Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007818.1 Hibiscus syriacus cultivar Beakdansim tig00110154_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: 290479
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:8805 original size:14 final size:14
Alignment explanation
Indices: 8768--8814 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
8758 ATTATGCTTG
8768 AAGAGAATTAAAAAA
1 AAGAGAA-TAAAAAA
*
8783 ATA-ATAATAAAAAA
1 A-AGAGAATAAAAAA
8797 AAGAGAATAAAAAGA
1 AAGAGAATAAAAA-A
8812 AAG
1 AAG
8815 GGGGTCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 1 0.04
14 17 0.63
15 8 0.30
16 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (14 bp):
AAGAGAATAAAAAA
Found at i:10715 original size:84 final size:84
Alignment explanation
Indices: 9930--10705 Score: 1464
Period size: 84 Copynumber: 9.2 Consensus size: 84
9920 TGTGATATCT
9930 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
9995 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10014 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
*
10079 GTTATTTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10098 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
10163 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10182 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
10247 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10266 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
10331 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10350 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
*
10415 GTTATTTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10434 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
10499 GTTATCCGATCTGATTGGG
66 GTTATCTGATCTGATTTGG
10518 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
10583 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
10602 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
10667 GTTATCTAATCTG-GTTGG
66 GTTATCTGATCTGATTTGG
*
10685 ACAGAACCAATCGTTGGAATT
1 -CAGAACCAATCATT-GAATT
10706 AAAAGATGAA
Statistics
Matches: 679, Mismatches: 11, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
83 4 0.01
84 670 0.99
85 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (84 bp):
CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGATTTGG
Found at i:11608 original size:113 final size:113
Alignment explanation
Indices: 11410--12072 Score: 1149
Period size: 113 Copynumber: 5.9 Consensus size: 113
11400 TCAAATCCAC
* * *
11410 TTGATGGATCATTCATTGTCAGATAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCA-ACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
11474 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
11523 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
11588 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
11636 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
11701 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
11749 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
11814 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
11862 TTGATGGATCAACATTGCCAGAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTGCCAGAGAAGGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * * *
11927 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCAC
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
***
11976 TTGAT---T-ATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
12037 AGTTCATAATGAGAAGAGCTTGTTCAAC-CTTTGTTT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
12073 GATACTATCA
Statistics
Matches: 533, Mismatches: 15, Indels: 9
0.96 0.03 0.02
Matches are distributed among these distances:
108 7 0.01
109 59 0.11
110 18 0.03
111 1 0.00
112 11 0.02
113 355 0.67
114 82 0.15
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (113 bp):
TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
Found at i:12392 original size:3 final size:3
Alignment explanation
Indices: 12386--12459 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
12376 TTTTTATCCA
* *
12386 TAT TAT TAT TAT TAT TAT GAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12434 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
12460 AATATATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:12976 original size:22 final size:21
Alignment explanation
Indices: 12920--12976 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
12910 TCTGCGAAGA
* *
12920 AAAGAAAAAACAGAGACAGAG
1 AAAGAAAAAAAAAAGACAGAG
* * *
12941 AACGGAGAAGAAAAAGACAGAG
1 AA-AGAAAAAAAAAAGACAGAG
12963 AAAGAAAAAAAAAA
1 AAAGAAAAAAAAAA
12977 CAAACTAGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAAAAAAGACAGAG
Found at i:18545 original size:22 final size:23
Alignment explanation
Indices: 18506--18554 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
18496 TACTAATCTT
* *
18506 TATTTATCTTTATCATA-TATTG
1 TATTTATCTTTATAATATTATTA
18528 TATTTAT-TTTATTAATATTATTA
1 TATTTATCTTTA-TAATATTATTA
18551 TATT
1 TATT
18555 AATATTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTTATCTTTATAATATTATTA
Found at i:18548 original size:14 final size:14
Alignment explanation
Indices: 18531--18566 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
18521 TATATTGTAT
18531 TTATTTTATTAATA
1 TTATTTTATTAATA
*
18545 TTATTATATTAATA
1 TTATTTTATTAATA
*
18559 TTCTTTTA
1 TTATTTTA
18567 CTTTTTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTTATTAATA
Found at i:22983 original size:105 final size:105
Alignment explanation
Indices: 22780--23719 Score: 1333
Period size: 105 Copynumber: 8.9 Consensus size: 105
22770 CAAGACAATA
* * *
22780 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAAAAACTTT-CCAATTTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAAACA-TTTCCCAATTTCAGAGCC
22844 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
64 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
22886 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACATTTCCCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAA
*
22951 TTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACG
66 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * *
22991 CAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACATTTCCCAATTTCAGAGTCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAA
* *
23056 TTTCAACTTCACAACGAATGATATTGGACTCCAGAAAACG
66 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
23096 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATCTCTCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAA
23161 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
*
23201 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAA
23266 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* *
23306 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCCCAATTTCAGAGCCA
* * *
23371 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAATG
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * ** * * **
23412 CAAGTTCAACTTCACGACGAAGGGGCGGCTGACTGTCAACAAATAATGTATCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-CATTTCCCAATTTCAGAGCCA
* * *
23477 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACA
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* * * ** * *
23518 CAAGCTCAACTTCACGACGAAGGGGCGGCTGACTGTCAACAAACAATGTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCCCAATTTCAGAGCCA
* * *
23583 ATTTCAACTTCACATCGAAGGATATTGGACTCAAGACAACA
65 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
* ** * *** ** * *
23624 CAAGCTCAACTTCATAATGAAGGGGTGGCTGACTGTCAACAAACAATTTTCCCAGTTCCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-A-TTTCCCAATTTCAGAGCC
** *
23689 AATTTCAACTTCACGGCGGAGGATATTGGAC
64 AATTTCAACTTCACAACGAAGGATATTGGAC
23720 ACGGAGCAAT
Statistics
Matches: 782, Mismatches: 48, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
104 3 0.00
105 403 0.52
106 334 0.43
107 42 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (105 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAA
TTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
Found at i:25954 original size:22 final size:23
Alignment explanation
Indices: 25915--25963 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
25905 TACTAATCTT
* *
25915 TATTTATCTTTATCATA-TATTG
1 TATTTATCTTTATAATATTATTA
25937 TATTTAT-TTTATTAATATTATTA
1 TATTTATCTTTA-TAATATTATTA
25960 TATT
1 TATT
25964 AATATTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTTATCTTTATAATATTATTA
Found at i:25957 original size:14 final size:14
Alignment explanation
Indices: 25940--25975 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25930 TATATTGTAT
