Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011268.1 Kokia drynarioides strain JFW-HI SEQ_126247, 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: 50920
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 14 characters in sequence are not A, C, G, or T
Found at i:421 original size:46 final size:46
Alignment explanation
Indices: 364--466 Score: 170
Period size: 46 Copynumber: 2.2 Consensus size: 46
354 ACAGTGCCGG
*
364 GATAAGCATGACATCTCTTCATCTTTTTGAAGCTGACACGTATAGT
1 GATAAGCATGACATCTCTTCATCCTTTTGAAGCTGACACGTATAGT
* *
410 GATAAGTATGACATCTCTTCTTCCTTTTGAAGCTGACACGTATAGT
1 GATAAGCATGACATCTCTTCATCCTTTTGAAGCTGACACGTATAGT
*
456 GATAAGGATGA
1 GATAAGCATGA
467 TATTTTGTTG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (46 bp):
GATAAGCATGACATCTCTTCATCCTTTTGAAGCTGACACGTATAGT
Found at i:3046 original size:102 final size:101
Alignment explanation
Indices: 2940--3128 Score: 274
Period size: 102 Copynumber: 1.9 Consensus size: 101
2930 ACAATAGAAA
* * *
2940 ATCTCAATCTCCCTAAAGTTGCAGTGGAATAGAGTGAAG-T-CATAACCTCAAGTCTTATATCCC
1 ATCTCAATCTCCATAAAGTTGCAGTGGAATAGAGTGAAGTTACA-AACC-CAAATCCTATATCCC
*
3003 TGAAGTTGTAGTGAATCGGATTAAAACTCAAAGTAGCAT
64 TGAAGTTGCAG-GAATCGGATTAAAACTCAAAGTAGCAT
* *
3042 ATCTCAATCTCCATAAAGTTGTAGTGGAATGGAGTGAAGTTACAAACCCAAATCCTATATCCCTG
1 ATCTCAATCTCCATAAAGTTGCAGTGGAATAGAGTGAAGTTACAAACCCAAATCCTATATCCCTG
*
3107 AAGTTGCAGGGATCGGATTAAA
66 AAGTTGCAGGAATCGGATTAAA
3129 GCTACAGTAG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
101 12 0.15
102 59 0.76
103 5 0.06
104 2 0.03
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (101 bp):
ATCTCAATCTCCATAAAGTTGCAGTGGAATAGAGTGAAGTTACAAACCCAAATCCTATATCCCTG
AAGTTGCAGGAATCGGATTAAAACTCAAAGTAGCAT
Found at i:5276 original size:25 final size:26
Alignment explanation
Indices: 5226--5279 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
5216 TAATTACATA
*
5226 TTTTTAATTTGTCCTTGATTCAATATT
1 TTTTTAATTTGTCCATGATT-AATATT
5253 TTTTTAATTT-TACCATGATTATATATT
1 TTTTTAATTTGT-CCATGATTA-ATATT
5280 CATTATTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTTTAATTTGTCCATGATTAATATT
Found at i:7918 original size:17 final size:17
Alignment explanation
Indices: 7879--7921 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
7869 AATTACTTAA
* *
7879 TTAAGAAATTAATTTAG
1 TTAATAAATTAATTGAG
7896 TTAATAAATTAATTGA-
1 TTAATAAATTAATTGAG
7912 TTCAATAAAT
1 TT-AATAAAT
7922 AATATTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (17 bp):
TTAATAAATTAATTGAG
Found at i:10071 original size:29 final size:29
Alignment explanation
Indices: 9962--10201 Score: 148
Period size: 29 Copynumber: 8.2 Consensus size: 29
9952 TAAATGTACT
* * *
9962 TTTTTG-AAAGTTTGGGGTC-AAATAAAA
1 TTTTTGAAAAGTTCGAGGTCAAAATATAA
* * *
9989 GTTTTGGAAAAGTTTGGGGGTCAAAATATAA
1 -TTTTTGAAAAG-TTCGAGGTCAAAATATAA
* *
10020 TTTTTGGAAAGTTTTGAGGTCAAAATATAA
1 TTTTTGAAAAG-TTCGAGGTCAAAATATAA
*
10050 TTTTTGAAAAGTTCGAGTTCAAAATATAA
1 TTTTTGAAAAGTTCGAGGTCAAAATATAA
** * * * *
10079 ACTTTAAAAAATTGGAGGTCAAAATGTAA
1 TTTTTGAAAAGTTCGAGGTCAAAATATAA
* *
10108 TTTTT-AGAGAGTTCGAGGTCAAAATGA-GA
1 TTTTTGA-AAAGTTCGAGGTCAAAAT-ATAA
* * * *
10137 TTTTTGGAAAGTTCAAGAGTTAAAACT-GAA
1 TTTTTGAAAAGTTCGAG-GTCAAAA-TATAA
* * * *
10167 GTTTTGGAAAGTTCGGGGATCCAAATATAA
1 TTTTTGAAAAGTTCGAGG-TCAAAATATAA
10197 TTTTT
1 TTTTT
10202 AAATAAAATA
Statistics
Matches: 165, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
28 6 0.04
29 76 0.46
30 75 0.45
31 8 0.05
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.35
Consensus pattern (29 bp):
TTTTTGAAAAGTTCGAGGTCAAAATATAA
Found at i:11097 original size:18 final size:19
Alignment explanation
Indices: 11056--11100 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
11046 ATATTTCAAA
11056 ATAAAAATATAAACAATAT
1 ATAAAAATATAAACAATAT
*
11075 ATAAAAATA-AAATAA-AT
1 ATAAAAATATAAACAATAT
11092 ACTAAAAAT
1 A-TAAAAAT
11101 GATATACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 12 0.50
19 9 0.38
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAATATAAACAATAT
Found at i:12148 original size:40 final size:40
Alignment explanation
Indices: 11853--12336 Score: 433
Period size: 40 Copynumber: 12.1 Consensus size: 40
11843 GAATGGCGTT
* * ** * *
11853 TTCAATCTACCCCACGATTAGGGTAAGCGATT-GGATG-C
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
** * *
11891 TTCAATCTATCCCATGATCGGGGTAAGAGATGATTGGTGTTTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGAT--TAGGT-TGTC
* * * ** * *
11934 TTCAATGTACTCTC-TGATTAGGGTAAGAGATT-GGAT-AC
1 TTCAATCTGC-CCCATGATCGGGGTAAGAGATTAGGTTGTC
* * *
11972 TTCAATTTGCCCCATGATCGGGGTAAGAGATTGCATGATGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATT--AGGTTGTC
* * ** *
12014 TTCAATTTTCCCCATGATCGGGGTAAGAGATTGAGAATGGC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATT-AGGTTGTC
* *
12055 TTCAATCTACCCCATGATCGGGGTAAGAGATT-GGGTGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
* * *
12094 TTCAATCCGCCCCATGATCGAGGTAAGAGATTAGGCTGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
* * ** * *
12134 TTCAATTTGTCCCATGATTAGGGTAAGAGATTAAGTTTTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
* *
12174 TTCAATCTACCCCATGATCGGGGTAAGAGATTAGGTTATC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
* *
12214 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGGTTATC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
* * * * *
12254 TTCATTCCGCCCCTTGATCGGCGTAAAAGATTAGGTTGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
*
12294 TTCAATCTGCCCCATGATCGAGGTAAGAGATT-GGTGTGTC
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGT-TGTC
12334 TTC
1 TTC
12337 GCTTTGCTCT
Statistics
Matches: 367, Mismatches: 66, Indels: 24
0.80 0.14 0.05
Matches are distributed among these distances:
37 2 0.01
38 51 0.14
39 37 0.10
40 177 0.48
41 41 0.11
42 33 0.09
43 24 0.07
44 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (40 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTAGGTTGTC
Found at i:12530 original size:49 final size:49
Alignment explanation
Indices: 12471--12957 Score: 286
Period size: 49 Copynumber: 9.9 Consensus size: 49
12461 AGGTATAGGG
* *
12471 TTCGCCGTTGCGGTCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
* * * * * * *
12520 TTCGTCGTTGCGGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGAG
1 TTCGCCGTTGCAGCCTCAA-CCTTTCCCTTCATATCTTC-ATGGTACCAAA
* *
12570 TTCGCCGTTCCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGA
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
** * * * * * * ***
12619 TTTTCCGTTGTAGCCTCAATCC-TTCTCATCACATCTTTTAAGGTACCGGG
1 TTCGCCGTTGCAGCCTCAA-CCTTTCCCTTCATATC-TTCATGGTACCAAA
*
12669 TTC-CCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
* ** * * * ****
12717 TTCGCCATTGCAGCCTCAATATTTCCCATCACAT-TTCTAAGGTACTGGG
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAAA
* ** * * * * **
12766 TTTGCTATTGCGGCCTCAAACC-TTCCCATCACATCTTCTAAGGTACC-GG
1 TTCGCCGTTGCAGCCTC-AACCTTTCCCTTCATATCTTC-ATGGTACCAAA
* * **
12815 TTCGCCGTTGTAGCCTCAACCTTTCCCTTCATATTTTCATGGTACCGGA
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
* * * * * * ***
12864 TTCACCATTAC-GACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGG
1 TTCGCCGTTGCAG-CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCAAA
** * * * * *
12914 TTCATCGTTACGGCCTCAATCTTTCCCTTCATATTTTCAAGGTA
1 TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTA
12958 TTAGATTCGT
Statistics
Matches: 343, Mismatches: 80, Indels: 30
0.76 0.18 0.07
Matches are distributed among these distances:
48 29 0.08
49 207 0.60
