Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008980.1 Hibiscus syriacus cultivar Beakdansim tig00112342_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: 184855
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 2
Found at i:275 original size:82 final size:79
Alignment explanation
Indices: 139--482 Score: 402
Period size: 82 Copynumber: 4.3 Consensus size: 79
129 GCCTCTAATA
*
139 TAATCGAACTCGAAGGTCTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TAATCGAACTCGAAGGTCTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
204 CCTCGAAGCTTGAGTG
66 CCTCG-AGC-TGAGTG
** *
220 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
1 TAATCGAACTCGAAGGTC-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
* * *
285 CCGTTGAGCTGAGCG
65 CCCTCGAGCTGAGTG
* * * * * * * *
300 TAGTCAAACTCGAAGGTCTTTTGGTCACAGATA-ACCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 TAATCGAACTCGAAGGTC--TTGG---CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
*
364 TGTGCCCTCGGAGCTGAGTA
61 TGTGCCCTC-GAGCTGAGTG
*
384 TAATCGAACCCGAAGGTCTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
1 TAATCGAACTCGAAGGTCTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
* * *
449 CTTGGAGCTGAGCG
66 CCTCGAGCTGAGTG
* *
463 TAGTCGAACTCAAAGGTCTT
1 TAATCGAACTCGAAGGTCTT
483 TGGTTGGCAG
Statistics
Matches: 218, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
79 31 0.14
80 51 0.23
81 24 0.11
82 52 0.24
83 31 0.14
84 29 0.13
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (79 bp):
TAATCGAACTCGAAGGTCTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
CCTCGAGCTGAGTG
Found at i:424 original size:163 final size:165
Alignment explanation
Indices: 185--483 Score: 487
Period size: 163 Copynumber: 1.8 Consensus size: 165
175 CGACTTAAGC
* * **
185 TATGCTGCAAATGATGTGCCCTCGAAGCTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAG
1 TATGCTGCAAATGATGTGCCCTCGAAGCTTGAGTATAATCGAACCCGAAGGTCTTTGGCAGATAG
*
250 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCGTT-GAGCTGAGCGTAGTCAAACTCGAA
66 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCC-TTGGAGCTGAGCGTAGTCAAACTCAAA
314 GGTCTTTTGGTCACAGATAACCTTCTAGCCTTGAGT
130 GGTCTTTTGGTCACAGATAACCTTCTAGCCTTGAGT
* *
350 TATGCTGTAAATGATGTGCCCTCGGAGC-TGAGTATAATCGAACCCGAAGGTC-TTGGCAGATAG
1 TATGCTGCAAATGATGTGCCCTCGAAGCTTGAGTATAATCGAACCCGAAGGTCTTTGGCAGATAG
* *
413 CCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAG
66 CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAG
478 GTCTTT
131 GTCTTT
484 GGTTGGCAGA
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
162 2 0.02
163 76 0.61
164 20 0.16
165 26 0.21
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (165 bp):
TATGCTGCAAATGATGTGCCCTCGAAGCTTGAGTATAATCGAACCCGAAGGTCTTTGGCAGATAG
CCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCAAAG
GTCTTTTGGTCACAGATAACCTTCTAGCCTTGAGT
Found at i:868 original size:105 final size:105
Alignment explanation
Indices: 684--1836 Score: 1807
Period size: 105 Copynumber: 11.0 Consensus size: 105
674 TATTGTTCCA
* ** * * *
684 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTG-GAAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAA-TGTTTGTTGACAA
*
748 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
790 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATGTTTGCTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
*
855 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
895 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAAC
*
960 CAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG-CTTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
*
1001 AGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA-GTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
* *
1064 AGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
1104 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAAC
*
1169 CAGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1209 AGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAAC
*
1274 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1315 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGT-TTGTTGACAAC
*
1379 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACG-TGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1419 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
*
1484 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * * *
1524 AGTCCAATATCCTTCGTTGTGAAGACGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAGCC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1589 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
1629 AGTCCAATATCCTTCGTTATGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
*
1694 AGCGGTCCCTTCGTCGTGAAGTTGCACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1734 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
*
1799 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1837 TGAGCGACCC
Statistics
Matches: 967, Mismatches: 69, Indels: 23
0.91 0.07 0.02
Matches are distributed among these distances:
103 92 0.10
104 102 0.11
105 540 0.56
106 232 0.24
107 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1305 original size:314 final size:315
Alignment explanation
Indices: 684--1836 Score: 1825
Period size: 314 Copynumber: 3.7 Consensus size: 315
674 TATTGTTCCA
* ** * * * * *
684 AGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTATGGAACTGGAAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAA-TGTTTATTGACAAC
* *
749 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
814 TTGAAATTGACTCTGAAATCGAGAAATGTTTGCTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGACTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
879 AACTTGTGTTGTCTGGAGTCCAATATCCTTCG-CTGTGAAGTTGAAATTGGCTCTGAAATTGGGA
194 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTC-GTGAAGTTGAAATTGGCTCTGAAATTGGGA
*
943 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTG-CTTGG
258 AGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
* *
1001 AGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTTGTTGACAACCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTATTGACAACCA
* *
1065 GCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
* * *
1130 GAAATTGACTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGA
131 GAAATTGACTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* * *
1194 ACTTGCGTTATCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTATGAAATTGAGAAG
195 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
*
1259 TTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
260 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
1315 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATG-T-TTATTGACAAC
1379 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACG-TGTCTGGAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1443 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGACTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
* * **
1508 AACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGACGAAATTGGCTCTGAAATTGGGAA
194 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
* * *
1573 -ATGTTTATTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
259 GTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1629 AGTCCAATATCCTTCGTTATGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AATGTTTATTGACAACC
* *
1694 AGCGGTCCCTTCGTCGTGAAGTTGCACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
1759 TGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGACTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
1824 ACTTGCATTGTCT
195 ACTTGCGTTGTCT
1837 TGAGCGACCC
Statistics
Matches: 779, Mismatches: 48, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
314 433 0.56
315 262 0.34
316 51 0.07
317 33 0.04
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (315 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTATTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGACTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGGAGTCCAATATCCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:5688 original size:14 final size:14
Alignment explanation
Indices: 5666--5701 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5656 ACTAAAAAAT
*
5666 AAAAAAATAATAAC
1 AAAATAATAATAAC
*
5680 AAAATAATAATAAT
1 AAAATAATAATAAC
5694 AAAATAAT
1 AAAATAAT
5702 TAAATAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAATAATAAC
Found at i:5699 original size:8 final size:8
Alignment explanation
Indices: 5661--5707 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
5651 TTGTAACTAA
*
5661 AAAATAAA
1 AAAATAAT
5669 AAAATAAT
1 AAAATAAT
5677 AACAA-AAT
1 AA-AATAAT
5685 AATAATAAT
1 AA-AATAAT
5694 AAAATAAT
1 AAAATAAT
*
5702 TAAATA
1 AAAATA
5708 GAGATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:5699 original size:11 final size:11
Alignment explanation
Indices: 5658--5707 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
5648 ATATTGTAAC
5658 TAAAA-AATAA
1 TAAAATAATAA
*
5668 AAAAATAATAA
1 TAAAATAATAA
*
5679 CAAAATAATAA
1 TAAAATAATAA
5690 TAATAA-AATAA
1 TAA-AATAATAA
*
5701 TTAAATA
1 TAAAATA
5708 GAGATAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
10 6 0.18
11 25 0.76
12 2 0.06
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:5850 original size:4 final size:4
Alignment explanation
Indices: 5827--5862 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
5817 TATATCTAGG
* *
5827 TAAA TGAA TAAA TAAT TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
5863 AGGGACTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:7017 original size:7 final size:7
Alignment explanation
Indices: 7005--7064 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
6995 AAAACGATAA
7005 AATAAAT
1 AATAAAT
7012 AAT-AA-
1 AATAAAT
*
7017 AACAAA-
1 AATAAAT
*
7023 AACAAAT
1 AATAAAT
7030 AATAAAT
1 AATAAAT
7037 AATAAAT
1 AATAAAT
7044 AATAAAT
1 AATAAAT
*
7051 AAATAAAG
1 -AATAAAT
7059 AATAAA
1 AATAAA
7065 ATACTATATG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
5 2 0.04
6 10 0.21
7 29 0.62
8 6 0.13
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (7 bp):
AATAAAT
Found at i:7051 original size:18 final size:18
Alignment explanation
Indices: 7003--7064 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
6993 AAAAAACGAT
7003 AAAATAAATAATAAA-ACA
1 AAAATAAATAATAAATA-A
*
7021 AAAACAAATAATAAATAA
1 AAAATAAATAATAAATAA
*
7039 TAAAT-AATAAATAAATAA
1 AAAATAAAT-AATAAATAA
*
7057 AGAATAAA
1 AAAATAAA
7065 ATACTATATG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 3 0.08
18 30 0.83
19 3 0.08
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAATAATAAATAA
Found at i:7214 original size:31 final size:33
Alignment explanation
Indices: 7149--7223 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
7139 TATAAATTTA
*
7149 AAAAACGTTTTAAAACTATATGTTATAGTTTTC
1 AAAAACGTTTTAAAACTATATGTTATAGTATTC
7182 AAAAACGTTTTAAAACTATA--TTATA-TGATTC
1 AAAAACGTTTTAAAACTATATGTTATAGT-ATTC
*
7213 AAAAATGTTTT
1 AAAAACGTTTT
7224 TTTAACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
30 1 0.03
31 18 0.46
33 20 0.51
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (33 bp):
AAAAACGTTTTAAAACTATATGTTATAGTATTC
Found at i:7266 original size:35 final size:37
Alignment explanation
Indices: 7079--7406 Score: 119