25940 TTATTTTATTAATA
1 TTATTTTATTAATA
*
25954 TTATTATATTAATA
1 TTATTTTATTAATA
*
25968 TTCTTTTA
1 TTATTTTA
25976 CTTTTTCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTTTATTAATA
Found at i:26906 original size:2 final size:2
Alignment explanation
Indices: 26899--26952 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
26889 CTTGTATTCA
26899 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
26941 AT AT AT AT AT AT
1 AT AT AT AT AT AT
26953 TTTAATTTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27506 original size:23 final size:23
Alignment explanation
Indices: 27480--27539 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
27470 TAGATTGTAA
27480 AATAAAAATAAATATGTAAAAAG
1 AATAAAAATAAATATGTAAAAAG
* *
27503 AATAAAAA-AAATTAATGTAATAAT
1 AATAAAAATAAA-T-ATGTAAAAAG
27527 AAT-AAAATAAATA
1 AATAAAAATAAATA
27540 AATTAGATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 14 0.44
24 14 0.44
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (23 bp):
AATAAAAATAAATATGTAAAAAG
Found at i:27510 original size:24 final size:26
Alignment explanation
Indices: 27483--27542 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
27473 ATTGTAAAAT
27483 AAAAATAAAT-ATGTAAAAAGAAT-A
1 AAAAATAAATAATGTAAAAAGAATAA
* * *
27507 AAAAA-AATTAATGTAATAATAATAA
1 AAAAATAAATAATGTAAAAAGAATAA
27532 AATAAATAAAT
1 AA-AAATAAAT
27543 TAGATAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 3 0.11
24 16 0.57
25 3 0.11
26 3 0.11
27 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (26 bp):
AAAAATAAATAATGTAAAAAGAATAA
Found at i:27803 original size:50 final size:50
Alignment explanation
Indices: 27743--27868 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
27733 GTAGCAGTAA
* * * * **
27743 AGCGCACCCCCGGAACCGCACTATACGTTGATTTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCACTATACGGTGATCTGGCACCACGTGGGTAT
** *
27793 AGCGCGCCCCCTGCCCCG-AGATATACGGTGATCTGGCACCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCA-CTATACGGTGATCTGGCACCACGTGGGTAT
* *
27843 AGCGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCACTATAC
27869 CTGAGTATCT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 60 0.98
ACGTcount: A:0.18, C:0.35, G:0.28, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCACTATACGGTGATCTGGCACCACGTGGGTAT
Found at i:28341 original size:111 final size:111
Alignment explanation
Indices: 28147--28479 Score: 594
Period size: 111 Copynumber: 3.0 Consensus size: 111
28137 TGGAAATCAT
* * *
28147 ATATCTCTACACTTTGCTGATACGGTAACATTTTAATGTTTTAATTTAATTTAAATTATTAATAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
28212 TATTTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
28258 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
28323 TAATTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
* *
28369 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
28434 TAATTAGTTGATTTATTTAATGCATGATTATTAGAGTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
28480 TTTTTGTAAT
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
Found at i:30011 original size:18 final size:18
Alignment explanation
Indices: 29988--30041 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
29978 CAACCACCGT
29988 AGCCATATATGATGCCGC
1 AGCCATATATGATGCCGC
30006 AGCCATATATGATGCCGC
1 AGCCATATATGATGCCGC
*
30024 AACCATATATGATGCCGC
1 AGCCATATATGATGCCGC
30042 CATCGCCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (18 bp):
AGCCATATATGATGCCGC
Found at i:30676 original size:35 final size:34
Alignment explanation
Indices: 30637--30723 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
30627 ATATTTCAGT
*
30637 TAATTTTGTT-TATTT-CCATTTAATATTAGTTATTG
1 TAATTTTGTTATATTTACCATTT-A-ATT-CTTATTG
*
30672 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-ATTTACCATTTAATTCTTATTG
* *
30707 TAAGTTTGTTGTATTTA
1 TAATTTTGTTATATTTA
30724 AATACCAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 4 0.09
37 5 0.11
38 6 0.14
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.57
Consensus pattern (34 bp):
TAATTTTGTTATATTTACCATTTAATTCTTATTG
Found at i:34808 original size:183 final size:187
Alignment explanation
Indices: 34604--34956 Score: 628
Period size: 187 Copynumber: 1.9 Consensus size: 187
34594 TTTTATAATT
*
34604 AAAAACAGTTTATAATTAATTTAAATAATATAT-ATTAT-AAATAAAAA-TTTATATAAA-TTTT
1 AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
34665 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAA
66 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAA
34730 ATAG-TTTGGGTTGAGC-CTATATGTTATATATAATATATTTAATATTTTTTAATTCAG
131 A-AGATTTGGGTTGAGCTC-ATATGTTATATATAATATATTTAATATTTTTTAATTCAG
34787 AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
1 AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
34852 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAA
66 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAA
*
34917 AGGATTTGGGTTGAGCTCATATGTTATATATAATATATTT
131 AAGATTTGGGTTGAGCTCATATGTTATATATAATATATTT
34957 CAAATTTCAA
Statistics
Matches: 162, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
183 32 0.20
184 5 0.03
185 9 0.06
186 11 0.07
187 104 0.64
188 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (187 bp):
AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGAGTTTTAA
AAGATTTGGGTTGAGCTCATATGTTATATATAATATATTTAATATTTTTTAATTCAG
Found at i:35242 original size:3 final size:3
Alignment explanation
Indices: 35234--35261 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
35224 ATAAAAAAGT
35234 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
35262 TAAGTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:40650 original size:11 final size:12
Alignment explanation
Indices: 40618--40651 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
40608 AATTATAATA
40618 TTAAATATTTTC
1 TTAAATATTTTC
40630 TTAAATATTTT-
1 TTAAATATTTTC
*
40641 TTAAAAATTTT
1 TTAAATATTTT
40652 ATATGCATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTC
Found at i:41032 original size:19 final size:19
Alignment explanation
Indices: 41004--41056 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
40994 ACCAACAAAA
*
41004 TCGCAATGCGATCTCTAAT
1 TCGCATTGCGATCTCTAAT
41023 TCGCATTGCGATCTCTAAT
1 TCGCATTGCGATCTCTAAT
41042 TCGCATTGCGATCTC
1 TCGCATTGCGATCTC
41057 CACTATCGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (19 bp):
TCGCATTGCGATCTCTAAT
Found at i:41099 original size:21 final size:21
Alignment explanation
Indices: 41075--41187 Score: 66
Period size: 21 Copynumber: 5.0 Consensus size: 21
41065 CAAATTCGCA
41075 TTGCATTTCGCGTTGCGATAG
1 TTGCATTTCGCGTTGCGATAG
41096 TTGCGATTTTCAATTTCGCGTTGCGATAG
1 TTGC-A---T---TT-CGCGTTGCGATAG
* ** *
41125 TTGAAAATCGCGTTGCGAT-T
1 TTGCATTTCGCGTTGCGATAG
* *
41145 TTCCATTTCGCATTGCGATAG
1 TTGCATTTCGCGTTGCGATAG
* **
41166 TTGAAAATCGCGTTGCGATAG
1 TTGCATTTCGCGTTGCGATAG
41187 T
1 T
41188 CTACAGTTGT
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
20 14 0.21
21 32 0.47
22 2 0.03
25 1 0.01
28 3 0.04
29 16 0.24
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
TTGCATTTCGCGTTGCGATAG
Found at i:41120 original size:20 final size:20
Alignment explanation
Indices: 41095--41163 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
41085 CGTTGCGATA
41095 GTTGCGATTTTCAATTTCGC
1 GTTGCGATTTTCAATTTCGC
* * **
41115 GTTGCGATAGTTGAAAATCGC
1 GTTGCGAT-TTTCAATTTCGC
*
41136 GTTGCGATTTTCCATTTCGC
1 GTTGCGATTTTCAATTTCGC
*
41156 ATTGCGAT
1 GTTGCGAT
41164 AGTTGAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGATTTTCAATTTCGC
Found at i:41140 original size:41 final size:41
Alignment explanation
Indices: 41095--41184 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
41085 CGTTGCGATA
*
41095 GTTGCGATTTTCAATTTCGCGTTGCGATAGTTGAAAATCGC
1 GTTGCGATTTTCAATTTCGCATTGCGATAGTTGAAAATCGC
*
41136 GTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGC
1 GTTGCGATTTTCAATTTCGCATTGCGATAGTTGAAAATCGC
41177 GTTGCGAT
1 GTTGCGAT
41185 AGTCTACAGT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (41 bp):
GTTGCGATTTTCAATTTCGCATTGCGATAGTTGAAAATCGC
Found at i:41225 original size:21 final size:22
Alignment explanation
Indices: 41114--41225 Score: 63
Period size: 21 Copynumber: 5.3 Consensus size: 22
41104 TTCAATTTCG
* *
41114 CGTTGCGATAGTTGA-AAATCG
1 CGTTGCGATAGTTTACAAATCT
* ** *
41135 CGTTGCGAT--TTTCCATTTCG
1 CGTTGCGATAGTTTACAAATCT
* * *
41155 CATTGCGATAGTTGA-AAATCG
1 CGTTGCGATAGTTTACAAATCT
* ** *
41176 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTTTACAAATCT
*
41198 TGTTGCGATAGTTTACAAAT-T
1 CGTTGCGATAGTTTACAAATCT
41219 CGTTGCG
1 CGTTGCG
41226 GAAATTCGTT
Statistics
Matches: 66, Mismatches: 21, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
19 2 0.03
20 12 0.18
21 32 0.48
22 20 0.30
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTTTACAAATCT
Found at i:41844 original size:6 final size:6
Alignment explanation
Indices: 41828--41863 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
41818 TCTCGTCTCG
* *
41828 GGTCAT GGTCGT TGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
41864 AGTAAATACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.17, G:0.44, T:0.36
Consensus pattern (6 bp):
GGTCGT
Found at i:42003 original size:22 final size:22
Alignment explanation
Indices: 41978--42029 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
41968 AATTTGGAAA
**
41978 ATCGCAATGACAACTGTAGACT
1 ATCGCAACAACAACTGTAGACT
42000 ATCGCAACAACAACTGTAGACT
1 ATCGCAACAACAACTGTAGACT
42022 ATCGCAAC
1 ATCGCAAC
42030 GAAATGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (22 bp):
ATCGCAACAACAACTGTAGACT
Found at i:42086 original size:20 final size:20
Alignment explanation
Indices: 42029--42092 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
42019 ACTATCGCAA
42029 CGAAATGGAAAATCGCAACG
1 CGAAATGGAAAATCGCAACG
* ** ** *
42049 TGATTTTCAACTATCGCAACG
1 CGAAATGGAA-AATCGCAACG
*
42070 CGAAATGGAAAATCGCAATG
1 CGAAATGGAAAATCGCAACG
42090 CGA
1 CGA
42093 TTTTCAACTA
Statistics
Matches: 30, Mismatches: 13, Indels: 2
0.67 0.29 0.04
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (20 bp):
CGAAATGGAAAATCGCAACG
Found at i:42134 original size:41 final size:41
Alignment explanation
Indices: 42019--42117 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
42009 ACAACTGTAG
* *
42019 ACTATCGC-AA-CGAAATGGAAAATCGCAACGTGATTTTCA
1 ACTATCGCAAAGCGAAATGGAAAATCGCAATGCGATTTTCA
*
42058 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTCA
1 ACTATCGCAAAGCGAAATGGAAAATCGCAATGCGATTTTCA
*
42099 ACTATCGTAAAGCGAAATG
1 ACTATCGCAAAGCGAAATG
42118 CAACGCGAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 8 0.15
40 1 0.02
41 44 0.83
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (41 bp):
ACTATCGCAAAGCGAAATGGAAAATCGCAATGCGATTTTCA
Found at i:42191 original size:22 final size:22
Alignment explanation
Indices: 42163--42215 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
42153 AATTTGGAAA
42163 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
42185 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
42207 ATCGCAACG
1 ATCGCAACG
42216 CGAAATGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:42925 original size:15 final size:15
Alignment explanation
Indices: 42905--42934 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42895 GTGATATATA
*
42905 TACGTAAAATTATTT
1 TACGTAAAATAATTT
42920 TACGTAAAATAATTT
1 TACGTAAAATAATTT
42935 CTAAAAATCA
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
TACGTAAAATAATTT
Found at i:53042 original size:18 final size:18
Alignment explanation
Indices: 53021--53056 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
53011 TAAAGAATGC
53021 ATATGGGTATGGATATGA
1 ATATGGGTATGGATATGA
53039 ATATGGGTATGGATATGA
1 ATATGGGTATGGATATGA
53057 GAGGACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
ATATGGGTATGGATATGA
Found at i:54805 original size:2 final size:2
Alignment explanation
Indices: 54793--54872 Score: 115
Period size: 2 Copynumber: 40.0 Consensus size: 2
54783 TATCCATCCT
* *
54793 TA TA TA CA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
54835 CA TA TA TA TA TA CA TA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54873 ACCGTAAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:58131 original size:21 final size:21
Alignment explanation
Indices: 58106--58146 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
58096 TCATTTATAA
58106 ATATAAATAGATTTAAATTAT
1 ATATAAATAGATTTAAATTAT
* * *
58127 ATATATATATATTTGAATTA
1 ATATAAATAGATTTAAATTA
58147 ATCACTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
ATATAAATAGATTTAAATTAT
Found at i:60370 original size:162 final size:160
Alignment explanation
Indices: 60195--60517 Score: 628
Period size: 162 Copynumber: 2.0 Consensus size: 160
60185 CAACAATCCA
60195 ATGCATCAAGTTATTTATATAAAAAATTCAAATAATTTGAGATCGATTAAATTAATTAATTTTAA
1 ATGCATCAAGTTATTTATATAAAAAATTCAAATAATTTGAGATCGATTAAATTAATTAATTTTAA
60260 TGATTGATATTAATTAAAGCTTTTTAATAGAAATTGTTAATTTTAATAAAAAAACATTTAAAATT
66 TGATTGATATTAATTAAAGCTTTTTAATAGAAATTGTTAATTTTAAT-AAAAAACATTTAAAA-T
60325 ATAATAGAGATTTATAATCATAATTGTAAACT
129 ATAATAGAGATTTATAATCATAATTGTAAACT
60357 ATGCATCAAGTTATTTATATAAAAAATTCAAATAATTTGAGATCGATTAAATTAATTAATTTTAA
1 ATGCATCAAGTTATTTATATAAAAAATTCAAATAATTTGAGATCGATTAAATTAATTAATTTTAA
60422 TGATTGATATTAATTAAAGCTTTTTAATAGAAATTGTTAATTTTAATAAAAAACATTTAAAATAT
66 TGATTGATATTAATTAAAGCTTTTTAATAGAAATTGTTAATTTTAATAAAAAACATTTAAAATAT
60487 AATAGAGATTTATAATCATAATTGTAAACT
131 AATAGAGATTTATAATCATAATTGTAAACT
60517 A
1 A
60518 AGTGACAACG
Statistics
Matches: 161, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
160 34 0.21
161 15 0.09
162 112 0.70
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (160 bp):
ATGCATCAAGTTATTTATATAAAAAATTCAAATAATTTGAGATCGATTAAATTAATTAATTTTAA
TGATTGATATTAATTAAAGCTTTTTAATAGAAATTGTTAATTTTAATAAAAAACATTTAAAATAT
AATAGAGATTTATAATCATAATTGTAAACT
Found at i:73473 original size:12 final size:12
Alignment explanation
Indices: 73456--73480 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73446 TTTAATGACT
73456 AAATGTAAATCA
1 AAATGTAAATCA
73468 AAATGTAAATCA
1 AAATGTAAATCA
73480 A
1 A
73481 CGACATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAATGTAAATCA
Found at i:75806 original size:18 final size:19
Alignment explanation
Indices: 75783--75825 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
75773 GATGGCTCCC
*
75783 TCTTTGATATTG-TTTTTT
1 TCTTTGATACTGTTTTTTT
*
75801 TCTTTGTTACTGTTTTTTT
1 TCTTTGATACTGTTTTTTT
75820 TCTTTG
1 TCTTTG
75826 TTTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.07, C:0.09, G:0.12, T:0.72
Consensus pattern (19 bp):
TCTTTGATACTGTTTTTTT
Found at i:79255 original size:7 final size:7
Alignment explanation
Indices: 79243--79272 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
79233 AAGAAACATA
79243 AAATTAT
1 AAATTAT
79250 AAATTAT
1 AAATTAT
79257 AAATTAT
1 AAATTAT
79264 AAA-TAT
1 AAATTAT
79270 AAA
1 AAA
79273 ACAATCCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAATTAT
Found at i:81138 original size:17 final size:16
Alignment explanation
Indices: 81116--81149 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
81106 TTAAAGGCTA
*
81116 TTTGTATTATTTCTCTC
1 TTTGTAATATTTC-CTC
81133 TTTGTAATATTTCCTC
1 TTTGTAATATTTCCTC
81149 T
1 T
81150 ATTAGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.62
Consensus pattern (16 bp):
TTTGTAATATTTCCTC
Found at i:86481 original size:21 final size:21
Alignment explanation
Indices: 86441--86490 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
86431 GATTCTTGAA
86441 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
86461 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
86483 AATCGCAA
1 AATCGCAA
86491 CGAGAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:86525 original size:20 final size:20
Alignment explanation
Indices: 86502--86711 Score: 237
Period size: 20 Copynumber: 10.5 Consensus size: 20
86492 GAGAATATGA
* *
86502 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
86522 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
86542 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
86562 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
86582 AAATCGTAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
86602 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
86622 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
86642 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
86662 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
86682 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
86702 AAATCACAAC
1 AAATCGCAAC
86712 ACTGAAATTT
Statistics
Matches: 164, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.01
20 161 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:87443 original size:24 final size:24
Alignment explanation
Indices: 87404--87450 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
87394 AAATTTGGTC
87404 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
87428 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
