Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007924.1 Hibiscus syriacus cultivar Beakdansim tig00110330_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: 1741266
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 7
Found at i:2192 original size:21 final size:21
Alignment explanation
Indices: 2138--2200 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
2128 TTCCCCTGTG
2138 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTT-CCC-TCAA
*
2161 AGGGGGAATCGGTTCCCTC-A
1 GGGGGGAATCGGTTCCCTCAA
*
2181 GGGGGGAGATCGATTCCCTC
1 GGGGGGA-ATCGGTTCCCTC
2201 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 7 0.19
21 13 0.36
22 3 0.08
23 13 0.36
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (21 bp):
GGGGGGAATCGGTTCCCTCAA
Found at i:8048 original size:75 final size:78
Alignment explanation
Indices: 7946--8144 Score: 275
Period size: 76 Copynumber: 2.6 Consensus size: 78
7936 CCGTTGTACA
* * *
7946 AGGGGGGAATCGGTACCCCCT-TGGGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
**
8009 G-CAAAACTGTTT
66 GCCAAAACCATTT
* *
8021 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
8085 GCCAAAACCATTT
66 GCCAAAACCATTT
* *
8098 A--GGGGAATCTGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCA
8145 ATATGTAATT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
75 44 0.40
76 57 0.51
77 10 0.09
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (78 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGA
GCCAAAACCATTT
Found at i:16585 original size:17 final size:18
Alignment explanation
Indices: 16554--16587 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16544 GGGCAACAAA
16554 AAATATATATATAATTTT
1 AAATATATATATAATTTT
*
16572 AAAT-TATATTTAATTT
1 AAATATATATATAATTT
16588 ATTAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATATATATAATTTT
Found at i:34329 original size:25 final size:23
Alignment explanation
Indices: 34271--34330 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
34261 CTAGAAGTTT
34271 GATTTTT-GGAGAGTATTCAATC
1 GATTTTTGGGAGAGTATTCAATC
* *
34293 GATTTTTCTGGGAGAGTTTATCAATT
1 GA-TTTT-TGGGAGAGTAT-TCAATC
34319 GTATTTTTGGGA
1 G-ATTTTTGGGA
34331 TTTTGTTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 2 0.06
23 4 0.13
24 1 0.03
25 13 0.42
26 10 0.32
27 1 0.03
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (23 bp):
GATTTTTGGGAGAGTATTCAATC
Found at i:34338 original size:27 final size:28
Alignment explanation
Indices: 34308--34383 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 28
34298 TTCTGGGAGA
* *
34308 GTTTATCAATTGT-ATTTTTGGGATTTT
1 GTTTCTCAATCGTGATTTTTGGGATTTT
* *
34335 GTTTCTCAGTCGTGA-TTTTGAGATTTT
1 GTTTCTCAATCGTGATTTTTGGGATTTT
*
34362 ATTTCTCAATCGTGATTTTTGG
1 GTTTCTCAATCGTGATTTTTGG
34384 AGAGATCTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 34 0.85
28 6 0.15
ACGTcount: A:0.17, C:0.09, G:0.20, T:0.54
Consensus pattern (28 bp):
GTTTCTCAATCGTGATTTTTGGGATTTT
Found at i:39494 original size:37 final size:36
Alignment explanation
Indices: 39436--39554 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
39426 TCCCATTACA
* * *
39436 ATTTTTC-AACAAACATCTACCAAACTTTTAAAAACC
1 ATTTTTCAAAGAAACATTTACCAAAC-TTTGAAAACC
39472 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
*
39508 A-TTTTCAAAGAAACATTTACCAAACTTTGAAAATC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
39543 ATTTTTTCAAAG
1 A-TTTTTCAAAG
39555 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
35 34 0.45
36 17 0.22
37 25 0.33
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACC
Found at i:39510 original size:21 final size:20
Alignment explanation
Indices: 39483--39546 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
39473 TTTTTCAAAG
39483 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
*
39503 AAACCATTT-TCAAA----G-
1 AAA-CATTTACCAAACTTTGA
39518 AAACATTTACCAAACTTTGA
1 AAACATTTACCAAACTTTGA
39538 AAATCATTT
1 AAA-CATTT
39547 TTTCAAAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 1 0.03
19 1 0.03
20 10 0.29
21 10 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (20 bp):
AAACATTTACCAAACTTTGA
Found at i:47680 original size:42 final size:42
Alignment explanation
Indices: 47621--47716 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
47611 GTAAATTAAT
47621 TGATCGTATGCATAGAGGCATCCATTTTGCACCCTCCATTAC
1 TGATCGTATGCATAGAGGCATCCATTTTGCACCCTCCATTAC
47663 TGATCGTATGCATAGAGGCATCCATTTTGCACCCTCCATTAC
1 TGATCGTATGCATAGAGGCATCCATTTTGCACCCTCCATTAC
*
47705 TGATCATATGCA
1 TGATCGTATGCA
47717 AGAATAGAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (42 bp):
TGATCGTATGCATAGAGGCATCCATTTTGCACCCTCCATTAC
Found at i:65937 original size:15 final size:15
Alignment explanation
Indices: 65917--65949 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
65907 CGTAGGACCC
65917 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
65932 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
65947 CTA
1 CTA
65950 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:66098 original size:23 final size:26
Alignment explanation
Indices: 66061--66129 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
66051 TTCTCTTGTG
66061 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
66085 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
66110 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
66130 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:66111 original size:12 final size:12
Alignment explanation
Indices: 66094--66129 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
66084 TATCATGTTC
66094 TCATATCACATG
1 TCATATCACATG
*
66106 TCATATCACATA
1 TCATATCACATG
66118 TCATATCACATG
1 TCATATCACATG
66130 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:66545 original size:64 final size:63
Alignment explanation
Indices: 66437--66657 Score: 221
Period size: 64 Copynumber: 3.5 Consensus size: 63
66427 TAATGAAGGT
* * ** * **
66437 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTATTATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGT-TTATTATTAATGGG
* * ** *
66501 CTGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTT-ATTATTAATGGG
* * **
66565 ATGCATCGATGCACTACTTATGCATTGATGCATGAATTGCATTCGATGTTT-TTATTTTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTA--TTAATGGG
**
66628 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
66658 ACACCTTCAA
Statistics
Matches: 131, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
62 3 0.02
63 4 0.03
64 124 0.95
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAATTGCATTCGATGTTTATTATTAATGGG
Found at i:72873 original size:15 final size:15
Alignment explanation
Indices: 72853--72885 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
72843 CGTAGGACCC
*
72853 CTACATCCTGAAGGA
1 CTACATCCCGAAGGA
72868 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
72883 CTA
1 CTA
72886 TTATACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:73034 original size:23 final size:26
Alignment explanation
Indices: 72997--73065 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
72987 TTCTCTTGTG
72997 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
73021 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
73046 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
73066 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:73047 original size:12 final size:12
Alignment explanation
Indices: 73030--73065 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
73020 TATCATGTTC
73030 TCATATCACATG
1 TCATATCACATG
*
73042 TCATATCACATA
1 TCATATCACATG
73054 TCATATCACATG
1 TCATATCACATG
73066 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:73467 original size:64 final size:64
Alignment explanation
Indices: 73377--73597 Score: 196
Period size: 64 Copynumber: 3.5 Consensus size: 64
73367 TAATGAAGGT
* * * **
73377 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAAGTATTCGATGTATT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAAGCATTCGATG-ATTCATTATTAATGGG
* * * ** ** *
73441 ATGCATTGATGCACTCCTTATTCATCGATGCACCAATTGCATTCGATGATTCATTATTAATTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAAGCATTCGATGATTCATTATTAATGGG
* ** * * **
73505 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAA-AAG
1 ATGCATCGATGCACTACTTATGCATCGATGCATAAAAAGCATTCGATG-ATTCATTATTAATGGG
**
73568 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
73598 ACACCTTCAA
Statistics
Matches: 130, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
63 5 0.04
64 120 0.92
65 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATAAAAAGCATTCGATGATTCATTATTAATGGG
Found at i:75861 original size:27 final size:27
Alignment explanation
Indices: 75831--75888 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
75821 AATAAATTAT
75831 ATATTTTTAAATAAAAATAAAAATAAA
1 ATATTTTTAAATAAAAATAAAAATAAA
* ** *
75858 ATATTTTTAAATTAAGTTAATAATAAA
1 ATATTTTTAAATAAAAATAAAAATAAA
75885 ATAT
1 ATAT
75889 ATTTGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATATTTTTAAATAAAAATAAAAATAAA
Found at i:75922 original size:25 final size:26
Alignment explanation
Indices: 75852--75922 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
75842 TAAAAATAAA
75852 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATA-TTTTAAATTAAGTTAAT
* *
75879 AATAAAATATATTT--GTTAAGTTGAT
1 AATAAAATAT-TTTAAATTAAGTTAAT
*
75904 -ATAAAATATTTTAACTTAA
1 AATAAAATATTTTAAATTAA
75923 TATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.08
24 9 0.24
25 13 0.34
26 1 0.03
27 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (26 bp):
AATAAAATATTTTAAATTAAGTTAAT
Found at i:75951 original size:15 final size:16
Alignment explanation
Indices: 75920--75956 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
75910 TATTTTAACT
75920 TAATATATATATATATA
1 TAAT-TATATATATATA
75937 TAATTATAT-TATATA
1 TAATTATATATATATA
75952 TAATT
1 TAATT
75957 CGGGTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
16 5 0.25
17 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTATATATATATA
Found at i:79432 original size:21 final size:21
Alignment explanation
Indices: 79408--79486 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 21
79398 ACCGGCTGTA
79408 GTGGCATCTAAAATGGCTACG
1 GTGGCATCTAAAATGGCTACG