Period size: 35 Copynumber: 9.3 Consensus size: 37
7069 TATATGATAA
* * *
7079 AAAATG-TTTT-AAAACTTTATATAATATATA-TTTC
1 AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
* * * **
7113 AAAGATATTTTCAAAATC-ATATATTATATAAATTTAA
1 AAA-ATGTTTTTAAAAACTATATATTATATAAATTTTC
* * *
7150 AAAACG-TTTT-AAAACTATAT-GT-TAT-AGTTTTC
1 AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
* *
7182 AAAAACG-TTTT-AAAAC--TATATTATAT-GA--TTC
1 -AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
**
7213 AAAAATGTTTTT-TTAACTATATATTATATAAATTTT-
1 -AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
* * *
7249 AAAAT-TATTTT-ACAACTATATCTTATATAAGTTTTC
1 AAAATGT-TTTTAAAAACTATATATTATATAAATTTTC
***
7285 AAAATGGTTTTTAAAAACTATATA-TATATATGGTTTC
1 AAAAT-GTTTTTAAAAACTATATATTATATAAATTTTC
**** * * * **
7322 AAAAAAAAATTCAAAAATTATATAATATATATGTTTTC
1 -AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
* *
7360 AAGAAATGTTTTCAAAAAGC-AAATATTATAT--ATTTTC
1 -A-AAATGTTTTTAAAAA-CTATATATTATATAAATTTTC
7397 AAAATGTTTT
1 AAAATGTTTT
7407 CTTTTTAGAA
Statistics
Matches: 225, Mismatches: 46, Indels: 45
0.71 0.15 0.14
Matches are distributed among these distances:
31 12 0.05
32 12 0.05
33 21 0.09
34 19 0.08
35 48 0.21
36 21 0.09
37 44 0.20
38 28 0.12
39 20 0.09
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (37 bp):
AAAATGTTTTTAAAAACTATATATTATATAAATTTTC
Found at i:7791 original size:13 final size:11
Alignment explanation
Indices: 7763--7805 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
7753 TTATACAACG
*
7763 AATATAAAATA
1 AATAAAAAATA
7774 AATAAAAAGATAA
1 AATAAAAA-AT-A
7787 AATAAGAAAATA
1 AATAA-AAAATA
7799 AATAAAA
1 AATAAAA
7806 TAATGAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 8 0.29
13 8 0.29
14 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (11 bp):
AATAAAAAATA
Found at i:7819 original size:17 final size:17
Alignment explanation
Indices: 7766--7808 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
7756 TACAACGAAT
7766 ATAAAATAA-ATAAA-AA
1 ATAAAATAAGA-AAATAA
7782 GATAAAATAAGAAAATAA
1 -ATAAAATAAGAAAATAA
7800 ATAAAATAA
1 ATAAAATAA
7809 TGAAGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
ATAAAATAAGAAAATAA
Found at i:12434 original size:9 final size:9
Alignment explanation
Indices: 12402--12474 Score: 74
Period size: 10 Copynumber: 7.7 Consensus size: 9
12392 CTGCTGGAAA
12402 ACCGGTTTG
1 ACCGGTTTG
*
12411 ACCAGTTTTG
1 ACC-GGTTTG
12421 AACCGGTTTG
1 -ACCGGTTTG
*
12431 ACCGGTTCG
1 ACCGGTTTG
12440 AACCGGTTTG
1 -ACCGGTTTG
* *
12450 ACCAGTCTG
1 ACCGGTTTG
12459 AACCGGTTTG
1 -ACCGGTTTG
12469 ACCGGT
1 ACCGGT
12475 CTAAACCAGG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
9 24 0.46
10 25 0.48
11 3 0.06
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:12476 original size:19 final size:19
Alignment explanation
Indices: 12401--12490 Score: 103
Period size: 19 Copynumber: 4.7 Consensus size: 19
12391 GCTGCTGGAA
* *
12401 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTCTG
12421 AACCGGTTTGACCGGT-TCG
1 AACCGGTTTGACCGGTCT-G
*
12440 AACCGGTTTGACCAGTCTG
1 AACCGGTTTGACCGGTCTG
*
12459 AACCGGTTTGACCGGTCTA
1 AACCGGTTTGACCGGTCTG
12478 AACCAGG-TTGACC
1 AACC-GGTTTGACC
12491 CGACCCGACT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
18 1 0.02
19 46 0.73
20 16 0.25
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:12489 original size:38 final size:39
Alignment explanation
Indices: 12400--12490 Score: 125
Period size: 38 Copynumber: 2.4 Consensus size: 39
12390 AGCTGCTGGA
*
12400 AAACCGGTTTGACCAGTTTTGAACCGGTTTGACCGGTTC
1 AAACCGGTTTGACCAGTTCTGAACCGGTTTGACCGGTTC
*
12439 GAACCGGTTTGACCAG-TCTGAACCGGTTTGACCGG-TC
1 AAACCGGTTTGACCAGTTCTGAACCGGTTTGACCGGTTC
12476 TAAACCAGG-TTGACC
1 -AAACC-GGTTTGACC
12491 CGACCCGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
37 2 0.04
38 28 0.60
39 17 0.36
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (39 bp):
AAACCGGTTTGACCAGTTCTGAACCGGTTTGACCGGTTC
Found at i:12506 original size:17 final size:17
Alignment explanation
Indices: 12484--12542 Score: 100
Period size: 17 Copynumber: 3.4 Consensus size: 17
12474 TCTAAACCAG
*
12484 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
12501 GTTGACCCGACCCCGACC
1 GTTGACCCGA-CCCGACC
12519 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
12536 GTTGACC
1 GTTGACC
12543 GTTGACCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 24 0.60
18 16 0.40
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:12542 original size:7 final size:7
Alignment explanation
Indices: 12532--12568 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
12522 GACCCGACCC
12532 GACCGTT
1 GACCGTT
12539 GACCGTT
1 GACCGTT
12546 GACCG-T
1 GACCGTT
12552 GACCGTT
1 GACCGTT
12559 GACCGTT
1 GACCGTT
12566 GAC
1 GAC
12569 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:12556 original size:13 final size:13
Alignment explanation
Indices: 12532--12564 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12522 GACCCGACCC
12532 GACCGTTGACCGTT
1 GACCG-TGACCGTT
12546 GACCGTGACCGTT
1 GACCGTGACCGTT
12559 GACCGT
1 GACCGT
12565 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:13505 original size:63 final size:63
Alignment explanation
Indices: 13437--13560 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
13427 CTAATGTGAC
* * *
13437 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTG
13499 T
63 T
* *
13500 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
13561 TCCCTTAGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 48 0.91
64 4 0.08
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:13520 original size:32 final size:32
Alignment explanation
Indices: 13437--13560 Score: 80
Period size: 31 Copynumber: 4.0 Consensus size: 32
13427 CTAATGTGAC
* * *
13437 TCTTAGGTAGGCTCT-GCGGCCCTGAGAT-CA
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
** * * *
13467 TTCTCGGGTAGGCCCT-GCGGCCCTAAGATGTGT
1 -TCTTAGGTAGGCTCTCACGGCCCTAAGATGT-A
* *
13500 TCTTAGGTAGGC-CTCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCTCTCACGG-CCCTAAGATGTA
*
13531 TCTTGGGTAGGCTCTCA-GGCCCTAAGATGT
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGT
13561 TCCCTTAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
30 5 0.07
31 42 0.58
32 20 0.28
33 5 0.07
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (32 bp):
TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
Found at i:19811 original size:17 final size:17
Alignment explanation
Indices: 19777--19831 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
19767 GACCCAACCC
* *
19777 GACCCGACCTGACTGTT
1 GACCCGACCCGACCGTT
*
19794 GACCCAACCCGACCGTT
1 GACCCGACCCGACCGTT
19811 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
19828 GACC
1 GACC
19832 GTTGACCGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.20, C:0.44, G:0.22, T:0.15
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:19831 original size:7 final size:7
Alignment explanation
Indices: 19821--19857 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
19811 GACCCGACCC
19821 GACCGTT
1 GACCGTT
19828 GACCGTT
1 GACCGTT
19835 GACCG-T
1 GACCGTT
19841 GACCGTT
1 GACCGTT
19848 GACCGTT
1 GACCGTT
19855 GAC
1 GAC
19858 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:19845 original size:13 final size:13
Alignment explanation
Indices: 19821--19853 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19811 GACCCGACCC
19821 GACCGTTGACCGTT
1 GACCG-TGACCGTT
19835 GACCGTGACCGTT
1 GACCGTGACCGTT
19848 GACCGT
1 GACCGT
19854 TGACTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:20800 original size:63 final size:63
Alignment explanation
Indices: 20727--20850 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
20717 CTAATGCGAC
* * *
20727 TCTTAGGTAGG-CTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
1 TCTTAGGTAGGCCTC-ACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTG
20789 T
63 T
* *
20790 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGT
20851 TCCCTTAGGG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 1 0.02
63 48 0.91
64 4 0.08
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCTCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:20810 original size:32 final size:32
Alignment explanation
Indices: 20727--20850 Score: 80
Period size: 31 Copynumber: 4.0 Consensus size: 32
20717 CTAATGCGAC
* * *
20727 TCTTAGGTAGGCTCT-GCGGCCCTGAGAT-CA
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
** * * *
20757 TTCTCGGGTAGGCCCT-GCGGCCCTAAGATGTGT
1 -TCTTAGGTAGGCTCTCACGGCCCTAAGATGT-A
* *
20790 TCTTAGGTAGGC-CTCACGGCCCCGAA-ATCTA
1 TCTTAGGTAGGCTCTCACGG-CCCTAAGATGTA
*
20821 TCTTGGGTAGGCTCTCA-GGCCCTAAGATGT
1 TCTTAGGTAGGCTCTCACGGCCCTAAGATGT
20851 TCCCTTAGGG
Statistics
Matches: 72, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
30 5 0.07
31 42 0.58
32 20 0.28
33 5 0.07
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (32 bp):
TCTTAGGTAGGCTCTCACGGCCCTAAGATGTA
Found at i:22302 original size:18 final size:18
Alignment explanation
Indices: 22281--22318 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22271 GGGCCGGCCC
22281 CTGCCGATCAACCGGCAG
1 CTGCCGATCAACCGGCAG
22299 CTGCCGATCAACCGGCAG
1 CTGCCGATCAACCGGCAG
22317 CT
1 CT
22319 TTCGGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.13
Consensus pattern (18 bp):
CTGCCGATCAACCGGCAG
Found at i:23244 original size:3 final size:3
Alignment explanation
Indices: 23238--23268 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
23228 ATAAAGATAT
23238 TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
23269 AGGATACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:26946 original size:46 final size:46
Alignment explanation
Indices: 26894--26982 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
26884 AAAGTGCCGC
* *
26894 GTAGAAATGTCTTGAATGACCACATAGTATTGTCCCGAAGGACAAT
1 GTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGACAAT
*
26940 GTAGAAATGTCTCGAATGACCACATAGAATTGTCTCGAAGGAC
1 GTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGAC
26983 CGCGTAGAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (46 bp):
GTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGACAAT
Found at i:26990 original size:23 final size:23
Alignment explanation
Indices: 26893--26991 Score: 90
Period size: 23 Copynumber: 4.3 Consensus size: 23
26883 CAAAGTGCCG
* *
26893 CGTAGAAATGTCTTGAATGACCA
1 CGTAGAAATGTCTCGAAGGACCA
* * * * *
26916 CATAGTATTGTCCCGAAGGACAA
1 CGTAGAAATGTCTCGAAGGACCA
* *
26939 TGTAGAAATGTCTCGAATGACCA
1 CGTAGAAATGTCTCGAAGGACCA
* * *
26962 CATAGAATTGTCTCGAAGGACCG
1 CGTAGAAATGTCTCGAAGGACCA
26985 CGTAGAA
1 CGTAGAA
26992 CCCTCGACTC
Statistics
Matches: 56, Mismatches: 20, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (23 bp):
CGTAGAAATGTCTCGAAGGACCA
Found at i:26990 original size:46 final size:46
Alignment explanation
Indices: 26890--26991 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
26880 CACCAAAGTG
* *
26890 CCGCGTAGAAATGTCTTGAATGACCACATAGTATTGTCCCGAAGGA
1 CCGCGTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGA
*** *
26936 CAATGTAGAAATGTCTCGAATGACCACATAGAATTGTCTCGAAGGA
1 CCGCGTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGA
26982 CCGCGTAGAA
1 CCGCGTAGAA