87451 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:87642 original size:12 final size:12
Alignment explanation
Indices: 87625--87649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87615 ATATAATCCT
87625 GAAGAAGAAAAA
1 GAAGAAGAAAAA
87637 GAAGAAGAAAAA
1 GAAGAAGAAAAA
87649 G
1 G
87650 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:89978 original size:33 final size:33
Alignment explanation
Indices: 89927--90138 Score: 182
Period size: 33 Copynumber: 6.2 Consensus size: 33
89917 CGGAAATTAC
*
89927 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
*
89960 AATCCCAACATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
* * * *
89994 AATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGC-A----ACATGAAAATCGCAATGCGA-AAT-GAA
* *
90033 AATGCGGAA-ATGAAAATTGCAATGCGAAATGAA
1 AAT-CGCAACATGAAAATCGCAATGCGAAATGAA
*
90066 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
* *
90099 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
90132 AATCGCA
1 AATCGCA
90139 TTGCGATTCT
Statistics
Matches: 150, Mismatches: 16, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
32 6 0.04
33 86 0.57
34 29 0.19
35 2 0.01
38 2 0.01
39 22 0.15
40 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:90009 original size:53 final size:53
Alignment explanation
Indices: 89941--90106 Score: 273
Period size: 53 Copynumber: 3.2 Consensus size: 53
89931 GCAACGAGAG
* *
89941 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
*
89994 AATCGCAATGTGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
90047 AATTGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
90099 AATCGCAA
1 AATCGCAA
90107 CGAGAGAATC
Statistics
Matches: 106, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 15 0.14
53 90 0.85
54 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:90010 original size:19 final size:19
Alignment explanation
Indices: 89941--90144 Score: 178
Period size: 19 Copynumber: 11.7 Consensus size: 19
89931 GCAACGAGAG
89941 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
89960 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
89974 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
89994 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
90013 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
90027 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
90047 AATTGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
90066 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
90080 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
90099 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
90113 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
90132 AATCGCATTGCGA
1 AATCGCAATGCGA
90145 TTCTCTCGTT
Statistics
Matches: 149, Mismatches: 14, Indels: 44
0.72 0.07 0.21
Matches are distributed among these distances:
14 42 0.28
15 3 0.02
16 6 0.04
17 7 0.05
18 2 0.01
19 62 0.42
20 27 0.18
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:90084 original size:86 final size:88
Alignment explanation
Indices: 89927--90144 Score: 290
Period size: 86 Copynumber: 2.5 Consensus size: 88
89917 CGGAAATTAC
*
89927 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--ATGAAAATCGCAATGCGGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAA-GCGG-
*
89988 AATGAAAATCGCAATGTGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
*
90013 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATTGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG-AATGAAAATCGCAAGCGG
*
90076 -A-GAGAATCGCAATGCGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
* *
90099 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
90145 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
84 1 0.01
85 17 0.14
86 70 0.59
87 15 0.13
89 2 0.02
90 1 0.01
92 13 0.11
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.15
Consensus pattern (88 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAGCGGAA
TGAAAATCGCAATGCGAAATGAA
Found at i:90085 original size:14 final size:14
Alignment explanation
Indices: 90066--90120 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
90056 GCGAAATGAA
90066 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
90080 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
90099 AATCGCAACGAGAG
1 AATCGCAACGAGAG
90113 AATCGCAA
1 AATCGCAA
90121 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:90239 original size:19 final size:19
Alignment explanation
Indices: 90153--90231 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
90143 GATTCTCTCG
90153 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
90173 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
90192 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
90206 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
90225 TTGCGAT
1 TTGCGAT
90232 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.12
16 7 0.13
17 7 0.13
19 17 0.33
20 15 0.29
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:90357 original size:14 final size:14
Alignment explanation
Indices: 90338--90374 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
90328 CATCAATTAC
90338 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
90352 ACAAATCATCTTTT
1 ACAAATCAACTTTT
90366 ACAAATCAA
1 ACAAATCAA
90375 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:92336 original size:19 final size:19
Alignment explanation
Indices: 92294--92466 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
92284 TAGTTTACTT
* *
92294 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
92314 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
92333 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
92352 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
92371 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92390 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
92404 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92423 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
*
92437 TCGCAACGCAAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
92456 TCGCAATGCGA
1 TCGCAACGCGA
92467 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 6 0.05
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:92407 original size:14 final size:14
Alignment explanation
Indices: 92388--92444 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
92378 GCGAAATGAA
*
92388 AATCGCAACGACAG
1 AATCGCAACGAAAG
92402 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
92419 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
92435 AATCGCAACG
1 AATCGCAACG
92445 CAAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:92415 original size:33 final size:33
Alignment explanation
Indices: 92369--92461 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
92359 GCGAAACCAA
92369 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
92402 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
*
92435 AATCGCAACGCAAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
92462 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:92515 original size:19 final size:18
Alignment explanation
Indices: 92462--92552 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
92452 AAAATCGCAA
92462 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
92481 TGCGA-TTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
92494 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
92513 TGCGATTCT-TTT---GT
1 TGCGATTTTGTTTCGCGT
*
92527 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
92546 TGCGATT
1 TGCGATT
92553 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
13 8 0.14
14 13 0.22
15 2 0.03
16 3 0.05
17 5 0.08
18 3 0.05
19 25 0.42
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.48
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:92534 original size:33 final size:33
Alignment explanation
Indices: 92462--92584 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
92452 AAAATCGCAA
*
92462 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
* *
92494 TGCGATTTTGGTTTCGCGTTGCGATTCTTTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
**
92527 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
* *
92560 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
92585 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 26 0.32
33 42 0.52
34 12 0.15
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
Found at i:92748 original size:93 final size:93
Alignment explanation
Indices: 92632--92914 Score: 550
Period size: 93 Copynumber: 3.1 Consensus size: 93
