGTTA
* * *
52992 AATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAATCTCGAATGTGATTAGGG
1 AATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCGAATATGATTAGGG
53057 TAACTCAGATATAAAA
66 TAACTCAGATATAAAA
53073 GGACGTGTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (90 bp):
AATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCGAATATGATTAGGG
TAACTCAGATATAAAATGATTGTTA
Found at i:56951 original size:30 final size:30
Alignment explanation
Indices: 56910--56969 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
56900 CAATTTAAGG
56910 CAAAATGGTTTTTGGACTTTAATTGAATTTA
1 CAAAATGGTTTTTGGAC-TTAATTGAATTTA
56941 CAAAAT-GTTTTTGGACTTAATTGAATTTA
1 CAAAATGGTTTTTGGACTTAATTGAATTTA
56970 TTCAAAGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 13 0.45
30 10 0.34
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (30 bp):
CAAAATGGTTTTTGGACTTAATTGAATTTA
Found at i:57075 original size:21 final size:21
Alignment explanation
Indices: 57049--57189 Score: 180
Period size: 21 Copynumber: 6.7 Consensus size: 21
57039 AGGGTGTCAA
57049 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
57070 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
57091 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
57112 AGTGCATCCATGCATCCCTAC
1 AGTGCATCCATGCACCCCTGC
*
57133 AATGCATCCATGCA--CCTGCAC
1 AGTGCATCCATGCACCCCTG--C
** *
57154 TAGTGCATTGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
57175 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
57190 TCAAACACCG
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.03
20 12 0.11
21 76 0.72
22 11 0.10
23 3 0.03
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:60379 original size:25 final size:25
Alignment explanation
Indices: 60343--60407 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
60333 AATGGGTTGG
60343 AATGT-GT-GCTTATGCAAGATGGA
1 AATGTCGTGGCTTATGCAAGATGGA
*
60366 AATGTCGTGGCTTATGAAAGATGGA
1 AATGTCGTGGCTTATGCAAGATGGA
* * *
60391 AAAGTCATGGTTTATGC
1 AATGTCGTGGCTTATGC
60408 CTCAAGACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 5 0.14
24 2 0.06
25 28 0.80
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (25 bp):
AATGTCGTGGCTTATGCAAGATGGA
Found at i:64571 original size:59 final size:59
Alignment explanation
Indices: 64459--65216 Score: 1036
Period size: 59 Copynumber: 12.7 Consensus size: 59
64449 TGCCCCTACA
* * * * *
64459 GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCATATGAAATGCCCTATATG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * * * * * *
64517 GAAATTCATACACATAATTTAATTTCCTTATCATTTTAGCACATGAAGTTCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
64576 GAAATTCATACACTTAGTATGATTTCCTTATCAATTTAGCACACTAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
*
64635 GAAATTCATACACTTAGTATGATTTCCTTATGATTTCCTTATCATTTTAGCAAACGAAGTGCCCT
1 GAAATTCATACAC-T--TA-G-------TATGATTTCCTTATCATTTTAGCACACGAAGTGCCCT
64700 ATCTG
55 ATCTG
* * *
64705 GAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGTCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
64764 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* *
64823 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTTCCTTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* ** * *
64882 GAAATTCATACACTTAGTATGATTTCCTTATCGTTTTTCCACAAGAAGTGCCCTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
64941 GAAATTCATACCCTTAGTATGATTTCCTTATCAATTTAGCACACAAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