50 106 0.31
51 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (49 bp):
TTCGCCGTTGCAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAAA
Found at i:12782 original size:98 final size:99
Alignment explanation
Indices: 12420--12910 Score: 476
Period size: 98 Copynumber: 5.0 Consensus size: 99
12410 GAGGTAGAAG
* * * * ** *
12420 ATTCGTCGTTACAGCCTAAAT-CTTCCCTATTACATCTTCTAAGGTATAGGGTTCGCCGTTGCGG
1 ATTCGCCGTTGCAGCCTCAATCCTTCCC-ATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAG
*
12484 TCTCAACCTTTCCCTTCATATCTTCATGGTACCAA
65 CCTCAACCTTTCCCTTCATATCTTCATGGTACCAA
* * * *
12519 ATTCGTCGTTGCGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGAGTTCGCCGTTCCAGC
1 ATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAGC
*
12584 CTCAACCTTTCCCTTCATATCTTCATGGTACCAG
66 CTCAACCTTTCCCTTCATATCTTCATGGTACCAA
** * * * *
12618 ATTTTCCGTTGTAGCCTCAATCCTTCTCATCACATCTTTTAAGGTACCGGGTTC-CCGTTACAGC
1 ATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAGC
12682 CTCAACCTTTCCCTTCATATCTTCATGGTACCAA
66 CTCAACCTTTCCCTTCATATCTTCATGGTACCAA
* ** * * ** *
12716 ATTCGCCATTGCAGCCTCAATATTTCCCATCACAT-TTCTAAGGTACTGGGTTTGCTATTGCGGC
1 ATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAGC
* * * *
12780 CTCAAACC-TTCCCATCACATCTTCTAAGGTACC-G
66 CTC-AACCTTTCCCTTCATATCTTC-ATGGTACCAA
* * * * * * * * * *
12814 GTTCGCCGTTGTAGCCTCAA-CCTTTCCCTTCATATTTTC-ATGGTACCGGATTCACCATTAC-G
1 ATTCGCCGTTGCAGCCTCAATCC-TTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAG
* * *
12876 ACCTCAACCTTTCCCATCACATCTTCTAAGGTACC
65 -CCTCAACCTTTCCCTTCATATCTTC-ATGGTACC
12911 GGGTTCATCG
Statistics
Matches: 331, Mismatches: 53, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
97 20 0.06
98 164 0.50
99 141 0.43
100 6 0.02
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (99 bp):
ATTCGCCGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGGTACCGGGTTCGCCGTTGCAGC
CTCAACCTTTCCCTTCATATCTTCATGGTACCAA
Found at i:12782 original size:147 final size:148
Alignment explanation
Indices: 12631--12915 Score: 414
Period size: 147 Copynumber: 1.9 Consensus size: 148
12621 TTCCGTTGTA
* * *
12631 GCCTCAATCCTTCTCATCACATCTTTTAAGGTACCGGGTTC-CCGTTACAGCCTCAACCTTTCCC
1 GCCTCAAACCTTCCCATCACATCTTCTAAGGTACC-GGTTCGCCGTTACAGCCTCAACCTTTCCC
* * *
12695 TTCATATCTTCATGGTACCAAATTCGCCATTGC-AGCCTCAATATTTCCCATCACAT-TTCTAAG
65 TTCATATCTTCATGGTACCAAATTCACCATTACGA-CCTCAACATTTCCCATCACATCTTCTAAG
*
12758 GTACTGGGTTTGCTATTGCG
129 GTACCGGGTTTGCTATTGCG
**
12778 GCCTCAAACCTTCCCATCACATCTTCTAAGGTACCGGTTCGCCGTTGTAGCCTCAACCTTTCCCT
1 GCCTCAAACCTTCCCATCACATCTTCTAAGGTACCGGTTCGCCGTTACAGCCTCAACCTTTCCCT
* ** *
12843 TCATATTTTCATGGTACCGGATTCACCATTACGACCTCAACCTTTCCCATCACATCTTCTAAGGT
66 TCATATCTTCATGGTACCAAATTCACCATTACGACCTCAACATTTCCCATCACATCTTCTAAGGT
12908 ACCGGGTT
131 ACCGGGTT
12916 CATCGTTACG
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
146 5 0.04
147 100 0.82
148 17 0.14
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (148 bp):
GCCTCAAACCTTCCCATCACATCTTCTAAGGTACCGGTTCGCCGTTACAGCCTCAACCTTTCCCT
TCATATCTTCATGGTACCAAATTCACCATTACGACCTCAACATTTCCCATCACATCTTCTAAGGT
ACCGGGTTTGCTATTGCG
Found at i:12977 original size:99 final size:97
Alignment explanation
Indices: 12772--12988 Score: 263
Period size: 99 Copynumber: 2.2 Consensus size: 97
12762 TGGGTTTGCT
* * **
12772 ATTGCGGCCTCAAACCTTCCCATCACATCTTCTAAGGTACCGGTTCGCCGTTGTAGCCTCAACCT
1 ATTGCGACCTC-AACCTTCCCATCACATCTTCTAAGGTACCGGTTCACCGTTACAGCCTCAACCT
* *
12837 TTCCCTTCATATTTTCATGGTACCGGATTCACC
65 TTCCCTTCATATTTTCAAGGTACCAGATTCACC
* * * *
12870 ATTACGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGGTTCATCGTTACGGCCTCAATC
1 ATTGCGACCTCAACC-TTCCCATCACATCTTCTAAGGTACC-GGTTCACCGTTACAGCCTCAACC
** **
12935 TTTCCCTTCATATTTTCAAGGTATTAGATTCGTC
64 TTTCCCTTCATATTTTCAAGGTACCAGATTCACC
* *
12969 GTTGCGACCTCAATCTTCCC
1 ATTGCGACCTCAACCTTCCC
12989 TTTCAAACCT
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
97 4 0.04
98 39 0.39
99 57 0.57
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.33
Consensus pattern (97 bp):
ATTGCGACCTCAACCTTCCCATCACATCTTCTAAGGTACCGGTTCACCGTTACAGCCTCAACCTT
TCCCTTCATATTTTCAAGGTACCAGATTCACC
Found at i:18105 original size:33 final size:33
Alignment explanation
Indices: 18063--18129 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
18053 TTCTTGAAAG
18063 TAGTTCTCCTGACGCTTTCCCCAATGTTTATCT
1 TAGTTCTCCTGACGCTTTCCCCAATGTTTATCT
18096 TAGTTCTCCTGACGCTTTCCCCAATGTTTATCT
1 TAGTTCTCCTGACGCTTTCCCCAATGTTTATCT
18129 T
1 T
18130 CCCATTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.15, C:0.30, G:0.12, T:0.43
Consensus pattern (33 bp):
TAGTTCTCCTGACGCTTTCCCCAATGTTTATCT
Found at i:21384 original size:28 final size:29
Alignment explanation
Indices: 21330--21388 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
21320 GGGGGGAAAA
* **
21330 TGGGGTTAAAAATGTAAATTTGGAAAGTT
1 TGGGGTTAAAAATGCAAATTTCAAAAGTT
*
21359 TGGGGTT-AAAATGCAATTTTCAAAAGTT
1 TGGGGTTAAAAATGCAAATTTCAAAAGTT
21387 TG
1 TG
21389 AGATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
TGGGGTTAAAAATGCAAATTTCAAAAGTT
Found at i:21464 original size:59 final size:59
Alignment explanation
Indices: 21401--21530 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
21391 ATCAAAAAGA
* *
21401 AATTTTTAGAAAGTTTA-AGGACAAATTGA-AGTTTTGGAAAAGTTCGAGGG-TCAAAATAT
1 AATTTTTAGAAAGTTTAGAGGACAAAGT-ATAGTTTTGG-AAAGTTCG-GGGATCAAAACAT
* * *
21460 AATTTTTGGAAAGTTTAGAGGTCAAAGTATATTTTTGGAAAGTTCGGGGATCAAAACAT
1 AATTTTTAGAAAGTTTAGAGGACAAAGTATAGTTTTGGAAAGTTCGGGGATCAAAACAT
*
21519 AAATTTTAGAAA
1 AATTTTTAGAAA
21531 ACTTGAGGGT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
58 3 0.05
59 43 0.70
60 15 0.25
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (59 bp):
AATTTTTAGAAAGTTTAGAGGACAAAGTATAGTTTTGGAAAGTTCGGGGATCAAAACAT
Found at i:21483 original size:30 final size:29
Alignment explanation
Indices: 21348--21643 Score: 149
Period size: 30 Copynumber: 10.1 Consensus size: 29
21338 AAAATGTAAA
* * **
21348 TTTGGAAAGTTTGGGGTTAAAATGCAA-T
1 TTTGGAAAGTTTGAGGTCAAAATATAATT
** * *
21376 TTTCAAAAGTTTGAGATCAAAA-AGAAATT
1 TTTGGAAAGTTTGAGGTCAAAATA-TAATT
* * * *
21405 TTTAGAAAGTTTAAGGAC-AAAT-TGAAGT
1 TTTGGAAAGTTTGAGGTCAAAATAT-AATT
*
21433 TTTGGAAAAGTTCGAGGGTCAAAATATAATT
1 TTTGG-AAAGTTTGA-GGTCAAAATATAATT
*
21464 TTTGGAAAGTTTAGAGGTCAAAGTAT-ATT
1 TTTGGAAAGTTT-GAGGTCAAAATATAATT
* * * *
21493 TTTGGAAAGTTCGGGGATCAAAACATAAAT
1 TTTGGAAAGTTTGAGG-TCAAAATATAATT
* ** * **
21523 TTTAGAAAACTTGAGGGTTAAAATGCAATT
1 TTTGGAAAGTTTGA-GGTCAAAATATAATT
* *
21553 TTT-AAAGAGTTTG-GGTCAAAATGA-GATT
1 TTTGGAA-AGTTTGAGGTCAAAAT-ATAATT
* * ** *
21581 TTTGAAAAGTTTGAGGGTTAAAATCGAAGT
1 TTTGGAAAGTTTGA-GGTCAAAATATAATT
*
21611 TTTGGAAAGTTCGAGGATCAAAATATAATT
1 TTTGGAAAGTTTGAGG-TCAAAATATAATT
21641 TTT
1 TTT
21644 AAATAAAAAA
Statistics
Matches: 197, Mismatches: 52, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
28 52 0.26
29 49 0.25
30 79 0.40
31 16 0.08
32 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (29 bp):
TTTGGAAAGTTTGAGGTCAAAATATAATT
Found at i:21573 original size:28 final size:28
Alignment explanation
Indices: 21537--21593 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
21527 GAAAACTTGA
*
21537 GGGTTAAAATGCA-ATTTTT-AAAGAGTTT
1 GGGTCAAAATG-AGATTTTTGAAA-AGTTT
21565 GGGTCAAAATGAGATTTTTGAAAAGTTT
1 GGGTCAAAATGAGATTTTTGAAAAGTTT
21593 G
1 G
21594 AGGGTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 1 0.04
28 22 0.85
29 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (28 bp):
GGGTCAAAATGAGATTTTTGAAAAGTTT