92622 ATGGATTGCA
92632 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
92696 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
92724 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
92789 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
92817 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
92882 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
92910 TTACT
1 TTACT
92915 AAGCAATCTA
Statistics
Matches: 189, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
92 4 0.02
93 185 0.98
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:94630 original size:20 final size:20
Alignment explanation
Indices: 94599--94705 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 20
94589 TTTTGGTTGA
94599 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
94619 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
94639 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
94658 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
94673 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
94692 AATGAAAATCGCAA
1 AATGAAAATCGCAA
94706 TGCGATTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.41
20 17 0.23
21 12 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:94651 original size:21 final size:21
Alignment explanation
Indices: 94597--94661 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
94587 TCTTTTGGTT
94597 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
94618 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
94638 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
94659 GAA
1 GAA
94662 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:94741 original size:14 final size:14
Alignment explanation
Indices: 94722--94778 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
94712 TTTGGTTTCG
94722 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
94736 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
94755 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
94769 CGTTGCGATT
1 CGTTGCGATT
94779 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:94754 original size:33 final size:33
Alignment explanation
Indices: 94706--94785 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
94696 AAAATCGCAA
**
94706 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
94739 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
94772 TGCGATTTTCATTT
1 TGCGATTTTCATTT
94786 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:94791 original size:21 final size:21
Alignment explanation
Indices: 94766--94839 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
94756 GTTGCGATTC
94766 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
94787 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
94808 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
94829 TCTCGTTGCGA
1 TCTCGTTGCGA
94840 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:94961 original size:33 final size:33
Alignment explanation
Indices: 94919--94989 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
94909 AATACTAACT
*
94919 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
* *
94952 TGAAAATCGCAACAAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
94985 TGAAA
1 TGAAA
94990 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
Found at i:95394 original size:20 final size:20
Alignment explanation
Indices: 95369--95561 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
95359 CTTTAAAAAT
95369 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
95389 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
95409 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
95430 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
95450 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
95470 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
95490 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
95510 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
95530 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
95550 CGCGTTGCGATT
1 CGCGTTGCGATT
95562 CTGTAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:95579 original size:21 final size:20
Alignment explanation
Indices: 95555--95604 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
95545 ATATTCGCGT
95555 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
95576 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
95597 TGCGATTT
1 TGCGATTT
95605 TTCAAGAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:102336 original size:22 final size:22
Alignment explanation
Indices: 102308--102360 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
102298 CACTCTCCGG
102308 GGGCGCGTGGGGTGTGGTGAAA
1 GGGCGCGTGGGGTGTGGTGAAA
102330 GGGCGCGTGGGGTGTGGTGAAA
1 GGGCGCGTGGGGTGTGGTGAAA
102352 GGGCGCGTG
1 GGGCGCGTG
102361 AAAGGGTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.11, C:0.11, G:0.60, T:0.17
Consensus pattern (22 bp):
GGGCGCGTGGGGTGTGGTGAAA
Found at i:108753 original size:15 final size:16
Alignment explanation
Indices: 108728--108768 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
108718 AAGGTTGTTC
*
108728 GAAAG-AAAAAGAGA-
1 GAAAGAAAAAAGACAT
*
108742 GAGAGAAAAAAGACAT
1 GAAAGAAAAAAGACAT
108758 GAAAGAAAAAA
1 GAAAGAAAAAA
108769 ATGGAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 4 0.18
15 8 0.36
16 10 0.45
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (16 bp):
GAAAGAAAAAAGACAT
Found at i:129637 original size:35 final size:35
Alignment explanation
Indices: 129591--129663 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 35
129581 CAGTCATCAG
129591 TTACATTCTAAACCCCAAAATCCAAAATA-TTTCAA
1 TTACATTCTAAACCCCAAAATCCAAAATACTTT-AA
* *
129626 TTACATTCTAAACCTCAAATTCCAAAATACTTTAA
1 TTACATTCTAAACCCCAAAATCCAAAATACTTTAA
129661 TTA
1 TTA
129664 TATGCCCAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 32 0.91
36 3 0.09
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
TTACATTCTAAACCCCAAAATCCAAAATACTTTAA
Found at i:129680 original size:35 final size:35
Alignment explanation
Indices: 129591--129682 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
129581 CAGTCATCAG
* * *
129591 TTACATTCTAAACCCCAAAATCCAAAATATTTCAA
1 TTACATGCCAAACCCCAAATTCCAAAATATTTCAA
* * *
129626 TTACATTCTAAACCTCAAATTCCAAAATACTTT-AA
1 TTACATGCCAAACCCCAAATTCCAAAATA-TTTCAA
* *
129661 TTATATGCCCAACCCCAAATTC
1 TTACATGCCAAACCCCAAATTC
129683 ATAATTCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 46 0.94
36 3 0.06
ACGTcount: A:0.41, C:0.27, G:0.01, T:0.30
Consensus pattern (35 bp):
TTACATGCCAAACCCCAAATTCCAAAATATTTCAA
Found at i:130111 original size:148 final size:148
Alignment explanation
Indices: 129840--130129 Score: 481
Period size: 148 Copynumber: 2.0 Consensus size: 148
129830 TACTCAATTA
* **** *
129840 AGTTTATAAAATAGTTGACTCAAATTTTTTTTGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAAGAGTTGACTCAAAAAAATTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
* * *
129905 TTGAATTGAATTTTCGAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTAT
66 TTGAATTGAATTTTCGAGTTTCCGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
129970 TTGATTCTAATTCAGTTC
131 TTGATTCTAATTCAGTTC
129988 AGTTTATAAAAGAGTTGACTCAAAAAAATTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
1 AGTTTATAAAAGAGTTGACTCAAAAAAATTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
* *
130053 TTGAATTGCATTTTTGAGTTTCCGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
66 TTGAATTGAATTTTCGAGTTTCCGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
130118 TTGATTCTAATT
131 TTGATTCTAATT
130130 TAAATAGTTT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
148 131 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (148 bp):
AGTTTATAAAAGAGTTGACTCAAAAAAATTTCGATTTGAGTTTATAAAATTTAAATCAAGTCGAA
TTGAATTGAATTTTCGAGTTTCCGTTTAAATTTAATTATAAATATTTATAATACTATAATATTAT
TTGATTCTAATTCAGTTC
Found at i:130621 original size:35 final size:35
Alignment explanation
Indices: 130582--130661 Score: 142
Period size: 35 Copynumber: 2.3 Consensus size: 35
130572 GGGGTTGGGC
*
130582 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAAA
*
130617 ATGTAATTGAAGTATTTTGGAATTTGGGGTTTAAA
1 ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAAA
130652 ATGTAATTGA
1 ATGTAATTGA
130662 TGATTGTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (35 bp):
ATGTAATTGAAGTATTTTGGAATTTGAGGTTTAAA
Found at i:134177 original size:16 final size:15
Alignment explanation
Indices: 134156--134185 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