* * *** *
79429 GTGGCGTCTGACCCGGCTATG
1 GTGGCATCTAAAATGGCTACG
*
79450 GTGGCATCTGAAACAT--TTACG
1 GTGGCATCT-AAA-ATGGCTACG
*
79471 GTGCCATCTAAAATGG
1 GTGGCATCTAAAATGG
79487 TTGTATCCCC
Statistics
Matches: 40, Mismatches: 14, Indels: 8
0.65 0.23 0.13
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 34 0.85
22 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (21 bp):
GTGGCATCTAAAATGGCTACG
Found at i:81073 original size:24 final size:23
Alignment explanation
Indices: 81029--81084 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
81019 CCCTAATTAA
*
81029 ATAAATAATATACAAATTAAAAT
1 ATAAATAATATACAAAATAAAAT
*
81052 ATAAACTAATACTA-AAAATAAATAA
1 ATAAA-TAATA-TACAAAATAAA-AT
81077 ATAAATAA
1 ATAAATAA
81085 AGCATTCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 5 0.18
24 15 0.54
25 8 0.29
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAATAATATACAAAATAAAAT
Found at i:94132 original size:14 final size:14
Alignment explanation
Indices: 94113--94139 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94103 AATGATTTCA
94113 AATATTTTTAAAAT
1 AATATTTTTAAAAT
94127 AATATTTTTAAAA
1 AATATTTTTAAAA
94140 AATTAGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATATTTTTAAAAT
Found at i:95676 original size:18 final size:18
Alignment explanation
Indices: 95645--95693 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
95635 AAACGAATAT
95645 TAAATAAATCAAAA-AGAAA
1 TAAATAAAT-AAAATA-AAA
95664 -AAATAAAATAAAATAAAA
1 TAAAT-AAATAAAATAAAA
95682 TAAATAAATAAA
1 TAAATAAATAAA
95694 TATTAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
TAAATAAATAAAATAAAA
Found at i:96038 original size:31 final size:32
Alignment explanation
Indices: 96003--96065 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
95993 AGTGCACAAA
* *
96003 ATTAATAATTAAA-ATCATTAATAT-AAATATG
1 ATTAA-AATGAAATATCATTAAAATGAAATATG
*
96034 ATTAAAATGAAATATGATTAAAATGAAATATG
1 ATTAAAATGAAATATCATTAAAATGAAATATG
96066 GAACATATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.22
31 14 0.52
32 7 0.26
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (32 bp):
ATTAAAATGAAATATCATTAAAATGAAATATG
Found at i:96048 original size:16 final size:16
Alignment explanation
Indices: 96027--96065 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
96017 TCATTAATAT
96027 AAATATGATTAAAATG
1 AAATATGATTAAAATG
96043 AAATATGATTAAAATG
1 AAATATGATTAAAATG
96059 AAATATG
1 AAATATG
96066 GAACATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
AAATATGATTAAAATG
Found at i:96736 original size:24 final size:23
Alignment explanation
Indices: 96695--96753 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 23
96685 CGTATTTCAT
*
96695 ATGTAATCT-CTCGTATTTTCTC
1 ATGTAATTTCCTCGTATTTTCTC
* * *
96717 GTGTATTTTCCTCGCTATTTTTTC
1 ATGTAATTTCCTCG-TATTTTCTC
96741 ATGTAATTTCCTC
1 ATGTAATTTCCTC
96754 TCCCCTATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 19 0.66
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.53
Consensus pattern (23 bp):
ATGTAATTTCCTCGTATTTTCTC
Found at i:98197 original size:84 final size:82
Alignment explanation
Indices: 97806--98807 Score: 857
Period size: 84 Copynumber: 12.2 Consensus size: 82
97796 TGTCTTGGAC
* * * *
97806 TATGCTGTAAATGATGTGCCTTAGAGCTGAGTGTAGTCGAAATCAAAGGTCTTTGG-G-AGATAA
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAA
* * *
97869 CCCTTCTAGCCTTGAGT
66 CCCTTCTCGACTTAAGT
* * * * * * * *
97886 TATACCGCAAATGATGTGCCGTT-GAGCTGAGTGTAATCGAACTCAAATGTCTTTGTTGGCAGAT
1 TATGCTGTAAATGATGTGCC-TTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGAT
* * *
97950 AACCCTTCTAGCCTTGAGT
64 AACCCTTCTCGACTTAAGT
* * * * *
97969 TATGTTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGT--AGATA
1 TATGCTGTAAATGATGTGCCTTCG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATA
* *
98032 GCCCTTCTCGACTTAAGC
65 ACCCTTCTCGACTTAAGT
* * * *
98050 TATGTTGTAAATGATGTGCCTT-GAGTTGAGCGTAGTCGAACTCAAATGTCTTTGGTTGGCAGAT
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGAT
*
98114 AACCCTTCTCGACTAAAGT
64 AACCCTTCTCGACTTAAGT
* *
98133 TATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTG-CAGAT
* *
98198 AACCCTTCTAG-CATTGAGT
64 AACCCTTCTCGAC-TTAAGT
* * * * * **
98217 TATGCTGTAAATGAGGTGCCCTCGAAGTTGAGTGTAGTCGAAATCGGGGGTGGTCTTT-G-GCAG
1 TATGCTGTAAATGATGTGCCTTCG-AGCTGAGCGTAGTCGAACTC---GAAGGTCTTTGGTGCAG
* *
98280 ATAGCCCTTCTCGACTTAAGC
62 ATAACCCTTCTCGACTTAAGT
* * *
98301 TATGCTGCAAATGATGTGCCTTAGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTG-CAGAT
* * *
98366 AACCCTTCTAGCCTTGAGT
64 AACCCTTCTCGACTTAAGT
** * * * * * * *
98385 TATATTGTAAATAATGTGCCCTCGAAGTTGAGTGTAATCGATCTAGAAGGTCTTT-G-GCAGATA
1 TATGCTGTAAATGATGTGCCTTCG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATA
*
98448 ACCCTTCTCGACTTAAGC
65 ACCCTTCTCGACTTAAGT
* * * * *
98466 TATGTTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTG-GAAGATAA
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAA
* * *
98530 CCCTTCTAGCCTTGAGT
66 CCCTTCTCGACTTAAGT
* * * * * * * *
98547 TATACTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AATGATCTTT--TACAAAT
1 TATGCTGTAAATGATGTGCCTTCG-AGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGCAGAT
* *
98609 AACCCTACTCGACTTAAGC
64 AACCCTTCTCGACTTAAGT
* * * * * *
98628 TATGCTGCAAATAAGGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T-GCAGAT
98693 AACCCTTCTCGACTTAAGT
64 AACCCTTCTCGACTTAAGT
* * * * * * * *
98712 TATGCTGCAAATGATATGCCTTGGAGCTGAGCTTAGTCGAACTCAAAGGTCTTTGTTGGCATAAA
1 TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT-GCAGATA
* *
98777 ACCCTTCTAG-CATTGAGT
65 ACCCTTCTCGAC-TTAAGT
*
98795 TATGCTGCAAATG
1 TATGCTGTAAATG
98808 TTGTCTTAAA
Statistics
Matches: 746, Mismatches: 142, Indels: 65
0.78 0.15 0.07
Matches are distributed among these distances:
79 27 0.04
80 103 0.14
81 161 0.22
82 28 0.04
83 135 0.18
84 238 0.32
85 45 0.06
86 1 0.00
87 3 0.00
88 5 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (82 bp):
TATGCTGTAAATGATGTGCCTTCGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGCAGATAA
CCCTTCTCGACTTAAGT
Found at i:98715 original size:495 final size:493
Alignment explanation
Indices: 97782--98725 Score: 1172
Period size: 495 Copynumber: 1.9 Consensus size: 493
97772 ATTTTATTGA
* * * * *
97782 CAGATAGCCCTTCTTGTCTTGGACTATGCTGTAAATGATGTGCCTTAGAGCTGAGTGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAGACTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
* * *
97847 ATCAAAGGTCTTTGGGAGATAACCCTTCTAGCCTTGAGTTATACCGCAAATGATGTGCCGTTGAG
66 ATCAAAGGTCTTTGGGAGATAACCCTTCTAGCCTTGAGTTATACCGCAAATAATGTGCCCTCGAG
* * * *
97912 CTGAGTGTAATCGAACTCAAATGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGTTGC
131 CTGAGTGTAATCGAACTCAAAGGTC-TTGTTGGCAGATAACCCTTCTAGACTTAAGCTATGTTGC
* * *
97977 AAATGATGTGCCCTCGAAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGTAGATAGCCCTTCTCG
195 AAATGATGTGCCCTCGAAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGAAGATAACCCTTCTAG
** * * *
98042 ACTTAAGCTATGTTGTAAATGATGTGCCTTGAGTTGAGCGTAGTCGAACTCAAATGTCTTTGGTT
260 ACTTAAGCTATACTGTAAATGATGTGCCTCGAGCTGAGCGTAATCGAACTCAAATGTCTTT-GTT
* * * * * * *
98107 GGCAGATAACCCTTCTCGACTAAAGTTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCG
324 GACAAATAACCCTACTCGACTAAAGCTATGCTGCAAATAAGATGCCTTAGAGCTGAGCGTAGTCG
* *
98172 AACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCATTGAGTTATGCTGTAAATGAGGTGCC
389 AACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCATTAAGTTATGCTGCAAATGAGGTGCC
98237 CTCGAAGTTGAGTGTAGTCGAAATCGGGGGTGGTCTTTGG
454 CTCGAAGTTGAGTGTAGTCGAAATCGGGGGTGGTCTTTGG
*
98277 CAGATAGCCCTTCTCGACTTA-AGCTATGCTGCAAATGATGTGCCTTAGAGCTTAGCGTAGTCGA
1 CAGATAGCCCTTCTCGACTTAGA-CTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGA
* * ** *
98341 ACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATATTGTAAATAATGTGCCC
65 AATCAAAGGTC-TTTGG-G--AGATAACCCTTCTAGCCTTGAGTTATACCGCAAATAATGTGCCC
* * *
98406 TCGAAGTTGAGTGTAATCGATCT-AGAAGGTC-T-TTGGCAGATAACCCTTCTCGACTTAAGCTA
126 TCG-AGCTGAGTGTAATCGAACTCA-AAGGTCTTGTTGGCAGATAACCCTTCTAGACTTAAGCTA
* * * * * *
98468 TGTTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTTGGAAGATAACC
189 TGTTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGCCAAACTCGAAGGTC-TTTGGAAGATAACC
* * * * *
98532 CTTCTAGCCTTGAGTTATACTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAACTC-AATG
253 CTTCTAGACTTAAGCTATACTGTAAATGATGTG-CCTCG-AGCTGAGCGTAATCGAACTCAAATG
* * *
98596 ATC-TT-TT-ACAAATAACCCTACTCGACTTAAGCTATGCTGCAAATAAGGTGCCTTGGAGCTGA
316 -TCTTTGTTGACAAATAACCCTACTCGACTAAAGCTATGCTGCAAATAAGATGCCTTAGAGCTGA
* ** *
98658 GTGTAGTCGAACTCGAAGGTC-TTTGGTTGGTAGATAACCCTTCTCG-ACTTAAGTTATGCTGCA
380 GCGTAGTCGAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCA-TTAAGTTATGCTGCA
98721 AATGA
443 AATGA
98726 TATGCCTTGG
Statistics
Matches: 380, Mismatches: 56, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
494 7 0.02
495 164 0.43
496 35 0.09
497 80 0.21
498 11 0.03
499 61 0.16
500 22 0.06
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (493 bp):
CAGATAGCCCTTCTCGACTTAGACTATGCTGCAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAA
ATCAAAGGTCTTTGGGAGATAACCCTTCTAGCCTTGAGTTATACCGCAAATAATGTGCCCTCGAG
CTGAGTGTAATCGAACTCAAAGGTCTTGTTGGCAGATAACCCTTCTAGACTTAAGCTATGTTGCA
AATGATGTGCCCTCGAAGCTGAGCGTAGCCAAACTCGAAGGTCTTTGGAAGATAACCCTTCTAGA
CTTAAGCTATACTGTAAATGATGTGCCTCGAGCTGAGCGTAATCGAACTCAAATGTCTTTGTTGA
CAAATAACCCTACTCGACTAAAGCTATGCTGCAAATAAGATGCCTTAGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCATTAAGTTATGCTGCAAATGAGGTGCCCT
CGAAGTTGAGTGTAGTCGAAATCGGGGGTGGTCTTTGG
Found at i:105733 original size:5 final size:5
Alignment explanation
Indices: 105723--105750 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
105713 TCTAAAGGAA
105723 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
105751 TATTAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:106107 original size:16 final size:16
Alignment explanation
Indices: 106086--106124 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
106076 TCATTAATAT
106086 AAATATGATTAAAATG
1 AAATATGATTAAAATG
106102 AAATATGATTAAAATG
1 AAATATGATTAAAATG
106118 AAATATG
1 AAATATG
106125 GAACATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
AAATATGATTAAAATG