26992 CCCTCGACTC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (46 bp):
CCGCGTAGAAATGTCTCGAATGACCACATAGAATTGTCCCGAAGGA
Found at i:27354 original size:31 final size:30
Alignment explanation
Indices: 27310--27371 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
27300 AGACATATGC
27310 ATATACTCATGTATACATAGAAATCATATCAAT
1 ATATACT-ATGTATACAT-GAAATCATA-CAAT
* *
27343 ATATACT-TGTATTCATGAATTCATACAAT
1 ATATACTATGTATACATGAAATCATACAAT
27372 CAAACATTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 4 0.15
30 8 0.30
31 8 0.30
33 7 0.26
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATACTATGTATACATGAAATCATACAAT
Found at i:29631 original size:109 final size:108
Alignment explanation
Indices: 29431--29652 Score: 392
Period size: 109 Copynumber: 2.1 Consensus size: 108
29421 GGCATGCTTA
* * *
29431 ATCAA-AAGTAAATTTTAAACACAAGTTATTTTATTACACTTTACATTTCAAGTGATCTTTCAAT
1 ATCAACAAGTAAAATTTAAACACAAGTTATTTTATTACACTTTACATTTCAAGGGATATTTCAAT
*
29495 AAGTATTCTATAATTTGCATCGTTAGTGCTAATATCCTCATTTT
66 AAGTATTCTATAATTTGCATCGCTAGTGCTAATATCCTCA-TTT
29539 ATCAACAAGTAAAATTTAAACACAAGTTATTTTATTACACTTTACATTTCAAGGGATATTTCAAT
1 ATCAACAAGTAAAATTTAAACACAAGTTATTTTATTACACTTTACATTTCAAGGGATATTTCAAT
29604 AAGTATTCTATAATTTGCATCGCTAGTGCTAATATCCTCATTT
66 AAGTATTCTATAATTTGCATCGCTAGTGCTAATATCCTCATTT
29647 ATCAAC
1 ATCAAC
29653 CATCACAAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
108 14 0.13
109 95 0.87
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (108 bp):
ATCAACAAGTAAAATTTAAACACAAGTTATTTTATTACACTTTACATTTCAAGGGATATTTCAAT
AAGTATTCTATAATTTGCATCGCTAGTGCTAATATCCTCATTT
Found at i:29857 original size:59 final size:59
Alignment explanation
Indices: 29748--30028 Score: 410
Period size: 59 Copynumber: 4.8 Consensus size: 59
29738 TATATTTTCC
*
29748 ATACGGAAATTCATA-ATCTTAGTATGAA--T-TTATCATTTTAGCACACAAAGTGTCCA
1 ATACGGAAATTCATACA-CTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
* * ***
29804 ATACGGAATTTTATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCTTG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
* *
29863 ATACGGAAATTCATACACTTGGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCG
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
*
29922 ATACGAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
* * *
29981 ATACAGAAATGCATACACTTAGTATAAATTTCTTATCATTTTA-CACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC
30029 TTAGTGTCAT
Statistics
Matches: 203, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
56 24 0.12
57 1 0.00
58 6 0.03
59 172 0.85
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCA
Found at i:30384 original size:20 final size:21
Alignment explanation
Indices: 30359--30415 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
30349 TGGTTCTTCA
30359 GTATCGATA-TCCCTACCATT
1 GTATCGATACTCCCTACCATT
* *
30379 GTATCGATACTATCCTACTATT
1 GTATCGATACT-CCCTACCATT
30401 GTATCGATACTCCCT
1 GTATCGATACTCCCT
30416 TCCGGTATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.28
21 4 0.12
22 19 0.59
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.37
Consensus pattern (21 bp):
GTATCGATACTCCCTACCATT
Found at i:30511 original size:95 final size:95
Alignment explanation
Indices: 30359--30557 Score: 258
Period size: 95 Copynumber: 2.1 Consensus size: 95
30349 TGGTTCTTCA
* * * * * * *
30359 GTATCGATATCCCTACCATTGTATCGATACTATCCTACTATTGTATCGATACTCCCTTCCGGTAT
1 GTATCGATAGCCCTACCATGGTATCGATACTATCATACTATGGTACCGACACCCCCTTCCGGTAT
30424 CGATACCAAAATTAGATTCGATGTGACCTG
66 CGATACCAAAATTAGATTCGATGTGACCTG
*
30454 GTATCGAT-GCCCTTACCATGGTATTGATACTA-CTATACTATGGTACCGACACCCCCTTCCGGT
1 GTATCGATAGCCC-TACCATGGTATCGATACTATC-ATACTATGGTACCGACACCCCCTTCCGGT
* * * *
30517 ATCGATACCAAAATTGGGTTCGATGTTACTTG
64 ATCGATACCAAAATTAGATTCGATGTGACCTG
30549 GTATCGATA
1 GTATCGATA
30558 CTACCTCGTC
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
94 4 0.04
95 85 0.96
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (95 bp):
GTATCGATAGCCCTACCATGGTATCGATACTATCATACTATGGTACCGACACCCCCTTCCGGTAT
CGATACCAAAATTAGATTCGATGTGACCTG
Found at i:39372 original size:202 final size:204
Alignment explanation
Indices: 39002--39409 Score: 691
Period size: 202 Copynumber: 2.0 Consensus size: 204
38992 CAAATAAAAA
* *
39002 ATTATAATTATAATTCATTTCTAAAAAGTTCAAAAACTTTGAAAACCTTTAAAAATTCTAAAATT
1 ATTATAATTATAATTCATTTCTAAAAAGTCCAAAAACTTTAAAAACCTTTAAAAATTCTAAAATT
39067 TTAATTTCAATCCCTAAATCTACTCCAATCATATCCCCTTTTATCGTCGTCGAACCTTACCCATT
66 TTAATTTCAATCCCTAAATCTACTCCAATCA-ATCCCCTTTTATCGTCGTCGAACCTTACCCATT
* *
39132 TGCACCTCTATTAGACGACCAATTTGCAACGAAAATTCACTGGAACAAGAGCCAACAAAC-TAAA
130 TGCACCTCTACTAGACGACCAATTTGCAACGAAAATTCACTGGAACAAGA-CCAACAAACAAAAA
39196 AATGACCGACG
194 AATGACCGACG
*
39207 ATTATAATTATAATTCATTTCTAAAAAGTCCAAAAACTTTAAAAACCTTTAAAAAAATTTTAAAA
1 ATTATAATTATAATTCATTTCTAAAAAGTCCAAAAACTTTAAAAACCTTT--AAAAATTCTAAAA
*
39272 -TTTAATTTCAATCCCT-AATCTACTCCAGTC-ATCCCC-TTTATCGTCGTCGAACCTTACCCAT
64 TTTTAATTTCAATCCCTAAATCTACTCCAATCAATCCCCTTTTATCGTCGTCGAACCTTACCCAT
39333 TTGCACCTCTACTAGACGACCAATTTGCAACGAAAATTCACTGGAACAAGACCAACAAACAAAAA
129 TTGCACCTCTACTAGACGACCAATTTGCAACGAAAATTCACTGGAACAAGACCAACAAACAAAAA
39398 AATGACCGACG
194 AATGACCGACG
39409 A
1 A
39410 ATTACACGAC
Statistics
Matches: 194, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
201 9 0.05
202 90 0.46
203 6 0.03
205 61 0.31
206 16 0.08
207 12 0.06
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.29
Consensus pattern (204 bp):
ATTATAATTATAATTCATTTCTAAAAAGTCCAAAAACTTTAAAAACCTTTAAAAATTCTAAAATT
TTAATTTCAATCCCTAAATCTACTCCAATCAATCCCCTTTTATCGTCGTCGAACCTTACCCATTT
GCACCTCTACTAGACGACCAATTTGCAACGAAAATTCACTGGAACAAGACCAACAAACAAAAAAA
TGACCGACG
Found at i:39541 original size:30 final size:31
Alignment explanation
Indices: 39479--39551 Score: 121
Period size: 30 Copynumber: 2.4 Consensus size: 31
39469 CTAATCGACG
* *
39479 GCAAGGATGATGATGTCTGACTAGGGAGATA
1 GCAAGGATGATGATGTCTGACAAGGCAGATA
39510 GCAAGGATGATGATGT-TGACAAGGCAGATA
1 GCAAGGATGATGATGTCTGACAAGGCAGATA
39540 GCAAGGATGATG
1 GCAAGGATGATG
39552 TCAACTGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.34, C:0.10, G:0.36, T:0.21
Consensus pattern (31 bp):
GCAAGGATGATGATGTCTGACAAGGCAGATA
Found at i:46623 original size:16 final size:16
Alignment explanation
Indices: 46602--46653 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
46592 TTATTTTCAG
46602 TTTAATCACTCATTAT
1 TTTAATCACTCATTAT
* *
46618 TTTAATTA-TTATT-T
1 TTTAATCACTCATTAT
*
46632 TTTAATCACTCAGTAT
1 TTTAATCACTCATTAT
46648 TTTAAT
1 TTTAAT
46654 TATTATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 8 0.28
15 7 0.24
16 14 0.48
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTAATCACTCATTAT
Found at i:46636 original size:14 final size:14
Alignment explanation
Indices: 46617--46669 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
46607 TCACTCATTA
46617 TTTTAATTATTATT
1 TTTTAATTATTATT
* * *
46631 TTTTAATCACTCAGTA
1 TTTTAATTA-TTA-TT
46647 TTTTAATTATTATT
1 TTTTAATTATTATT
46661 TTTTAATTA
1 TTTTAATTA
46670 CTCAACTGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 18 0.58
15 4 0.13
16 9 0.29
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTAATTATTATT
Found at i:46638 original size:30 final size:30
Alignment explanation
Indices: 46602--46673 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
46592 TTATTTTCAG
*
46602 TTTAATCACTCATTATTTTAATTATTATTT
1 TTTAATCACTCAGTATTTTAATTATTATTT
46632 TTTAATCACTCAGTATTTTAATTATTATTT
1 TTTAATCACTCAGTATTTTAATTATTATTT
*
46662 TTTAATTACTCA
1 TTTAATCACTCA
46674 ACTGTTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.31, C:0.11, G:0.01, T:0.57
Consensus pattern (30 bp):
TTTAATCACTCAGTATTTTAATTATTATTT
Found at i:46690 original size:30 final size:29
Alignment explanation
Indices: 46602--46682 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 29
46592 TTATTTTCAG
* *
46602 TTTAATCACTCATTATTTTAATTATTATTT
1 TTTAATCACTCA-GATGTTAATTATTATTT
*
46632 TTTAATCACTCAGTATTTTAATTATTATTT
1 TTTAATCACTCAG-ATGTTAATTATTATTT
*
46662 TTTAATTACTCA-ACTGTTAAT
1 TTTAATCACTCAGA-TGTTAAT
46683 ATCTTATTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.02
29 6 0.13
30 39 0.85
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (29 bp):
TTTAATCACTCAGATGTTAATTATTATTT
Found at i:46915 original size:19 final size:17
Alignment explanation
Indices: 46878--46917 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
46868 GTCTAAAAAA
*
46878 AATAAAAACAAAATTTT
1 AATAAAAACAAAATATT
46895 AATAAAAATCTAAAATATT
1 AATAAAAA-C-AAAATATT
46914 AATA
1 AATA
46918 TTTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AATAAAAACAAAATATT
Found at i:47721 original size:50 final size:50
Alignment explanation
Indices: 47632--47785 Score: 299
Period size: 50 Copynumber: 3.1 Consensus size: 50
47622 ATCCATCAAA
47632 TTACTATTAATTAGCTTAAAAAACATAATAGTGAGTCGGAAATAAGTAACT
1 TTACTATTAATTAGCTT-AAAAACATAATAGTGAGTCGGAAATAAGTAACT
47683 TTACTATTAATTAGCTTAAAAACATAATAGTGAGTCGGAAATAAGTAACT
1 TTACTATTAATTAGCTTAAAAACATAATAGTGAGTCGGAAATAAGTAACT
47733 TTACTATTAATTAGCTTAAAAACATAATAGTGAGTCGGAAATAAGTAACT
1 TTACTATTAATTAGCTTAAAAACATAATAGTGAGTCGGAAATAAGTAACT
47783 TTA
1 TTA
47786 AGGCTTAGTT
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
50 86 0.83
51 17 0.17
ACGTcount: A:0.44, C:0.10, G:0.14, T:0.32
Consensus pattern (50 bp):
TTACTATTAATTAGCTTAAAAACATAATAGTGAGTCGGAAATAAGTAACT
Found at i:48051 original size:15 final size:15
Alignment explanation
Indices: 48031--48137 Score: 126
Period size: 15 Copynumber: 7.0 Consensus size: 15
48021 TAATAATGTT
48031 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
48046 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
48061 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
48076 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* ***
48091 TGGATTGA-TTTATTTTA
1 ---ATTTATTTTAAAATA
48108 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
48123 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
48138 TGGATTGATT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
14 4 0.05
15 64 0.83
17 5 0.06
18 4 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:48119 original size:47 final size:47
Alignment explanation
Indices: 48059--48155 Score: 194
Period size: 47 Copynumber: 2.1 Consensus size: 47
48049 TATTTTAAAA
48059 TAATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTT
1 TAATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTT
48106 TAATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTT
1 TAATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTT
48153 TAA
1 TAA
48156 ATAATTTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (47 bp):
TAATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTT
Found at i:48177 original size:32 final size:32
Alignment explanation
Indices: 48108--48242 Score: 146
Period size: 32 Copynumber: 4.4 Consensus size: 32
48098 ATTTATTTTA
*
48108 ATTTATTTTAAAATAATTTATTATAAAATATGGATTG
1 ATTTATTTT-AAATAATTTA-T-T--AGTATGGATTG
48145 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
48177 ATTTATTTT-AA-AA--TA-T-G-A---ATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
48199 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
48231 ATTTATTTTAAA
1 ATTTATTTTAAA
48243 ATATGGATTG
Statistics
Matches: 87, Mismatches: 1, Indels: 25