134146 AATTTTTAGT
134156 CTAATTTAATTTATTA
1 CTAATTT-ATTTATTA
134172 CTAATTTATTTATT
1 CTAATTTATTTATT
134186 TATTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
CTAATTTATTTATTA
Found at i:140792 original size:15 final size:15
Alignment explanation
Indices: 140772--140806 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
140762 AGGATCATGA
140772 GTTTCCTCATCTTTC
1 GTTTCCTCATCTTTC
140787 GTTTCCTCATCTTTC
1 GTTTCCTCATCTTTC
140802 GTTTC
1 GTTTC
140807 TTCCTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.31, G:0.09, T:0.54
Consensus pattern (15 bp):
GTTTCCTCATCTTTC
Found at i:144636 original size:73 final size:73
Alignment explanation
Indices: 144534--144794 Score: 210
Period size: 74 Copynumber: 3.6 Consensus size: 73
144524 TGCTTGGAGC
* * **
144534 GTGGGGGGAATCGGTACACCCTCATGGGGAATCGGTTCCCTAAGTGTAAAATTAAAATATTCGAC
1 GTGGGGGGAATCGATACCCCCTCGGGGGGAATCGGTTCCCTAAGTGTAAAATT-AAATATTCGAC
144599 CGTTGAACA
65 CGTTGAACA
* ** * * * * * *
144608 GTGGGGGGAATCGATACCCCCT-GGGGGGAATCGGTTCTCTCCGAGCACACTGT-TATTTCTCGG
1 GTGGGGGGAATCGATACCCCCTCGGGGGGAATCGGTTCCCTAAGTGTAAAAT-TAAATAT-TC-G
***
144671 A--GCAAAACCA
63 ACCGTTGAA-CA
* * * *
144681 TTTAGGGGGAATCGGTACCCCCT--TGGGGAATCGGTTCCCTAAGTGTAAAATTCAAATATTCGA
1 -GTGGGGGGAATCGATACCCCCTCGGGGGGAATCGGTTCCCTAAGTGTAAAATT-AAATATTCGA
144744 CCGTTGAACA
64 CCGTTGAACA
* * *
144754 GTGGGGGGAATCGATACCCCTTGGGGGGGAATCAGTTCCCT
1 GTGGGGGGAATCGATACCCCCTCGGGGGGAATCGGTTCCCT
144795 CTGGACAAAC
Statistics
Matches: 138, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
72 27 0.20
73 48 0.35
74 63 0.46
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (73 bp):
GTGGGGGGAATCGATACCCCCTCGGGGGGAATCGGTTCCCTAAGTGTAAAATTAAATATTCGACC
GTTGAACA
Found at i:150665 original size:21 final size:21
Alignment explanation
Indices: 150641--150681 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
150631 CCATGAATAA
* *
150641 TGCTACAGTGTACCGATGCAT
1 TGCTAAAGTGCACCGATGCAT
150662 TGCTAAAGTGCACCGATGCA
1 TGCTAAAGTGCACCGATGCA
150682 CAAAAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TGCTAAAGTGCACCGATGCAT
Found at i:151191 original size:9 final size:9
Alignment explanation
Indices: 151158--151190 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
151148 ATGAATCATA
151158 TCAATAAGT
1 TCAATAAGT
151167 TCAATAAGT
1 TCAATAAGT
*
151176 TCAATAGGT
1 TCAATAAGT
151185 TCAATA
1 TCAATA
151191 GCTCATGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (9 bp):
TCAATAAGT
Found at i:151297 original size:24 final size:24
Alignment explanation
Indices: 151270--151342 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
151260 AGCTCGTATA
151270 AATTTGCACCGAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
151294 AATTTGTC-CTGAAG-GACCGCGTAG
1 AATTTG-CACCGAAGTG-CCACGTAG
*
151318 AA-TTGCACCAAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
151341 AA
1 AA
151343 ATGTACTGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.43
24 21 0.52
25 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:151631 original size:30 final size:28
Alignment explanation
Indices: 151592--151659 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 28
151582 TCACATAGTG
*
151592 TATCTCATAGACATATCATTTCCATACCTT
1 TATCACATAGACATATCATTTCCATA-C-T
*
151622 TATCACATAGACATATCATTTTCATACT
1 TATCACATAGACATATCATTTCCATACT
151650 TATCACATAG
1 TATCACATAG
151660 CTCATATAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 11 0.31
29 1 0.03
30 24 0.67
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (28 bp):
TATCACATAGACATATCATTTCCATACT
Found at i:159158 original size:24 final size:24
Alignment explanation
Indices: 159131--159203 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
159121 AGCTAGTATA
*
159131 AATTTGCACCGATGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
159155 AATTTGTC-CTGAAG-GACCGCGTAG
1 AATTTG-CACCGAAGTG-CCACGTAG
*
159179 AA-TTGCACCAAAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
159202 AA
1 AA
159204 ATGTACCGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.44
24 20 0.51
25 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:159492 original size:30 final size:30
Alignment explanation
Indices: 159453--159522 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
159443 TCACATAGTG
* *
159453 TATCTCATAGACATATCATTTTCATACCTT
1 TATCACATAGACATATCATTTTCATACATT
159483 TATCACATAGACATATCATTTTCATACATT
1 TATCACATAGACATATCATTTTCATACATT
159513 TATCACATAG
1 TATCACATAG
159523 CTCATATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
TATCACATAGACATATCATTTTCATACATT
Found at i:159592 original size:25 final size:25
Alignment explanation
Indices: 159564--159625 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
159554 CATAATGCAT
159564 ATAATATGAATTCATG-TCATGTATC
1 ATAATATGAATT-ATGATCATGTATC
* *
159589 ATAATATGAAATGTGATCATGTATC
1 ATAATATGAATTATGATCATGTATC
*
159614 AAAATATTGAAT
1 ATAATA-TGAAT
159626 CTAGACTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.81
26 4 0.13
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (25 bp):
ATAATATGAATTATGATCATGTATC
Found at i:162911 original size:25 final size:25
Alignment explanation
Indices: 162864--162921 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
162854 CTGGGCTAAC
* *
162864 CGAGAATAAAAGAATACGAGTTAAT
1 CGAGAATGAAAGAATACGAGTTAAG
162889 CGAGAATGAAAGAATACCG-GTTAAG
1 CGAGAATGAAAGAATA-CGAGTTAAG
*
162914 GGAGAATG
1 CGAGAATG
162922 GGCAGAGAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.17
Consensus pattern (25 bp):
CGAGAATGAAAGAATACGAGTTAAG
Found at i:163827 original size:19 final size:20
Alignment explanation
Indices: 163793--163834 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
163783 CCGAAAATAT
163793 TAAAAAATTAACATTTTAAA
1 TAAAAAATTAACATTTTAAA
*
163813 TAAAAAA-TAATATTTTAAA
1 TAAAAAATTAACATTTTAAA
163832 TAA
1 TAA
163835 TTTTTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAAATTAACATTTTAAA
Found at i:165203 original size:4 final size:4
Alignment explanation
Indices: 165194--165222 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
165184 TAAATCGACA
165194 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
165223 GAAATGCCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:165916 original size:15 final size:15
Alignment explanation
Indices: 165896--165976 Score: 110
Period size: 15 Copynumber: 5.5 Consensus size: 15
165886 TGAGATCATA
165896 CCCGCCCCACATCCG
1 CCCGCCCCACATCCG
*
165911 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
**
165926 CCTTCCCCACATCCG
1 CCCGCCCCACATCCG
*
165941 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
*
165956 CCTG-CCCACATCCG
1 CCCGCCCCACATCCG
165970 CCCGCCC
1 CCCGCCC
165977 ACTAAATACC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
14 12 0.22
15 43 0.78
ACGTcount: A:0.10, C:0.65, G:0.15, T:0.10
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:165973 original size:29 final size:30
Alignment explanation
Indices: 165900--165976 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
165890 ATCATACCCG
165900 CCCCACATCCGCCCGCCCCGCATCCGCCTT
1 CCCCACATCCGCCCGCCCCGCATCCGCCTT
165930 CCCCACATCCGCCCGCCCCGCATCCGCC-T
1 CCCCACATCCGCCCGCCCCGCATCCGCCTT
*
165959 GCCCACATCCGCCCGCCC
1 CCCCACATCCGCCCGCCC
165977 ACTAAATACC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 18 0.39
30 28 0.61
ACGTcount: A:0.10, C:0.65, G:0.14, T:0.10
Consensus pattern (30 bp):
CCCCACATCCGCCCGCCCCGCATCCGCCTT
Found at i:167264 original size:16 final size:18
Alignment explanation
Indices: 167243--167276 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
167233 ATATTTATTC
167243 TATATT-TTTTTC-AAAT
1 TATATTATTTTTCTAAAT
167259 TATATTATTTTTCTAAAT
1 TATATTATTTTTCTAAAT
167277 ACATGAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTATTTTTCTAAAT
Found at i:174527 original size:22 final size:23
Alignment explanation
Indices: 174501--174547 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
174491 TTTTTTAAAG
174501 AATAAAAT-TATAAAAA-ATTATA
1 AATAAAATATATAAAAATATT-TA
*
174523 AATAAAATATTTAAAAATATTTA
1 AATAAAATATATAAAAATATTTA
174546 AA
1 AA
174548 ATCTTTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AATAAAATATATAAAAATATTTA
Found at i:178249 original size:76 final size:76
Alignment explanation
Indices: 178123--178274 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
178113 AAGAACTTAA
178123 ATAGTTTGAGACGGTTAGTTGGTGTATCTTTTGAGAGCCATACCACAGCCATACAGTGGTCAGAG
1 ATAGTTTGAGACGGTTAGTTGGTGTATCTTTTGAGAGCCATACCACAGCCATACAGTGGTCAGAG
178188 ATTGCAGGTGC
66 ATTGCAGGTGC