Found at i:21634 original size:88 final size:87
Alignment explanation
Indices: 21348--21646 Score: 229
Period size: 88 Copynumber: 3.4 Consensus size: 87
21338 AAAATGTAAA
* * * * * *
21348 TTTGGAAAGTTTG-GGGTTAAAATGCAATTTTCAAAAGTTTGAGATCAAAAAGAAATTTTT-AGA
1 TTTGGAAAGTTCGAGGGTCAAAATACAATTTTTAAAAGTTTGAGGTCAAAATGAAATTTTTGA-A
* *
21411 AAGTTT-AAGG-ACAAATTGAAGT
65 AAGTTTGAGGGTA-AAATCGAAGT
* * * *
21433 TTTGGAAAAGTTCGAGGGTCAAAATATAATTTTTGGAAAGTTTAGAGGTCAAAGT-ATATTTTTG
1 TTTGG-AAAGTTCGAGGGTCAAAATACAATTTTT-AAAAGTTT-GAGGTCAAAATGAAATTTTTG
* * * *
21497 GAAAGTTCG-GGGATCAAAA-CATAAAT
63 AAAAGTTTGAGGG-T-AAAATC-GAAGT
* * * * *
21523 TTTAGAAAACTT-GAGGGTTAAAATGCAATTTTTAAAGAGTTTG-GGTCAAAATGAGATTTTTGA
1 TTT-GGAAAGTTCGAGGGTCAAAATACAATTTTTAAA-AGTTTGAGGTCAAAATGAAATTTTTGA
21586 AAAGTTTGAGGGTTAAAATCGAAGT
64 AAAGTTTGAGGG-TAAAATCGAAGT
* *
21611 TTTGGAAAGTTCGAGGATCAAAATATAATTTTTAAA
1 TTTGGAAAGTTCGAGGGTCAAAATACAATTTTTAAA
21647 TAAAAAAGTA
Statistics
Matches: 163, Mismatches: 35, Indels: 29
0.72 0.15 0.13
Matches are distributed among these distances:
85 5 0.03
86 7 0.04
87 29 0.18
88 70 0.43
89 36 0.22
90 14 0.09
91 2 0.01
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.33
Consensus pattern (87 bp):
TTTGGAAAGTTCGAGGGTCAAAATACAATTTTTAAAAGTTTGAGGTCAAAATGAAATTTTTGAAA
AGTTTGAGGGTAAAATCGAAGT
Found at i:22343 original size:15 final size:15
Alignment explanation
Indices: 22325--22361 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
22315 TTCAAATCCC
*
22325 TTTTTATTTTTTTGT
1 TTTTTATTTTGTTGT
22340 TTTTTATTTTGTTGT
1 TTTTTATTTTGTTGT
22355 TATTTTA
1 T-TTTTA
22362 AAAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (15 bp):
TTTTTATTTTGTTGT
Found at i:27219 original size:357 final size:357
Alignment explanation
Indices: 26748--27463 Score: 1369
Period size: 357 Copynumber: 2.0 Consensus size: 357
26738 TCAGATGCCA
26748 TGTGATGAGTGTAGTCACTGTCAATCAGCCAATCCTTTCTAACCCTACTTGAGGTTGCAAAACAA
1 TGTGATGAGTGTAGTCACTGTCAATCAGCCAATCCTTTCTAACCCTACTTGAGGTTGCAAAACAA
26813 GAAGCAGTGAAAACATGCTCTTCTTGAGCTTGAATGTCCTTAATAGCTTAAGCTTGGTTCTGCTA
66 GAAGCAGTGAAAACATGCTCTTCTTGAGCTTGAATGTCCTTAATAGCTTAAGCTTGGTTCTGCTA
26878 TTGTGGTTGTGCCTTTTTTTTGTTTTTACAGACCTTCTCTATGTGACCAAGTTGCTTGTAATTCC
131 TTGTGGTTGTGCCTTTTTTTTGTTTTTACAGACCTTCTCTATGTGACCAAGTTGCTTGTAATTCC
26943 TACATTGGCTATCAAGTCTGTACCAGCAGTATCTTTTCAAATGTGTGGATTTCTTGCAGTGAGTG
196 TACATTGGCTATCAAGTCTGTACCAGCAGTATCTTTTCAAATGTGTGGATTTCTTGCAGTGAGTG
* *
27008 TCTGTTGAAAACTTTTTCTTTCCAACATCCTTCTTTGGCTTCTCCTTCTTATCTAACCAAGGTTT
261 TATGGTGAAAACTTTTTCTTTCCAACATCCTTCTTTGGCTTCTCCTTCTTATCTAACCAAGGTTT
27073 CTTTCCCTTGTAATTTGAGCTTGAGCCTTCTT
326 CTTTCCCTTGTAATTTGAGCTTGAGCCTTCTT
* *
27105 TGTGATGAGTGTAGTCACTGTCAATCAGCCAATCCTTTCTAACCTTGCTTGAGGTTGCAAAACAA
1 TGTGATGAGTGTAGTCACTGTCAATCAGCCAATCCTTTCTAACCCTACTTGAGGTTGCAAAACAA
*
27170 GAAGCAGTGAAAACATGCTCTTCTTGAGCTTGAATGTCCTTAATAGCTTAAGCTTGGTTCTGCTG
66 GAAGCAGTGAAAACATGCTCTTCTTGAGCTTGAATGTCCTTAATAGCTTAAGCTTGGTTCTGCTA
*
27235 TTGTGGTTGTGCCTTTTTTTTGTTTTTACGGACCTTCTCTATGTGACCAAGTTGCTTGTAATTCC
131 TTGTGGTTGTGCCTTTTTTTTGTTTTTACAGACCTTCTCTATGTGACCAAGTTGCTTGTAATTCC
*
27300 TACATTGGCTATCAAGTTTGTACCAGCAGTATCTTTTCAAATGTGTGGATTTCTTGCAGTGAGTG
196 TACATTGGCTATCAAGTCTGTACCAGCAGTATCTTTTCAAATGTGTGGATTTCTTGCAGTGAGTG
27365 TATGGTGAAAACTTTTTCTTTCCAACATCCTTCTTTGGCTTCTCCTTCTTATCTAACCAAGGTTT
261 TATGGTGAAAACTTTTTCTTTCCAACATCCTTCTTTGGCTTCTCCTTCTTATCTAACCAAGGTTT
27430 CTTTCCCTTGTAATTTGAGCTTGAGCCTTCTT
326 CTTTCCCTTGTAATTTGAGCTTGAGCCTTCTT
27462 TG
1 TG
27464 CTTTTAGCCT
Statistics
Matches: 352, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
357 352 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (357 bp):
TGTGATGAGTGTAGTCACTGTCAATCAGCCAATCCTTTCTAACCCTACTTGAGGTTGCAAAACAA
GAAGCAGTGAAAACATGCTCTTCTTGAGCTTGAATGTCCTTAATAGCTTAAGCTTGGTTCTGCTA
TTGTGGTTGTGCCTTTTTTTTGTTTTTACAGACCTTCTCTATGTGACCAAGTTGCTTGTAATTCC
TACATTGGCTATCAAGTCTGTACCAGCAGTATCTTTTCAAATGTGTGGATTTCTTGCAGTGAGTG
TATGGTGAAAACTTTTTCTTTCCAACATCCTTCTTTGGCTTCTCCTTCTTATCTAACCAAGGTTT
CTTTCCCTTGTAATTTGAGCTTGAGCCTTCTT
Found at i:31271 original size:217 final size:222
Alignment explanation
Indices: 30861--31305 Score: 695
Period size: 217 Copynumber: 2.0 Consensus size: 222
30851 ATGGTGTTTA
* *
30861 AAATAGAACCAAGAGTTGAGTCAAAATCCCATGAATTATAGTAATAAAACCTAAACCTAAAAGCA
1 AAATAGAACCAAGAGTCGAGTCAAAATCCCATCAATTATAGTAATAAAA-C-AAACCTAAAAGCA
30926 ATTAAATTACTGAAATAATTTATTCTTTACCAGTTTACTATTTCTCAATCAGTTCATGGTTAAAT
64 ATTAAATTACTGAAATAATTTATTCTTTACCAGTTTACTATTTCTCAATCAGTTCATGGTTAAAT
* * * *
30991 GCCAGTTATTGGACCAAACAAGTCACCAATTGCTAGTTCAATCATCCAGTTTGGTTCTTTATTCA
129 GCCAGTTATTGGACCAAACAAGTCACCAATTACCAGTTCAACCATACAGTTTGGTTCTTTATTCA
31056 TTGATGCCAACACAAGGAATTTTTCATGC
194 TTGATGCCAACACAAGGAATTTTTCATGC
* *
31085 AAATAGAACCAAGAGTCGAGTCAAAATCCCATCAA-T-TA-TAATAATA-AAACCTAAAAGCGAT
1 AAATAGAACCAAGAGTCGAGTCAAAATCCCATCAATTATAGTAATAAAACAAACCTAAAAGCAAT
* **
31146 TAAATTA-TAGAACTAATTTATTCTTTACCAGTTTACTATTTCTTGATCAGTTCAT-GTTAAATG
66 TAAATTACT-GAAATAATTTATTCTTTACCAGTTTACTATTTCTCAATCAGTTCATGGTTAAATG
*
31209 CCAGTTCTTGGACCAAACAAGTCACCAATTACCAGTTCAACCATACAGTTTGGTTCTTTATTCAT
130 CCAGTTATTGGACCAAACAAGTCACCAATTACCAGTTCAACCATACAGTTTGGTTCTTTATTCAT
* *
31274 TGATGCTAACACAAGGATTTTTTCATGC
195 TGATGCCAACACAAGGAATTTTTCATGC
31302 AAAT
1 AAAT
31306 TTCATTAAGA
Statistics
Matches: 206, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
217 99 0.48
218 64 0.31
221 7 0.03
222 2 0.01
223 1 0.00
224 33 0.16
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (222 bp):
AAATAGAACCAAGAGTCGAGTCAAAATCCCATCAATTATAGTAATAAAACAAACCTAAAAGCAAT
TAAATTACTGAAATAATTTATTCTTTACCAGTTTACTATTTCTCAATCAGTTCATGGTTAAATGC
CAGTTATTGGACCAAACAAGTCACCAATTACCAGTTCAACCATACAGTTTGGTTCTTTATTCATT
GATGCCAACACAAGGAATTTTTCATGC
Found at i:31740 original size:22 final size:21
Alignment explanation
Indices: 31715--31755 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31705 TTTTCTTAAG
*
31715 ATTATGTATGTTTTTTTTCTGT
1 ATTATGTAT-TTTTCTTTCTGT
31737 ATTATGTATTTTTCTTTCT
1 ATTATGTATTTTTCTTTCT
31756 AGATGTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (21 bp):
ATTATGTATTTTTCTTTCTGT
Found at i:38210 original size:156 final size:156
Alignment explanation
Indices: 37918--38262 Score: 422
Period size: 156 Copynumber: 2.2 Consensus size: 156
37908 GGCGCAATAC
* * * * ** * *
37918 CGTTGGCTAATCCAACTAAAGTTGGGCTCATTTATTGTTGTCAGTTTAACTGGCTAGTGTTGGGC
1 CGTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGTTGTCAGTTTAACTAACTAGTGCTGAGC
* * * * ** *
37983 ACACATTCGTTGGTTATCCGACTAGCGTTGGGTGCAAAATGTATTACGGTTTATCTACTAAGCAC
66 ACACATTCCTCGATTATCCGACTAGCGCTGGGCACAAAATCTATTACGGTTTATCTACTAAGCAC
38048 TAGGTGCCAAGAATTGACGGAATTAT
131 TAGGTGCCAAGAATTGACGGAATTAT
*
38074 TGTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGTTGTCAGTTTAACTAACTAGTGCTGAGC
1 CGTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGTTGTCAGTTTAACTAACTAGTGCTGAGC
** * * * *
38139 ACACATTCCTCGATTATTTGACTAGTGCTGGGCACAAATTCTATTGCGGTTTATC-ATCTAGGCA
66 ACACATTCCTCGATTATCCGACTAGCGCTGGGCACAAAATCTATTACGGTTTATCTA-CTAAGCA
* * * * *
38203 TTGGGTGCTAGGAATTGACGGAATTCT
130 CTAGGTGCCAAGAATTGACGGAATTAT
*
38230 CGTTGGTTAATCGAACTAGAGCTGGGCTCACTT
1 CGTTGGTTAATCCAACTAGAGCTGGGCTCACTT
38263 TTAATATTGT
Statistics
Matches: 159, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
155 1 0.01
156 158 0.99
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (156 bp):
CGTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGTTGTCAGTTTAACTAACTAGTGCTGAGC
ACACATTCCTCGATTATCCGACTAGCGCTGGGCACAAAATCTATTACGGTTTATCTACTAAGCAC
