Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014969.1 Kokia drynarioides strain JFW-HI SEQ_130013, 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: 24058
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:6306 original size:29 final size:29
Alignment explanation
Indices: 6273--6329 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
6263 TATCAAATGT
*
6273 TTTGAGTAAATACTTTTAAAATATTTTAA
1 TTTGAGTAAATACTTTCAAAATATTTTAA
* *
6302 TTTGAGTAATTTCTTTCAAAATATTTTA
1 TTTGAGTAAATACTTTCAAAATATTTTA
6330 TAACTCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (29 bp):
TTTGAGTAAATACTTTCAAAATATTTTAA
Found at i:7901 original size:261 final size:259
Alignment explanation
Indices: 7419--8197 Score: 890
Period size: 261 Copynumber: 3.0 Consensus size: 259
7409 ACAGAGCCAT
* * **
7419 CACTATACTGCCGAGAATGTGATGCATTCACCAAAGCTTTACTACTCATTGGTTTTGGTACGGAT
1 CACTATCCTGCCGAGAATGTGATGCATTCACCGAAGCTTTACTACTTGTTGGTTTTGGTAC-GAT
* * * * * **
7484 GGCGAAGTAGGAGGGAAAGACTGGCGGGGACTTCTTTCCTTCACCAATTCGCTTACTTCATACTT
65 GGTGAAGTAGGAGGAAAAGACTGGCGGGGACTCCTTTCCTTCACCAATTCACTCACTTTGTACTT
* * * * * * **
7549 TGGTGATTCTGAAGGACCGGAATGTGACAGAGACATCCTAGTTGGTGAAGGTGACCGTGAACTGC
130 TGGTGATTCTGAAGAACTGGAATGTGACGGAGACATGCTAGTCGGTGAAGGTGACTGTGAACTAA
* ** * * *
7614 CTTGAGAAGCCAAGGAAACC-GTGGATCGAAAAGACCATG-GTTTGAGTGATTCGAATTGAGTTT
195 CTTGGGAAGAGAACG-AACCTGTGGATCGTAAAGA-C-TGCGTTTGAGTGATTCAAATTGAGTTT
7677 CAC
257 CAC
* *
7680 CGCTATCCTGCCAAGAATGTGATGCATTCACCGAAGCTTTACTACTTGTTGGTTTTGGTACTGAT
1 CACTATCCTGCCGAGAATGTGATGCATTCACCGAAGCTTTACTACTTGTTGGTTTTGGTAC-GAT
*
7745 GGTGAAGTAGGAGGAAAAGACTGGCGGAGG-CTCCTTTCCTTCACCAATTCACTCGCTTTGTACT
65 GGTGAAGTAGGAGGAAAAGACTGGCGG-GGACTCCTTTCCTTCACCAATTCACTCACTTTGTACT
* * *
7809 TTGGTGATTCT-ACATAACTGGAATGTGATGGAGACATGCTAGTCGGTGAAAGTGACTGTGAACT
129 TTGGTGATTCTGA-AGAACTGGAATGTGACGGAGACATGCTAGTCGGTGAAGGTGACTGTGAACT
* *
7873 AACTTGGGAAGAGAACGAACCTGTGGATCGTAAAGAGTGCGATTTGAGTGATTCAAATTGAGTCT
193 AACTTGGGAAGAGAACGAACCTGTGGATCGTAAAGACTGCG-TTTGAGTGATTCAAATTGAGTTT
*
7938 CAT
257 CAC
* * * * * * * ** *
7941 CATTTTCCTTCTGAGAATATGATAG-ATTCACTGAAGCTTTACCACTTGTTGGTTTCAGTGC-A-
1 CACTATCCTGCCGAGAATGTGAT-GCATTCACCGAAGCTTTACTACTTGTTGGTTTTGGTACGAT
* * *
8003 GATGAAGTAGGAGGAAAAGACCGGCGGGGACTCCTTTCCTTCACCAACTCACTCACTTTGTACTT
65 GGTGAAGTAGGAGGAAAAGACTGGCGGGGACTCCTTTCCTTCACCAATTCACTCACTTTGTACTT
* ** * * * *
8068 CGGTGATTCTGAAGAACTGGAATGCAAGGGAGACATGCTAATCGGTGAGGGTGACTCTGAACTAA
130 TGGTGATTCTGAAGAACTGGAATGTGACGGAGACATGCTAGTCGGTGAAGGTGACTGTGAACTAA
* * *
8133 CTTGGGAAGAGAGCGAA-ATGGTGGATCGTAAAGACTGCAATTTGAGTGATTCAAATTGAGTTTC
195 CTTGGGAAGAGAACGAACCT-GTGGATCGTAAAGACTGC-GTTTGAGTGATTCAAATTGAGTTTC