0.77 0.01 0.22
Matches are distributed among these distances:
22 13 0.15
23 2 0.02
24 2 0.02
25 1 0.01
26 3 0.03
27 2 0.02
28 3 0.03
29 1 0.01
30 2 0.02
31 2 0.02
32 35 0.40
34 1 0.01
35 1 0.01
36 10 0.11
37 9 0.10
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:48193 original size:22 final size:22
Alignment explanation
Indices: 48168--48210 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48158 AATTTATTAG
*
48168 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
48190 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
48211 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:48199 original size:54 final size:54
Alignment explanation
Indices: 48123--48564 Score: 555
Period size: 54 Copynumber: 8.2 Consensus size: 54
48113 TTTTAAAATA
* *
48123 ATTTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
48177 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
48231 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
** ** * ** * * *
48279 ATTTATTTT-AAATAATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
1 ATTTATTTTAAAAT-ATGAATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
***
48333 ATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTA-T-TT-TA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
48391 ATTTATTTTAAAATAT-AGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGA-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
48445 ATTTATTTTAAAATATGAATTAATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
48499 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
48553 ATTTATTTTAAA
1 ATTTATTTTAAA
48565 CAATTTATTA
Statistics
Matches: 337, Mismatches: 32, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
47 4 0.01
48 27 0.08
49 3 0.01
50 5 0.01
51 1 0.00
52 2 0.01
53 2 0.01
54 246 0.73
55 7 0.02
56 7 0.02
57 12 0.04
58 20 0.06
59 1 0.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:48234 original size:18 final size:18
Alignment explanation
Indices: 48213--48260 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
48203 ATTTTAAATA
*
48213 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
48231 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
48253 ATTTATTA
1 ATTTATTA
48261 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:48294 original size:134 final size:137
Alignment explanation
Indices: 48136--49070 Score: 793
Period size: 134 Copynumber: 6.8 Consensus size: 137
48126 TATTATAAAA
48136 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
48201 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TT-AT-T
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATAT
*
48263 GTAGTT-G
131 TTA-TTAG
*
48270 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
* * * * *
48335 TTA--TT--AT--TGTAGTT-GTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
66 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTAT
* *
48393 TT-AT-TTTA-AAA
124 TTAATATTTATTAG
* *
48404 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
48469 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AAT
48534 AATTTATTAG
129 -ATTTATTAG
* * *
48544 TATGGATTGATTTATTTTAAACAATTTATTAGTATGAATTGATTTATTTT-AAA-ATGGATTGA-
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
*
48606 TTA--TT--AT--TGTAGTT-GTATGGATTGATTTA-TTTAAAATATGGATTGATTTATTTTAAA
66 TTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-AA
48663 TAATTTATTAG
128 T-ATTTATTAG
*
48674 TATGAATTGATTTATTTTAAATATAGATTGATTTATTGTAGTTGTATGGATTGATTTATTTT--A
1 TATGGATTGATTTATTTT-AA-AT--A---ATTTA-T-TA---GTATGGATTGATTTATTTTAAA
* * * * * *
48737 A-AT-AATTTATTAGTATTGGTTGATTTATTT-TAAAATATGGATTGATTTATTTTAAATAATTT
54 ATATGAATTGATT--TATT--TTAAATAATTTAT-TAGTATGGATTGATTTATTTT-AA-AA--T
* * * * *
48799 ATTAGTATAGATTGATTT-AT-TTTA-AAA
110 A-T-GGATTGATTTATTTAATATTTATTAG
* * *** *
48826 TATGAATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTATTGTAGTTGTATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGAAT
*
48891 TGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTT
62 TGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT
48956 AAATAATTTATTAG
126 -AAT-ATTTATTAG
* ** **
48970 TATGAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTATTTGT---ATA-G-ATT
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTGATT-TATTT-TAAAATATGAATT
49026 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
63 GATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
49071 TAATTTATTA
Statistics
Matches: 669, Mismatches: 60, Indels: 144
0.77 0.07 0.16
Matches are distributed among these distances:
128 21 0.03
129 4 0.01
130 60 0.09
131 20 0.03
132 7 0.01
133 3 0.00
134 196 0.29
135 14 0.02
136 6 0.01
137 10 0.01
138 20 0.03
139 17 0.03
140 93 0.14
141 12 0.02
142 30 0.04
143 13 0.02
144 54 0.08
145 6 0.01
146 4 0.01
147 4 0.01
148 7 0.01
149 2 0.00
150 2 0.00
151 18 0.03
152 22 0.03
153 6 0.01
154 2 0.00
155 2 0.00
156 2 0.00
157 4 0.01
158 8 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (137 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAATAT
TTATTAG
Found at i:48295 original size:80 final size:80
Alignment explanation
Indices: 48108--49070 Score: 660
Period size: 80 Copynumber: 11.6 Consensus size: 80
48098 ATTTATTTTA
* * *
48108 ATTTATTTTAAAATAATTTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGG
1 ATTTATTTT-AAATAATTTA-T-T--AGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTG
* *** *
48173 ATTGATTTATTTTAAAATATGAATTG
55 ATTTATTTATTTTATTGTATGGATTG
48199 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
*
48263 GTAGTTGTATGGATTG
66 TTA-TTGTATGGATTG
48279 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
* *
48343 GTAGTTGTATGAATTG
66 TTA-TTGTATGGATTG
*
48359 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
48424 ATAATTTATTAGTATGGATTG
63 AT--TTTATT-GTATGGATTG
* * * *
48445 ATTTATTTT-AA-AA--TA-T-G-A---ATTAATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATTTA
***
48500 TTTATTTTAAAATATGGATTG
60 TTTATTTTATTGTATGGATTG
* *
48521 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAACAATTTAT-TAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TATGGA-T-TG-ATTT
**
48585 ATTTATTTTA--AAATGGATTG
59 ATTTATTTTATTGTATGGATTG
*
48605 A-TTA--TT--AT--TGTAGTT-GTATGGATTGATTTA-TTTAAAATATGGATTGATTTATTTTA
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT-
*
48661 AATAATTTATTAGTATGAATTG
63 -AT--TTTATT-GTATGGATTG
48683 ATTTATTTTAAATATAGATTGATTTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATT
1 ATTTATTTT-AA-AT--A---ATTTA-T-TA---GTATGGATTGATTTATTTT-AA-AA--TA-T
* * * ***
48748 AGTATTGGTTGATTTATTTTAAAATATGGATTG
49 -GGATTGATTTATTTATTTTATTGTATGGATTG
* *
48781 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TTT--
*
48846 ATAATTTATTAGTATGTATTG
63 AT--TTTATT-GTATGGATTG
* *
48867 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTAT-TAGTATGAATT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TATGGA-T-TG-ATT
* ***
48924 GATTTATTTTAAAATATGGATTG
58 TATTTATTTTATTGTATGGATTG
*
48947 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTA-TTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
* *
49011 GTATTTGTATAGATTG
66 TTA-TTGTATGGATTG
49027 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
49071 TAATTTATTA
Statistics
Matches: 720, Mismatches: 66, Indels: 183
0.74 0.07 0.19
Matches are distributed among these distances:
70 4 0.01
71 5 0.01
72 4 0.01
73 3 0.00
74 2 0.00
75 6 0.01
76 33 0.05
77 26 0.04
78 14 0.02
79 22 0.03
80 255 0.35
81 25 0.03
82 26 0.04
83 12 0.02
84 29 0.04
85 25 0.03
86 131 0.18
88 1 0.00
89 3 0.00
90 11 0.02
91 14 0.02
92 4 0.01
93 1 0.00
94 1 0.00
96 2 0.00
97 17 0.02
98 20 0.03
99 6 0.01
100 2 0.00
101 2 0.00
102 2 0.00
103 4 0.01
104 8 0.01
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTATT
TTATTGTATGGATTG
Found at i:48316 original size:18 final size:18
Alignment explanation
Indices: 48293--48340 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
48283 ATTTTAAATA
*
48293 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
48311 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
48333 ATTTATTA
1 ATTTATTA
48341 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:48391 original size:32 final size:32
Alignment explanation
Indices: 48349--48990 Score: 400
Period size: 32 Copynumber: 21.7 Consensus size: 32
48339 TATTGTAGTT
*
48349 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48381 GTATGGATTGATTTATTTT--A-AA---A-TA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48406 -TA--GATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48435 GTATGGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
48461 G-A---ATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48489 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48512 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
48543 GTATGGATTGATTTATTTTAAACAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* * *
48575 GTATGAATTGATTTATTTTAAAATGGATTGATTA
1 GTATGGATTGATTTATTTT-AAAT-AATTTATTA
* * * * * * * *
48609 TTATTG-TAG-TTGTATGGATTGATTTATTTA-AA
1 GTATGGATTGATT-TAT--TTTAAATAATTTATTA
*
48641 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
48673 GTATGAATTGATTTATTTTAAATATAGATTGATTTA
1 GTATGGATTGATTTATTTT-AA-ATA-ATTTA-TTA
* *
48709 TTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 --GTA--TGGATTGA----TTTATTTTAAATAATTTATTA
48749 GTATTGG-TTGATTTA-TTT---TAA---A--A
1 GTA-TGGATTGATTTATTTTAAATAATTTATTA
48772 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
48803 GTATAGATTGATTTATTTT-AA-AA--TA-T-
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48829 G-A---ATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
48857 GTATGTATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
48883 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
48915 GTATGAATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
48938 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
48969 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
48991 ATATGGATTG
Statistics
Matches: 480, Mismatches: 41, Indels: 178
0.69 0.06 0.25
Matches are distributed among these distances:
21 3 0.01
22 76 0.16
23 16 0.03
24 7 0.01
25 9 0.02
26 33 0.07
27 6 0.01
28 20 0.04
29 9 0.02
30 11 0.02
31 27 0.06
32 180 0.38
33 19 0.04
34 17 0.04
35 6 0.01
36 6 0.01
37 3 0.01
38 6 0.01
40 9 0.02
41 4 0.01
42 3 0.01
43 2 0.00
44 8 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:48392 original size:112 final size:110
Alignment explanation
Indices: 48269--49182 Score: 588
Period size: 112 Copynumber: 8.2 Consensus size: 110
48259 TATTGTAGTT
48269 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
48334 TTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTA
66 TTTATTATT-TA-TTGTATGAATTGATTTATTTTAAATAATTTATTA
* * * *
48381 GTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATG
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATG
*** *
48440 GATTGATTTA-T-TTTAAAATATGAATTAATTTATTTTAAATAATTTATTA
60 GATTGATTTATTATTTATTGTATGAATTGATTTATTTTAAATAATTTATTA
** ** * ** * * *
48489 GTATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGAT
1 GTATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGAT
* *
48551 TGATTTATTTTAAACAATTTATTAGTATGAATTGATTTATTTTAAAATGGATTGATTA