Found at i:108186 original size:84 final size:83
Alignment explanation
Indices: 107869--108868 Score: 809
Period size: 84 Copynumber: 12.2 Consensus size: 83
107859 TGTCTTGGAC
* * * *
107869 TATGTTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTG--GG-AGATA
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGATA
* * * *
107931 GCCCTTCTAGCCTTGAGC
66 ACCCTTCTAGACTTAAGT
* *** * * * * *
107949 TATACCACAAATGATGTGCCGTT-GAGCTGAGTGTAATTGAACTCAAAGGTCTTTGTTGGCAGAT
1 TATGCTGTAAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGAT
* * *
108013 AACCATTCTAGCCTTGAGT
65 AACCCTTCTAGACTTAAGT
* * * * *
108032 TATGTTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGG--TCT-TTGGCAGAT
1 TATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGAT
* * *
108094 AGCCCTTCTCGACTTAAGC
65 AACCCTTCTAGACTTAAGT
* * * *
108113 TATGCTGCAAATGGTGTGCCTTGGAGTTGAGCGTAGTCGAACTCAAAGGTTTTTGGTTGGCAGAT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTT-GTTGGCAGAT
*
108178 AACCCTTCTCGACTTAAGT
65 AACCCTTCTAGACTTAAGT
* * * *
108197 TATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGTTGGCAGAT
*
108262 AACCCTTCTAG-CATTGAGT
65 AACCCTTCTAGAC-TTAAGT
* * * * * * ** *
108281 TATGCTATAAATGAGGTGCCCTCGAAGTTGAGTGTAGTCGAACTCG--GGGGTCT-TTGGCAGAT
1 TATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGAT
* * *
108343 AGCCCTTCTCGACTTAAGC
65 AACCCTTCTAGACTTAAGT
* * * * * *
108362 TATGCTGTAAATAATGTGCTTTAGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGAT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGTTGGCAGAT
* *
108427 AACCCTTCTAGCCTTGAGT
65 AACCCTTCTAGACTTAAGT
** * * *** * * * * * *
108446 TATATTGTAAATAATGTTCCCTCAAAGTTGAGTGTAATCGAACTAG-AGG-GTCT-TTGGCAGAT
1 TATGCTGTAAATGATG-TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGAT
* * *
108508 AGCCCTTCTTGACTTAAGC
65 AACCCTTCTAGACTTAAGT
*
108527 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTT-TTGGCAGATA
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGATA
* *
108590 ACCCTTCTAGCCTTGAGT
66 ACCCTTCTAGACTTAAGT
* * * * * * * *
108608 TATGTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTTG-T---AAA
1 TATGCTGTAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGTTGGCAGA
* *
108669 TAACCCTTCTCGACTTAAGC
64 TAACCCTTCTAGACTTAAGT
* * * * * * *
108689 TATGCTGCAAATAAGGTGCCTTAGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGAT
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTGTTGGCAGAT
*
108754 AACCCTTCTCGACTTAAGT
65 AACCCTTCTAGACTTAAGT
* * * ** * *
108773 TATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGGATTTGTTGGCATAAA
1 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGATA
*
108838 ACCCTTCTAG-CATTGAGT
66 ACCCTTCTAGAC-TTAAGT
*
108856 TATGCTGCAAATG
1 TATGCTGTAAATG
108869 TTGTCTTAAA
Statistics
Matches: 725, Mismatches: 166, Indels: 55
0.77 0.18 0.06
Matches are distributed among these distances:
80 141 0.19
81 184 0.25
82 40 0.06
83 77 0.11
84 237 0.33
85 46 0.06
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGTTGGCAGATA
ACCCTTCTAGACTTAAGT
Found at i:108340 original size:165 final size:162
Alignment explanation
Indices: 107868--108792 Score: 1003
Period size: 165 Copynumber: 5.6 Consensus size: 162
107858 TTGTCTTGGA
* * *
107868 CTATGTTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTAGAACTCGAAGGTCTTTGGG-AGATAG
1 CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAA
* * *** * * * * * *
107932 CCCTTCTAGCCTTGAGCTATACCACAAATGATGTGCCGTTG-AGCTGAGTGTAATTGAACTCAAA
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGAG
* * * *
107996 GGTCTTTGTTGGCAGATAACCATTCTAGCCTTGAG
131 GGTC--T-TTGGCAGATAACCCTTCTCGACTTAAG
* * * * *
108031 TTATGTTGCAAATGATGTGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GGCAGATA
1 CTATGCTGTAAATGATGTGCCTTAG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATA
* * * * * * * * * * * *
108095 GCCCTTCTCGACTTAAGCTATGCTGCAAATGGTGTG-CCTTGGAGTTGAGCGTAGTCGAACTCAA
65 ACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTC-G
* *
108159 AGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
129 AGG-GTCT--TTGGCAGATAACCCTTCTCGACTTAAG
* *
108196 TTATGCTGTAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGA
1 CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG-G-CAGA
* * * *
108261 TAACCCTTCTAGCATTGAGTTATGCTATAAATGAGGTGCCCTCGAAGTTGAGTGTAGTCGAACTC
63 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTC
* *
108326 GGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAG
128 GAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* * *
108361 CTATGCTGTAAATAATGTGCTTTAGAGCTTAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAGA
1 CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG-G-CAGA
** * * * *
108426 TAACCCTTCTAGCCTTGAGTTATATTGTAAATAATGTTCCCTCAAAGTTGAGTGTAATCGAACTA
63 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTC
* *
108491 GAGGGTCTTTGGCAGATAGCCCTTCTTGACTTAAG
128 GAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* *
108526 CTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAA
1 CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAA
* * *
108591 CCCTTCTAGCCTTGAGTTATGTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAG
66 CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGAG
* * *
108656 GGTCTTTTGTAAATAACCCTTCTCGACTTAAG
131 GGTCTTTGGCAGATAACCCTTCTCGACTTAAG
* * * * *
108688 CTATGCTGCAAATAAGGTGCCTTAGAGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGA
1 CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G--GGCAGA
* * * * *
108753 TAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
63 TAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCC
108793 TTGGAGCTGA
Statistics
Matches: 653, Mismatches: 95, Indels: 26
0.84 0.12 0.03
Matches are distributed among these distances:
162 142 0.22
163 28 0.04
164 111 0.17
165 310 0.47
166 2 0.00
167 3 0.00
168 34 0.05
169 23 0.04
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (162 bp):
CTATGCTGTAAATGATGTGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGGCAGATAA
CCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTCGAG
GGTCTTTGGCAGATAACCCTTCTCGACTTAAG
Found at i:114137 original size:4 final size:4
Alignment explanation
Indices: 114119--114154 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
114109 AAACGAATAT
114119 TAAA TAAA TCAAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA T--AAA TAAA TAAA TAAA TAAA TAAA TA
114155 TTATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 26 0.87
6 4 0.13
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:114507 original size:16 final size:16
Alignment explanation
Indices: 114486--114524 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
114476 TCATTAATAT
114486 AAATATGATTAAAATG
1 AAATATGATTAAAATG
114502 AAATATGATTAAAATG
1 AAATATGATTAAAATG
114518 AAATATG
1 AAATATG
114525 GAACATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
AAATATGATTAAAATG
Found at i:115195 original size:24 final size:23
Alignment explanation
Indices: 115155--115210 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
115145 GTATTTCATA
*
115155 TGTAATCT-CTCGTATTTTCTCG
1 TGTAATTTCCTCGTATTTTCTCG
* *
115177 TGTATTTTCCTCGTTATTTTTTCG
1 TGTAATTTCCTCG-TATTTTCTCG
115201 TGTAATTTCC
1 TGTAATTTCC
115211 GCTCCCCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.21
23 4 0.14
24 18 0.64
ACGTcount: A:0.12, C:0.20, G:0.12, T:0.55
Consensus pattern (23 bp):
TGTAATTTCCTCGTATTTTCTCG
Found at i:115197 original size:13 final size:12
Alignment explanation
Indices: 115166--115209 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
115156 GTAATCTCTC
115166 GTATTTTCTCGT
1 GTATTTTCTCGT
115178 GTATTTTCCTCGT
1 GTATTTT-CTCGT
*
115191 -TATTTTTTCGT
1 GTATTTTCTCGT
*
115202 GTAATTTC
1 GTATTTTC
115210 CGCTCCCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 4 0.15
12 18 0.67
13 5 0.19
ACGTcount: A:0.11, C:0.16, G:0.14, T:0.59
Consensus pattern (12 bp):
GTATTTTCTCGT
Found at i:124045 original size:35 final size:37
Alignment explanation
Indices: 124005--124073 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
123995 ATATCGTTTT
* *
124005 GATTTAAATTTC-ATT-TTTTAGAGATGTAAAATTAC
1 GATTTAAATTTCAATTCTTTTAAAGATATAAAATTAC
124040 GATTTAAATTTCAATTCTTTTAAAGATATAAAAT
1 GATTTAAATTTCAATTCTTTTAAAGATATAAAAT
124074 CACGTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 12 0.40
36 3 0.10
37 15 0.50
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (37 bp):
GATTTAAATTTCAATTCTTTTAAAGATATAAAATTAC
Found at i:125920 original size:5 final size:5
Alignment explanation
Indices: 125912--125937 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
125902 TTTCATTTCC
125912 CACTA CACTA CACTA CACTA CACTA C
1 CACTA CACTA CACTA CACTA CACTA C
125938 CAAACACGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CACTA
Found at i:129939 original size:19 final size:19
Alignment explanation
Indices: 129915--129963 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
129905 CGTTTAAAGA
* *
129915 AGAAGAAGAAGTAACCTGG
1 AGAAGAAGAAGTAAACAGG
*
129934 AGAAGAAGAAATAAACAGG
1 AGAAGAAGAAGTAAACAGG
*
129953 AGAAAAAGAAG
1 AGAAGAAGAAG
129964 AAAAAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (19 bp):
AGAAGAAGAAGTAAACAGG
Found at i:132545 original size:46 final size:46
Alignment explanation
Indices: 132478--132570 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
132468 AGACAAATGG
132478 TGGGAACTGGATTTATGGGGAATGAGAAGACTGTGGCTAGTGTGCT
1 TGGGAACTGGATTTATGGGGAATGAGAAGACTGTGGCTAGTGTGCT
132524 TGGGAACTGGATTTATGGGGAATGAGAAGACTGTGGCTAGTGTGCT
1 TGGGAACTGGATTTATGGGGAATGAGAAGACTGTGGCTAGTGTGCT
132570 T
1 T
132571 AGTGTCTGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.09, G:0.39, T:0.29
Consensus pattern (46 bp):
TGGGAACTGGATTTATGGGGAATGAGAAGACTGTGGCTAGTGTGCT
Found at i:140152 original size:15 final size:16
Alignment explanation
Indices: 140131--140177 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
140121 GACTGTTAGT
140131 TTTTTTTATTTTATCC
1 TTTTTTTATTTTATCC
*
140147 TTTTTTATATTTTTAT-T
1 TTTTTT-TA-TTTTATCC
140164 TTTTTTTATTTTAT
1 TTTTTTTATTTTAT
140178 TTAAGTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 8 0.29
18 6 0.21
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTATTTTATCC
Found at i:140178 original size:15 final size:15
Alignment explanation
Indices: 140130--140179 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
140120 TGACTGTTAG
140130 TTTTTTTTATTTTAT
1 TTTTTTTTATTTTAT
*
140145 CCTTTTTTATATTTTTAT
1 --TTTTTTTTA-TTTTAT
140163 TTTTTTTTATTTTAT
1 TTTTTTTTATTTTAT
140178 TT
1 TT
140180 AAGTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 8 0.27
16 8 0.27
17 8 0.27
18 6 0.20
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTATTTTAT
Found at i:141567 original size:3 final size:3
Alignment explanation
Indices: 141559--141724 Score: 188
Period size: 3 Copynumber: 55.3 Consensus size: 3
141549 AATTTACAAG
141559 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
141607 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * * * * * * *
141655 ACA ACA ACA ACA AAA ACA ACA ACA ACA ACA ACA ACA ACA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
141703 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
141725 CAACAACAAT
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 159 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:147390 original size:100 final size:100
Alignment explanation
Indices: 147217--147402 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
147207 CCAAAACCAC
147217 TATACTAATTACCAACTGAAAATCAGGTCTGATACAACAAAAACATATGTTCAATATCCAATAAT
1 TATACTAATTACCAACTGAAAATCAGGTCTGATACAACAAAAACATATGTTCAATATCCAATAAT
*
147282 AATTTCACTAATTTACATATATATATATATATATA
66 AATTTCACTAATATACATATATATATATATATATA
*
147317 TATACTAATTACTAACTGAAAATCAGGTCTGATACAACAAAAACATATGTTCAATATCCAATAAT
1 TATACTAATTACCAACTGAAAATCAGGTCTGATACAACAAAAACATATGTTCAATATCCAATAAT
*
147382 AATTTCACTAATATATATATA
66 AATTTCACTAATATACATATA
147403 GAGAGAGAGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (100 bp):
TATACTAATTACCAACTGAAAATCAGGTCTGATACAACAAAAACATATGTTCAATATCCAATAAT
AATTTCACTAATATACATATATATATATATATATA
Found at i:150713 original size:3 final size:3
Alignment explanation
Indices: 150705--150742 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
150695 TTCAACACTT
150705 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
150743 CGAAAGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:154405 original size:24 final size:24
Alignment explanation
Indices: 154373--154426 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
154363 TTTTATTATT
* *
154373 CTCTTCTTCTCCTTAAAATCTCAG
1 CTCTCCTTCTCCTTAAAATCTCAC
154397 CTCTCCTTCTCCTTAAAATCTCAC
1 CTCTCCTTCTCCTTAAAATCTCAC
154421 CTCTCC
1 CTCTCC
154427 AAACACTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.41, G:0.02, T:0.39
Consensus pattern (24 bp):
CTCTCCTTCTCCTTAAAATCTCAC
Found at i:155859 original size:11 final size:11
Alignment explanation
Indices: 155843--155877 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
155833 TGGAGTTTTC
*
155843 TTTGAAAAGGT
1 TTTGAAAAGAT
155854 TTTGAAAAGAT
1 TTTGAAAAGAT
*
155865 TTTGAAATGAT
1 TTTGAAAAGAT
155876 TT
1 TT
155878 GGAGTCGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (11 bp):
TTTGAAAAGAT
Found at i:158385 original size:115 final size:116
Alignment explanation
Indices: 158197--158446 Score: 330
Period size: 115 Copynumber: 2.2 Consensus size: 116
158187 TTGACCGGGC
* * ** *
158197 GAGTTCTTCTCATTATGAACTCTTCGCTGGGGATGTCAATCCACTTCCTTCTGTGATGGAATCAC
1 GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTCAATCCACTTCCTTCTGTGATGGAATCAA
* * *
158262 CAAGGTTGAACAAGTTCTTCTTATTATGAACTTTTTCTCCCTTATCGGA-T
66 CAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATT
* * *
158312 GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGT-GATCTACCTT-CTTTTGTGAT-GACATC
1 GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTCAATCCA-CTTCCTTCTGTGATGGA-ATC
*
158374 GAACAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCGGATT
64 -AACAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATT
158428 G-GTTCTTCTCATTATGAAC
1 GAGTTCTTCTCATTATGAAC
158447 CTTTTCACTA
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
113 2 0.02
114 16 0.13
115 99 0.83
116 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (116 bp):
GAGTTCTTCTCATTATGAACTCTCCACTGGAAATGTCAATCCACTTCCTTCTGTGATGGAATCAA
CAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGGATT
Found at i:158830 original size:139 final size:139
Alignment explanation
Indices: 158549--159081 Score: 850
Period size: 139 Copynumber: 3.8 Consensus size: 139
158539 GGTGATATTC
* * * * *
158549 CAACTCCTTATGCGATGTAAACAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 CAACTCCATATGTGATG-AATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTC
* * * * * *
158614 CCTTATCAGATGAGTTGTTCTCATTATGAACTCTCCACTAGAAAGGTTGATCCCTCGAGTGAGGT
65 CCTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGT
* *
158679 GTTGTTGTTT
130 GTTGCTGATT
*
158689 CAACTCCATATGTGACGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
158754 TTTATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTG
158819 TTGCTGATT
131 TTGCTGATT
*
158828 CAACTTCATATGTGATGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
* *
158893 TTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGTTCCCTCGAGTGAGGTG
66 CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTG
158958 TTGCTGATT
131 TTGCTGATT
* * *
158967 CAACTCCAAATGTGATGAATCGAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCC
1 CAACTCCATATGTGATGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
*
159032 CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAGTGTTGAT
66 CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGAT
159082 TGGTTTTCCC
Statistics
Matches: 368, Mismatches: 25, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
139 354 0.96
140 14 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (139 bp):
CAACTCCATATGTGATGAATCGAGCTAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTCC
CTCATCGGATGAGTTCTTCTCATTATGAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTG
TTGCTGATT
Found at i:159676 original size:18 final size:18
Alignment explanation
Indices: 159655--159700 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
159645 CAAGAGCAGA
159655 CTTCATTGC-TAGATCAGT
1 CTTCATT-CTTAGATCAGT
*
159673 CTTCATTCTTAGATTAGT
1 CTTCATTCTTAGATCAGT
159691 CTTCATTCTT
1 CTTCATTCTT
159701 TTCCTGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.20, C:0.22, G:0.11, T:0.48
Consensus pattern (18 bp):
CTTCATTCTTAGATCAGT
Found at i:159985 original size:54 final size:53
Alignment explanation
Indices: 159842--160014 Score: 186
Period size: 54 Copynumber: 3.2 Consensus size: 53
159832 ATTTACAGTT
* ** ***
159842 ATCAAGAAACCCCTAAAATTAGGCTTAACTTCTCTAAAAAATTCA-AAAAAAATA
1 ATCAAGAAACCCCTAAAATTAGGCTTAATTTCT-TTGAAAATTCATTTGAAAA-A
** *
159896 ATCAAGAAACCCCTGAAAACCAGGCTTAATTTCTTTGAAAATTCATTTGAAAAC
1 ATCAAGAAACCCCT-AAAATTAGGCTTAATTTCTTTGAAAATTCATTTGAAAAA
* **
159950 ATCAATAAACCCCTAAAAATTAGGCTTAATTTCTTTGAACGTTCATTTGAGAAAA
1 ATCAAGAAACCCCT-AAAATTAGGCTTAATTTCTTTGAAAATTCATTTGA-AAAA
160005 ATCAAGAAAC
1 ATCAAGAAAC
160015 TTCTGAAAAC
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
54 67 0.68
55 32 0.32
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (53 bp):
ATCAAGAAACCCCTAAAATTAGGCTTAATTTCTTTGAAAATTCATTTGAAAAA
Found at i:162032 original size:18 final size:18
Alignment explanation
Indices: 161990--162041 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
161980 GTTGGATCTG
161990 TCTATTTCTTT-TTTTTAA
1 TCTATTT-TTTCTTTTTAA
**
162008 TCT-TTTTTTCTTTTTCT
1 TCTATTTTTTCTTTTTAA
*
162025 TCTATTTTTTCTCTTTA
1 TCTATTTTTTCTTTTTA
162042 TTTTTTCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 3 0.11
17 11 0.39
18 14 0.50
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (18 bp):
TCTATTTTTTCTTTTTAA
Found at i:162034 original size:13 final size:13
Alignment explanation
Indices: 162018--162053 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
162008 TCTTTTTTTC
*
162018 TTTTTCT-TCTAT
1 TTTTTCTCTTTAT
162030 TTTTTCTCTTTAT
1 TTTTTCTCTTTAT
162043 TTTTTCTCTTT
1 TTTTTCTCTTT
162054 TCCTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTCTTTAT
Found at i:162054 original size:20 final size:20
Alignment explanation
Indices: 162031--162088 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
162021 TTCTTCTATT
*
162031 TTTTCTCTTTATTTTTTCTC
1 TTTTCTCTTTTTTTTTTCTC
* *
162051 TTTTC-CTGTTTTTTTTTGTG
1 TTTTCTCT-TTTTTTTTTCTC
162071 TTTT-TCTTTTTTTTTTCT
1 TTTTCTCTTTTTTTTTTCT
162089 TTCTTTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 12 0.38
20 20 0.62
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTCTCTTTTTTTTTTCTC
Found at i:162080 original size:15 final size:15
Alignment explanation
Indices: 162062--162106 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
162052 TTTCCTGTTT
162062 TTTTTTGTGTTTTTC
1 TTTTTTGTGTTTTTC
*
162077 TTTTTT-TTTTCTTTC
1 TTTTTTGTGTT-TTTC
162092 TTTGTTTGTGTTTTT
1 TTT-TTTGTGTTTTT
162107 TTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 6 0.24
17 3 0.12
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (15 bp):
TTTTTTGTGTTTTTC
Found at i:163517 original size:21 final size:23
Alignment explanation
Indices: 163476--163526 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
163466 ATGCACATGC
163476 AAATG-AAAAGATACAAAAATGG
1 AAATGCAAAAGATACAAAAATGG
* *
163498 GAATGCAAAA-ATAC-AAAATGT
1 AAATGCAAAAGATACAAAAATGG
163519 AAATGCAA
1 AAATGCAA
163527 CAAAGGCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (23 bp):
AAATGCAAAAGATACAAAAATGG
Found at i:165164 original size:11 final size:11
Alignment explanation
Indices: 165148--165185 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
165138 TGGGGTTTTC
165148 TTTGAAAAGGT
1 TTTGAAAAGGT
*
165159 TTTGAAAAGAT
1 TTTGAAAAGGT
*
165170 TTTG-AAATGT
1 TTTGAAAAGGT
165180 TTTGAA
1 TTTGAA
165186 GTCGCCATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (11 bp):
TTTGAAAAGGT
Found at i:169390 original size:14 final size:14
Alignment explanation
Indices: 169371--169399 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
169361 CCTGTGTTCC
169371 CCTGTTTGCATTTG
1 CCTGTTTGCATTTG
169385 CCTGTTTGCATTTG
1 CCTGTTTGCATTTG
169399 C
1 C
169400 TTCCACTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.24, G:0.21, T:0.48
Consensus pattern (14 bp):