178199 ATAGTTTGAGACGGTTAGTTGGTGTATCTTTTGAGAGCCATACCACAGCCATACAGTGGTCAGAG
1 ATAGTTTGAGACGGTTAGTTGGTGTATCTTTTGAGAGCCATACCACAGCCATACAGTGGTCAGAG
178264 ATTGCAGGTGC
66 ATTGCAGGTGC
178275 CCGAAATTCT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (76 bp):
ATAGTTTGAGACGGTTAGTTGGTGTATCTTTTGAGAGCCATACCACAGCCATACAGTGGTCAGAG
ATTGCAGGTGC
Found at i:181361 original size:15 final size:15
Alignment explanation
Indices: 181333--181376 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
181323 ATGAAGAAAG
*
181333 AAAGGGAGAAGAAGA
1 AAAGGAAGAAGAAGA
*
181348 AAAGGAAGAAGAAGC
1 AAAGGAAGAAGAAGA
*
181363 AGAGAGAAGAAGAA
1 AAAG-GAAGAAGAA
181377 ACCGAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.61, C:0.02, G:0.36, T:0.00
Consensus pattern (15 bp):
AAAGGAAGAAGAAGA
Found at i:181437 original size:28 final size:32
Alignment explanation
Indices: 181404--181470 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 32
181394 TAGTTTAAAT
181404 TATTAG-TTG-GTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTGTTAGTTTAAGTTATATATTA
181432 TATTAGTTTGTTAGTTAGTTTAAGTTATATATTA
1 TATTAGTTTG-T-GTTAGTTTAAGTTATATATTA
181466 TATTA
1 TATTA
181471 TATGAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.18
29 3 0.09
32 11 0.33
33 1 0.03
34 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (32 bp):
TATTAGTTTGTGTTAGTTTAAGTTATATATTA
Found at i:184575 original size:33 final size:33
Alignment explanation
Indices: 184528--184600 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
184518 GATTTATTAT
* *
184528 TAAT-ATTTAATGATTTGATAGTAATGATTTAG
1 TAATGATTTAATGATTTGATACTAATGATTTAA
*
184560 TAATGATTTATTGATTTGATACTAATGATTTAA
1 TAATGATTTAATGATTTGATACTAATGATTTAA
184593 TAATGATT
1 TAATGATT
184601 ACTAATAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 4 0.11
33 33 0.89
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.48
Consensus pattern (33 bp):
TAATGATTTAATGATTTGATACTAATGATTTAA
Found at i:184598 original size:11 final size:11
Alignment explanation
Indices: 184535--184631 Score: 74
Period size: 11 Copynumber: 8.4 Consensus size: 11
184525 TATTAATATT
184535 TAATGATTTGATA
1 TAATGATTT-A-A
*
184548 GTAATGATTTAG
1 -TAATGATTTAA
184560 TAATGATTT-A
1 TAATGATTTAA
184570 T--TGATTTGATA
1 TAATGATTT-A-A
184581 CTAATGATTTAA
1 -TAATGATTTAA
184593 TAATGATTACTAA
1 TAATGATT--TAA
*
184606 TAATTATTTAA
1 TAATGATTTAA
*
184617 TAATGATTAAA
1 TAATGATTTAA
184628 TAAT
1 TAAT
184632 TTAATATAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
8 6 0.09
10 1 0.01
11 34 0.49
12 2 0.03
13 12 0.17
14 15 0.21
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (11 bp):
TAATGATTTAA
Found at i:184614 original size:24 final size:22
Alignment explanation
Indices: 184582--184632 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
184572 GATTTGATAC
*
184582 TAATGATTTAATAATGATTACTAA
1 TAATTATTTAATAATGATTA--AA
184606 TAATTATTTAATAATGATTAAA
1 TAATTATTTAATAATGATTAAA
184628 TAATT
1 TAATT
184633 TAATATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
24 19 0.73
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (22 bp):
TAATTATTTAATAATGATTAAA
Found at i:184641 original size:24 final size:23
Alignment explanation
Indices: 184590--184641 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
184580 ACTAATGATT
*
184590 TAATAATGATTACTAATAATTATT
1 TAATAATGATTAC-AATAATTATA
184614 TAATAATGATTA-AATAATTTAATA
1 TAATAATGATTACAATAA-TT-ATA
184638 TAAT
1 TAAT
184642 TTATTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 5 0.20
23 2 0.08
24 18 0.72
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
TAATAATGATTACAATAATTATA
Found at i:185854 original size:23 final size:21
Alignment explanation
Indices: 185823--185865 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
185813 ATAACAATAA
*
185823 AGTTGATTTAAATTAAATAATTT
1 AGTTAATTTAAA-T-AATAATTT
185846 AGTTAATTTAAATAATAATT
1 AGTTAATTTAAATAATAATT
185866 AATAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
AGTTAATTTAAATAATAATTT
Found at i:187861 original size:31 final size:31
Alignment explanation
Indices: 187826--187892 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
187816 GCCCCTACTG
187826 CATGGCGACATACCTTGCTTCGCCTCGCCTA
1 CATGGCGACATACCTTGCTTCGCCTCGCCTA
* *
187857 CATGGTGACATACCTTGCTTCGCTTCGCCTA
1 CATGGCGACATACCTTGCTTCGCCTCGCCTA
187888 CATGG
1 CATGG
187893 AAACCAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.16, C:0.34, G:0.21, T:0.28
Consensus pattern (31 bp):
CATGGCGACATACCTTGCTTCGCCTCGCCTA
Found at i:192878 original size:18 final size:18
Alignment explanation
Indices: 192855--192890 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
192845 AAGTGTGATA
192855 TTCGGGTTGGGTTTAGGG
1 TTCGGGTTGGGTTTAGGG
192873 TTCGGGTTGGGTTTAGGG
1 TTCGGGTTGGGTTTAGGG
192891 GTTTTAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.50, T:0.39
Consensus pattern (18 bp):
TTCGGGTTGGGTTTAGGG
Found at i:193407 original size:18 final size:18
Alignment explanation
Indices: 193368--193474 Score: 171
Period size: 18 Copynumber: 6.0 Consensus size: 18
193358 GTTTTAGATT
* *
193368 CAGATTCCAATTCC-TGA
1 CAGATTTCAATTCCTTCA
*
193385 CAGATTCCAATTCCTTCA
1 CAGATTTCAATTCCTTCA
193403 CAGATTTCAATTCCTTCA
1 CAGATTTCAATTCCTTCA
*
193421 CAGATTTCAATTACTTCA
1 CAGATTTCAATTCCTTCA
193439 CAGATTTCAATTCCTTCA
1 CAGATTTCAATTCCTTCA
193457 CAGATTTCAATTCCTTCA
1 CAGATTTCAATTCCTTCA
193475 GAAACATTAC
Statistics
Matches: 85, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
17 14 0.16
18 71 0.84
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (18 bp):
CAGATTTCAATTCCTTCA
Found at i:201241 original size:29 final size:29
Alignment explanation
Indices: 201208--201271 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
201198 CGTGCCTAAT
201208 TGAAAAGTTGAATTCAAAAATAAAAGAAA
1 TGAAAAGTTGAATTCAAAAATAAAAGAAA
201237 TGAAAAGTTGAATTCAAAAATAAAAGAAA
1 TGAAAAGTTGAATTCAAAAATAAAAGAAA
*
201266 AGAAAA
1 TGAAAA
201272 TATTCAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.64, C:0.03, G:0.14, T:0.19
Consensus pattern (29 bp):
TGAAAAGTTGAATTCAAAAATAAAAGAAA
Found at i:202448 original size:67 final size:67
Alignment explanation
Indices: 202377--202513 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
202367 ATGAGTCAAT
202377 TTTTTTTATGATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAG
1 TTTTTTTATGATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAG
202442 CA
66 CA
* *
202444 TTTTTTTATGATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTTTTTACTCTTGTACAAG
1 TTTTTTTATGATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAG
202509 CA
66 CA
202511 TTT
1 TTT
202514 GTTGATCTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (67 bp):
TTTTTTTATGATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAG
CA
Found at i:202526 original size:67 final size:67
Alignment explanation
Indices: 202387--202531 Score: 227
Period size: 67 Copynumber: 2.2 Consensus size: 67
202377 TTTTTTTATG
* *
202387 ATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAGCATTTTTTTA
1 ATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAGCATTTGTTGA
*
202452 TG
66 TC
* *
202454 ATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTTTTTACTCTTGTACAAGCATTTGTTGA
1 ATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAGCATTTGTTGA
202519 TC
66 TC
* *
202521 TTAATTTAATT
1 ATAATTCAATT
202532 GAATTATTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (67 bp):
ATAATTCAATTTTGATTTAAATGACTAAATGGCATTTTCTTTACTCTTGTAAAAGCATTTGTTGA
TC
Found at i:204369 original size:14 final size:14
Alignment explanation
Indices: 204352--204380 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
204342 ATTTCTCTTC
204352 AGATTTATCTCTAT
1 AGATTTATCTCTAT
204366 AGATTTATCTCTAT
1 AGATTTATCTCTAT
204380 A
1 A
204381 AATCAGTTTT
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:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (14 bp):
AGATTTATCTCTAT
Found at i:207506 original size:15 final size:16
Alignment explanation
Indices: 207485--207524 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
207475 ATGTAGTTAA
*
207485 AATTATTTTGTATTTT
1 AATTATTTTGTATATT
*
207501 AA-TATTTAGTATATT
1 AATTATTTTGTATATT
207516 AATTATTTT
1 AATTATTTT
207525 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
AATTATTTTGTATATT
Found at i:215969 original size:21 final size:22
Alignment explanation
Indices: 215930--215973 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
215920 TTTTCTTTAT
* *
215930 TCTTTTTTTCCTTTCTTTTCTC
1 TCTTTCTTTCCTTTATTTTCTC