63 TGATTTA--TT-----ATTTATT-GTATGAATTGATTTATTTT-AAAT-AATTTATTA
* * * * * * * * * **
48609 TTATTG-TAG-TTGTATGGATTGATTTATTTA-AAATATGGATTGATTTATTTT-AAATAATTTA
1 GTATGGATTGATT-TAT--TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGA
** * * *
48670 TTAGTATGAATTGATTTATT-T-TAAATATAGATTGA-TTT--AT--TGTAGTT-
62 TT-G-ATTTATT-ATTTATTGTATGAAT-T-GATTTATTTTAAATAATTTA-TTA
48717 GTATGGATTGATTTATTTTAAATAATTTATTAGTATTGG-TTGATTTATTTTAAAATATGGATTG
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTA-TGGATTGATTTATTTTAAAATATGGATTG
48781 ATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTT-AA-AA--TA-T-
65 ATTTA---T---T-ATTTATT-GTATGA-ATTGATTTATTTTAAATAATTTATTA
* ***
48829 G-A---ATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTATTGTAGTTGTATGGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGA
48890 TTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTA-TTT---TAA---A--A
62 TTGATTTA---T---T-ATTTATT-GTATGAATTGATTTATTTTAAATAATTTATTA
*
48938 -TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
49002 TTTATTATTGTATTTGTAT-AGATTGATTTATTTTAAATAATTTATTA
66 TTTATTATT-TA-TTGTATGA-ATTGATTTATTTTAAATAATTTATTA
*
49049 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTTAAAATATGGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
49114 TTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTA
66 TTTATTATT-TA-TTGTATGAATTGATTTATTTTAAATAATTTATTA
* *
49161 GTATGAATTGGTTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
49183 ATATGGATTG
Statistics
Matches: 646, Mismatches: 75, Indels: 162
0.73 0.08 0.18
Matches are distributed among these distances:
101 4 0.01
102 16 0.02
103 5 0.01
105 1 0.00
106 13 0.02
107 18 0.03
108 150 0.23
109 28 0.04
110 14 0.02
111 18 0.03
112 261 0.40
113 16 0.02
114 13 0.02
115 9 0.01
116 7 0.01
117 4 0.01
118 19 0.03
119 11 0.02
120 18 0.03
121 15 0.02
122 6 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (110 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
TTTATTATTTATTGTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:48488 original size:22 final size:22
Alignment explanation
Indices: 48436--48478 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48426 AATTTATTAG
* *
48436 TATGGATTGATTTATTTTAAAA
1 TATGAATTAATTTATTTTAAAA
48458 TATGAATTAATTTATTTTAAA
1 TATGAATTAATTTATTTTAAA
48479 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGAATTAATTTATTTTAAAA
Found at i:48496 original size:108 final size:109
Alignment explanation
Indices: 48123--48710 Score: 586
Period size: 108 Copynumber: 5.3 Consensus size: 109
48113 TTTTAAAATA
* *
48123 ATTTATTATAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
48188 AATAT-GAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 AATATAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
48231 ATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTA
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-
* * * * *
48289 AATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
64 AA-AA--TA-TAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
***
48333 ATTTATTATTGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
1 ATTTA-T-TT-TA-AAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
48398 TTAAAATATAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
62 TTAAAATATAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
48445 ATTTATTTTAAAATATGAATTAATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
1 ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
*
48510 AATAT-GGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 AATATAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
48553 ATTTATTTTAAACAATTTATTAGTATGAATTGATTTATTTTAAAATGGATTGATTATTATTGTAG
1 ATTTATTTT----AA---A--A-TATGAATTGATTTATTTT-AAAT--A---A-T-TTA-T-TA-
* *
48618 TTGTATGGATTGATTTA-TTTAAAATAT-GGATTGATTTATTTTAAATAATTTATTAGTATGAAT
45 --GTATGGATTGATTTATTTTAAAATATAGAATTGATTTATTTTAAATAATTTATTAGTATGGAT
48681 TG
108 TG
48683 ATTTATTTT-AAATAT-AGATTGATTTATT
1 ATTTATTTTAAAATATGA-ATTGATTTATT
48711 GTAGTTGTAT
Statistics
Matches: 409, Mismatches: 22, Indels: 87
0.79 0.04 0.17
Matches are distributed among these distances:
102 37 0.09
103 9 0.02
104 6 0.01
105 4 0.01
106 24 0.06
107 11 0.03
108 139 0.34
109 4 0.01
110 6 0.01
111 9 0.02
112 39 0.10
115 1 0.00
117 1 0.00
118 18 0.04
119 18 0.04
120 1 0.00
121 1 0.00
122 1 0.00
124 1 0.00
125 2 0.00
126 3 0.01
127 1 0.00
128 2 0.00
130 56 0.14
131 15 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (109 bp):
ATTTATTTTAAAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
AATATAGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:48506 original size:22 final size:22
Alignment explanation
Indices: 48490--48532 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48480 AATTTATTAG
48490 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
48512 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
48533 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:48645 original size:21 final size:21
Alignment explanation
Indices: 48576--48664 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
48566 AATTTATTAG
* *
48576 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTAAAA
***
48597 -ATGGATTGATTATTATTGTAGTTG
1 TATGGATTGA-T-TTATT-TA-AAA
48621 TATGGATTGATTTATTTAAAA
1 TATGGATTGATTTATTTAAAA
*
48642 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTAAAA
48663 TA
1 TA
48665 ATTTATTAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.15
21 23 0.43
22 7 0.13
23 6 0.11
24 1 0.02
25 9 0.17
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.51
Consensus pattern (21 bp):
TATGGATTGATTTATTTAAAA
Found at i:48653 original size:25 final size:24
Alignment explanation
Indices: 48581--48658 Score: 58
Period size: 25 Copynumber: 3.3 Consensus size: 24
48571 ATTAGTATGA
48581 ATTGATTTATTTTAAA-ATGGATTG
1 ATTGATTTA-TTTAAATATGGATTG
* * *
48605 ATT-A-TTATTGT-AGT-TGTATGG
1 ATTGATTTATT-TAAATATGGATTG
48626 ATTGATTTATTTAAAATATGGATTG
1 ATTGATTTATTT-AAATATGGATTG
*
48651 ATTTATTT
1 ATTGATTT
48659 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 13
0.67 0.12 0.22
Matches are distributed among these distances:
21 11 0.28
22 6 0.15
23 6 0.15
24 5 0.12
25 12 0.30
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (24 bp):
ATTGATTTATTTAAATATGGATTG
Found at i:48781 original size:54 final size:53
Alignment explanation
Indices: 48718--49119 Score: 506
Period size: 54 Copynumber: 7.3 Consensus size: 53
48708 ATTGTAGTTG
*
48718 TATGGATTGATTTATTTTAAATAATTTATTAGTATTGGTTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTA-TGATTGATTTATTTTAAAA
48772 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAA
* ***
48826 TATGAATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTA-T-TT-TA-AAA
48884 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAA
48938 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAA
* * * * *
48992 TATGGATTGATTTATTATT--GT-ATTTGTATAG-ATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATTTAT-TAGTA-TGATTGA-TTT--AT--TTTA-AAA
*
49050 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAA
49104 TATGGATTGATTTATT
1 TATGGATTGATTTATT
49120 ATTGTAGTTG
Statistics
Matches: 309, Mismatches: 19, Indels: 40
0.84 0.05 0.11
Matches are distributed among these distances:
52 10 0.03
53 11 0.04
54 181 0.59
55 11 0.04
56 4 0.01
57 11 0.04
58 61 0.20
59 8 0.03
60 12 0.04
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (53 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAA
Found at i:48912 original size:166 final size:165
Alignment explanation
Indices: 48270--49119 Score: 672
Period size: 166 Copynumber: 5.1 Consensus size: 165
48260 ATTGTAGTTG
* *
48270 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
* * * * *
48335 TTATTATTGTAGTTGTAT-GAATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTAT
66 TTATTATTATATTTATATAG-ATTGATTGATTTT-AATTATTGTAGTT-GTATGGATTGATTTAT
* * ** * * *
48397 TTTAAAATATAGATTGATT--TAT--TTTAAATAATTTATTAG
128 TTT--AA-ATA-ATTTATTAGTATGGTTGATTTATTTTA-AAA
** * * * * ** * * * *
48436 TATGGATTGATTTATTTTAAA-ATATGAATTAAT-TTATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGAATTGATTTATTTTA-AAATATGAATTG
* * * *
48499 ATTTATT-TTA-A--AATATGGATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTA
64 ATTTATTATTATATTTATATAGATTGATTGATTTT-AATTATTGTAGTT-GTATGGATTGATTTA
* *
48558 TTTTAAACAATTTATTAGTATGAATTGATTTATTTT-AAA
127 TTTTAAATAATTTATTAGTATG-GTTGATTTATTTTAAAA
* * *
48597 -ATGGATTGA-TTA--TT--AT--TGTAGTT-GTATGGATTGATTTA-TTTAAAATATGGATTGA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATATGAATTGA
*
48652 TTTATT-TTAAATAATTTATTAGTATGAATTGATTTATTTTAAATATAGATTGATTTATTGTAGT
65 TTTATTATT--AT-ATTTA-TA-TA-G-ATTGATTGA--TT---T-T--A---A-TTATTGTAGT
48716 TGTATGGATTGATTTATTTTAAATAATTTATTAGTATTGGTTGATTTATTTTAAAA
111 TGTATGGATTGATTTATTTTAAATAATTTATTAGTA-TGGTTGATTTATTTTAAAA
48772 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-AGATTGATTTATTTTAAAATATGAATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGA-ATTGATTTATTTTAAAATATGAATTGA
48836 TTTATT-TTAAATAATTTAT-TAG-TATGTATTGA-TTT-ATTATTGTAGTTGTATGGATTGATT
65 TTTATTATT--AT-ATTTATATAGAT-TG-ATTGATTTTAATTATTGTAGTTGTATGGATTGATT
*
48896 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAA
125 TATTTTAAATAATTTATTAGTATG-GTTGATTTATTTTAAAA
*
48938 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
* * * *
49003 TTATTATTGTATTTGTATAGATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATT
66 TTATTATTATATTTATATAGATTGATTGATTTT-AATTATTGTAGTT-GTATGGATTGATTTATT
*
49066 TTAAATAATTTATTAGTATGGATTTATTTATTTTAAAA
129 TTAAATAATTTATTAGTATGG-TTGATTTATTTTAAAA
49104 TATGGATTGATTTATT
1 TATGGATTGATTTATT
49120 ATTGTAGTTG
Statistics
Matches: 574, Mismatches: 51, Indels: 118
0.77 0.07 0.16
Matches are distributed among these distances:
152 19 0.03
153 8 0.01
154 9 0.02
155 1 0.00
156 1 0.00
157 2 0.00
158 7 0.01
159 7 0.01
160 15 0.03
161 2 0.00
162 57 0.10
163 9 0.02
164 12 0.02
165 26 0.05
166 245 0.43
167 10 0.02
168 1 0.00
169 1 0.00
172 1 0.00
173 5 0.01
174 49 0.09
175 7 0.01
176 9 0.02
177 4 0.01
178 1 0.00
179 4 0.01
180 5 0.01
181 4 0.01
182 2 0.00
183 17 0.03
184 34 0.06
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (165 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGAATTGAT
TTATTATTATATTTATATAGATTGATTGATTTTAATTATTGTAGTTGTATGGATTGATTTATTTT
AAATAATTTATTAGTATGGTTGATTTATTTTAAAA
Found at i:48930 original size:18 final size:18
Alignment explanation
Indices: 48907--48985 Score: 58
Period size: 18 Copynumber: 4.4 Consensus size: 18
48897 ATTTTAAATA
48907 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
* *
48925 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AGTATGAATTG
* *
48947 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
48961 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
48979 ATTTATT
1 ATTTATT
48986 TTAAAATATG
Statistics
Matches: 46, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 2 0.04
17 1 0.02
18 15 0.33
20 4 0.09
22 14 0.30
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:48941 original size:22 final size:22
Alignment explanation
Indices: 48916--48958 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48906 AATTTATTAG
48916 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