CCTGTTTGCATTTG
Found at i:170126 original size:105 final size:105
Alignment explanation
Indices: 169933--170127 Score: 336
Period size: 105 Copynumber: 1.9 Consensus size: 105
169923 TGCTTTCTCA
* *
169933 AAGGCATAAAGATCCTGAAGTGCTACCCACCAAGGAGCAGCCTTGCTCTACCTCAAGAAAGATTG
1 AAGGCATAAAGATCCTGAAGTGCTACCCACAAAGGAGCACCCTTGCTCTACCTCAAGAAAGATTG
*
169998 ATGAGGCCTTTGTTCAATCGACGCATGGGTTGCCTTCGCG
66 ATGAGGCCTTTGTTCAAGCGACGCATGGGTTGCCTTCGCG
* *
170038 AAGGCATAAAGATCCTGAAGTGCTACCCAGAAAGGAGCACCCTTGCTCTACCTCAGGAAAGATTG
1 AAGGCATAAAGATCCTGAAGTGCTACCCACAAAGGAGCACCCTTGCTCTACCTCAAGAAAGATTG
*
170103 ATGAGGCCTTTGTTCAAGGGACGCA
66 ATGAGGCCTTTGTTCAAGCGACGCA
170128 GGAGAATGTC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (105 bp):
AAGGCATAAAGATCCTGAAGTGCTACCCACAAAGGAGCACCCTTGCTCTACCTCAAGAAAGATTG
ATGAGGCCTTTGTTCAAGCGACGCATGGGTTGCCTTCGCG
Found at i:171355 original size:25 final size:25
Alignment explanation
Indices: 171327--171397 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 25
171317 TTTTTAAAAT
171327 TAAGTTAATAATAAAATATATTTAA
1 TAAGTTAATAATAAAATATATTTAA
**
171352 TAAGTTAAT-ATAAAA-ATATTTTT
1 TAAGTTAATAATAAAATATATTTAA
171375 TAAGTTAATATATATAAAT-TATT
1 TAAGTTAATA-ATA-AAATATATT
171398 ATTAATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.38
24 6 0.15
25 12 0.30
26 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (25 bp):
TAAGTTAATAATAAAATATATTTAA
Found at i:171378 original size:23 final size:24
Alignment explanation
Indices: 171325--171386 Score: 90
Period size: 23 Copynumber: 2.6 Consensus size: 24
171315 TTTTTTTAAA
171325 ATTAAGTTAATAATAAAATATATTT
1 ATTAAGTTAAT-ATAAAATATATTT
*
171350 AATAAGTTAATATAAAA-ATATTT
1 ATTAAGTTAATATAAAATATATTT
*
171373 TTTAAGTTAATATA
1 ATTAAGTTAATATA
171387 TATAAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 18 0.53
24 6 0.18
25 10 0.29
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (24 bp):
ATTAAGTTAATATAAAATATATTT
Found at i:171402 original size:25 final size:25
Alignment explanation
Indices: 171325--171407 Score: 93
Period size: 25 Copynumber: 3.4 Consensus size: 25
171315 TTTTTTTAAA
171325 ATTAAGTTAATA-ATAAAATATATTT
1 ATTAAGTTAATATATAAAAT-TATTT
*
171350 AATAAGTTAATATA-AAAA-TATTT
1 ATTAAGTTAATATATAAAATTATTT
*
171373 TTTAAGTTAATATATATAAATTA-TT
1 ATTAAGTTAATATATA-AAATTATTT
*
171398 ATTAATTTAA
1 ATTAAGTTAA
171408 GTATTTATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 17 0.35
24 1 0.02
25 28 0.57
26 3 0.06
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
ATTAAGTTAATATATAAAATTATTT
Found at i:177868 original size:32 final size:32
Alignment explanation
Indices: 177809--177885 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
177799 ATCACACTTT
177809 AAAAAACCCGACCCGAACCCAAA-TTTTTTTA
1 AAAAAACCCGACCCGAACCCAAATTTTTTTTA
* * *
177840 AAAAAATCCGACCCGATCCCAAATTTTTTTTTT
1 AAAAAACCCGACCCGAACCCAAA-TTTTTTTTA
177873 AAAAAACCCGACC
1 AAAAAACCCGACC
177886 TGAATATCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 21 0.52
33 19 0.47
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.25
Consensus pattern (32 bp):
AAAAAACCCGACCCGAACCCAAATTTTTTTTA
Found at i:180673 original size:15 final size:15
Alignment explanation
Indices: 180655--180684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
180645 AAAACCATGT
*
180655 TAGATAAAAATGTAA
1 TAGATAAAAAGGTAA
180670 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
180685 GAAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:180842 original size:28 final size:28
Alignment explanation
Indices: 180781--180848 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
180771 TAAAATAAAT
*
180781 ATAAAAAATAAAGAAAAAGAAGAAAAAG
1 ATAAAAAATAAAGAAAAAGAACAAAAAG
* *
180809 AAAAAAAATATAGAAATAA-AACAAATAA-
1 ATAAAAAATAAAGAAA-AAGAACAAA-AAG
180837 ATAAAATAATAA
1 ATAAAA-AATAA
180849 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.13
Consensus pattern (28 bp):
ATAAAAAATAAAGAAAAAGAACAAAAAG
Found at i:180855 original size:14 final size:13
Alignment explanation
Indices: 180823--180937 Score: 50
Period size: 13 Copynumber: 9.1 Consensus size: 13
180813 AAAATATAGA
*
180823 AATAAAACA-AAT
1 AATAAAAAATAAT
180835 AAATAAAATAATAAT
1 -AATAAAA-AATAAT
*
180850 AAT-AAAAA-AGT
1 AATAAAAAATAAT
180861 -A-AAAAAATAAT
1 AATAAAAAATAAT
*
180872 ATATAAAAAATAAA
1 A-ATAAAAAATAAT
*
180886 AAAAAAAAAGTAA-
1 AATAAAAAA-TAAT
*
180899 ATATATATAAAT--T
1 A-ATA-AAAAATAAT
* *
180912 AAT-AAAACTGAT
1 AATAAAAAATAAT
180924 AATAAAAAATAAT
1 AATAAAAAATAAT
180937 A
1 A
180938 TATTTATATA
Statistics
Matches: 77, Mismatches: 11, Indels: 28
0.66 0.09 0.24
Matches are distributed among these distances:
10 10 0.13
11 4 0.05
12 8 0.10
13 28 0.36
14 20 0.26
15 7 0.09
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAAAAAATAAT
Found at i:180858 original size:29 final size:28
Alignment explanation
Indices: 180823--180918 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
180813 AAAATATAGA
* *
180823 AATAAAACAAATAAATAAA-ATAATAAT
1 AATAAAAAAAAAAAATAAATATAATAAT
180850 AATAAAAAAGTAAAAAAATAATATATAA-AA-
1 AAT-AAAAA--AAAAAAATAA-ATATAATAAT
180880 AATAAAAAAAAAAAAGTAAATATATATAAATT
1 AATAAAAAAAAAAAA-TAAATATA-AT-AA-T
180912 AATAAAA
1 AATAAAA
180919 CTGATAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 17
0.75 0.03 0.23
Matches are distributed among these distances:
27 15 0.27
28 8 0.14
29 5 0.09
30 14 0.25
31 3 0.05
32 11 0.20
ACGTcount: A:0.75, C:0.01, G:0.02, T:0.22
Consensus pattern (28 bp):
AATAAAAAAAAAAAATAAATATAATAAT
Found at i:180864 original size:22 final size:22
Alignment explanation
Indices: 180835--180889 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
180825 TAAAACAAAT
*
180835 AAATAAAATAATAATA-ATAAA
1 AAATAAAAAAATAATATATAAA
180856 AAAGTAAAAAAATAATATATAAA
1 AAA-TAAAAAAATAATATATAAA
180879 AAATAAAAAAA
1 AAATAAAAAAA
180890 AAAAAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAAAAAAATAATATATAAA
Found at i:180890 original size:9 final size:9
Alignment explanation
Indices: 180771--180894 Score: 74
Period size: 9 Copynumber: 13.6 Consensus size: 9
180761 AAATAGTAAG
*
180771 TAAAATAAA
1 TAAAAAAAA
*
180780 TATAAAAAA
1 TAAAAAAAA
180789 TAAAGAAAAA
1 TAAA-AAAAA
* *
180799 GAAGAAAAA
1 TAAAAAAAA
*
180808 GAAAAAAAA
1 TAAAAAAAA
* *
180817 T-ATAGAAA
1 TAAAAAAAA
*
180825 TAAAACAAA
1 TAAAAAAAA
*
180834 TAAATAAAA
1 TAAAAAAAA
* *
180843 TAATAATAA
1 TAAAAAAAA
180852 TAAAAAAGTAA
1 TAAAAAA--AA
180863 -AAAAATAATA
1 TAAAAA-AA-A
*
180873 TATAAAAAA
1 TAAAAAAAA
180882 TAAAAAAAA
1 TAAAAAAAA
180891 -AAAA
1 TAAAA
180895 GTAAATATAT
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
8 10 0.11
9 56 0.64
10 15 0.17
11 7 0.08
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:181014 original size:22 final size:21
Alignment explanation
Indices: 180964--181020 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
180954 GAAAAAAAAT
180964 AAAATATTAC-T-AAAGTAAA
1 AAAATATTACATAAAAGTAAA
180983 AGAAA-A-TACATAAAATGTAAA
1 A-AAATATTACATAAAA-GTAAA
181004 AAAATATTACATGAAAA
1 AAAATATTACAT-AAAA
181021 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 9 0.29
21 7 0.23
22 5 0.16
23 4 0.13
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
AAAATATTACATAAAAGTAAA
Found at i:181377 original size:37 final size:37
Alignment explanation
Indices: 181288--181378 Score: 110
Period size: 37 Copynumber: 2.5 Consensus size: 37
181278 GTGATTGTGG
* * * * *
181288 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
* * *
181325 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
181362 ATCCTATTTTTAGGAGT
1 ATCCTATTTTTAGGAGT
181379 CCGAATTCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
Found at i:182352 original size:109 final size:103
Alignment explanation
Indices: 181935--182592 Score: 547
Period size: 109 Copynumber: 6.3 Consensus size: 103
181925 GCATTGTTCC
* *** *
181935 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATCGGCTCT-GAAATTGAAAATTG-TTGTTGACAA
*
182000 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 CCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
* * * * *
182041 GAGTCCAATATCCTTCG-CTGTGAAGTTAAAATTGACTCTG-AA-TG-AAATT-TTGTTGACAAG
1 GAGTCCAATATCCTCCGTC-GTGAAGTTGAAATCGGCTCTGAAATTGAAAATTGTTGTTGACAAC
* * *
182101 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
65 CAGC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
* * * * * *
182141 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTGTTGACAAG
1 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATCGGCTCTGAAATTGA-AAATTGTTGTTGACAAC
* * *
182206 CAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CAGC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
* * ** *
182246 GAGTGGCACGATATCCTCCGTCGTGGAGTTGAAATC-GCGGATGAAACTGAAAAGTTGTTCGTTG
1 GAGT--C-CAATATCCTCCGTCGTGAAGTTGAAATCGGC-TCTGAAATTGAAAA-TTGTT-GTTG
*
182310 ACAACCAGTCGTCCCTTCGTTGTGACGTTGAACTTGTGTTGTCTCG
60 ACAACCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT-G
* * * *
182356 G-GTAGCACGATATCCTCCGTCGTGGAGTTGAAATCGGCTCTGGAATTGGGAAATTGTTTGTTGA
1 GAGT--C-CAATATCCTCCGTCGTGAAGTTGAAATCGGCTCTGAAATT-GAAAATTG-TTGTTGA
* *
182420 CAACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTC
61 CAACCAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
* * * * * * **
182464 GAGTCCAATATCCTTCG-CTGTGAAGTTGAGATTGGCTCCGAAATTG------CTTGTCGACAGT
1 GAGTCCAATATCCTCCGTC-GTGAAGTTGAAATCGGCTCTGAAATTGAAAATTGTTGTTGACAAC
* * * *
182522 CAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTG
65 CAG-CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC-TG
*
182563 G-GTCCAATATCCTTCG-CTGTGAAGTTGAAA
1 GAGTCCAATATCCTCCGTC-GTGAAGTTGAAA
182593 CCGTGGAGAC
Statistics
Matches: 474, Mismatches: 56, Indels: 52
0.81 0.10 0.09
Matches are distributed among these distances:
98 71 0.15
99 3 0.01
100 80 0.17
101 2 0.00
102 7 0.01
103 1 0.00
104 5 0.01
105 57 0.12
106 65 0.14
107 6 0.01
108 36 0.08
109 130 0.27
110 11 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (103 bp):
GAGTCCAATATCCTCCGTCGTGAAGTTGAAATCGGCTCTGAAATTGAAAATTGTTGTTGACAACC
AGCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTG
Found at i:182574 original size:98 final size:98
Alignment explanation
Indices: 182405--182590 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 98