TAGGTGCCAAGAATTGACGGAATTAT
Found at i:41656 original size:216 final size:216
Alignment explanation
Indices: 41259--44325 Score: 3631
Period size: 216 Copynumber: 14.2 Consensus size: 216
41249 AGTCAAGGAT
* * * *
41259 AAAACTTGCTTACAAAATGACAAACTATTTAGAGCAAATGATGTGATTTCTCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * * * *
41324 TCGGAAAAA-TGCTCAAAGGAATGGATCTTGTTGAATACTTTAAGGAATCGAAGTTAAAAAATAA
66 T-TGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* **
41388 CTCGTAAAATTTTGACAAGTTCGGAAGTTCGTCCAAGAAAAAAGAGAGAAACAATTCTCACGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
41453 ATAAGTTTTTAATTTAAAGACC
195 ATAAGTTTTTAATTCAAAGACC
*
41475 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGTAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
** * * **
41540 TTGAAAAATTGCTCGAAGGAATGGATCGCCATGAATACTTTAAGGAAGCGAAGTTATAAAAGGTC
66 TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
* * * ** * **
41605 TCCTAAAAGTTTGACAAGTTCAGAAGTTTGTCCATTAACCAAGAAAGAAACAATTCTCAAATAAA
131 TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAA
*
41670 TAAGTTTTTAATTCAAAGACT
196 TAAGTTTTTAATTCAAAGACC
* * * *
41691 AAAACTTGTTTACAAAATGACACACTATTTAGACCAAATGCTGCAATTTCTCGAGCATGGAATG-
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * *
41755 TTCAGAAAATTGCTC-AAGGAATTGATCATCTTGAATACTTTAAGGATCCAAAGTTATAAAAGAA
66 TTGA-AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * * * * *
41819 CTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCATGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
41884 GTAAGTTTTTAATTCAAAGACC
195 ATAAGTTTTTAATTCAAAGACC
41906 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * *
41971 TTGAAAAATTGCTCGAAGGAATGGATCTTGTTGAATACTTTAAGGAACCGAAGTTAAAAAATAAC
66 TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
* * *
42036 AT-GTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAATAATTCTTACGTAA
131 -TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
42100 ATAAGTTTTTAATTCAAAGACC
195 ATAAGTTTTTAATTCAAAGACC
* *
42122 AAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * **
42187 TCGGAAAATTGCTCGAAGGAATGGATCAACTTGAATACTTTAAGGAAGTGAAGTTATAAAAGATA
66 TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGA-A
** * * * *
42252 -TTTTAAAAGTTTGACAAGTTCGGAAATTAGTCCATGAATCAAGAGAGAAACAA-TCTCACGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
42315 ATAAGTTTTTAATTCACAA-ACT
195 ATAAGTTTTTAATTCA-AAGACC
* *
42337 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGAAAT-T
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* *
42401 TTCGAAAAATTGCTCGAAGGAATGGATCATCTCGAATACTTTAAGGAACCGAAGTTATAAAATAA
66 TT-GAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * *
42466 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAAAGAG-AA-AATTCACACATAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
42529 ATAAGTTTTTAATTCAAAGACT
195 ATAAGTTTTTAATTCAAAGACC
* * ** *
42551 AAAACTTTTTTACAAAATGACAAACTATATAGACCAAATGATGCGATTTCCTAAACATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* ** * * * * *
42616 TCGAAAAATAACTCAATAGGAATGAATCGTCTTGAATACTTTAAGGAACCAAATTTATATAAA-A
66 TTGAAAAATTGCTCGA-AGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATA-AAAGA
* * * * * * *
42680 ACTCGTACAAGTTTAACAAGTGT-AGAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCAAGG
129 ACTCGTAAAAGTTTGACAAGT-TCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
42744 AAATAAGTTTTTAATTCAAAGACC
193 AAATAAGTTTTTAATTCAAAGACC
* *
42768 -AAACTTGTTTGCAAAATGACAAACTATTTAGACCATAA-GATGCGATTTCCTGAGCAT----TG
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCA-AATGATGCGATTTCCCGAGCATGGAATG
* * * * * * * *
42827 TTCGGAAAGTTGCAT-GAAGGATTGGATCGTCTTGAATACGTTAAGGAACCAAAAAGCTATAAAA
65 TTTGAAAAATTGC-TCGAAGGAATGGATCATCTTGAATACTTTAAGGAACC--GAAGTTATAAAA
* * * * * * *
42891 GAACTCGTAAAAGTTTGGCAAGTTCGAAAGTTCGTCCAATAACCAAAAGAGCAATAATTCTCATG
127 GAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
*
42956 TAAATAAGTTTTT-ATTCAAAGACT
192 TAAATAAGTTTTTAATTCAAAGACC
* * *
42980 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGACGCAATTTCCTGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * ** * * *
43045 TCGGAAAATTGCTCGTGGGAATGGATCTTCCTT-AATACTTTAAGGAACCGAAGTTAAAAAATAA
66 TTGAAAAATTGCTCGAAGGAATGGATCAT-CTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * *
43109 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCCCACGGAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* *
43174 ATAAGTTTTTAATTAAAAGGCC
195 ATAAGTTTTTAATTCAAAGACC
* * * * *
43196 AAAACTTATTTACAAAATGACAAACTATTTAGACTAGAGGATGCGATTTCTCGAGCATGG--T-T
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * * * * * * *
43258 CTG-AAAATTGCACAAAGGAATGGATCTTCTTGAATACATTACGTAAACAAAGTGATAAAAGAAC
66 TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
* * ** * *
43322 TCGTAAAAGTTTAACTAGTTCAAAAGTTCATCCATGAACCAAGAGAGAAACAAAAATTCTCACGT
131 TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAAC---AATTCTCACGT
* * * *
43387 TAATAAGATTTTAATACAAAGATC
193 AAATAAGTTTTTAATTCAAAGACC
* * * * * * * ** *
43411 AAAACTTGTTTACAAATTAACAAACTATTTCGAGCAAATGGTACAATTTCCAAAGCATTGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
** * * * * **
43476 TTGAAAAATTGCTCGAAGGAATATATCGTCTTGAAAACTTTATGCAACATAAGTTATAAAAGAAC
66 TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
* * * * * * ** ** *
43541 TCATAAAAGTTTGATAAGTTTGAAATTTAC-TCCAATAACCAAGTTAGAAATGATACTCACGTAA
131 TCGTAAAAGTTTGACAAGTTCGGAAGTT-CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
* * *
43605 CTAAGTTTTTAATTCAAATACT
195 ATAAGTTTTTAATTCAAAGACC
* * * *
43627 AAAAGCTT-TTTCCATAATGAAAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
1 AAAA-CTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * * * * *
43691 TTCGAAAAATTGCTCGAAGAAATGAATCGTCTT-AATTACTTTAAGGAAGCAAAATTATAAAAGA
65 TTTGAAAAATTGCTCGAAGGAATGGATCATCTTGAA-TACTTTAAGGAACCGAAGTTATAAAAGA
* * * * * * *
43755 ACTCATAAAAGTGTGGCAAGGTCGAAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTA
129 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
*
43820 AATAAGTTTTTAATTCAAAGACT
194 AATAAGTTTTTAATTCAAAGACC
* *
43843 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAGTGGTGCGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * *
43908 TT-AGAAGATTGCTCAAAAGAATGTATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAA
66 TTGA-AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAA
* * *
43972 CTCATAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAA
*
44037 ATAAGTTTTTAATTCAAAGACT
195 ATAAGTTTTTAATTCAAAGACC
***
44059 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGACATGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* ***
44124 TT-AGAAAATTGTTCGAAGGAATGGATCATCACAAATACTTTAAGGAACCGAAGTTA-AAGAAGA
66 TTGA-AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAA-AAGA
* * * * *
44187 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTGTCATGAA
129 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
*
44252 AATAAATTTTTAATTCAAAGACC
194 AATAAGTTTTTAATTCAAAGACC
* * *
44275 AAAACTTTTTTACAAAATGACAAAATATTTAGACCAAATGATGTGATTTCC
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC
44326 GAAGCATTGA
Statistics
Matches: 2429, Mismatches: 373, Indels: 98
0.84 0.13 0.03
Matches are distributed among these distances:
211 33 0.01
212 117 0.05
213 129 0.05
214 102 0.04
215 612 0.25
216 1264 0.52
217 80 0.03
218 6 0.00
219 85 0.03
220 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (216 bp):
AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
TTGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAAC
TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAA
TAAGTTTTTAATTCAAAGACC
Found at i:42103 original size:431 final size:431
Alignment explanation
Indices: 41258--44341 Score: 3584
Period size: 431 Copynumber: 7.2 Consensus size: 431
41248 AAGTCAAGGA
* * *
41258 TAAAACTTGCTTACAAAATGACAAACTATTTAGAGCAAATGATGTGATTTCTCGAGCATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CGAGCATGGAATG
* * * * * * * *
41323 TTCGGAAAAATGCTCAAAGGAATGGATCTTGTTGAATACTTTAAGGAATCGAAGTTAAAAAATAA
65 TTCGGAAAATTGCTCAAAGGAATTGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAA
* * * * *
41388 CTCGTAAAATTTTGACAAGTTCGGAAGTTCGTCCAAGAAAAAAGAGAGAAACAATTCTCACGTAA
130 CTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
*
41453 ATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
195 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
* * *
41518 CGATTTCCCGAGCATGTAATGTTTGAAAAATTGCTCGAAGGAATGGATCGCCATGAATACTTTAA
260 CGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA
* ** * * * ** *
41583 GGAAGCGAAGTTATAAAAGGTCTCCTAAAAGTTTGACAAGTTCAGAAGTTTGTCCATTAACCAAG
325 GGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAG
* * **
41648 AAAGAAACAATTCTCAAATAAATAAGTTTTTAATTCAAAGAC
390 AGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
41690 TAAAACTTGTTTACAAAATGACACACTATTTAGACCAAATGCTGCAATTTCTCGAGCATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CGAGCATGGAATG
* *
41755 TTCAGAAAATTGCTC-AAGGAATTGATCATCTTGAATACTTTAAGGATCCAAAGTTATAAAAGAA
65 TTCGGAAAATTGCTCAAAGGAATTGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAA
* *
41819 CTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCATGTAA
130 CTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
*
41884 GTAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
195 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
* *
41949 CGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCTTGTTGAATACTTTAA
260 CGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA
* *
42014 GGAACCGAAGTTAAAAAATAACAT-GTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAA
325 GGAACCGAAGTTATAAAAGAAC-TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAA
*
42078 GAGAGAAATAATTCTTACGTAAATAAGTTTTTAATTCAAAGAC
389 GAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
42121 CAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT-CCGAGCATGGAATG
* * * ***
42186 TTCGGAAAATTGCTCGAAGGAATGGATCAACTTGAATACTTTAAGGAAGTGAAGTTATAAAAGAT
65 TTCGGAAAATTGCTCAAAGGAATTGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGA-
** * * *
42251 A-TTTTAAAAGTTTGACAAGTTCGGAAA-TTAGTCCATGAATC-AAGAGAGAAACAA-TCTCACG
129 ACTAGTAAAAGTTTGACAAGTT-TGAAAGTTCGTCCAAGAA-CAAAGAGAGAAACAATTCTCACG
*
42312 TAAATAAGTTTTTAATTCACAA-ACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAT
192 TAAATAAGTTTTTAATTCA-AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAT
* * * *
42376 GATGCGATTTCCCAAGCATGAAAT-TTTCGAAAAATTGCTCGAAGGAATGGATCATCTCGAATAC
256 GATGCGATTTCCCGAGCATGGAATGTTT-GAAAAATTGCTCGAAGGAATGGATCGTCTTGAATAC
*
42440 TTTAAGGAACCGAAGTTATAAAATAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAA
320 TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAA
* *
42505 CCAAA-AGAG-AA-AATTCACACATAAATAAGTTTTTAATTCAAAGAC
385 -CAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * *
42550 TAAAACTTTTTTACAAAATGACAAACTATATAGACCAAATGATGCGATTTCCTAAACATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC-GAGCATGGAATG
* ** * *
42615 TTCGAAAAATAACTCAATAGGAA-TGAATCGTCTTGAATACTTTAAGGAACCAAATTTATATAAA
65 TTCGGAAAATTGCTCAA-AGGAATTG-ATCATCTTGAATACTTTAAGGAACCAAAGTTATA-AAA
* * * * *
42679 -AACTCGTACAAGTTTAACAAGTGT-AGAAGTTAGTCCAAGAACCAAA-AGAGAAACAATTCTCA
127 GAACTAGTAAAAGTTTGACAAGTTTGA-AAGTTCGTCCAAGAA-CAAAGAGAGAAACAATTCTCA
* * *
42741 AGGAAATAAGTTTTTAATTCAAAGACC-AAACTTGTTTGCAAAATGACAAACTATTTAGACCATA
190 CGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA-A
* * * * *
42805 A-GATGCGATTTCCTGAGCAT----TGTTCGGAAAGTTGCAT-GAAGGATTGGATCGTCTTGAAT
254 ATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGC-TCGAAGGAATGGATCGTCTTGAAT
* * * * *
42864 ACGTTAAGGAACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGGCAAGTTCGAAAGTTCGTCCA
318 ACTTTAAGGAACC--GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCA
* * *
42929 ATAACCAAA-AGAGCAATAATTCTCATGTAAATAAGTTTTT-ATTCAAAGAC
381 AGAA-CAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* *
42979 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGACGCAATTTCCTGAGCATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC-GAGCATGGAATG
*** * * * * *
43044 TTCGGAAAATTGCTCGTGGGAATGGATCTTCCTT-AATACTTTAAGGAACCGAAGTTAAAAAATA
65 TTCGGAAAATTGCTCAAAGGAATTGATCAT-CTTGAATACTTTAAGGAACCAAAGTTATAAAAGA
* * * * *
43108 ACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCCCACGGA
129 ACTAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTA
* * * * * *
43173 AATAAGTTTTTAATTAAAAGGCCAAAACTTATTTACAAAATGACAAACTATTTAGACTAGAGGAT
194 AATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT
* * * * * *
43238 GCGATTTCTCGAGCATGG--T-TCTG-AAAATTGCACAAAGGAATGGATCTTCTTGAATACATTA
259 GCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTA
* * * * * * * ** * *
43299 CGTAAACAAAGTGATAAAAGAACTCGTAAAAGTTTAACTAGTTCAAAAGTTCATCCATGAACCAA
324 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAA-CAA
* * * * *
43364 GAGAGAAACAAAAATTCTCACGTTAATAAGATTTTAATACAAAGA-
388 -AGAGAGA-AATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * * * * *
43409 TCAAAACTTGTTTACAAATTAACAAACTATTTCGAGCAAATGGTACAATTTCCAAAGCATTGAAT
1 T-AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC-GAGCATGGAAT
* * * * * * *
43474 GTTTGAAAAATTGCTCGAAGGAATAT-ATCGTCTTGAAAACTTTATGCAA-CATAAGTTATAAAA
64 GTTCGGAAAATTGCTCAAAGGAAT-TGATCATCTTGAATACTTTAAGGAACCA-AAGTTATAAAA
* * * * ** ** *
43537 GAACTCA-TAAAAGTTTGATAAGTTTGAAATTTAC-TCCAATAACCAAGTTAGAAATGATACTCA
127 GAACT-AGTAAAAGTTTGACAAGTTTGAAAGTT-CGTCCAAGAACAAAGAGAGAAACAATTCTCA
* * * * * *
43600 CGTAACTAAGTTTTTAATTCAAATACTAAAAGCTT-TTTCCATAATGAAAAACTATTTAGACCAA
190 CGTAAATAAGTTTTTAATTCAAAGACCAAAA-CTTGTTTACAAAATGACAAACTATTTAGACCAA
* * * *
43664 ATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGAAATGAATCGTCTT-AATT
254 ATGATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAA-T
* * * * * * * * * *
43728 ACTTTAAGGAAGCAAAATTATAAAAGAACTCATAAAAGTGTGGCAAGGTCGAAAGTTTGACCAAG
318 ACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAG
* *
43793 AACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
383 AACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* *
43842 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAGTGGTGCGATTTCCCGAGCATGGAATG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT-CCGAGCATGGAATG
** * *
43907 TTTAGAAGATTGCTCAAAAGAA-TGTATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGA
65 TTCGGAAAATTGCTCAAAGGAATTG-ATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGA
*
43971 ACTCA-TAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGT
129 ACT-AGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGT
*
44035 AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGA
193 AAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGA
*** * * ***
44100 CATGATTTCCCGAGCATGGAATGTTT-AGAAAATTGTTCGAAGGAATGGATCATCACAAATACTT
258 TGCGATTTCCCGAGCATGGAATGTTTGA-AAAATTGCTCGAAGGAATGGATCGTCTTGAATACTT
*
44164 TAAGGAACCGAAGTTA-AAGAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAAC
322 TAAGGAACCGAAGTTATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAAC
* * * * *