8197 A
258 A
8198 TCAACTGAGA
Statistics
Matches: 443, Mismatches: 65, Indels: 23
0.83 0.12 0.04
Matches are distributed among these distances:
257 3 0.01
258 169 0.38
259 4 0.01
260 6 0.01
261 258 0.58
262 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (259 bp):
CACTATCCTGCCGAGAATGTGATGCATTCACCGAAGCTTTACTACTTGTTGGTTTTGGTACGATG
GTGAAGTAGGAGGAAAAGACTGGCGGGGACTCCTTTCCTTCACCAATTCACTCACTTTGTACTTT
GGTGATTCTGAAGAACTGGAATGTGACGGAGACATGCTAGTCGGTGAAGGTGACTGTGAACTAAC
TTGGGAAGAGAACGAACCTGTGGATCGTAAAGACTGCGTTTGAGTGATTCAAATTGAGTTTCAC
Found at i:13965 original size:101 final size:98
Alignment explanation
Indices: 13849--14075 Score: 259
Period size: 101 Copynumber: 2.3 Consensus size: 98
13839 AAAATAATTT
13849 TTTTTTTTTTGGTGGTGCCATATTAAATGGCACCACCACTTC-CCAA-ATAATGTC-ACTTTATT
1 TTTTTTTTTTGGTGGTG-CATATTAAATGGCACCACCACTTCTCCAACA-AATGTCAAC-TT-TT
* *
13911 TTTTTCATGATTTATTATTTATTTTTTAAAAATTTAAA
62 TTTTTAATGATTTATTATTTAGTTTTTAAAAATTT-AA
* ** * *
13949 TTTCTTTTTTTGGTGGTGTCATA-TAATATGACGTCACTACTTCTCCAACAAATTTCAACTTTTT
1 TTT-TTTTTTTGGTGGTG-CATATTAA-ATGGCACCACCACTTCTCCAACAAATGTCAACTTTTT
*
14013 TTTTAATGATTTATTATTTAGTTTTTAAAAGTTTAA
63 TTTTAATGATTTATTATTTAGTTTTTAAAAATTTAA
*
14049 TTTTTTTTATGGT-GT-CATATTAAATGG
1 TTTTTTTTTTGGTGGTGCATATTAAATGG
14076 TGTCACCACT
Statistics
Matches: 110, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
96 7 0.06
97 3 0.03
98 2 0.02
99 9 0.08
100 11 0.10
101 64 0.58
102 11 0.10
103 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.51
Consensus pattern (98 bp):
TTTTTTTTTTGGTGGTGCATATTAAATGGCACCACCACTTCTCCAACAAATGTCAACTTTTTTTT
TAATGATTTATTATTTAGTTTTTAAAAATTTAA
Found at i:15260 original size:90 final size:88
Alignment explanation
Indices: 15126--15524 Score: 418
Period size: 90 Copynumber: 4.5 Consensus size: 88
15116 TAAAAAAGCC
* * * * * *
15126 TATTATTTTTGTATATATAAATAAAATTTGGCTCGTATTATTTGTTAGTCAAATTTTATATTTTC
1 TATTA-TTTTGTAT-TATAAATCAATTTTAGTTCATATTATTTGTTGGTCAAATTTTATATTTTC
*
15191 GTATATCAATTTTGTAAAATGTTCG
64 GTATATCAATTTTTTAAAATGTTCG
*
15216 TATTATTTTGGTACTTATAAATCAATTTTAGTTCATATTATTTGTTGATCAAATTTTATATTTTC
1 TATTATTTT-GTA-TTATAAATCAATTTTAGTTCATATTATTTGTTGGTCAAATTTTATATTTTC
*
15281 ATATATCAATTTTTTAAAATGTTCG
64 GTATATCAATTTTTTAAAATGTTCG
** * *
15306 TATTATTTTTGTATCTATAAATCAATTTTAGTTTGTATTATTTGTTGGTCGAATTTTATATTTTA
1 TATTA-TTTTGTAT-TATAAATCAATTTTAGTTCATATTATTTGTTGGTCAAATTTTATATTTTC
* * **
15371 GCATATTAATTTTTTAAAATAATCG
64 GTATATCAATTTTTTAAAATGTTCG
* *** *
15396 ------TTT-TATCTATAAATCAATTTTAGTCCATATTATTTGTTGGTTGCATTTTATATTTTTG
1 TATTATTTTGTAT-TATAAATCAATTTTAGTTCATATTATTTGTTGGTCAAATTTTATATTTTCG
* *
15454 TATATCAATTTTCTAAAATGTTCA