48938 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
48959 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:49063 original size:32 final size:32
Alignment explanation
Indices: 49012--49102 Score: 155
Period size: 32 Copynumber: 2.8 Consensus size: 32
49002 TTTATTATTG
* *
49012 TATTTGTATAGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
49044 TATTAGTATGGATTGATTTATTTTAAATAATT
1 TATTAGTATGGATTGATTTATTTTAAATAATT
*
49076 TATTAGTATGGATTTATTTATTTTAAA
1 TATTAGTATGGATTGATTTATTTTAAA
49103 ATATGGATTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (32 bp):
TATTAGTATGGATTGATTTATTTTAAATAATT
Found at i:49187 original size:22 final size:22
Alignment explanation
Indices: 49162--49204 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49152 AATTTATTAG
*
49162 TATGAATTGGTTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
49184 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
49205 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:49233 original size:112 final size:112
Alignment explanation
Indices: 48938--49234 Score: 280
Period size: 112 Copynumber: 2.7 Consensus size: 112
48928 TATTTTAAAA
* ** * * ** * *
48938 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATGGATTAGTATGGATTTAAATAATTTAAAATATGCATTGAT
** *
49003 TTATTATTGTATTTGTATAGATTGATTTATTTTAAATAATTTATTAG
66 GGATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
* ** ** * *
49050 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTTATTTATTTTAAAATATGGATTGAT
1 TATGAATTGATTTATTTTAAATAATGGATTAGTATGGATTTAAATAATTTAAAATATGCATTGAT
**
49115 TTATTATTGTAGTTGTAT-GAATTGATTTATTTTAAATAATTTATTAG
66 GGATTATTGTAGTTGTATAG-ATTGATTTATTTTAAATAATTTATTAG
* ** **
49162 TATGAATTGGTTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAT-TGCAGTT
1 TATGAATTGATTTATTTTAAATA-ATGGATTAGTATGGA-TTTAAATAATTTAAAATATGCA-TT
49223 GTATGGATTATT
63 G-ATGGATTATT
49235 TAAATTTTAG
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
110 6 0.04
111 18 0.11
112 139 0.85
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (112 bp):
TATGAATTGATTTATTTTAAATAATGGATTAGTATGGATTTAAATAATTTAAAATATGCATTGAT
GGATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAG
Found at i:49264 original size:31 final size:31
Alignment explanation
Indices: 49229--49287 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
49219 AGTTGTATGG
* * *
49229 ATTATTTAAATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
49260 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
49288 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:50347 original size:30 final size:30
Alignment explanation
Indices: 50293--50352 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
50283 ATAATTTTAA
* *
50293 GTATTATATAATACAAATACAAAACTATAT
1 GTATAATATAATACAAATACAAAACCATAT
*
50323 GTATAATATAATATAAATGA-AAAACCATAT
1 GTATAATATAATACAAAT-ACAAAACCATAT
50353 TTTATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (30 bp):
GTATAATATAATACAAATACAAAACCATAT
Found at i:56926 original size:20 final size:21
Alignment explanation
Indices: 56897--56947 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
56887 AGATGAACAA
*
56897 ATTCTCCACCTTC-AGAATAT
1 ATTCTTCACCTTCGAGAATAT
56917 ATTCTTCACC-TCGAGAATAT
1 ATTCTTCACCTTCGAGAATAT
* *
56937 AGTCTTAACCT
1 ATTCTTCACCT
56948 CTTCCACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (21 bp):
ATTCTTCACCTTCGAGAATAT
Found at i:58295 original size:73 final size:74
Alignment explanation
Indices: 58196--58369 Score: 210
Period size: 73 Copynumber: 2.4 Consensus size: 74
58186 ATGATGGTCG
* * *
58196 ATACTTTTAAATAAT-AAAAAATTTGATGATAAGATCGAAAGTTAAAATATC-AAACCTTATGCG
1 ATACTTTAAAATATTGAAAAAAGTTGATGATAAGATCGAAAGTTAAAATATCTAAA-CTTATGCG
*
58259 TTAATGATCA
65 CTAATGATCA
* * * *
58269 ATGCTTTAAAATATTG-GAAAAGTTGATGATAAGATCGAAAGTTAAAATGTCTATACTTATGCGC
1 ATACTTTAAAATATTGAAAAAAGTTGATGATAAGATCGAAAGTTAAAATATCTAAACTTATGCGC
* *
58333 TCATGATCG
66 TAATGATCA
* *
58342 ATACTTTTATATATTGAAAAAAGTTGAT
1 ATACTTTAAAATATTGAAAAAAGTTGAT
58370 ACAGATATGA
Statistics
Matches: 84, Mismatches: 14, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
73 72 0.86
74 12 0.14
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.34
Consensus pattern (74 bp):
ATACTTTAAAATATTGAAAAAAGTTGATGATAAGATCGAAAGTTAAAATATCTAAACTTATGCGC
TAATGATCA
Found at i:58713 original size:52 final size:52
Alignment explanation
Indices: 58651--58755 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
58641 AAGATTGGGC
*
58651 GCACAAAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTACAAG
1 GCACAAAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTAAAAG
58703 GCACAAAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTAAAAG
1 GCACAAAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTAAAAG
58755 G
1 G
58756 ATATTATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (52 bp):
GCACAAAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTAAAAG
Found at i:63491 original size:16 final size:16
Alignment explanation
Indices: 63472--63503 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63462 TAAAAGAGCA
63472 CCCCGATAAATTGTCC
1 CCCCGATAAATTGTCC
63488 CCCCGATAAATTGTCC
1 CCCCGATAAATTGTCC
63504 TTAAGGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.12, T:0.25
Consensus pattern (16 bp):
CCCCGATAAATTGTCC
Found at i:67373 original size:52 final size:52
Alignment explanation
Indices: 67310--67414 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
67300 AAGATTGGAT
* * *
67310 GCACATAAATAGGAAACTAGCCTAGAGTTGGGGGATTACAACTAATTACAAG
1 GCACAAAAATAGGAAACTAGCATAGAGTTAGGGGATTACAACTAATTACAAG
67362 GCACAAAAATAGGAAACTAGCATAGAGTTAGGGGATTACAACTAATTACAAG
1 GCACAAAAATAGGAAACTAGCATAGAGTTAGGGGATTACAACTAATTACAAG
67414 G
1 G
67415 ATATTATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (52 bp):
GCACAAAAATAGGAAACTAGCATAGAGTTAGGGGATTACAACTAATTACAAG
Found at i:67932 original size:100 final size:98
Alignment explanation
Indices: 67781--68753 Score: 613
Period size: 100 Copynumber: 9.8 Consensus size: 98
67771 TTTTAGTTAA
* * * *** * * *
67781 CATCAC-ACCAAATTTTTAATATGTTTTAATAATATAAAAAATTACATCCTTATAACTTAATCAA
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-CAG
*
67845 TT-ACAATAAAAACAAGGCTCAACCTACTACATTAT
65 TTCACAA-AAAAACAAGG-TCAACCTATTACATTAT
** * * * * *
67880 CATCTTAACCGAACTATAAATATGTTTTAATAATATAAACGGTTAAAACCTTATAACTTAACTGA
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAACAG-
* * * * ** *
67945 TTCACAATACAACAAGGTGAAATCTATTATGTTAC
65 TTCACAAAAAAACAAGGT-CAACCTATTACATTAT
* * * * * **
67980 CATTACAACTGGATTTTTAATAGGTTTTAATAATATAAATGGTTACAA-CCTTATAACTTAATTG
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTA-AAGCCTTATAACTTAA-CA
* *
68044 GTTTACAAAACAACAAGG-CGTAACCTATT--A--A-
64 GTTCACAAAAAAACAAGGTC--AACCTATTACATTAT
* * * * * *
68075 -ATCACAACCAAATTTTTAATAGCTTTTAATAATATAAACGATTACAA-TCTTATAACTTAACTG
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTA-AAGCCTTATAACTTAACAG
* * * ** *
68138 ATTAAAAATAAAAATAAGGTGCAACCTATTATGTTAC
65 -TTCACAA-AAAAACAAGGT-CAACCTATTACATTAT
* * *
68175 CATCGCAACC-AATTATTAATAAGTTTTAGTAATATAAACGGTTAAAGCCTTATAACTTAACCAG
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-CAG
* ** *
68239 TTCACAAAACAACAAGG-CGAAACCTATTATGTTAC
65 TTCACAAAAAAACAAGGTC--AACCTATTACATTAT
* * ** * **
68274 CATCACAACC-AGATTTTTAATAGGTTTTAATAATTTAAATAGTTAAAGCCTTGTAACTTAATTG
1 CATCACAACCGA-ATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-CA
* * * * *
68338 GTTGACAAAACAACAAGGCGCAACATATTACCTTAT
64 GTTCACAAAAAAACAAGG-TCAACCTATTACATTAT
* * * * * * *
68374 AATCACAATCGAATTTTTAATAAGTTCTAATAATATAAACAGTTACAGCCTTATAACTTAACTAG
1 CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAAC-AG
*
68439 TT-AAAATAAAAACAAGGTGCAACCTATTA-ATT-T
65 TTCACAA-AAAAACAAGGT-CAACCTATTACATTAT
** * * *
68472 CCATTGCAA-CAAGATTAGTAATAGGTTTTAATAATACAAACGGTTAAAGCCTTATAACTTAACC
1 -CATCACAACCGA-ATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-C
* *
68536 AGTTCACAAAACAAA-ATGGTGACACCTATTACATTAT
63 AGTTCACAAAA-AAACAAGGTCA-ACCTATTACATTAT
* * *
68573 CATCACAATCGGA-TATTTAATAGATTTTAATAATATAAACGGTTAAAGCCTTATAACTTAACCA
1 CATCACAACCGAATTA-TTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-CA
* * * *
68637 GTTCACAAAACAATAAGGAGCAACCTATTACGTTA-
64 GTTCACAAAAAAACAAGG-TCAACCTATTACATTAT
* * * * ** ** * *
68672 CGATCGCTACTGAGCTT-TTAATAGACTTTAATAATATAAATTGTTAAAGTCTTATAAATTAATC
1 C-ATCACAACCGA-ATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA-C
* *
68736 GGTTCACAAAACAACAAG
63 AGTTCACAAAAAAACAAG
68754 TCTTATATAA
Statistics
Matches: 694, Mismatches: 136, Indels: 87
0.76 0.15 0.09
Matches are distributed among these distances:
93 1 0.00
94 57 0.08
95 16 0.02
96 1 0.00
97 2 0.00
98 4 0.01
99 117 0.17
100 473 0.68
101 21 0.03
102 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (98 bp):
CATCACAACCGAATTATTAATAGGTTTTAATAATATAAACGGTTAAAGCCTTATAACTTAACAGT
TCACAAAAAAACAAGGTCAACCTATTACATTAT
Found at i:68210 original size:194 final size:196
Alignment explanation
Indices: 67904--68666 Score: 629
Period size: 199 Copynumber: 3.9 Consensus size: 196
67894 TATAAATATG
* * * * *
67904 TTTTAATAATATAAACGGTTAAAACCTTATAACTTAACTGATTCACAATACAACAAGGTGAAATC
1 TTTTAATAATATAAACGATTAAAACCTTATAACTTAACTGATTAAAAATAAAACAAGGTGAAACC
* ** * * *
67969 TATTATGTTACCATTACAACTGGATTTTTAATAGGTTTTAATAATATAAATGGTTACAA-CCTTA
66 TATTATGTTACCATCACAACTCAATTATTAATAAGTTTTAATAATATAAACGGTTA-AAGCCTTA
*** * *
68033 TAACTTAATTGGTTTACAAAACAACAAGGCGTAACCTATTA-A-ATCACAACCAAATTTTTAATA
130 TAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTATTATACATCACAACCAAATTTTTAATA
68096 GC
195 GC
* * * *
68098 TTTTAATAATATAAACGATTACAATCTTATAACTTAACTGATTAAAAATAAAAATAAGGTGCAAC
1 TTTTAATAATATAAACGATTAAAACCTTATAACTTAACTGATTAAAAAT-AAAACAAGGTGAAAC
* *
68163 CTATTATGTTACCATCGCAAC-CAATTATTAATAAGTTTTAGTAATATAAACGGTTAAAGCCTTA
65 CTATTATGTTACCATCACAACTCAATTATTAATAAGTTTTAATAATATAAACGGTTAAAGCCTTA
*
68227 TAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTATTATGTTACCATCACAACCAGATTTTT
130 TAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTATTA---TA-CATCACAACCAAATTTTT
*
68292 AATAGG
191 AATAGC
* * * * * * * * * *
68298 TTTTAATAATTTAAA-TAGTTAAAGCCTTGTAACTTAATTGGTTGACAAA-ACAACAAGGCGCAA
1 TTTTAATAATATAAACGA-TTAAAACCTTATAACTTAACTGATT-AAAAATAAAACAAGGTGAAA
* ** ** * * * *
68361 CATATTACCTTATAATCACAA-TCGAATTTTTAATAAGTTCTAATAATATAAACAGTTACAGCCT
64 CCTATTATGTTACCATCACAACTC-AATTATTAATAAGTTTTAATAATATAAACGGTTAAAGCCT
* * * * * * **
68425 TATAACTTAACTAGTT-AAAATAAAAACAAGGTGCAACCTATTAATTTCCATTGCAA-CAAGATT
128 TATAACTTAACCAGTTCACAA-AACAACAAGGCGAAACCTATT-A--TACATCACAACCAA-ATT
** *
68488 AGTAATAGG
188 TTTAATAGC
* * * * * * *
68497 TTTTAATAATACAAACGGTTAAAGCCTTATAACTTAAC-CAGTTCACAAAA-CAAA-ATGGTGAC
1 TTTTAATAATATAAACGATTAAAACCTTATAACTTAACTGA-TT-A-AAAATAAAACAAGGTGAA
** * *
68559 ACCTATTACATTATCATCACAA-TCGGA-TATTTAAT-AGATTTTAATAATATAAACGGTTAAAG
63 ACCTATTATGTTACCATCACAACTC-AATTA-TTAATAAG-TTTTAATAATATAAACGGTTAAAG
* * *
68621 CCTTATAACTTAACCAGTTCACAAAACAATAAGGAGCAACCTATTA
125 CCTTATAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTATTA
68667 CGTTACGATC
Statistics
Matches: 460, Mismatches: 88, Indels: 38
0.78 0.15 0.06
Matches are distributed among these distances:
193 2 0.00
194 114 0.25