44228 CAAGAGAGAAATAATTGTCATGAAAATAAATTTTTAATTCAAAGAC
386 AAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * *
44274 CAAAACTTTTTTACAAAATGACAAAATATTTAGACCAAATGATGTGATTTCCGAAGCATTGATTG
1 TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCG-AGCATGGAATG
44339 TTC
65 TTC
44342 CTAAAAGTTT
Statistics
Matches: 2258, Mismatches: 330, Indels: 128
0.83 0.12 0.05
Matches are distributed among these distances:
426 40 0.02
427 59 0.03
428 165 0.07
429 278 0.12
430 180 0.08
431 835 0.37
432 601 0.27
433 20 0.01
434 6 0.00
435 74 0.03
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (431 bp):
TAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCGAGCATGGAATGT
TCGGAAAATTGCTCAAAGGAATTGATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAAC
TAGTAAAAGTTTGACAAGTTTGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAA
TAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
GATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAG
GAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGA
GAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
Found at i:42496 original size:647 final size:647
Alignment explanation
Indices: 41259--44325 Score: 3700
Period size: 647 Copynumber: 4.7 Consensus size: 647
41249 AGTCAAGGAT
* * * *
41259 AAAACTTGCTTACAAAATGACAAACTATTTAGAGCAAATGATGTGATTTCTCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * *
41324 TCGGAAAAA-TGCTCAAAGGAATGGATCTTGTTGAATACTTTAAGGAATCGAAGTTAAAAAATAA
66 T-TGAAAAATTGCTCAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTAAAAAAGAA
* *
41388 CTCGTAAAATTTTGACAAGTTCGGAAGTTCGTCCAAGAAAAAAGAGAGAAACAATTCTCACGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
* *
41453 ATAAGTTTTTAATTTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATG
195 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATA
* * * *
41518 CGATTTCCCGAGCATGTAATGTTTGAAAAATTGCTCGAAGGAATGGATCGCCATGAATACTTTAA
260 CGATTTCCCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA
* ** * * * *
41583 GGAAGCGAAGTTATAAAAGGTCTCCTAAAAGTTTGACAAGTTCAGAAGTTTGTCCATTAACCAAG
325 GGAAACGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAATTAGTCCA-TAACCAAG
* * **
41648 AAAGAAACAATTCTCAAATAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACA
389 AGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACA
* * * *
41713 CACTATTTAGACCAAATGCTGCAATTTCTCGAGCATGGAATGTTC-AGAAAATTGCTC-AAGGAA
454 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAA
* * * * *
41776 TTGATCATCTTGAATACTTTAAGGATCCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTT
518 TGGATCATCTCGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* *
41841 GAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCATGTAAGTAAGTTTTTAATTCAAAGACC
583 GAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
41906 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * *
41971 TTGAAAAATTGCTCGAAGGAATGGATCTTGTTGAATACTTTAAGGAACCGAAGTTAAAAAATAAC
66 TTGAAAAATTGCTCAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTAAAAAAGAAC
* *
42036 AT-GTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAATAATTCTTACGTAA
131 -TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
*
42100 ATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATA
195 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATA
* **
42165 CGATTTCCCGAGCATGGAATGTTCGGAAAATTGCTCGAAGGAATGGATCAACTTGAATACTTTAA
260 CGATTTCCCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA
** ** *
42230 GGAAGTGAAGTTATAAAAGATA-TTTTAAAAGTTTGACAAGTTCGGAAATTAGTCCATGAATCAA
325 GGAAACGAAGTTATAAAAGA-ACTCGTAAAAGTTTGACAAGTTCGGAAATTAGTCCAT-AACCAA
*
42294 GAGAGAAACAA-TCTCACGTAAATAAGTTTTTAATTCACAA-ACTAAAACTTGTTTACAAAATGA
388 GAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCA-AAGACTAAAACTTGTTTACAAAATGA
* * *
42357 CAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGAAATTTTCGAAAAATTGCTCGAAGGA
452 CAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGA
* *
42422 ATGGATCATCTCGAATACTTTAAGGAACCGAAGTTATAAAATAACTCGTAAAAGTTTGACAAGTT
517 ATGGATCATCTCGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * *
42487 CGGAAGTTCGTCCAAGAACCAAA-AG-AGAA-AATTCACACATAAATAAGTTTTTAATTCAAAGA
582 CGAAAGTTCGTCCAAGAA-CAAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
*
42549 CT
646 CC
* * ** *
42551 AAAACTTTTTTACAAAATGACAAACTATATAGACCAAATGATGCGATTTCCTAAACATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* ** * * * *
42616 TCGAAAAATAACTCAATAGGAATGAATCGTCTTGAATACTTTAAGGAACCAAATTTATATAAA-A
66 TTGAAAAATTGCTCAA-AGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTA-AAAAAGA
* * * * *
42680 ACTCGTACAAGTTTAACAAGTGT-AGAAGTTAGTCCAAGAACCAAA-AGAGAAACAATTCTCAAG
129 ACTCGTAAAAGTTTGACAAGT-TCGGAAGTTCGTCCAAGAA-CAAAGAGAGAAACAATTCTCACG
* *
42743 GAAATAAGTTTTTAATTCAAAGACC-AAACTTGTTTGCAAAATGACAAACTATTTAGACCATAA-
192 TAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA-AAT
* * * * *
42806 GATGCGATTTCCTGAGCAT----TGTTCGGAAAGTTGCAT-GAAGGATTGGATCGTCTTGAATAC
256 GATACGATTTCCCGAGCATGGAATGTTTGGAAAATTGC-TCGAAGGAATGGATCGTCTTGAATAC
* ** * * *
42866 GTTAAGGAACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGGCAAGTTC-GAAAGTTCGTCCAA
320 TTTAAGGAA--ACGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAA-TTAGTCC-A
* * *
42930 TAACCAAAAGAGCAATAATTCTCATGTAAATAAGTTTTT-ATTCAAAGACTAAAACTTGTTTACA
381 TAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACA
* * * *
42994 AAATGACAAACTATTTAGACCAAATGACGCAATTTCCTGAGCATGGAATGTTCGGAAAATTGCTC
446 AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC
** * * * * *
43059 GTGGGAATGGATCTTC-CTTAATACTTTAAGGAACCGAAGTTAAAAAATAACTCGTAAAAGTTTG
511 GAAGGAATGGATCATCTC-GAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTG
* * * *
43123 ACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCCCACGGAAATAAGTTTTTAATT
575 ACAAGTTCGAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATT
* *
43188 AAAAGGCC
640 CAAAGACC
* * * * *
43196 AAAACTTATTTACAAAATGACAAACTATTTAGACTAGAGGATGCGATTTCTCGAGCATGG--T-T
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * * * * *
43258 CTG-AAAATTGCACAAAGGAATGGATCTTCTTGAATACATTACGTAAACAAAGTGATAAAAGAAC
66 TTGAAAAATTGCTCAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTAAAAAAGAAC
* * ** * * *
43322 TCGTAAAAGTTTAACTAGTTCAAAAGTTCATCCATGAACCAAGAGAGAAACAAAAATTCTCACGT
131 TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAAC---AATTCTCACGT
* * * * * * * * *
43387 TAATAAGATTTTAATACAAAGATCAAAACTTGTTTACAAATTAACAAACTATTTCGAGCAAATGG
193 AAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGA
* ** * * ** *
43452 TACAATTTCCAAAGCATTGAATGTTTGAAAAATTGCTCGAAGGAATATATCGTCTTGAAAACTTT
258 TACGATTTCCCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTT
* * * * * * *
43517 -ATGCAACATAAGTTATAAAAGAACTCATAAAAGTTTGATAAGTT-TGAAATTTACTCCAATAAC
323 AAGGAAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAA-TTAGTCC-ATAAC
** * * * * * *
43580 CAAGTTAGAAATGATACTCACGTAACTAAGTTTTTAATTCAAATACTAAAAGCTT-TTTCCATAA
385 CAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAA-CTTGTTTACAAAA
* *
43644 TGAAAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAA
449 TGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAA
* * * * * * * * *
43709 GAAATGAATCGTCT-TAATTACTTTAAGGAAGCAAAATTATAAAAGAACTCATAAAAGTGTGGCA
514 GGAATGGATCATCTCGAA-TACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACA
* * * * *
43773 AGGTCGAAAGTTTGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
578 AGTTCGAAAGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
*
43838 AGACT
643 AGACC
* *