182395 CTGGAATTGG
* * * *
182405 GAAATTGTTTGTTGACAACCAGTCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
1 GAAATTGCTTGTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
182470 AATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
66 AATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
** * * *
182503 GAAATTGCTTGTCGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCC
1 GAAATTGCTTGTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
182568 AATATCCTTCGCTGTGAAGTTGA
66 AATATCCTTCGCTGTGAAGTTGA
182591 AACCGTGGAG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 79 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (98 bp):
GAAATTGCTTGTCGACAACCAGTCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCC
AATATCCTTCGCTGTGAAGTTGAGATTGGCTCC
Found at i:182924 original size:29 final size:28
Alignment explanation
Indices: 182860--182926 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
182850 GCCTGTCTGG
* *
182860 AATCTTGATTCTTGAATCTTCAAATTTTGA
1 AATC-TGA-TCTTGAATCTTCAAATGTTCA
**
182890 TCTCTGATCTTGAATTCTTCAAATGTTCA
1 AATCTGATCTTGAA-TCTTCAAATGTTCA
182919 AATCTGAT
1 AATCTGAT
182927 GTGCACATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.23
29 21 0.70
30 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.45
Consensus pattern (28 bp):
AATCTGATCTTGAATCTTCAAATGTTCA
Found at i:183191 original size:36 final size:36
Alignment explanation
Indices: 183146--183528 Score: 298
Period size: 36 Copynumber: 10.9 Consensus size: 36
183136 GAAGATTTTG
* *
183146 TGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
183182 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * * *
183219 AGTTCCAAAAGAAACTGTCTCAAGGGGGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
183255 TGTTTCAA-ATAAAACATAT-T-----TA-A-ATATTT
1 TGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACAAAATT
*
183284 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
183320 TATTTCAAGGGAAAATGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
183356 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
183393 TGTTTCAAGGGAAATTATCTCAAGAGAGACGAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATT
* * * * *
183430 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
183458 ATGTTTCAAGAGAAGCTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
183495 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
183529 CTCTTCTAGT
Statistics
Matches: 277, Mismatches: 45, Indels: 50
0.74 0.12 0.13
Matches are distributed among these distances:
28 4 0.01
29 30 0.11
30 4 0.01
32 1 0.00
34 2 0.01
35 3 0.01
36 148 0.53
37 81 0.29
38 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:183300 original size:102 final size:101
Alignment explanation
Indices: 183180--183363 Score: 269
Period size: 102 Copynumber: 1.8 Consensus size: 101
183170 GGAGACAAAA
* *
183180 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAAATGTCTCAAGAG
* * *
183245 GGACGAAATTTGTTTCAAATAAAACATATTTAAATAT
65 AGACAAAATTTATTTCAAATAAAACATATTTAAATAT
* * * **
183282 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAAATGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAAATGTCTCAAGAGA
183347 GACAAAATTTATTTCAA
66 GACAAAATTTATTTCAA
183364 GGGAAACTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
101 34 0.47
102 38 0.53
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (101 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAAATGTCTCAAGAGA
GACAAAATTTATTTCAAATAAAACATATTTAAATAT
Found at i:183313 original size:138 final size:138
Alignment explanation
Indices: 183146--183400 Score: 377
Period size: 138 Copynumber: 1.8 Consensus size: 138
183136 GAAGATTTTG
* * * *
183146 TGTTTCAAGAGTAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAAATGTCTCAAGAGAGA
* * *
183211 CAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGGGACGAAA-TTTGTTTCAAATAAAACATATT
66 CAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAATAAAACATATT
183275 TAAATATTT
130 TAAATATTT
* *
183284 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAAATGTCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAAATGTCTCAAGAGAGA
* * **
183349 CAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAA
66 CAAAACTTATTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAA
183401 GGGAAATTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 26 0.25
138 77 0.75
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (138 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAAATGTCTCAAGAGAGA
CAAAACTTATTCCAAAAGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCAAATAAAACATATTT
AAATATTT
Found at i:183528 original size:175 final size:174
Alignment explanation
Indices: 183146--183528 Score: 482
Period size: 174 Copynumber: 2.2 Consensus size: 174
183136 GAAGATTTTG
* * *
183146 TGTTTCAAGAGTAACTGTCTCAAG-GGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TGTTTCAAGGGAAACTGTCTCAAGAGG-GACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAG
* * * * *
183210 ACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGGGACGAAATTTGTTTCAAATAAAACATATT
65 ACAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTATTTCAAAGAAAACATATT
*
183275 TAAATATTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
130 TAAATATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * *
183320 TATTTCAAGGGAAAATGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGA
* * * ** * * * **
183385 CAAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAGACGAAAATTTATTTCAAGGGAAATGT-TT
66 CAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACG-AAATTTATTTCAAAGAAAACATATT
* * * *
183449 TCAATGTTTATGTTTCAAGAGAAGCTGTCTCAAGGGAGACAAAATT
130 TAAATATTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
183495 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAA
183529 CTCTTCTAGT
Statistics
Matches: 176, Mismatches: 30, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
174 95 0.54
175 81 0.46
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (174 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGGGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAACTTAGTTCCAAAAGAAACTATCTCAAGAGAGACGAAATTTATTTCAAAGAAAACATATTT
AAATATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:184486 original size:22 final size:22
Alignment explanation
Indices: 184460--184515 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
184450 TTGTGTTTGG
* * *
184460 TCAAAGGTTTGGCATTTGATGC
1 TCAAAAGTTTGACATTGGATGC
184482 TCAAAAGTTTGACATTGGATGC
1 TCAAAAGTTTGACATTGGATGC
*
184504 TCAAAAGATTGA
1 TCAAAAGTTTGA
184516 TGGGGTAGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.32
Consensus pattern (22 bp):
TCAAAAGTTTGACATTGGATGC
Found at i:185170 original size:22 final size:22
Alignment explanation
Indices: 185145--185224 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 22
185135 TTTTTGTCCC
*
185145 TTTTTCTTTTTGATTTTTGCTTT
1 TTTTTCTTTTTGTTTTTTGC-TT
* * *
185168 TTTTTCCTTTTGTTCTTGTTTCTC
1 TTTTTCTTTTTGTT-TT-TTGCTT
185192 TTTTTCTTTGTT-TTTTTTGCTT
1 TTTTTCTTT-TTGTTTTTTGCTT
*
185214 CTTTTCTTTTT
1 TTTTTCTTTTT
185225 TGTTCTTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.04
22 12 0.26
23 14 0.30
24 13 0.28
25 5 0.11
ACGTcount: A:0.01, C:0.14, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTTCTTTTTGTTTTTTGCTT
Found at i:186347 original size:8 final size:8
Alignment explanation
Indices: 186331--186369 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
186321 AATGTAGATG
186331 AAAATGCA
1 AAAATGCA
*
186339 AAAAGGCA
1 AAAATGCA
186347 AAAATGC-
1 AAAATGCA
186354 AAAATGCA
1 AAAATGCA
*
186362 AGAATGCA
1 AAAATGCA
186370 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:186357 original size:15 final size:15
Alignment explanation
Indices: 186331--186369 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
186321 AATGTAGATG
186331 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
186347 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
186362 AGAATGCA
1 AAAATGCA
186370 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:187720 original size:15 final size:17
Alignment explanation
Indices: 187693--187734 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
187683 TGATGCAAGT
* *
187693 GATGAAAATAAAATAAA
1 GATGAAAAGAAAAGAAA
187710 -AT-AAAAGAAAAGAAA
1 GATGAAAAGAAAAGAAA
187725 GATGAAAAGA
1 GATGAAAAGA
187735 GTTAGTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 11 0.52
16 4 0.19
17 6 0.29
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (17 bp):
GATGAAAAGAAAAGAAA
Found at i:188816 original size:15 final size:15
Alignment explanation
Indices: 188798--188827 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
188788 AAAACCATGT
188798 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
188813 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
188828 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:188834 original size:15 final size:15
Alignment explanation
Indices: 188801--188835 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
188791 ACCATGTTAG
* *
188801 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
188816 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
188831 ATAAA
1 ATAAA
188836 TAATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:188925 original size:6 final size:6
Alignment explanation
Indices: 188907--189022 Score: 60
Period size: 6 Copynumber: 18.7 Consensus size: 6
188897 AATAGTAAGT
* * * *
188907 AAAATA AATATA AAAATA AAGAA-A AGAAGA AAAAGA AAAA-A AAAATAA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAAT-A
* * *
188955 AGAAATA AAACA-A TAAATA AATAATA ATAA-A AAAGTA AAAATA ATATATATA
1 A-AAATA AAA-ATA AAAATA AA-AATA AAAATA AAAATA AAAATA A-A-A-ATA
*
189007 TAAATA AAAATA AAAA
1 AAAATA AAAATA AAAA
189023 AAGTAAATAT
Statistics
Matches: 86, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
5 11 0.13
6 52 0.60
7 14 0.16
8 6 0.07
9 3 0.03
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:188964 original size:16 final size:16
Alignment explanation
Indices: 188912--188978 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
188902 TAAGTAAAAT
*
188912 AAATATAAAAATAAAG
1 AAATAAAAAAATAAAG
* *
188928 AAA-AGAAGAA-AAAG
1 AAATAAAAAAATAAAG