195 30 0.07
198 7 0.02
199 170 0.37
200 132 0.29
201 5 0.01
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (196 bp):
TTTTAATAATATAAACGATTAAAACCTTATAACTTAACTGATTAAAAATAAAACAAGGTGAAACC
TATTATGTTACCATCACAACTCAATTATTAATAAGTTTTAATAATATAAACGGTTAAAGCCTTAT
AACTTAACCAGTTCACAAAACAACAAGGCGAAACCTATTATACATCACAACCAAATTTTTAATAG
C
Found at i:68333 original size:294 final size:289
Alignment explanation
Indices: 67777--68666 Score: 1029
Period size: 294 Copynumber: 3.0 Consensus size: 289
67767 AGCCTTTTAG
*
67777 TTAACATCAC-ACCAAATTTTTAATATGTTTTAATAATATAAAAAATTAC-ATCCTTATAACTTA
1 TTAA-ATCACAACCAAATTTTTAATA-GTTTTAATAATAT-AAACATTACAAT-CTTATAACTTA
* * * * * ** * * *
67840 ATCAATTACAATAAAAACAAGGCT-CAACCTACTACATTATCATCTTAACCGAACTATAAATATG
62 A-CTATTAAAATAAAAACAAGG-TGCAACCTATTA-TTTACCATCGCAACC-AATTATTAATAAG
* * * *
67904 TTTTAATAATATAAACGGTTAAAACCTTATAACTTAA-CTGATTCACAATACAACAAGGTGAAAT
123 TTTTAATAATATAAACGGTTAAAGCCTTATAACTTAACCAG-TTCACAAAACAACAAGGTGAAAC
* *
67968 CTATTATGTTACCATTACAACTGGATTTTTAATAGGTTTTAATAATATAAATGGTTACAA-CCTT
187 CTATTATGTTACCATCACAACCGGATTTTTAATAGGTTTTAATAATATAAATGGTTA-AAGCCTT
* *
68032 ATAACTTAATTGGTTTACAAAACAACAAGGCGTAACCTA
251 ATAACTTAATTGGTTCACAAAACAACAAGGCGCAACCTA
68071 TTAAATCACAACCAAATTTTTAATAGCTTTTAATAATATAAACGATTACAATCTTATAACTTAAC
1 TTAAATCACAACCAAATTTTTAATAG-TTTTAATAATATAAAC-ATTACAATCTTATAACTTAAC
*
68136 TGATTAAAAATAAAAATAAGGTGCAACCTATTATGTTACCATCGCAACCAATTATTAATAAGTTT
64 T-ATT-AAAATAAAAACAAGGTGCAACCTATTAT-TTACCATCGCAACCAATTATTAATAAGTTT
* *
68201 TAGTAATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTAT
126 TAATAATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGTGAAACCTAT
* * * *
68266 TATGTTACCATCACAACCAGATTTTTAATAGGTTTTAATAATTTAAATAGTTAAAGCCTTGTAAC
191 TATGTTACCATCACAACCGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTATAAC
* *
68331 TTAATTGGTTGACAAAACAACAAGGCGCAACATATTA
256 TTAATTGGTTCACAAAACAACAAGGCGCAAC---CTA
* * * **
68368 CCTTATAATCACAATCGAATTTTTAATAAGTTCTAATAATATAAACAGTTACAGCCTTATAACTT
1 --TTA-AATCACAACCAAATTTTTAAT-AGTTTTAATAATATAAACA-TTACAATCTTATAACTT
* * * *
68433 AACTAGTTAAAATAAAAACAAGGTGCAACCTATTAATTT-CCATTGCAACAAGATTAGTAATAGG
61 AACTA-TTAAAATAAAAACAAGGTGCAACCTATT-ATTTACCATCGCAACCA-ATTATTAATAAG
* *
68497 TTTTAATAATACAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAA-AATGGTGACAC
123 TTTTAATAATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAA-GGTGAAAC
** * * * * *
68561 CTATTACATTATCATCACAATCGGATATTTAATAGATTTTAATAATATAAACGGTTAAAGCCTTA
187 CTATTATGTTACCATCACAACCGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTA
*** * *
68626 TAACTTAACCAGTTCACAAAACAATAAGGAGCAACCTA
252 TAACTTAATTGGTTCACAAAACAACAAGGCGCAACCTA
68664 TTA
1 TTA
68667 CGTTACGATC
Statistics
Matches: 515, Mismatches: 59, Indels: 44
0.83 0.10 0.07
Matches are distributed among these distances:
293 12 0.02
294 209 0.41
295 37 0.07
296 2 0.00
297 2 0.00
298 12 0.02
299 182 0.35
300 57 0.11
301 2 0.00
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (289 bp):
TTAAATCACAACCAAATTTTTAATAGTTTTAATAATATAAACATTACAATCTTATAACTTAACTA
TTAAAATAAAAACAAGGTGCAACCTATTATTTACCATCGCAACCAATTATTAATAAGTTTTAATA
ATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGTGAAACCTATTATGT
TACCATCACAACCGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTATAACTTAAT
TGGTTCACAAAACAACAAGGCGCAACCTA
Found at i:68693 original size:299 final size:292
Alignment explanation
Indices: 67782--68711 Score: 965
Period size: 299 Copynumber: 3.1 Consensus size: 292
67772 TTTAGTTAAC
** * * * * *
67782 ATCACACCAAATTTTTAATATGTTTTAATAATATAAAAAATTACATCCTTATAACTTAA-TCAAT
1 ATCACACTGAATTTTTAATAAGTTTTAATAATATAAACAGTTACAACCTTATAACTTAACT-AGT
* * * * * *
67846 TACAATAAAAACAAGGCT-CAACCTACTACATTAT-CATCT-TAACCGAACTATAAATATGTTTT
65 TAAAATAAAAACAAGG-TGCAACCTATTA-ATT-TCCAT-TGCAACAG-ATTAT-AATAAGTTTT
* * * *
67908 AATAATATAAACGGTTAAAACCTTATAACTTAA-CTGATTCACAATACAACAAGGTGAAATCTAT
124 AATAATATAAACGGTTAAAGCCTTATAACTTAACCAG-TTCACAAAACAACAAGGTGAAACCTAT
*
67972 TATGTTACCATTACAACTGGATTTTTAATAGGTTTTAATAATATAAATGGTTACAA-CCTTATAA
188 TATGTTACCATCACAAC-GGATTTTTAATAGGTTTTAATAATATAAATGGTTA-AAGCCTTATAA
* *
68036 CTTAATTGGTTTACAAAACAACAAGGCGTAACCTATTA---A
251 CTTAATTGGTTCACAAAACAACAAGGCGCAACCTATTACTTA
** *
68075 ATCACAACCAAATTTTTAAT-AGCTTTTAATAATATAAAC-GATTACAATCTTATAACTTAACT-
1 ATCAC-ACTGAATTTTTAATAAG-TTTTAATAATATAAACAG-TTACAACCTTATAACTTAACTA
* *
68137 GATTAAAAATAAAAATAAGGTGCAACCTATT-ATGTTACCATCGCAACCA-ATTATTAATAAGTT
63 G-TT-AAAATAAAAACAAGGTGCAACCTATTAAT-TT-CCATTGCAA-CAGATTA-TAATAAGTT
* *
68200 TTAGTAATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGCGAAACCTA
122 TTAATAATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGTGAAACCTA
* * * *
68265 TTATGTTACCATCACAACCAGATTTTTAATAGGTTTTAATAATTTAAATAGTTAAAGCCTTGTAA
187 TTATGTTACCATCACAA-CGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTATAA
* *
68330 CTTAATTGGTTGACAAAACAACAAGGCGCAACATATTACCTTATA
251 CTTAATTGGTTCACAAAACAACAAGGCGCAACCTATTA-C-T-TA
* * *
68375 ATCACAATCGAATTTTTAATAAGTTCTAATAATATAAACAGTTACAGCCTTATAACTTAACTAGT
1 ATCACACT-GAATTTTTAATAAGTTTTAATAATATAAACAGTTACAACCTTATAACTTAACTAGT
*
68440 TAAAATAAAAACAAGGTGCAACCTATTAATTTCCATTGCAACAAGATTAGTAATAGGTTTTAATA
65 TAAAATAAAAACAAGGTGCAACCTATTAATTTCCATTGCAAC-AGATTA-TAATAAGTTTTAATA
* * **
68505 ATACAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAA-AATGGTGACACCTATTACA
128 ATATAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAA-GGTGAAACCTATTATG
* * * *
68569 TTATCATCACAATCGGATATTTAATAGATTTTAATAATATAAACGGTTAAAGCCTTATAACTTAA
192 TTACCATCACAA-CGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTATAACTTAA
*** * *
68634 CCAGTTCACAAAACAATAAGGAGCAACCTATTACGTTA
256 TTGGTTCACAAAACAACAAGGCGCAACCTATTAC-TTA
* ** *
68672 CGATCGCTACTGAGCTTTTAAT-AGACTTTAATAATATAAA
1 --ATCAC-ACTGAATTTTTAATAAG-TTTTAATAATATAAA
68712 TTGTTAAAGT
Statistics
Matches: 536, Mismatches: 67, Indels: 62
0.81 0.10 0.09
Matches are distributed among these distances:
293 11 0.02
294 206 0.38
295 31 0.06
296 1 0.00
297 3 0.01
298 15 0.03
299 209 0.39
300 56 0.10
301 4 0.01
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (292 bp):
ATCACACTGAATTTTTAATAAGTTTTAATAATATAAACAGTTACAACCTTATAACTTAACTAGTT
AAAATAAAAACAAGGTGCAACCTATTAATTTCCATTGCAACAGATTATAATAAGTTTTAATAATA
TAAACGGTTAAAGCCTTATAACTTAACCAGTTCACAAAACAACAAGGTGAAACCTATTATGTTAC
CATCACAACGGATTTTTAATAGGTTTTAATAATATAAATGGTTAAAGCCTTATAACTTAATTGGT
TCACAAAACAACAAGGCGCAACCTATTACTTA
Found at i:77247 original size:14 final size:15
Alignment explanation
Indices: 77228--77268 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
77218 AAATTATTAG
77228 CTTTTAGGTTTA-A-T
1 CTTTTA-GTTTAGATT
77242 CTTTTAGTTTAGATT
1 CTTTTAGTTTAGATT
77257 CTTTTAGTTTAG
1 CTTTTAGTTTAG
77269 TCCATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.59
Consensus pattern (15 bp):
CTTTTAGTTTAGATT
Found at i:77335 original size:14 final size:14
Alignment explanation
Indices: 77316--77346 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
77306 TTAGATCTAA
77316 TTTCACCTTAGTCC
1 TTTCACCTTAGTCC
77330 TTTCACCTTAGTCC
1 TTTCACCTTAGTCC
77344 TTT
1 TTT
77347 AATTTAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.32, G:0.06, T:0.48
Consensus pattern (14 bp):
TTTCACCTTAGTCC
Found at i:77529 original size:86 final size:86
Alignment explanation
Indices: 77429--77621 Score: 289
Period size: 86 Copynumber: 2.2 Consensus size: 86
77419 AATTGGTTAA
* * *
77429 AATTAATTAAGTTAATAATTAGAGCATTAAGTTTAAATTCTTCACAATTTAGTCCTTTAGCTTTT
1 AATTAATTAGGTTAATAATTAGAACATTAACTTTAAATTCTTCACAATTTAGTCCTTTAGCTTTT
*
77494 AATTAGATATT-ATTTTACAT
66 AATTAGATATTCATTTGACAT
* * * *
77514 AATTAATTAGGGTTAACAATTAGAACCTTAACTTTAGATTCTTCACAATTTAGTCCTTTATCTTT
1 AATTAATTA-GGTTAATAATTAGAACATTAACTTTAAATTCTTCACAATTTAGTCCTTTAGCTTT
*
77579 TAATTATATATTCATTTGACAT
65 TAATTAGATATTCATTTGACAT
77601 AATTAATTAGGTTAATAATTA
1 AATTAATTAGGTTAATAATTA
77622 CTGCTTCATT
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 9 0.09
86 70 0.73
87 17 0.18
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.45
Consensus pattern (86 bp):
AATTAATTAGGTTAATAATTAGAACATTAACTTTAAATTCTTCACAATTTAGTCCTTTAGCTTTT
AATTAGATATTCATTTGACAT
Found at i:83063 original size:14 final size:14
Alignment explanation
Indices: 83012--83065 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
83002 TCAAAGTCAA
*
83012 CGAGTTGACTCTGTT
1 CGAGTTGACTC-GAT
* * *
83027 CGAGTTGAATCAAA
1 CGAGTTGACTCGAT
83041 CGAGTTGACTCGAT
1 CGAGTTGACTCGAT
83055 CGAGTTGACTC
1 CGAGTTGACTC
83066 AGTTCAACTC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (14 bp):
CGAGTTGACTCGAT
Found at i:83127 original size:19 final size:19
Alignment explanation
Indices: 83089--83127 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
83079 TCGTTTTAAT
* **
83089 TGGACCAATTCGATTTGAC
1 TGGACCAATTCCATAAGAC
83108 TGGACCAATTCCATAAGAC
1 TGGACCAATTCCATAAGAC
83127 T
1 T
83128 CCTGGTCCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (19 bp):
TGGACCAATTCCATAAGAC
Found at i:84130 original size:20 final size:19
Alignment explanation
Indices: 84084--84132 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
84074 GGACTTAAGT
84084 GATATTTT-TTCCAAAAAG
1 GATATTTTATTCCAAAAAG
* *
84102 AAT-TTTTATTCCATAAATG
1 GATATTTTATTCCA-AAAAG
84121 GATATTTTATTC
1 GATATTTTATTC
84133 TTGAGAGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 4 0.16
18 7 0.28
19 6 0.24
20 8 0.32
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (19 bp):
GATATTTTATTCCAAAAAG
Found at i:85316 original size:19 final size:19
Alignment explanation
Indices: 85276--85320 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
85266 TACTATGCTG
*
85276 GAAATTAATGTTGAGAACT
1 GAAATTGATGTTGAGAACT
*
85295 GAAATTGATGTT-AGAATGT
1 GAAATTGATGTTGAGAA-CT
85314 GAAATTG
1 GAAATTG
85321 GATTATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.40, C:0.02, G:0.24, T:0.33
Consensus pattern (19 bp):
GAAATTGATGTTGAGAACT
Found at i:86691 original size:39 final size:39
Alignment explanation
Indices: 86648--86896 Score: 241
Period size: 39 Copynumber: 6.3 Consensus size: 39
86638 ATTTGATAAT
* *
86648 CACTTTAGTGCAAAGGATCGACGCAACCTTATGCGTAAA
1 CACTTTGGTGCAAAGGATCGACGCAACCTTATGCGTAAG
* * * * *
86687 CACTTCGATGCAAAGGATCAACGCAACCTGATGCATAAG
1 CACTTTGGTGCAAAGGATCGACGCAACCTTATGCGTAAG
* *
86726 CACTTTGGTGCAAAGGATTGACACAACCTTATGCGTAAG
1 CACTTTGGTGCAAAGGATCGACGCAACCTTATGCGTAAG
* * * * *
86765 CTCTTCT-GTGAAAAAAGGGTTGACGCAACCTTATGCGTAAT
1 CACTT-TGGTG--CAAAGGATCGACGCAACCTTATGCGTAAG
* *
86806 CACTTTGGTGCTAAGGATCGACACAACCTTATGCGTAAG
1 CACTTTGGTGCAAAGGATCGACGCAACCTTATGCGTAAG
* * * * *
86845 CTCTTCT-GTGCAAAAAGGGTTGATGCAACCTTATGCGTAAT
1 CACTT-TGGTGC--AAAGGATCGACGCAACCTTATGCGTAAG
86886 CACTTTGGTGC
1 CACTTTGGTGC
86897 TACTCGAATA
Statistics
Matches: 168, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
39 102 0.61
40 4 0.02
41 62 0.37
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (39 bp):
CACTTTGGTGCAAAGGATCGACGCAACCTTATGCGTAAG
Found at i:86898 original size:80 final size:80
Alignment explanation
Indices: 86644--86896 Score: 350
Period size: 80 Copynumber: 3.2 Consensus size: 80
86634 GCATATTTGA
* * * * * *
86644 TAATCACTTTAGTGCAAAGGATCGACGCAACCTTATGCGTAAACACTTC-GATGC--AAAGGATC
1 TAATCACTTTGGTGCAAAGGATCGACACAACCTTATGCGTAAGCTCTTCTG-TGCAAAAAGGGTT