65000 GAACTTCATACACTTAGTATGATTTCCTTATCATTTTAGCACA-GTAAGTGCCTTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACG-AAGTGCCCTATCTG
*
65059 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATATG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* *
65118 GAAATCCATAC-CTTTAGTATGATTTCCTTATCATTTTAGCACACCAAGTGCCCTATCTG
1 GAAATTCATACAC-TTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
65177 GAAATTCATATACTTAATATGATTTCCTTCTCATTTTAGC
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGC
65217 TCACTTAGTG
Statistics
Matches: 622, Mismatches: 62, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
58 22 0.04
59 540 0.87
60 3 0.00
62 2 0.00
63 1 0.00
66 1 0.00
67 2 0.00
69 1 0.00
70 50 0.08
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.38
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
Found at i:64668 original size:11 final size:11
Alignment explanation
Indices: 64652--64681 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64642 ATACACTTAG
64652 TATGATTTCCT
1 TATGATTTCCT
64663 TATGATTTCCT
1 TATGATTTCCT
*
64674 TATCATTT
1 TATGATTT
64682 TAGCAAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (11 bp):
TATGATTTCCT
Found at i:71649 original size:20 final size:20
Alignment explanation
Indices: 71612--71650 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
71602 AGATTGAGTG
* * *
71612 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
71632 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
71651 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:71853 original size:23 final size:21
Alignment explanation
Indices: 71807--71886 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
71797 AACCCCAGGG
* * **
71807 GGGGGTATCGATTCCCCTGTA
1 GGGGGAATCGGTTCCCCTCAA
71828 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
71851 GGGGTAATCGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
71871 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
71887 TCTGCACCAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 12 0.25
21 19 0.40
22 4 0.08
23 13 0.27
ACGTcount: A:0.17, C:0.25, G:0.34, T:0.24
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:71874 original size:20 final size:21
Alignment explanation
Indices: 71827--71888 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
71817 ATTCCCCTGT
71827 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
*
71850 AGGGGTAATCGGTTCCCTC-A
1 AGGGGGAATCGGTTCCCTCAA
* *
71870 AGGGGGGATCGATTCCCTC
1 AGGGGGAATCGGTTCCCTC
71889 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.19, C:0.26, G:0.32, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:79231 original size:46 final size:45
Alignment explanation
Indices: 79180--79267 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 45
79170 TTGATACATC
79180 CTTTCATG-CTTATAATACACCATTAAACCATTTCCA-TTATGGCGTA
1 CTTTCATGCCTT-TAATACACCATTAAA-CATTT-CATTTATGGCGTA
* * *
79226 CTTTCATGCCTTTTATACACTATTATACATTTCATTTATGGC
1 CTTTCATGCCTTTAATACACCATTAAACATTTCATTTATGGC
79268 ATTCATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 2 0.05
45 12 0.32
46 20 0.54
47 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (45 bp):
CTTTCATGCCTTTAATACACCATTAAACATTTCATTTATGGCGTA
Found at i:79839 original size:59 final size:59
Alignment explanation
Indices: 79720--80463 Score: 1039
Period size: 59 Copynumber: 12.7 Consensus size: 59
79710 TGCCCCTACA
* *** ** * *
79720 GAAATTC--ACACTTAGTATGATTT-CTTAACATTTTAGTTTACGAAACGCTCTATATG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