43843 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAGTGGTGCGATTTCCCGAGCATGGAATGT
1 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * *
43908 TT-AGAAGATTGCTCAAAAGAATGTATCATCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAA
66 TTGA-AAAATTGCTCAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTAAAAAAGAA
* *
43972 CTCATAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
130 CTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAA
* *
44037 ATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGACA
195 ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATA
* * * * ***
44102 TGATTTCCCGAGCATGGAATGTTTAGAAAATTGTTCGAAGGAATGGATCATCACAAATACTTTAA
260 CGATTTCCCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAA
* * *
44167 GGAACCGAAGTTA-AAGAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCA-TCCAAGAACCA
325 GGAAACGAAGTTATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGGAAATT-AGTCC-ATAACCA
* * * * * *
44230 AGAGAGAAATAATTGTCATGAAAATAAATTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGA
387 AGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGA
* *
44295 CAAAATATTTAGACCAAATGATGTGATTTCC
452 CAAACTATTTAGACCAAATGATGCGATTTCC
44326 GAAGCATTGA
Statistics
Matches: 2062, Mismatches: 303, Indels: 109
0.83 0.12 0.04
Matches are distributed among these distances:
639 7 0.00
640 73 0.04
641 52 0.03
642 15 0.01
643 245 0.12
644 67 0.03
645 234 0.11
646 292 0.14
647 699 0.34
648 274 0.13
649 9 0.00
650 2 0.00
651 93 0.05
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (647 bp):
AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
TTGAAAAATTGCTCAAAGGAATGGATCTTCTTGAATACTTTAAGGAACCAAAGTTAAAAAAGAAC
TCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAA
TAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATAC
GATTTCCCGAGCATGGAATGTTTGGAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAG
GAAACGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAATTAGTCCATAACCAAGAG
AGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAA
CTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGG
ATCATCTCGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAA
AGTTCGTCCAAGAACAAAGAGAAAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
Found at i:44483 original size:151 final size:151
Alignment explanation
Indices: 44192--44476 Score: 421
Period size: 151 Copynumber: 1.9 Consensus size: 151
44182 GAAGAACTCG
* * * *
44192 TAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTGTCATGAAAATAA
1 TAAAAGTTTGACAAGTTCGGAAGCTCATCCAAGAACAAAGAGAGAAATAATTCTCACGAAAATAA
* ** *
44257 ATTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGACAAAATATTTAGACCAAATGATGTGAT
66 ATTTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAAATATTTAGACCAAAGGATGTGAT
44322 TTCCGAAGCATTGATTGTTCC
131 TTCCGAAGCATTGATTGTTCC
* * *
44343 TAAAAGTTTGACAAGTTCGGAAGCTCGTCCAAGAATAAAGAGAGAAATAATTCTCACGTAAATAC
1 TAAAAGTTTGACAAGTTCGGAAGCTCATCCAAGAACAAAGAGAGAAATAATTCTCACGAAAATA-
* *
44408 GA-TTTTAATTAAAAGACCAAAGCTTGATTACAAAATGACAAACA-ATTTAGACCAAAGGATGTG
65 AATTTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAA-ATATTTAGACCAAAGGATGTG
44471 ATTTCC
129 ATTTCC
44477 CGAGCATGGA
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
151 117 0.98
152 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (151 bp):
TAAAAGTTTGACAAGTTCGGAAGCTCATCCAAGAACAAAGAGAGAAATAATTCTCACGAAAATAA
ATTTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAAATATTTAGACCAAAGGATGTGAT
TTCCGAAGCATTGATTGTTCC
Found at i:44679 original size:366 final size:367
Alignment explanation
Indices: 43976--44688 Score: 1009
Period size: 366 Copynumber: 1.9 Consensus size: 367
43966 AAAGAACTCA
* *
43976 TAAAAGTTTGACAAGTTTGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAA
1 TAAAAGTTTGACAAGTTCGGAAGCTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAA
* * * * * *
44041 GTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGACATGAT
66 GATTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAACAATTTAGACCAAAGGACATGAT
* ** * *
44106 TTCCCGAGCATGGAATGTTTAGAAAATTGTTCGAAGGAATGGATCATCACAAATACTTTAAGGAA
131 TTCCCGAGCATGGAATGATTAGAAAATTGCACGAAGAAATGGATCATCACAAATACATTAAGGAA
* *
44171 CCGAAGTTAAAGAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAG
196 CCAAAGTTAAAGAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAG
* * * * * *
44236 AAATAATTGTCATGAAAATAAATTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGACAAAAT
261 AAACAATTCTCACGAAAATAAAGTTTTAATTCAAAGACCAAAACTTGTCTACAAAATGACAAAAT
* *
44301 ATTTAGACCAAATGATGTGATTTCCGAAGCATTGATTGTTCC
326 ATTTAAACCAAATGATGCGATTTCCGAAGCATTGATTGTTCC
* * *
44343 TAAAAGTTTGACAAGTTCGGAAGCTCGTCCAAGAATAAAGAGAGAAATAATTCTCACGTAAATAC
1 TAAAAGTTTGACAAGTTCGGAAGCTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAA
* **
44408 GATTTTAATTAAAAGACCAAAGCTTGATTACAAAATGACAAACAATTTAGACCAAAGGATGTGAT
66 GATTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAACAATTTAGACCAAAGGACATGAT
* * ***
44473 TTCCCGAGCATGGAAT-ATTCGAAAATTGCAC-ACATAAATGGATCATCTTGAATACATTAAGGA
131 TTCCCGAGCATGGAATGATTAGAAAATTGCACGA-AGAAATGGATCATCACAAATACATTAAGGA
*
44536 ACCAAAGTTATAA-AAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAG
195 ACCAAAGTTA-AAGAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAG
* * * * *
44600 AGAAACAATTCTCACGTAAATAAGGTTTTAATTCAATGAGCAAAACTTGTCTACAAATTGACAAA
259 AGAAACAATTCTCACGAAAATAAAGTTTTAATTCAAAGACCAAAACTTGTCTACAAAATGACAAA
* *
44665 CTGTTTAAACCAAATGATGCGATT
324 ATATTTAAACCAAATGATGCGATT
44689 CCCAGAGCAC
Statistics
Matches: 302, Mismatches: 42, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
365 1 0.00
366 167 0.55
367 134 0.44
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (367 bp):
TAAAAGTTTGACAAGTTCGGAAGCTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAA
GATTTTAATTAAAAGACCAAAACTTGATTACAAAATGACAAACAATTTAGACCAAAGGACATGAT
TTCCCGAGCATGGAATGATTAGAAAATTGCACGAAGAAATGGATCATCACAAATACATTAAGGAA
CCAAAGTTAAAGAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAG
AAACAATTCTCACGAAAATAAAGTTTTAATTCAAAGACCAAAACTTGTCTACAAAATGACAAAAT
ATTTAAACCAAATGATGCGATTTCCGAAGCATTGATTGTTCC
Found at i:44950 original size:185 final size:186
Alignment explanation
Indices: 44585--44957 Score: 513
Period size: 185 Copynumber: 2.0 Consensus size: 186
44575 CGAAAGTTCA
* * * *
44585 TCCATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTCAATGAGCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAAACTTGT
* *
44650 CTACAAATTGACAAACTGTTTAAACCAAATGATGCGATTCCCAGAGCACAGAATGTTCGAAAAAC
66 CTACAAAATGACAAACTATTTAAACCAAATGATGCGATTCCCAGAGCACAGAATGTTCGAAAAAC
* * *
44715 TACTCGATGGAATAGATAGTCTTGAATACTTTAAGAAATAGAAGTTATAAAAGAAC
131 TACTCAAAGGAATAGATAGTCTTGAATACTTTAAGAAACAGAAGTTATAAAAGAAC
*
44771 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAAACTTGT
* * * *
44836 TTACAAAATGAC-AACTATTTAGACCAAATGATGCGATTTCCC-GAGCATATAATGTTC-AGAAA
66 CTACAAAATGACAAACTATTTAAACCAAATGATGCGA-TTCCCAGAGCACAGAATGTTCGA-AAA
* * * *
44898 ATTGCTCAAAGGAAT-GAATCGTCTTGAATACTTTAAGGAAGCA-AAGTTATAAAAGAAC
129 ACTACTCAAAGGAATAG-ATAGTCTTGAATACTTTAA-GAAACAGAAGTTATAAAAGAAC
44956 TC
1 TC
44958 GTAAAAGTTT
Statistics
Matches: 165, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
184 2 0.01
185 84 0.51
186 79 0.48
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (186 bp):
TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAAACTTGT
CTACAAAATGACAAACTATTTAAACCAAATGATGCGATTCCCAGAGCACAGAATGTTCGAAAAAC
TACTCAAAGGAATAGATAGTCTTGAATACTTTAAGAAACAGAAGTTATAAAAGAAC
Found at i:45163 original size:216 final size:216