65 TATATCAATTTTTTAAAATGTTCG
* * * *
15478 TATTA-TTTGTATTTGTAAATCAATTTTAATCCTTATTATTTGTTGGT
1 TATTATTTTGTA-TTATAAATCAATTTTAGTTCATATTATTTGTTGGT
15525 TGAGTAAATA
Statistics
Matches: 264, Mismatches: 34, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
82 67 0.25
83 3 0.01
87 3 0.01
88 33 0.12
89 6 0.02
90 147 0.56
91 5 0.02
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (88 bp):
TATTATTTTGTATTATAAATCAATTTTAGTTCATATTATTTGTTGGTCAAATTTTATATTTTCGT
ATATCAATTTTTTAAAATGTTCG
Found at i:15413 original size:82 final size:82
Alignment explanation
Indices: 15317--15472 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 82
15307 ATTATTTTTG
*** *
15317 TATCTATAAATCAATTTTAGTTTGTATTATTTGTTGGTCGAATTTTATATTTTAGCATATTAATT
1 TATCTATAAATCAATTTTAGTCCATATTATTTGTTGGTCGAATTTTATATTTTAGCATATCAATT
*
15382 TTTTAAAATAATCGTTT
66 TTCTAAAATAATCGTTT
* * * *
15399 TATCTATAAATCAATTTTAGTCCATATTATTTGTTGGTTGCATTTTATATTTTTGTATATCAATT
1 TATCTATAAATCAATTTTAGTCCATATTATTTGTTGGTCGAATTTTATATTTTAGCATATCAATT
15464 TTCTAAAAT
66 TTCTAAAAT
15473 GTTCATATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 65 1.00
ACGTcount: A:0.30, C:0.08, G:0.09, T:0.53
Consensus pattern (82 bp):
TATCTATAAATCAATTTTAGTCCATATTATTTGTTGGTCGAATTTTATATTTTAGCATATCAATT
TTCTAAAATAATCGTTT
Found at i:16100 original size:25 final size:25
Alignment explanation
Indices: 16047--16095 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
16037 TTTTACAAGC
16047 TTTTTAAAAAAAATTATTCGTTTTTA
1 TTTTTAAAAAAAATTATTC-TTTTTA
16073 TTTTTAAAAAAAA-TATT-TTTTTA
1 TTTTTAAAAAAAATTATTCTTTTTA
16096 AATTTAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.26
25 4 0.17
26 13 0.57
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTTTAAAAAAAATTATTCTTTTTA
Found at i:16101 original size:23 final size:25
Alignment explanation
Indices: 16049--16102 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
16039 TTACAAGCTT
**
16049 TTTAAAAAAAATTATTCGTTTTTATT
1 TTTAAAAAAAATTATTC-TTTTTAAA
16075 TTTAAAAAAAA-TATT-TTTTTAAA
1 TTTAAAAAAAATTATTCTTTTTAAA
16098 TTTAA
1 TTTAA
16103 CATTGTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
25 4 0.15
26 11 0.42
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTAAAAAAAATTATTCTTTTTAAA
Found at i:17702 original size:27 final size:27
Alignment explanation
Indices: 17664--17715 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
17654 TATTTTTGGG
*
17664 TGGTGCCTACCTGATC-GGCGGCACCAA
1 TGGTGCCTACCT-ACCAGGCGGCACCAA
17691 TGGTGCCTACCTACCAGGCGGCACC
1 TGGTGCCTACCTACCAGGCGGCACC
17716 TAGTCCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.17, C:0.37, G:0.29, T:0.17
Consensus pattern (27 bp):