** * *
79776 GAAATTCACGCACTTAATATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTA
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * * *
79835 GAAATTAATACACTTAGTATGATTTTCTTATCATTTTAGCACACTAAGTGCCCTATTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
79894 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* ** * * *
79953 GAAATTCATACACTTAGTATGATTT-CTTAACATTTTAGCGTACGAAATGCTCTATATG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * * *
80011 GAAATTCATGCACTTAATATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTACCTA
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* *
80070 GAAATTCATACACTTAGTATGATTTCCTTGTCATTTTAGCACACGGAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
*
80129 GAAATTCATACACTTAGTATGATTTCTTTATCATTTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
80188 GAAATTCATACCCTTATTATGATTTCCTTATCAATTTAGCACACGAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* *
80247 GAAATTCATACCCTTAGTATGATTTCCTTATCATTTTAGCACACTAAGTGCCCTATCTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
80306 GAAATTCATACACTCAGTATGATTTCCTTCTCATTTTAGCACACGAAGTGCCCTATTTTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTA-TCTG
* * * * *
80366 GAAATCCATACCCTTAGTATGTTTTCCTTATCATTTTAGCACACCAAGTG-CCTAACTG
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
* * *
80424 GAAATTCATACACTCAATATGATTTCCTTAACATTTTAGC
1 GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGC
80464 TCACTTAGTG
Statistics
Matches: 609, Mismatches: 74, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
56 7 0.01
58 100 0.16
59 455 0.75
60 47 0.08
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (59 bp):
GAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTG
Found at i:81185 original size:20 final size:20
Alignment explanation
Indices: 81160--81206 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
81150 TTAGACTCTT
81160 AGAACATCTAAAATCATTCA
1 AGAACATCTAAAATCATTCA
81180 AGAACATCTAAAATCATTCA
1 AGAACATCTAAAATCATTCA
81200 AGAACAT
1 AGAACAT
81207 ACGATTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.51, C:0.19, G:0.06, T:0.23
Consensus pattern (20 bp):
AGAACATCTAAAATCATTCA
Found at i:81580 original size:7 final size:7
Alignment explanation
Indices: 81570--81594 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
81560 TATTTTCCAT
81570 TTTCCCC
1 TTTCCCC
81577 TTTCCCC
1 TTTCCCC
81584 TTTCCCC
1 TTTCCCC
81591 TTTC
1 TTTC
81595 TTTAATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTCCCC
Found at i:82087 original size:55 final size:55
Alignment explanation
Indices: 81798--82150 Score: 456
Period size: 56 Copynumber: 6.4 Consensus size: 55
81788 ATTACATATT
** *
81798 GTATCGGCGTTAAGTGTGCAAAACCAC-AGAATTCATAATATGTTTATGAACGATC
1 GTATCGGCACTAAGTGTGCAAAACCACGA-AATTCATAATATGTTTATGAACGACC
* * * *
81853 GTATCGGCACTAAGTGTACAAAACCCACGGAAGTCATAATATGTTTATGAACAACC
1 GTATCGGCACTAAGTGTGCAAAA-CCACGAAATTCATAATATGTTTATGAACGACC
* *
81909 GTATCGGCACTAAGTGTACAAAACCCACGAAATTTATAATATGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAAAA-CCACGAAATTCATAATATGTTTATGAACGACC
** * * * * *
81965 GTATCGATACTTAGTCTACGAAACCAACAAAATTCATAATATGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAAAACC-ACGAAATTCATAATATGTTTATGAACGACC
* * *
82021 GAATCGTCACTAAGTGTGCAAAACCACGGAATTCATAATATGTTTATGAACGACC
1 GTATCGGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACC
* *
82076 GTATAGGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACT
1 GTATCGGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACC
* *
82131 GTATTGGCACTACGTGTGCA
1 GTATCGGCACTAAGTGTGCA
82151 CCTCAAAGAA
Statistics
Matches: 261, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
55 118 0.45
56 143 0.55
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (55 bp):
GTATCGGCACTAAGTGTGCAAAACCACGAAATTCATAATATGTTTATGAACGACC
Found at i:87875 original size:23 final size:23
Alignment explanation
Indices: 87839--87906 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
87829 AGTGCCACAT
*
87839 ATTTGTCCCGAATGACCACATAA
1 ATTTGTCCCAAATGACCACATAA
* *
87862 ATTTGTCTCAAATGACCACATAG
1 ATTTGTCCCAAATGACCACATAA
* * **
87885 GTTTATCCTGAATGACCACATA
1 ATTTGTCCCAAATGACCACATA
87907 GAACCCTCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (23 bp):
ATTTGTCCCAAATGACCACATAA
Found at i:88165 original size:75 final size:75
Alignment explanation
Indices: 88085--88235 Score: 248
Period size: 75 Copynumber: 2.0 Consensus size: 75
88075 CATAGCATTC
* * *
88085 CTTTTAACATTTCTCACTTATCATTTATGTTCCATAGAACATATTCACTTCATACATATTTGCAT
1 CTTTTAACATTTCTCAATTATCATTTATATTCCATAGAACATATTCACTTCACACATATTTGCAT
88150 AACCTTTTCA
66 AACCTTTTCA
* * *
88160 CTTTTAACATTTCTTAATTATCATTTATATTCCTTATAACATATTCACTTCACACATATTTGCAT
1 CTTTTAACATTTCTCAATTATCATTTATATTCCATAGAACATATTCACTTCACACATATTTGCAT
88225 AACCTTTTCA
66 AACCTTTTCA
88235 C
1 C
88236 ATATGAAATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.45
Consensus pattern (75 bp):
CTTTTAACATTTCTCAATTATCATTTATATTCCATAGAACATATTCACTTCACACATATTTGCAT
AACCTTTTCA
Found at i:102133 original size:30 final size:32
Alignment explanation
Indices: 102097--102169 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
102087 ATTATTGTTA
102097 TATTTTTTATT-AAT-ATAATTATATAAATAT
1 TATTTTTTATTAAATAATAATTATATAAATAT
* *
102127 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTTTATT-AAATAATAATTATATAAATAT
102160 TATTTATTTA
1 TATTT-TTTA
102170 AATTTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 11 0.30
32 3 0.08
33 19 0.51
34 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TATTTTTTATTAAATAATAATTATATAAATAT
Found at i:102176 original size:25 final size:24
Alignment explanation
Indices: 102146--102192 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
102136 TTAAAATAAT
102146 ATTTATATAATT-ATTATTTATTTAA
1 ATTTAT-TAATTAATTA-TTATTTAA
102171 ATTTATTAATTAATTATTATTT
1 ATTTATTAATTAATTATTATTT
102193 GTGCTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTATTAATTAATTATTATTTAA
Found at i:103850 original size:42 final size:42
Alignment explanation
Indices: 103785--103918 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
103775 GATGCCATAG
*
103785 GGGTACATGCCC-AGCCCTTCAGTTCAGATGCCATCTCCGCAA
1 GGGTACATGCCCAAG-CCTCCAGTTCAGATGCCATCTCCGCAA
*
103827 GGGTACATGCCCAAGCCTCCAGTTCAGATGCCATCTCCACAA
1 GGGTACATGCCCAAGCCTCCAGTTCAGATGCCATCTCCGCAA
* * * * * * *
103869 TGTTATATGCCAAACCCACCAGTTCATATGCCATCTCCGC-A
1 GGGTACATGCCCAAGCCTCCAGTTCAGATGCCATCTCCGCAA
103910 GGGTTACAT
1 GGG-TACAT
103919 TCCTAGCCCA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 73 0.95
43 2 0.03
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (42 bp):
GGGTACATGCCCAAGCCTCCAGTTCAGATGCCATCTCCGCAA
Found at i:103878 original size:21 final size:21
Alignment explanation
Indices: 103847--103906 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
103837 CCAAGCCTCC
*
103847 AGTTCAGATGCCATCTCCACA
1 AGTTCATATGCCATCTCCACA
* *
103868 ATGTT-ATATGCCAAAC-CCACC
1 A-GTTCATATGCC-ATCTCCACA
103889 AGTTCATATGCCATCTCC
1 AGTTCATATGCCATCTCC