215952 TCTTTCTTT-CTTTATTTTCTC
1 TCTTTCTTTCCTTTATTTTCTC
215973 T
1 T
215974 ATTTTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (22 bp):
TCTTTCTTTCCTTTATTTTCTC
Found at i:217924 original size:2 final size:2
Alignment explanation
Indices: 217917--217944 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
217907 TGGAGTTATG
217917 AT 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 AT
217945 GAAAATGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:218337 original size:23 final size:24
Alignment explanation
Indices: 218298--218350 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
218288 TCTTTCGGGA
218298 CATAGTGGTTCTCCGGGAC-ATTT
1 CATAGTGGTTCTCCGGGACAATTT
*
218321 CATAGTGG-TCATTCGGGACAAATTT
1 CATAGTGGTTC-TCCGGGAC-AATTT
218346 CATAG
1 CATAG
218351 CCCCTAGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.08
23 15 0.58
25 9 0.35
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (24 bp):
CATAGTGGTTCTCCGGGACAATTT
Found at i:220770 original size:22 final size:23
Alignment explanation
Indices: 220745--220797 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
220735 TTAAAAGGTC
220745 AGAGGAAAATGCAGCATCGAA-G
1 AGAGGAAAATGCAGCATCGAATG
220767 AGAGGAAAATGCAGCATCGAATG
1 AGAGGAAAATGCAGCATCGAATG
220790 AGA-GAAAA
1 AGAGGAAAA
220798 GACATGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.49, C:0.11, G:0.30, T:0.09
Consensus pattern (23 bp):
AGAGGAAAATGCAGCATCGAATG
Found at i:222633 original size:2 final size:2
Alignment explanation
Indices: 222626--222673 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
222616 TGGAGTTATG
222626 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
222668 AT AT AT
1 AT AT AT
222674 GTAGACTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:225453 original size:29 final size:29
Alignment explanation
Indices: 225390--225453 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
225380 AACAAAGTAC
* *
225390 AAAACAAGACAAAAGGAAATCAAGTTAGT
1 AAAATAAGACAAAAAGAAATCAAGTTAGT
225419 AGAAATAAGACAAAAAG-AATCAAGTTAGTT
1 A-AAATAAGACAAAAAGAAATCAAGTTAG-T
225449 AAAAT
1 AAAAT
225454 GATTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.17
Consensus pattern (29 bp):
AAAATAAGACAAAAAGAAATCAAGTTAGT
Found at i:234392 original size:23 final size:24
Alignment explanation
Indices: 234361--234407 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
234351 AATATGTATA
* *
234361 TGGTTCTTAAGGAGA-TTTATATG
1 TGGTCCTTAAGGACATTTTATATG
*
234384 TGGTCCTTATGGACATTTTATATG
1 TGGTCCTTAAGGACATTTTATATG
234408 GGACTTCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (24 bp):
TGGTCCTTAAGGACATTTTATATG
Found at i:235287 original size:16 final size:15
Alignment explanation
Indices: 235266--235308 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
235256 CCTAAGACCT
235266 AAGTGTAAAAAATCTA
1 AAGTGTAAAAAA-CTA
**
235282 AAGTGT-AAGGACTA
1 AAGTGTAAAAAACTA
235296 AAGTGTAAAAAAC
1 AAGTGTAAAAAAC
235309 CCTATAGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 9 0.41
15 7 0.32
16 6 0.27
ACGTcount: A:0.53, C:0.07, G:0.19, T:0.21
Consensus pattern (15 bp):
AAGTGTAAAAAACTA
Found at i:235358 original size:29 final size:29
Alignment explanation
Indices: 235323--235386 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
235313 TAGTATACAT
*
235323 ACTAAGGTGTCAAAAA-CTAAAGTCTAGGG
1 ACTAAGGTGT-AAAAATATAAAGTCTAGGG
*
235352 GCTAAGGTGTAAAAATATAAAGTCTAGGG
1 ACTAAGGTGTAAAAATATAAAGTCTAGGG
235381 ACTAAG
1 ACTAAG
235387 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (29 bp):
ACTAAGGTGTAAAAATATAAAGTCTAGGG
Found at i:238791 original size:8 final size:8
Alignment explanation
Indices: 238778--238802 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
238768 AACTTCAAAC
238778 TCCAAATT
1 TCCAAATT
238786 TCCAAATT
1 TCCAAATT
238794 TCCAAATT
1 TCCAAATT
238802 T
1 T
238803 TAAAATAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (8 bp):
TCCAAATT
Found at i:242352 original size:17 final size:17
Alignment explanation
Indices: 242330--242363 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
242320 ATCAGATGAT
242330 TTTCCAATTATTAGATA
1 TTTCCAATTATTAGATA
242347 TTTCCAATTATTAGATA
1 TTTCCAATTATTAGATA
242364 ATTACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTCCAATTATTAGATA
Found at i:248867 original size:253 final size:253
Alignment explanation
Indices: 248419--248925 Score: 998
Period size: 253 Copynumber: 2.0 Consensus size: 253
248409 CCTCGATGCA
248419 GTTACTATTCCGCGAGCAATAGGGTCAAGAAACCGTAACTTGTGAGTGTTGCTTGCACAAAATTT
1 GTTACTATTCCGCGAGCAATAGGGTCAAGAAACCGTAACTTGTGAGTGTTGCTTGCACAAAATTT
248484 GTACCCATCAGACCAGTCACTACGACTGCAGCAGCTGTGAGAGATGCATTGGCACCTACAAGTAA
66 GTACCCATCAGACCAGTCACTACGACTGCAGCAGCTGTGAGAGATGCATTGGCACCTACAAGTAA
248549 TAATGACAAGTTATCATATCCAGTGAAATGAATCCAACAAATGTTATACTGATAACAATTGGAAC
131 TAATGACAAGTTATCATATCCAGTGAAATGAATCCAACAAATGTTATACTGATAACAATTGGAAC
248614 ATG-TTTAATTACCTTTTCTGGGCTCCCAGAAAGAAAAATTTTCATCTTACTACCCTCT
196 ATGTTTTAATTACCTTTTCTGGGCTCCCAGAAAG-AAAATTTTCATCTTACTACCCTCT
248672 GTTACTATTCCGCGAGCAATAGGGTCAAGAAACCGTAACTTGTGAGTGTTGCTTGCACAAAATTT
1 GTTACTATTCCGCGAGCAATAGGGTCAAGAAACCGTAACTTGTGAGTGTTGCTTGCACAAAATTT
248737 GTACCCATCAGACCAGTCACTACGACTGCAGCAGCTGTGAGAGATGCATTGGCACCTACAAGTAA
66 GTACCCATCAGACCAGTCACTACGACTGCAGCAGCTGTGAGAGATGCATTGGCACCTACAAGTAA
248802 TAATGACAAGTTATCATATCCAGTGAAATGAATCCAACAAATGTTATACTGATAACAATTGGAAC
131 TAATGACAAGTTATCATATCCAGTGAAATGAATCCAACAAATGTTATACTGATAACAATTGGAAC
248867 ATGTTTTAATTACCTTTTCTGGGCTCCCAGAAAGAAAATTTTCATCTTACTACCCTCT
196 ATGTTTTAATTACCTTTTCTGGGCTCCCAGAAAGAAAATTTTCATCTTACTACCCTCT
248925 G
1 G
248926 CAGGCTACAA
Statistics
Matches: 253, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
253 223 0.88
254 30 0.12
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (253 bp):
GTTACTATTCCGCGAGCAATAGGGTCAAGAAACCGTAACTTGTGAGTGTTGCTTGCACAAAATTT
GTACCCATCAGACCAGTCACTACGACTGCAGCAGCTGTGAGAGATGCATTGGCACCTACAAGTAA
TAATGACAAGTTATCATATCCAGTGAAATGAATCCAACAAATGTTATACTGATAACAATTGGAAC
ATGTTTTAATTACCTTTTCTGGGCTCCCAGAAAGAAAATTTTCATCTTACTACCCTCT
Found at i:251282 original size:20 final size:20
Alignment explanation
Indices: 251145--251293 Score: 110
Period size: 20 Copynumber: 7.6 Consensus size: 20
251135 AAATGACCAA
251145 CAAATTCGCAACGCGAA-TT
1 CAAATTCGCAACGCGAATTT
* * * *
251164 CAATTTCACAAC-CCAGTTT
1 CAAATTCGCAACGCGAATTT
* *
251183 CCAATTTCGCAACGCG-ATAGT
1 -CAAATTCGCAACGCGAAT-TT
* **
251204 CAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAATTT
* **
251224 CAAATTCGCAACGCAAAAAT
1 CAAATTCGCAACGCGAATTT
*
251244 CAAATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
*
251263 CAAATTCGCAACACGAATTT
1 CAAATTCGCAACGCGAATTT
*
251283 -AATTTCGCAAC
1 CAAATTCGCAAC
251294 AGGTTTTAGT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
18 2 0.02
19 37 0.36
20 62 0.60
21 3 0.03
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:252235 original size:24 final size:24
Alignment explanation
Indices: 252184--252237 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
252174 GTATTCGAAA
*
252184 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* * *
252208 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
252232 TTTGAT
1 TTTGAT
252238 GACGTGATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:254352 original size:18 final size:18
Alignment explanation
Indices: 254325--254360 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
254315 CAAGCAAAAG
* *
254325 GAAATCAAAATCAAAATC
1 GAAATAAAAATAAAAATC
254343 GAAATAAAAATAAAAATC
1 GAAATAAAAATAAAAATC
254361 CCAATCACAA
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:0.67, C:0.11, G:0.06, T:0.17
Consensus pattern (18 bp):
GAAATAAAAATAAAAATC
Found at i:254747 original size:20 final size:20
Alignment explanation
Indices: 254686--254747 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
254676 CGCGAAATAA
* *
254686 GCGTTGCTAATTTGACTATT
1 GCGTTGCGAATTTGACTATC
* * *
254706 GCGTAGTGAATTTGACTTTC
1 GCGTTGCGAATTTGACTATC
254726 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
254746 GC
1 GC
254748 AACGCTTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.39
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:254876 original size:25 final size:25
Alignment explanation
Indices: 254838--254887 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
254828 AAATCAATTA
*
254838 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
254863 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
254888 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Done.