188942 AAA-AAAAAAATAAAG
1 AAATAAAAAAATAAAG
* *
188957 AAATAAAACAATAAAT
1 AAATAAAAAAATAAAG
188973 AAATAA
1 AAATAA
188979 TAATAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.28
15 12 0.28
16 19 0.44
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAATAAAG
Found at i:188969 original size:8 final size:7
Alignment explanation
Indices: 188912--189023 Score: 56
Period size: 8 Copynumber: 15.4 Consensus size: 7
188902 TAAGTAAAAT
188912 AAATATAA
1 AAATA-AA
188920 AAATAAA
1 AAATAAA
188927 GAAA-AGAA
1 -AAATA-AA
188935 GAAA-AAGA
1 -AAATAA-A
188943 AAA-AAA
1 AAATAAA
188949 AAATAAA
1 AAATAAA
188956 GAAATAAA
1 -AAATAAA
188964 ACAATAAA
1 A-AATAAA
188972 TAAAT-AA
1 -AAATAAA
*
188979 TAATAAA
1 AAATAAA
188986 AAAGT-AA
1 AAA-TAAA
*
188993 AAATAAT
1 AAATAAA
* *
189000 ATATATAT
1 AAATA-AA
189008 AAAT-AA
1 AAATAAA
189014 AAATAAA
1 AAATAAA
189021 AAA
1 AAA
189024 AGTAAATATA
Statistics
Matches: 86, Mismatches: 6, Indels: 25
0.74 0.05 0.21
Matches are distributed among these distances:
6 13 0.15
7 34 0.40
8 38 0.44
9 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:189016 original size:21 final size:20
Alignment explanation
Indices: 188973--189019 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
188963 AACAATAAAT
188973 AAATAATAATAAAAAAGTAA
1 AAATAATAATAAAAAAGTAA
*
188993 AAATAATATATATATAAA-TAA
1 AAATAATA-ATA-AAAAAGTAA
189014 AAATAA
1 AAATAA
189020 AAAAAGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 12 0.50
22 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAATAATAATAAAAAAGTAA
Found at i:189019 original size:35 final size:37
Alignment explanation
Indices: 188967--189052 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
188957 AAATAAAACA
*
188967 ATAAATAAATAATAAT-AAAAAAGTAAAAATA-ATAT
1 ATAAATAAATAAAAATAAAAAAAGTAAAAATATATAT
* *
189002 ATATATAAATAAAAATAAAAAAAGTAAATATATATAT
1 ATAAATAAATAAAAATAAAAAAAGTAAAAATATATAT
*
189039 ATAAATTAATAAAA
1 ATAAATAAATAAAA
189053 CTGATAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 14 0.32
36 14 0.32
37 16 0.36
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (37 bp):
ATAAATAAATAAAAATAAAAAAAGTAAAAATATATAT
Found at i:189023 original size:29 final size:28
Alignment explanation
Indices: 188957--189052 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 28
188947 AAAAATAAAG
* *
188957 AAATAAAACAATAAATAAATA-ATAATAA
1 AAATAAAAAAATAAATATATATA-AATAA
*
188985 AAA-AGTAAAAATAATATATATATAAATAA
1 AAATA-AAAAAATAA-ATATATATAAATAA
*
189014 AAATAAAAAAAGTAAATATATATATATAA
1 AAATAAAAAAA-TAAATATATATAAATAA
189043 ATTAATAAAA
1 A--AATAAAA
189053 CTGATAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.02
28 10 0.18
29 33 0.59
30 5 0.09
31 7 0.12
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.26
Consensus pattern (28 bp):
AAATAAAAAAATAAATATATATAAATAA
Found at i:189035 original size:31 final size:30
Alignment explanation
Indices: 188957--189039 Score: 93
Period size: 29 Copynumber: 2.8 Consensus size: 30
188947 AAAAATAAAG
* *
188957 AAATAAAACAATAAATAAATA-AT-AATAA
1 AAATAAAAAAATAAATATATATATAAATAA
*
188985 AAA-AGTAAAAAT-AATATATATATAAATAA
1 AAATA-AAAAAATAAATATATATATAAATAA
189014 AAATAAAAAAAGTAAATATATATATA
1 AAATAAAAAAA-TAAATATATATATA
189040 TAAATTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
27 8 0.18
28 10 0.22
29 13 0.29
30 2 0.04
31 12 0.27
ACGTcount: A:0.71, C:0.01, G:0.02, T:0.25
Consensus pattern (30 bp):
AAATAAAAAAATAAATATATATATAAATAA
Found at i:189150 original size:22 final size:21
Alignment explanation
Indices: 189096--189156 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
189086 TGAAAAAAAT
189096 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
189116 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
189139 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
189157 AAAAAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:189476 original size:37 final size:37
Alignment explanation
Indices: 189426--189530 Score: 113
Period size: 37 Copynumber: 2.8 Consensus size: 37
189416 GTGTTTGTGG
* *
189426 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTGAATCTTAGTAGAACTCT
* * * * * *
189463 ATCCTATTTTTAGGAGTTTGAATCCTAGGAAAATTTT
1 ATCCTATTTTTAGGAATTTGAATCTTAGTAGAACTCT
*
189500 ATCCTATTTTTA-GAAGTTTGAATTTTAGTAG
1 ATCCTATTTTTAGGAA-TTTGAATCTTAGTAG
189531 GACGAAAATG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
36 2 0.04
37 52 0.96
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.44
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTGAATCTTAGTAGAACTCT
Found at i:190926 original size:37 final size:37
Alignment explanation
Indices: 190844--190940 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
190834 TCCTATTAGA
* * **
190844 ATTCAAACTCCTAAAAATATGATAGAATTTTGTTAAG
1 ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAAG
* *
190881 ATTCAAACTCCTAAAAATAGGATAGAGTTCTACTATG
1 ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAAG
* *
190918 ATTTAAACTCCTAAATATAGGAT
1 ATTCAAACTCCTAAAAATAGGAT
190941 CCACAAGCAC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (37 bp):
ATTCAAACTCCTAAAAATAGGATAGAATTCTACTAAG
Found at i:191482 original size:2 final size:2
Alignment explanation
Indices: 191477--191505 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
191467 TATTATTATT
191477 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
191506 TTAAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:191814 original size:4 final size:4
Alignment explanation
Indices: 191799--191828 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
191789 TATTTTTTAA
191799 TATT TCATT TATT TATT TATT TATT TATT T
1 TATT T-ATT TATT TATT TATT TATT TATT T
191829 TTACTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:191820 original size:12 final size:13
Alignment explanation
Indices: 191799--191868 Score: 54
Period size: 13 Copynumber: 5.4 Consensus size: 13
191789 TATTTTTTAA
191799 TATTTCATTTATT
1 TATTTCATTTATT
191812 TATTT-ATTTATT
1 TATTTCATTTATT
* *
191824 TATTTTTACTTATT
1 TA-TTTCATTTATT
* *
191838 TTTATTC-TTCATT
1 TAT-TTCATTTATT
*
191851 TTTTTCATTTATT
1 TATTTCATTTATT
*
191864 CATTT
1 TATTT
191869 TTCCCTCTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 12 0.27
13 24 0.53
14 9 0.20
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTCATTTATT
Found at i:194708 original size:14 final size:14
Alignment explanation
Indices: 194691--194729 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
194681 ATATTAAATA
194691 ATAAATATAATTAT
1 ATAAATATAATTAT
194705 ATAAATATAATTAT
1 ATAAATATAATTAT
*
194719 ATAACTATAAT
1 ATAAATATAAT
194730 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:196145 original size:8 final size:8
Alignment explanation
Indices: 196132--196176 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
196122 GAACATTTCA
196132 TGCATTCT
1 TGCATTCT
196140 TGCATTCT
1 TGCATTCT
196148 TGCATT-T
1 TGCATTCT
*
196155 TGCATTTTT
1 TGCA-TTCT
*
196164 TGCATTTT
1 TGCATTCT
196172 TGCAT
1 TGCAT
196177 CTTCATCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.14
8 25 0.71
9 5 0.14
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (8 bp):
TGCATTCT
Found at i:197348 original size:9 final size:8
Alignment explanation
Indices: 197321--197393 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
197311 AGATCCAATC
*
197321 AAGAACAA
1 AAGAAGAA
197329 AA-AAGAA
1 AAGAAGAA
197336 AAGAAGCAA
1 AAGAAG-AA
197345 AAGAAGAA
1 AAGAAGAA
* *
197353 AAAAAAACA
1 AAGAAGA-A
197362 AAGAA-AA
1 AAGAAGAA
197369 AAG-AGAA
1 AAGAAGAA
*
197376 ACAAAAGAA
1 A-AGAAGAA
*
197385 AAAAAGAA
1 AAGAAGAA
197393 A
1 A
197394 GAACAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
6 1 0.02
7 13 0.24
8 22 0.41
9 18 0.33
ACGTcount: A:0.79, C:0.05, G:0.15, T:0.00
Consensus pattern (8 bp):
AAGAAGAA
Found at i:197353 original size:17 final size:17
Alignment explanation
Indices: 197324--197393 Score: 81
Period size: 17 Copynumber: 4.1 Consensus size: 17
197314 TCCAATCAAG
*
197324 AACAAAA-AAGAAAAGA
1 AACAAAAGAAAAAAAGA
* *
197340 AGCAAAAGAAGAAAAAAA
1 AACAAAAGAA-AAAAAGA
197358 AAC-AAAGAAAAAAGAGA
1 AACAAAAGAAAAAA-AGA
197375 AACAAAAGAAAAAAAGA
1 AACAAAAGAAAAAAAGA
197392 AA
1 AA
197394 GAACAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 10 0.22
17 18 0.40
18 17 0.38
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (17 bp):
AACAAAAGAAAAAAAGA
Found at i:197356 original size:26 final size:25
Alignment explanation
Indices: 197321--197402 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 25
197311 AGATCCAATC
197321 AAGAACAAAAAAGAAAAGAAGCAAAAG
1 AAGAA-AAAAAAGAAAAGAAG-AAAAG
197348 AAGAAAAAAAA-ACAAAGAA-AAAAG
1 AAGAAAAAAAAGA-AAAGAAGAAAAG
* *
197372 -AGAAACAAAAGAAAAAAAG-AAAG
1 AAGAAAAAAAAGAAAAGAAGAAAAG
*
197395 AACAAAAA
1 AAGAAAAA
197403 TCAAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
23 18 0.38
24 11 0.23
25 1 0.02
26 12 0.26
27 5 0.11
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAAAGAAAAGAAGAAAAG
Found at i:197372 original size:21 final size:21
Alignment explanation
Indices: 197343--197416 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
197333 GAAAAGAAGC
*
197343 AAAAGAAGAAAAAAAAACAAA
1 AAAAAAAGAAAAAAAAACAAA
* * *
197364 GAAAAAAGAGAAACAAAAGAAA
1 AAAAAAAGA-AAAAAAAACAAA
* *
197386 AAAAGAAAGAACAAAAATCAAA
1 AAAA-AAAGAAAAAAAAACAAA
197408 AAGAAAAAG
1 AA-AAAAAG
197417 GGACAAAAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 7 0.17
22 27 0.66
23 7 0.17
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.01
Consensus pattern (21 bp):
AAAAAAAGAAAAAAAAACAAA
Found at i:201137 original size:44 final size:47
Alignment explanation
Indices: 201071--201168 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 47
201061 TATTTTCGTT
*
201071 TTTTTCGAATAAATGCATGCGAACTAGGTATCATGCGGTTAGG-TTTA
1 TTTTT-GAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
* *
201118 TTTTTGAAT-AA-GCATGCGAATTAGATATCATGCGGTTAGGATTTC
1 TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
201163 TTTTTG
1 TTTTTG
201169 TGGATAACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 27 0.57
45 11 0.23
46 4 0.09
47 5 0.11
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (47 bp):
TTTTTGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGATTTA
Found at i:210868 original size:11 final size:11
Alignment explanation
Indices: 210852--210903 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
210842 ATGATGATGG
*
210852 AAAAAACGGAA
1 AAAAAAAGGAA
*
210863 AAAAAAATGAA
1 AAAAAAAGGAA
*
210874 AAAAAAAAGAA
1 AAAAAAAGGAA
210885 GAGAAAAAATGGAA
1 -A-AAAAAA-GGAA
210899 AAAAA
1 AAAAA
210904 TAAAAAGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 19 0.56
12 5 0.15
13 7 0.21
14 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAAAGGAA
Found at i:210872 original size:24 final size:22
Alignment explanation
Indices: 210828--210902 Score: 55
Period size: 24 Copynumber: 3.4 Consensus size: 22
210818 GAGAAAAGAA
**
210828 GGAAAAAAGAAAAAATGATGAT
1 GGAAAAAAGAAAAAAAAATGAT
*
210850 GGAAAAAACGGAAAAAAAAATGAA
1 GGAAAAAA--GAAAAAAAAATGAT
** *
210874 AAAAAAAAGAAGAGAAAAA--AT
1 GGAAAAAAGAA-AAAAAAATGAT
210895 GGAAAAAA
1 GGAAAAAA
210903 ATAAAAAGAG
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
21 7 0.17
22 11 0.27
23 6 0.15
24 17 0.41
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (22 bp):
GGAAAAAAGAAAAAAAAATGAT
Found at i:210891 original size:25 final size:24
Alignment explanation
Indices: 210864--210925 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
210854 AAAACGGAAA
210864 AAAAAATGAAAAAAA-AAAGAAGAG
1 AAAAAATGAAAAAAATAAA-AAGAG
210888 AAAAAATGGAAAAAAATAAAAAGAG
1 AAAAAAT-GAAAAAAATAAAAAGAG
210913 -AAAAATGAAAAAA
1 AAAAAATGAAAAAA
210926 GAGAAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.19
24 13 0.36
25 13 0.36
26 3 0.08
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAAAATGAAAAAAATAAAAAGAG
Found at i:210915 original size:16 final size:15
Alignment explanation
Indices: 210872--210936 Score: 53
Period size: 16 Copynumber: 4.3 Consensus size: 15
210862 AAAAAAAATG
*
210872 AAAAAAAAA-AGAAG
1 AAAAAAAAAGAGAAA
* *
210886 AGAAAAAATG-GAAA
1 AAAAAAAAAGAGAAA
210900 AAAATAAAAAGAGAAA
1 AAAA-AAAAAGAGAAA
*
210916 AATGAAAAAAGAGAAA
1 AA-AAAAAAAGAGAAA
210932 TAAAA
1 -AAAA
210937 GGAGGGTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
14 13 0.33
15 5 0.13
16 18 0.46
17 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (15 bp):
AAAAAAAAAGAGAAA
Found at i:210916 original size:23 final size:23
Alignment explanation
Indices: 210865--210925 Score: 88
Period size: 25 Copynumber: 2.6 Consensus size: 23
210855 AAACGGAAAA
210865 AAAAATGAAAAAAAAAAGAAGAG
1 AAAAATGAAAAAAAAAAGAAGAG
210888 AAAAAATGGAAAAAAATAAA-AAGAG
1 -AAAAAT-GAAAAAAA-AAAGAAGAG
210913 AAAAATGAAAAAA
1 AAAAATGAAAAAA
210926 GAGAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.20
24 12 0.34
25 13 0.37
26 3 0.09
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.07
Consensus pattern (23 bp):
AAAAATGAAAAAAAAAAGAAGAG
Found at i:212651 original size:55 final size:55
Alignment explanation
Indices: 212075--212649 Score: 637
Period size: 55 Copynumber: 10.6 Consensus size: 55
212065 GTTGAAGATT
* * * **
212075 GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACAAGTTTGT-TGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTT-TATGAAGATTGTTC
* * ** *
212126 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAGTTCGT-TGAAGA---TT-
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTT-TTATGAAGATTGTTC
* * * **
212177 GAGTCCTATACTCTTTGAATGAATAGGGAGCGGACAAG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
*
212232 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* * *
212287 GAGTTCTATACTCTCTGAATGAATAGAGAGCAGACCCG-TTTATTGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
*
212342 GAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
* *
212397 GAGTTCTATACCCCCTGAACGG-ATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
*
212452 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTTATGAAGATTGTTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCG-TTTTATGAAGATTGTTC
* *
212508 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTATTC
1 GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTA-TGAAGATTGTTC
* * * * * *
212564 AAG-TCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTC
1 GAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
212619 GAG-TCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTTC-TATACTCT-CTGAAGGAATAGGGAGC
212650 AGGCTCGTCA
Statistics
Matches: 473, Mismatches: 33, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
49 1 0.00
50 1 0.00
51 90 0.19
54 10 0.02
55 260 0.55
56 111 0.23
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (55 bp):
GAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTTATGAAGATTGTTC
Found at i:215980 original size:18 final size:18
Alignment explanation
Indices: 215945--215980 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
215935 TCAACATCAA
*
215945 ATATTGGGGAATTTTTTG
1 ATATTGGGGAATTATTTG
*
215963 ATATTGGGGCATTATTTG
1 ATATTGGGGAATTATTTG
215981 GGGATTCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (18 bp):
ATATTGGGGAATTATTTG
Found at i:216569 original size:106 final size:106
Alignment explanation
Indices: 216355--217835 Score: 2111
Period size: 106 Copynumber: 14.0 Consensus size: 106
216345 ATATCGTGCC
* * * * * * * *
216355 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAA-CAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
216419 AATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
216460 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
216525 AATTTTAGATCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
216566 ACTCTAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
216631 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
216672 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
216737 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
216778 ACTCCAAACAACGCAAGTTCAACTTCACAACGAAGGGACCGATGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* ***
216843 AATTTCAGAGCCATTTTCAACTTCACAGTAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
216884 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
216949 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
216990 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
217055 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
217096 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
217161 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
217202 ACTCAAGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
217267 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
217308 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
217373 AATTTTAGAGCCAATTTCAACTTCACAACTAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** *
217414 ACTCCAGATGACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
217479 AATTTCAGAGCCAATTTCAACTTCACAACGTATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
217520 ACTCAAAACAACGCAAATTCAACTTCACGACGAATGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * * *
217585 AATTTTAGAGCCAATTTCAACTTCTCAACAAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
217626 AC-CCAAGGCAACACAAGCTCGACTTCACGACGAAGGG-GCGACTGATTGTCAAT-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAACTTC
* * * *
217685 TC-A-TTCAGAGTCAATTCCAACTTCACAGCGAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
217726 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAATAAACAACTTCC
** * *
217790 C-GGTTCTAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTC-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
217832 ACTC
1 ACTC
217836 AGAACAATGC
Statistics
Matches: 1237, Mismatches: 128, Indels: 21
0.89 0.09 0.02
Matches are distributed among these distances:
100 73 0.06
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 55 0.04
106 1095 0.89
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:218670 original size:37 final size:37
Alignment explanation
Indices: 218566--218670 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
218556 CATTTTCGTC
* *
218566 CTACTAGGATTCAAACTCCTAAAAATATGACAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
218603 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
218640 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
218671 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:219212 original size:2 final size:2
Alignment explanation
Indices: 219205--219236 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
219195 TATTATTATT
219205 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
219237 TAAATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:219235 original size:15 final size:15
Alignment explanation
Indices: 219206--219235 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
219196 ATTATTATTT
219206 ATATATATATATATA
1 ATATATATATATATA
219221 ATATATATATATATA
1 ATATATATATATATA
219236 TTAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:219243 original size:15 final size:15
Alignment explanation
Indices: 219210--219243 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
219200 TTATTTATAT
*
219210 ATATATATATAATAT
1 ATATATATATAATAA
*
219225 ATATATATATATTAA
1 ATATATATATAATAA
219240 ATAT
1 ATAT
219244 TTTACTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATAATAA
Found at i:219495 original size:2 final size:2
Alignment explanation
Indices: 219488--219513 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
219478 TATTTTACTC
219488 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
219514 TAATATTTCA
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:219543 original size:10 final size:10
Alignment explanation
Indices: 219528--219563 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
219518 ATTTCATTTA
219528 TTTATTTATT
1 TTTATTTATT
219538 TTTATTTATT
1 TTTATTTATT
*
219548 TTTACTTATT
1 TTTATTTATT
*
219558 TGTATT
1 TTTATT
219564 CTTCATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (10 bp):
TTTATTTATT
Found at i:222156 original size:26 final size:26
Alignment explanation
Indices: 222127--222178 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
222117 TTTATAAAAT
222127 TTAATTTATTATATATTTCTTAATTG
1 TTAATTTATTATATATTTCTTAATTG
222153 TTAATTTATTATATATTTCTTAATTG
1 TTAATTTATTATATATTTCTTAATTG
222179 AAGAGGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (26 bp):
TTAATTTATTATATATTTCTTAATTG
Done.