103907 GCAGGGTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 5 0.16
21 21 0.68
22 5 0.16
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (21 bp):
AGTTCATATGCCATCTCCACA
Found at i:103938 original size:21 final size:21
Alignment explanation
Indices: 103908--103954 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
103898 GCCATCTCCG
* *
103908 CAGGGTTACATTCCTAGCCCA
1 CAGGGGTACATGCCTAGCCCA
*
103929 CAGGGGTACATGCCTAGCCCG
1 CAGGGGTACATGCCTAGCCCA
103950 CAGGG
1 CAGGG
103955 TTTTATGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (21 bp):
CAGGGGTACATGCCTAGCCCA
Found at i:104501 original size:46 final size:46
Alignment explanation
Indices: 104412--104501 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
104402 TACAACAATA
** * **
104412 TTTTTAAAATTTAAATTCAAATTCAACATTAAATATTTGTTAAATG
1 TTTTTAAAATGCAAATCCAAATTCAACATTAAATATTAATTAAATG
104458 TTTTTAAAATGCAAATCCAAATTCAAC-TT-AATATTCCAATTAAA
1 TTTTTAAAATGCAAATCCAAATTCAACATTAAATATT--AATTAAA
104502 ATTTAAAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
44 6 0.16
45 2 0.05
46 29 0.78
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (46 bp):
TTTTTAAAATGCAAATCCAAATTCAACATTAAATATTAATTAAATG
Found at i:105042 original size:139 final size:139
Alignment explanation
Indices: 104851--105563 Score: 955
Period size: 139 Copynumber: 5.1 Consensus size: 139
104841 AAAAAAAAAG
** * **
104851 GGAAGGCGTGCCCCCTGAAACGCGCTTTCACCACTTTGATGCGTCCATTCAAACATGATAGGTAC
1 GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
* * *
104916 TGACATGAATAGTGCCCCCGGTGGACATAAGTGACATAATAGGGAAATTATAACATATTATCTGA
66 TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGA
*
104981 CAAAATAAG
131 CAAAATAAT
* * * * * * * *
104990 GGTAGGGGTACCCTCTGAAATGCGCTTTCACCACTCTGTTGTGTCCCCTCAAACATGATAAGTAC
1 GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
* *
105055 TGACATGAATAGTG-CCCTGGGGGACATGAGTGACATAATAGGGCAATTATAACATATTCTCTGA
66 TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGA
105119 CAAAATAAT
131 CAAAATAAT
* * * *** * * * *
105128 GGAAGGCACGCCCCTTGAAATATGTTTTCACCACTCTGCTGCGTCCCCTCAAACATTATAGGTAC
1 GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
* * * * * * * *
105193 TTATATGAATAGTGTCCCTGGGGGACATGAGTGACATAATAAGGCAATCATAACATATTCTGTGA
66 TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGA
105258 CAAAATAAT
131 CAAAATAAT
* *
105267 AGAAGGCGCACCCCCTGAAACGCGCTTTCTCCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
1 GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
* * * *
105332 TGACATGAATAGT-TCCTCGAGGGACATGAATGACATAATA-GGACAATTATAACATATTCTCTG
66 TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGA-AATTATAACATATTCTCTG
105395 ACAAAATAAT
130 ACAAAATAAT
* *
105405 GGAAGGCGCACCCCCTGAAACGTGCTTTCACCACTTTGTTTCGTCCCCTCAAACATGATAGGTAC
1 GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
* *
105470 TGACATGAATAGTACCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTAA
66 TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGA
105535 CAAAATAAT
131 CAAAATAAT
* *
105544 GGAAGGTGCCCCCCCTGAAA
1 GGAAGGCGCACCCCCTGAAA
105564 TGTGCCTTCA
Statistics
Matches: 502, Mismatches: 68, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
137 2 0.00
138 240 0.48
139 257 0.51
140 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (139 bp):
GGAAGGCGCACCCCCTGAAACGCGCTTTCACCACTTTGTTGCGTCCCCTCAAACATGATAGGTAC
TGACATGAATAGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGA
CAAAATAAT
Found at i:105358 original size:277 final size:277