TGGTGCCTACCTACCAGGCGGCACCAA
Found at i:18034 original size:17 final size:17
Alignment explanation
Indices: 18012--18045 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18002 GAAAAAATTC
*
18012 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
18029 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
18046 TCATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:18372 original size:2 final size:2
Alignment explanation
Indices: 18367--18392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18357 TATTAAAACA
18367 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18393 TGTGATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20557 original size:22 final size:22
Alignment explanation
Indices: 20532--20573 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20522 AAGCTTTGAT
20532 TTTAAAATTAGGTTTAAATTGG
1 TTTAAAATTAGGTTTAAATTGG
* **
20554 TTTAAATTTATTTTTAAATT
1 TTTAAAATTAGGTTTAAATT
20574 TAAATTTGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (22 bp):
TTTAAAATTAGGTTTAAATTGG
Found at i:20598 original size:29 final size:28
Alignment explanation
Indices: 20544--20599 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
20534 TAAAATTAGG
* **
20544 TTTAAATTGGTTTAAATTTATTTTTAAA
1 TTTAAATTGCTTTAAATTTAAATTTAAA
20572 TTTAAATTTGCTTTAAATTTAAATTTAA
1 TTTAAA-TTGCTTTAAATTTAAATTTAA
20600 TCAAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTAAATTGCTTTAAATTTAAATTTAAA
Found at i:20677 original size:18 final size:19
Alignment explanation
Indices: 20651--20690 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
20641 AAGCCCAAAT
20651 AAAATTAAATTA-AAAGTCC
1 AAAATTAAA-TACAAAGTCC
20670 AAAA-TAAATACAAAGTCC
1 AAAATTAAATACAAAGTCC
20688 AAA
1 AAA
20691 TTGCAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.10
18 14 0.70
19 4 0.20
ACGTcount: A:0.62, C:0.12, G:0.05, T:0.20
Consensus pattern (19 bp):
AAAATTAAATACAAAGTCC
Found at i:21944 original size:21 final size:20
Alignment explanation
Indices: 21907--21945 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21897 CATTGAAACC
* *
21907 ACTGGGGTTGATGGCCGGCG
1 ACTGGGGGTGATAGCCGGCG
21927 ACTGGAGGGTGATAGCCGG
1 ACTGG-GGGTGATAGCCGG
21946 GCACGCGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.15, C:0.18, G:0.49, T:0.18
Consensus pattern (20 bp):
ACTGGGGGTGATAGCCGGCG
Found at i:22659 original size:29 final size:29
Alignment explanation
Indices: 22613--23112 Score: 335
Period size: 29 Copynumber: 16.7 Consensus size: 29
22603 GAGATCCCTA
22613 AACTTCCAAAAATTCCATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* **
22642 AACTTCCAAAAATCCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCCG
** * *
22672 AACTTTTAAAAATTCTATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* *
22701 AACTTCTAAAAATTCCAATTTTGACCCCGAAAACCGCCG
1 AACTTCCAAAAATTCC-ATTTTTA---C-----CC-CCG
* * **
22740 AACTTCCAAAAATTCTAATTTTGA--CCTA
1 AACTTCCAAAAATTC-CATTTTTACCCCCG
* *
22768 AACTTCCAAAAATTCCATTTTTAACCTCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* * **
22797 AAACTTCTAAAAATTCCATTTTGACCCTTG
1 -AACTTCCAAAAATTCCATTTTTACCCCCG
* *
22827 AACTTCTAAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* **
22856 AACTTCCAAACATTCCATTTTTACCCCAA
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* * ***
22885 AACTTCTAAAAATTACATTTTTTACCCTAA
1 AACTTCCAAAAATTCCA-TTTTTACCCCCG
* * *
22915 AACTTCCAAAAATTACATTTTTATCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* * *
22944 AACTTCCAAAAATTCCATTTTTGCCACCA
1 AACTTCCAAAAATTCCATTTTTACCCCCG
***
22973 AACTTCCAAAAATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCCG
* * ***
23003 AACCTCAAAAAATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTCCATTTTT-ACCCCCG
* *
23033 AATTTCC-AAAATTCCA-TTTTACCCCTG
1 AACTTCCAAAAATTCCATTTTTACCCCCG
* * **
23060 AA-TGTCTAAAAATTCCATCTTTTAACGTCG
1 AACT-TCCAAAAATTCCAT-TTTTACCCCCG
*
23090 AACTTTCCCAAAATTACCATTTT
1 AAC-TTCCAAAAATT-CCATTTT
23113 GCCACCGGGT
Statistics
Matches: 380, Mismatches: 67, Indels: 46
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.00
27 14 0.04
28 29 0.08
29 169 0.44
30 125 0.33
31 11 0.03
32 5 0.01
33 1 0.00
38 2 0.01
39 23 0.06
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCCCG
Found at i:22704 original size:59 final size:59
Alignment explanation
Indices: 22612--23082 Score: 415
Period size: 59 Copynumber: 7.9 Consensus size: 59
22602 AGAGATCCCT
* *
22612 AAACTTCCAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCA
1 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCA
** * * *
22671 AAACTTTTAAAAATTCTATTTTTACCCTCGAACTTCTAAAAATTCCAATTTTGACCCCGAAA
1 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCC---A
* * * * *
22733 ACCGCCGAACTTCCAAAAATTCTAATTTTGA-CCT-AAACTTCCAAAAATTCCATTTTTAACCTC
1 A------AACTTCCAAAAATTC-CATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCC
*
22796 G
59 A
* * * *
22797 AAACTTCTAAAAATTCCATTTTGACCCTTGAACTTCTAAAAATTCCATTTTT-ACCCTC-
1 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCC-CA
* * * * * * *
22855 GAACTTCCAAACATTCCATTTTTACCC-CAAAACTTCTAAAAATTACATTTTTTACCCTA
1 AAACTTCCAAAAATTCCATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTGACCCCA
* *
22914 AAACTTCCAAAAATTACATTTTTATCCTCGAACTTCCAAAAATTCCATTTTTG-CCACC-
1 AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACC-CCA
** * * *
22972 AAACTTCCAAAAATTCCATTTTTGACCCTAAAACCTCAAAAAATTCCATTTTTGACCCTA