Alignment explanation
Indices: 44771--46154 Score: 2009
Period size: 216 Copynumber: 6.5 Consensus size: 216
44761 ATAAAAGAAC
44771 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
**
44836 TTACAAAATGAC-AACTATTTAGACCAAATGATGCGATTTCCCGAGCATATAATGTTC-AGAAAA
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAA
* *
44899 TTGCTCAAAGGAATGAATCGTCTTGAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAA
130 TTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAA
44964 GTTTGACAAGTTCGGAAGTTCG
195 GTTTGACAAGTTCGGAAGTTCG
* * * **
44986 TCCATGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAAAGAATAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* * *
45051 TTACAAAAAGACAAACTATTTATACCATATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * * **** *
45116 TGCTCGAAGGAATGAATTGTCTTGAATACTTTAAAGATTTGAAGTTATAAAAGAACTAGTAAAAG
131 TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
*
45181 TTTGACAAGTTCGGAAGTTTG
196 TTTGACAAGTTCGGAAGTTCG
* * *
45202 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAA-ATTTTAATTAAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
45266 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * * *
45331 TGCTCGAAGGAATGGATCTTGTTGAATACTTTAAGGAACCAAAGTTAAAAAATAACTCGTAAAAG
131 TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
* *
45396 TTTGACCAGTTCGAAAGTTCG
196 TTTGACAAGTTCGGAAGTTCG
*
45417 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* *
45482 TTACAAAATGACAAACTACTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAAT
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * *
45547 TGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATACAAGAACTCGTAAAAG
131 TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
* *
45612 TTTAACAAGTTCGGAAGTTCA
196 TTTGACAAGTTCGGAAGTTCG
* *
45633 TCCAAGAACAAAGAGAGAAACCATTCTCACGCAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* * * * * * *
45698 TTAC-GAATGACAAACTATTTAGACCAAATGATGCGA-TTCCCGAGTATTGAATTTTTGGAAATT
66 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
* * * * *
45761 TTCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTATAAAAGATCACCTAAAAG
131 TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
* *
45826 TTTGACAAGCTCGGAAGTTTG
196 TTTGACAAGTTCGGAAGTTCG
* * *
45847 T-TAATGAACCAAGAGAGAAATAATTCTCACGTAAATAAG--TTT--TT-AAAGACCAAAACTTG
1 TCCAA-GAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTG
45906 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
65 TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAA
* * * * *
45971 TTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGATCCGAAGTTACAAAAGAACTAGTAAAA
130 TTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAA
** *
46036 GTTTGACAAGTTCAAAAGTTCA
195 GTTTGACAAGTTCGGAAGTTCG
* * * **
46058 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAGGTTTTTAATTCAAAGACCAAAACCTAC
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
46123 TTAC-AAATGACAAACTATTTAGACCAAATGAT
66 TTACAAAATGACAAACTATTTAGACCAAATGAT
46155 ACGAGTCGCA
Statistics
Matches: 1037, Mismatches: 120, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
209 20 0.02
210 33 0.03
211 123 0.12
212 5 0.00
213 5 0.00
214 124 0.12
215 323 0.31
216 403 0.39
217 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (216 bp):
TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAG
TTTGACAAGTTCGGAAGTTCG
Found at i:45574 original size:431 final size:431
Alignment explanation
Indices: 44771--46154 Score: 2081
Period size: 431 Copynumber: 3.2 Consensus size: 431
44761 ATAAAAGAAC
44771 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
*
44836 TTACAAAATGAC-AACTATTTAGACCAAATGATGCGATTTCCCGAGCATATAATGTTC-AGAAAA
66 TTAC-AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAGAATGTTCGA-AAAA
* * *
44899 TTGCTCAAAGGAATGAATCGTCTTGAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAA
129 TTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTAAAAAATAACTCGTAAAA
* * *
44964 GTTTGACAAGTTCGGAAGTTCGTCCATGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTT
194 GTTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTT
** * * *
45029 TAATTCAAAGAATAAAACTTGTTTACAAAAAGACAAACTATTTATACCATATGATGCGATTTCCC
259 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
* ** * **
45094 GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGAATTGTCTTGAATACTTTAAAGATTTGAA
324 GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGATCCGAA
**
45159 GTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTTG
389 GTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCA
* * *
45202 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAA-ATTTTAATTAAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
*
45266 TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAAT
66 TTAC-AAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAGAATGTTCGAAAAAT
* * * *
45331 TGCTCGAAGGAATGGATCTTGTTGAATACTTTAAGGAACCAAAGTTAAAAAATAACTCGTAAAAG
130 TGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTAAAAAATAACTCGTAAAAG
* * *
45396 TTTGACCAGTTCGAAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGGTTTT
195 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTT
* *
45461 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTACTTAGACCAAATGATGCGATTTCTCG
260 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
*
45526 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAG
325 AGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGATCCGAAG
* * *
45591 TTATACAAGAACTCGTAAAAGTTTAACAAGTTCGGAAGTTCA
390 TTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCA
* *
45633 TCCAAGAACAAAGAGAGAAACCATTCTCACGCAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
* * * * * * *
45698 TTACGAATGACAAACTATTTAGACCAAATGATGCGA-TTCCCGAGTATTGAATTTTTGGAAATTT
66 TTACAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAGAATGTTCGAAAAATT
* *
45762 TCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTATAAAAGATCAC-C-TAAAA
131 GCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTA-AAAA-ATAACTCGTAAAA
* * * *
45825 GTTTGACAAGCTCGGAAGTTTGT-TAATGAACCAAGAGAGAAATAATTCTCACGTAAATAA-G-T
194 GTTTGACAAGTTCGGAAGTTCGTCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTT
45887 TT--TT-AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC
258 TTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC
*
45949 CGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGATCCGA
323 CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGATCCGA
* **
46014 AGTTACAAAAGAACTAGTAAAAGTTTGACAAGTTCAAAAGTTCA
388 AGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCA
* * * **
46058 TCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAGGTTTTTAATTCAAAGACCAAAACCTAC
1 TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
46123 TTACAAATGACAAACTATTTAGACCAAATGAT
66 TTACAAATGACAAACTATTTAGACCAAATGAT
46155 ACGAGTCGCA
Statistics
Matches: 867, Mismatches: 80, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
425 246 0.28
426 2 0.00
428 3 0.00
429 3 0.00
430 154 0.18
431 426 0.49
432 33 0.04
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (431 bp):
TCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT
TTACAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATAGAATGTTCGAAAAATT
GCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAAGCAAAGTTAAAAAATAACTCGTAAAAGT
TTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGGTTTTA
ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGA
GCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGATCCGAAGT
TATAAAAGAACTAGTAAAAGTTTGACAAGTTCGGAAGTTCA
Done.