Alignment explanation
Indices: 104861--105563 Score: 985
Period size: 277 Copynumber: 2.5 Consensus size: 277
104851 GGAAGGCGTG
** **
104861 CCCCCTGAAACGCGCTTTCACCACTTTGATGCGTCCATTCAAACATGATAGGTACTGACATGAAT
1 CCCCCTGAAACATGCTTTCACCACTTTGATGCGTCCCCTCAAACATGATAGGTACTGACATGAAT
* * * *
104926 AGTGCCCCCGGTGGACATAAGTGACATAATAGGGAAATTATAACATATTATCTGACAAAATAAGG
66 AGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGACAAAATAATG
* * * * * *
104991 GTAGGGGTACCCTCTGAAATGCGCTTTCACCACTCTGTTGTGTCCCCTCAAACATGATAAGTACT
131 GAAGGCGCACCCCCTGAAACGCGCTTTCACCACTCTGTTGCGTCCCCTCAAACATGATAAGTACT
* * *
105056 GACATGAATAGTGCCCTGGGGGACATGAGTGACATAATAGGGCAATTATAACATATTCTCTGACA
196 GACATGAATAGTGCCCTGAGGGACATGAATGACATAATAGGACAATTATAACATATTCTCTGACA
*
105121 AAATAATGGAAGGCACG
261 AAATAATGGAAGGCACA
* * * * * * * *
105138 CCCCTTGAAATATGTTTTCACCACTCTGCTGCGTCCCCTCAAACATTATAGGTACTTATATGAAT
1 CCCCCTGAAACATGCTTTCACCACTTTGATGCGTCCCCTCAAACATGATAGGTACTGACATGAAT
* * * * * * *
105203 AGTGTCCCTGGGGGACATGAGTGACATAATAAGGCAATCATAACATATTCTGTGACAAAATAATA
66 AGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGACAAAATAATG
* * *
105268 GAAGGCGCACCCCCTGAAACGCGCTTTCTCCACTTTGTTGCGTCCCCTCAAACATGATAGGTACT
131 GAAGGCGCACCCCCTGAAACGCGCTTTCACCACTCTGTTGCGTCCCCTCAAACATGATAAGTACT
*
105333 GACATGAATAGT-TCCTCGAGGGACATGAATGACATAATAGGACAATTATAACATATTCTCTGAC
196 GACATGAATAGTGCCCT-GAGGGACATGAATGACATAATAGGACAATTATAACATATTCTCTGAC
*
105397 AAAATAATGGAAGGCGCA
260 AAAATAATGGAAGGCACA
* * *
105415 CCCCCTGAAACGTGCTTTCACCACTTTGTTTCGTCCCCTCAAACATGATAGGTACTGACATGAAT
1 CCCCCTGAAACATGCTTTCACCACTTTGATGCGTCCCCTCAAACATGATAGGTACTGACATGAAT
* *
105480 AGTACCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTAACAAAATAATG
66 AGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGACAAAATAATG
* *
105545 GAAGGTGCCCCCCCTGAAA
131 GAAGGCGCACCCCCTGAAA
105564 TGTGCCTTCA
Statistics
Matches: 366, Mismatches: 59, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
276 3 0.01
277 363 0.99
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (277 bp):
CCCCCTGAAACATGCTTTCACCACTTTGATGCGTCCCCTCAAACATGATAGGTACTGACATGAAT
AGTGCCCCCGGGGGACATGAGTGACATAATAGGGAAATTATAACATATTCTCTGACAAAATAATG
GAAGGCGCACCCCCTGAAACGCGCTTTCACCACTCTGTTGCGTCCCCTCAAACATGATAAGTACT
GACATGAATAGTGCCCTGAGGGACATGAATGACATAATAGGACAATTATAACATATTCTCTGACA
AAATAATGGAAGGCACA
Found at i:111601 original size:6 final size:6
Alignment explanation
Indices: 111592--111623 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
111582 TAAAAAAATA
*
111592 GTGCTT GTGCTT GTGCCT GTGCTT GTGCTT GT
1 GTGCTT GTGCTT GTGCTT GTGCTT GTGCTT GT
111624 TTCGTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.19, G:0.34, T:0.47
Consensus pattern (6 bp):
GTGCTT
Found at i:112956 original size:13 final size:13
Alignment explanation
Indices: 112938--112966 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
112928 CCCGGGGTAA
112938 CTCCTCACATCTC
1 CTCCTCACATCTC
112951 CTCCTCACATCTC
1 CTCCTCACATCTC
112964 CTC
1 CTC
112967 TCTATTAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.55, G:0.00, T:0.31
Consensus pattern (13 bp):
CTCCTCACATCTC
Found at i:116507 original size:13 final size:13
Alignment explanation
Indices: 116483--116525 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
116473 GATAAATAAT
*
116483 AAAAATTACAATA
1 AAAAACTACAATA
* *
116496 AAAAAGTCCAATA
1 AAAAACTACAATA
*
116509 AACAACTACAATA
1 AAAAACTACAATA
116522 AAAA
1 AAAA
116526 GTACTAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAACTACAATA
Done.