1 AAACTTCCAAAAATTCCATTTTT-ACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCA
* *
23032 AAATTTCC-AAAATTCCA-TTTTACCC-CTGAA-TGTCTAAAAATTCCATCTTTT
1 AAACTTCCAAAAATTCCATTTTTACCCTC-GAACT-TCCAAAAATTCCAT-TTTT
23083 AACGTCGAAC
Statistics
Matches: 337, Mismatches: 51, Indels: 49
0.77 0.12 0.11
Matches are distributed among these distances:
57 26 0.08
58 96 0.28
59 156 0.46
60 10 0.03
62 2 0.01
64 1 0.00
67 24 0.07
68 16 0.05
69 6 0.02
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCA
Found at i:22788 original size:96 final size:97
Alignment explanation
Indices: 22639--22823 Score: 266
Period size: 96 Copynumber: 1.9 Consensus size: 97
22629 ATTTTTACCC
* ** * *
22639 CCGAACTTCCAAAAATCCCATTTTTGACCCCAAAACTTTTAAAAATTCTATTTTTACCCTCG-AA
1 CCGAACTTCCAAAAATCCCAATTTTGA-CCCAAAACTTCCAAAAATTCCATTTTTAACCTCGAAA
22703 CTTCTAAAAATTCCAATTTTGACCCCGAAAACCG
65 CTTCTAAAAATTCC-ATTTTGACCCCGAAAACCG
* * *
22737 CCGAACTTCCAAAAATTCTAATTTTGA-CCTAAACTTCCAAAAATTCCATTTTTAACCTCGAAAC
1 CCGAACTTCCAAAAATCCCAATTTTGACCCAAAACTTCCAAAAATTCCATTTTTAACCTCGAAAC
22801 TTCTAAAAATTCCATTTTGACCC
66 TTCTAAAAATTCCATTTTGACCC
22824 TTGAACTTCT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
96 38 0.49
97 16 0.21
98 24 0.31
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (97 bp):
CCGAACTTCCAAAAATCCCAATTTTGACCCAAAACTTCCAAAAATTCCATTTTTAACCTCGAAAC
TTCTAAAAATTCCATTTTGACCCCGAAAACCG
Found at i:22919 original size:88 final size:87
Alignment explanation
Indices: 22768--23082 Score: 377
Period size: 88 Copynumber: 3.6 Consensus size: 87
22758 TTTTGACCTA
* **
22768 AACTTCCAAAAATTCCATTTTTAACCTCGAAACTTCTAAAAATTCCA-TTTTGACCCTTGAACTT
1 AACTTCCAAAAATTCCATTTTT-ACC-CCAAACTTCTAAAAATTCCATTTTTGACCCTAAAACTT
*
22832 CTAAAAATTCCATTTTTACCCTCG
64 CAAAAAATTCCATTTTTACCCTCG
* * *
22856 AACTTCCAAACATTCCATTTTTACCCCAAAACTTCTAAAAATTACATTTTTTACCCTAAAACTTC
1 AACTTCCAAAAATTCCATTTTTACCCC-AAACTTCTAAAAATTCCATTTTTGACCCTAAAACTTC
* * *
22921 CAAAAATTACATTTTTATCCTCG
65 AAAAAATTCCATTTTTACCCTCG
* * *
22944 AACTTCCAAAAATTCCATTTTTGCCACCAAACTTCCAAAAATTCCATTTTTGACCCTAAAACCTC
1 AACTTCCAAAAATTCCATTTTTACC-CCAAACTTCTAAAAATTCCATTTTTGACCCTAAAACTTC
**
23009 AAAAAATTCCATTTTTGACCCTAA
65 AAAAAATTCCATTTTT-ACCCTCG
* *
23033 AATTTCC-AAAATTCCA-TTTTACCCCTGAA-TGTCTAAAAATTCCATCTTTT
1 AACTTCCAAAAATTCCATTTTTACCCC-AAACT-TCTAAAAATTCCAT-TTTT
23083 AACGTCGAAC
Statistics
Matches: 196, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
86 4 0.02
87 41 0.21
88 139 0.71
89 12 0.06
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (87 bp):
AACTTCCAAAAATTCCATTTTTACCCCAAACTTCTAAAAATTCCATTTTTGACCCTAAAACTTCA
AAAAATTCCATTTTTACCCTCG
Done.