* * *
86706 AACGCAACCTGATGCA
65 GACGCAACCTTATGCG
* * *
86722 TAAGCACTTTGGTGCAAAGGATTGACACAACCTTATGCGTAAGCTCTTCTGTGAAAAAAGGGTTG
1 TAATCACTTTGGTGCAAAGGATCGACACAACCTTATGCGTAAGCTCTTCTGTGCAAAAAGGGTTG
86787 ACGCAACCTTATGCG
66 ACGCAACCTTATGCG
*
86802 TAATCACTTTGGTGCTAAGGATCGACACAACCTTATGCGTAAGCTCTTCTGTGCAAAAAGGGTTG
1 TAATCACTTTGGTGCAAAGGATCGACACAACCTTATGCGTAAGCTCTTCTGTGCAAAAAGGGTTG
*
86867 ATGCAACCTTATGCG
66 ACGCAACCTTATGCG
86882 TAATCACTTTGGTGC
1 TAATCACTTTGGTGC
86897 TACTCGAATA
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
78 45 0.29
79 1 0.01
80 109 0.70
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (80 bp):
TAATCACTTTGGTGCAAAGGATCGACACAACCTTATGCGTAAGCTCTTCTGTGCAAAAAGGGTTG
ACGCAACCTTATGCG
Found at i:87900 original size:18 final size:17
Alignment explanation
Indices: 87877--87910 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
87867 TTTCGGGCTA
87877 TATATATTTATTTATTAC
1 TATATATTTA-TTATTAC
87895 TATATATTTATTATTA
1 TATATATTTATTATTA
87911 TTATTATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATATTTATTATTAC
Found at i:91430 original size:32 final size:32
Alignment explanation
Indices: 91369--91430 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
91359 TACCCTCATT
*
91369 AATAAAAATATTAATATTGTATAATTTATTGA
1 AATAAAAATATTAATAATGTATAATTTATTGA
91401 AATAAAAATATT-ATAAAT-TATAATATTATT
1 AATAAAAATATTAAT-AATGTATAAT-TTATT
91431 TATTAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (32 bp):
AATAAAAATATTAATAATGTATAATTTATTGA
Found at i:91705 original size:22 final size:23
Alignment explanation
Indices: 91677--91723 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
91667 TTGATTATTT
91677 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
91699 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
91722 TA
1 TA
91724 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:91728 original size:22 final size:22
Alignment explanation
Indices: 91685--91728 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
91675 TTTATTATAA
*
91685 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
91707 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
91729 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:92275 original size:17 final size:17
Alignment explanation
Indices: 92253--92318 Score: 105
Period size: 17 Copynumber: 3.8 Consensus size: 17
92243 GTTTCAGATT
*
92253 CAGATTCTAATTCCTTA
1 CAGATTCCAATTCCTTA
*
92270 CAGATTCCAATTCCTGA
1 CAGATTCCAATTCCTTA
92287 CAGATTCCAATTCCTTCA
1 CAGATTCCAATTCCTT-A
92305 CAGATTCCAATTCC
1 CAGATTCCAATTCC
92319 CTCATAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
17 30 0.67
18 15 0.33
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (17 bp):
CAGATTCCAATTCCTTA
Found at i:92940 original size:39 final size:39
Alignment explanation
Indices: 92867--92993 Score: 137
Period size: 39 Copynumber: 3.3 Consensus size: 39
92857 GTATATTGGA
* * *
92867 TAAGCACTTCAGTACAAAAGATCAACACAACCTTATGTG
1 TAAGTACTTCAGTGCAAAGGATCAACACAACCTTATGTG
* ** **
92906 TAAGTAGTTTTGTGCAAAGGATCAACACAACCTTATGCA
1 TAAGTACTTCAGTGCAAAGGATCAACACAACCTTATGTG
* ** **
92945 TAAGCACTTCAGTGCAAAGGATTGATGCAACCTTATGTG
1 TAAGTACTTCAGTGCAAAGGATCAACACAACCTTATGTG
92984 TAAGTACTTC
1 TAAGTACTTC
92994 GGAGCAAAAA
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (39 bp):
TAAGTACTTCAGTGCAAAGGATCAACACAACCTTATGTG
Found at i:93001 original size:39 final size:39
Alignment explanation
Indices: 92894--93027 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 39
92884 AAGATCAACA
* * ** ** **
92894 CAACCTTATGTGTAAGTAGTTTTGTGCAAAGGATCAACA
1 CAACCTTATGCGTAAGTACTTCAGTGCAAAGGATTGATG
* *
92933 CAACCTTATGCATAAGCACTTCAGTGCAAAGGATTGATG
1 CAACCTTATGCGTAAGTACTTCAGTGCAAAGGATTGATG
* * * *
92972 CAACCTTATGTGTAAGTACTTCGGAGCAAAAAGGGTTGATG
1 CAACCTTATGCGTAAGTACTTCAGTGC--AAAGGATTGATG
93013 CAACCTTATGCGTAA
1 CAACCTTATGCGTAA
93028 TCAATTCGGC
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 51 0.67
41 25 0.33
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (39 bp):
CAACCTTATGCGTAAGTACTTCAGTGCAAAGGATTGATG
Found at i:101663 original size:54 final size:54
Alignment explanation
Indices: 101576--102203 Score: 681
Period size: 54 Copynumber: 11.8 Consensus size: 54
101566 AAACAATATT
* * **
101576 ATGTTTTCAAATGAAGTTTGAAAGAAGCTAAGCCCAATTTTCAAGGGTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* * * * *
101630 ATGTCTTCAAATAAAGTTTAAAAGAAACTAAGCCTGATTTT-TAGGGTTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGG-TTTCTTG
* * * *
101684 ATGTTTTCAAATGAATTTTGAAAGAACCTAAGCCTGATTTTTAGGGGTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* *
101738 ATGTTTTCAAATGAATATTT-AAAGAAGCTAAAG--TAGATTTTCAAGGGTTTATTG
1 ATGTCTTCAAATGAAT-TTTGAAAGAAGCT-AAGCCT-GATTTTCAAGGGTTTCTTG
* *
101792 ATGTCTTCAAATGAATTTTGAAAGAATCTAAGTCTGATTTTC-AGGAGTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGG-GTTTCTTG
* * * * *
101846 ATGTCTTCAAATGAATTTTGAAAGAATCTAAGACTAATTTTCAGGGGTTTTTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* * *
101900 ATGCCTTCAAATGAATTTTGAAAGAAGCTAAGCTTGATTTTCAGGGGTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* * *
101954 ATGTATTCAAAAGAATTTTG--A-AA--TAAG-CTGATTTAT-AAGGGTTTCTTT
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTT-TCAAGGGTTTCTTG
* * * *
102002 ATGTTTTCAAATGAATTTTTAAAGAAGCTAAGCCTGATTTTCATGGGTTTATTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* ** * * *
102056 ATAT-TTACAAATGAATTTTTTAAGGAGCTAAGCTTGATTTTC-AGGGATTCTTG
1 ATGTCTT-CAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* * * * *
102109 ATGTTTTCAAATGAATTTTTAAAGGAGCTAAACCTGATTTTCAGGGGTTTCTTG
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
* * *
102163 ATGTCTTCAAATGAATTTTTAAAGAATCTAAGCCTAATTTT
1 ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTT
102204 TAGGGATTTG
Statistics
Matches: 492, Mismatches: 61, Indels: 42
0.83 0.10 0.07
Matches are distributed among these distances:
48 33 0.07
49 5 0.01
50 1 0.00
51 4 0.01
52 1 0.00
53 64 0.13
54 372 0.76
55 12 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
ATGTCTTCAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTCAAGGGTTTCTTG
Found at i:109093 original size:39 final size:39
Alignment explanation
Indices: 109038--109203 Score: 190
Period size: 39 Copynumber: 4.2 Consensus size: 39
109028 TGCATATTGG
*
109038 ATAAGCACTTCGGTGCAAAGGATATACGCAACCTTATGC
1 ATAAGCACTTCGGTGCAAAGGATAGACGCAACCTTATGC
* * * *
109077 GTAAGCACTTCAGTGCAATGGATCA-ACACAACCTTATGC
1 ATAAGCACTTCGGTGCAAAGGAT-AGACGCAACCTTATGC
* * * *
109116 ATAAGCACTTCGGTGCAAAGGATCGACGCAGCATTATTC
1 ATAAGCACTTCGGTGCAAAGGATAGACGCAACCTTATGC
* * *
109155 GTAAGCACTTCGGTGCAAAAAGGGTCGACGCAACCTTATGC
1 ATAAGCACTTCGGTGC--AAAGGATAGACGCAACCTTATGC
109196 ATAAGCAC
1 ATAAGCAC
109204 ATAGGTGCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 78 0.74
40 1 0.01
41 26 0.25
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (39 bp):
ATAAGCACTTCGGTGCAAAGGATAGACGCAACCTTATGC
Found at i:109171 original size:78 final size:79
Alignment explanation
Indices: 109038--109203 Score: 226
Period size: 78 Copynumber: 2.1 Consensus size: 79
109028 TGCATATTGG
* * *
109038 ATAAGCACTTCGGTGCAAAGGATATACGCAACCTTATGCGTAAGCACTTCAGTGC-AATGGATCA
1 ATAAGCACTTCGGTGCAAAGGATAGACGCAACATTATGCGTAAGCACTTCAGTGCAAAAGGATCA
109102 ACACAACCTTATGC
66 ACACAACCTTATGC
* * * * *
109116 ATAAGCACTTCGGTGCAAAGGATCGACGCAGCATTATTCGTAAGCACTTCGGTGCAAAAAGGGTC
1 ATAAGCACTTCGGTGCAAAGGATAGACGCAACATTATGCGTAAGCACTTCAGTGC-AAAAGGATC
* *
109181 GACGCAACCTTATGC
65 AACACAACCTTATGC
109196 ATAAGCAC
1 ATAAGCAC
109204 ATAGGTGCGA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
78 49 0.64
80 27 0.36
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (79 bp):
ATAAGCACTTCGGTGCAAAGGATAGACGCAACATTATGCGTAAGCACTTCAGTGCAAAAGGATCA
ACACAACCTTATGC
Found at i:109639 original size:15 final size:15
Alignment explanation
Indices: 109619--109649 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
109609 TTACTATATT
109619 AAATTAGATTTTTAA
1 AAATTAGATTTTTAA
109634 AAATTAGATTTTTAA
1 AAATTAGATTTTTAA
109649 A
1 A
109650 TCATACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AAATTAGATTTTTAA
Found at i:110553 original size:55 final size:55
Alignment explanation
Indices: 110416--111264 Score: 976
Period size: 55 Copynumber: 15.5 Consensus size: 55
110406 TTCAATGGTT
* * * * * * **
110416 TTGCACACATAGTGCCGATACGGTAATCCACAAACTCATTATGAATTACATCAGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * * * *
110471 -TGCACACATATTGCCAATA-TGATAATTCATAAACTCATTATAAATTACATGGTG
1 TTGCACACATAGTGCCAATACGGA-AATTCATAAACTCATTATGAATTTCGTGGGG
* * * *
110525 TTGCACACATAGTACCAATACGGAAATTCATAAACTCGTTATGAATTTCAT-GGA
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
** *
110579 TTGCACACATAGTGCCAATATAGAAATTCATAAACTCATTATGAATTTTGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * * *
110634 TTGCACACATAATGCTAATACGAAAATTCATAAAATCATTATGAATTTTGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * * *
110689 TTGTATACATAGTGTCAATAAGGAGATTCAT-AACTCATTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * *
110743 TTGCACTCATGGTGCCAATACAGAAATTCATAAACTCATTATGAATTTCGTGGGA
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * *
110798 TTGCACATATAGTTCCAATACGAAAATTCATAAACTAATTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* ** * *
110853 TTGCACACATAGAGCCAATACACAAATTCATAAATTCATTATAAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* *
110908 TTGCACACATAGTGCCAATAC-GATAATTCATAATCTCATTATGAATTACGTGGGG
1 TTGCACACATAGTGCCAATACGGA-AATTCATAAACTCATTATGAATTTCGTGGGG
* * * * * *
110963 TTGAAAACATAATGCAAATACAGAAATTCATAAACTCGTTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * *
111018 TTGCACACATAGTGCCAATAC-GATAATTCATAAACTTATTATGAATTACGTGGGC
1 TTGCACACATAGTGCCAATACGGA-AATTCATAAACTCATTATGAATTTCGTGGGG
* * * ** * * *
111073 CTGCACACATAATGCAAATATAGAAATTCAAAAACTCAATATGAA-TTAGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
*
111127 TTGCACACATAGTGACAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
1 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
* * * * *
111182 TTGCACACATAGTG-TATATACGAAAATTCATTAACTCATTATGAAATTCTTGGGG
1 TTGCACACATAGTGCCA-ATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
*
111237 TTGCACACATAGTGTCAATACGGAAATT
1 TTGCACACATAGTGCCAATACGGAAATT
111265 ACAACATATA
Statistics
Matches: 669, Mismatches: 113, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.00
54 179 0.27
55 482 0.72
56 7 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (55 bp):
TTGCACACATAGTGCCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGG
Found at i:117044 original size:2 final size:2
Alignment explanation
Indices: 117037--117066 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
117027 TTCATTTATT
117037 TA TA TA 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
117067 ACACGTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117574 original size:55 final size:55
Alignment explanation
Indices: 117425--118186 Score: 985
Period size: 55 Copynumber: 13.9 Consensus size: 55
117415 TGAATATATT
* * ** * ** * * *
117425 AACTCATTATGAATTCCATGGTTTTGCACACATAGTACTGATACGGTAATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * * * *
117480 AA---ATCATGAATTACATGGGG-TGCACACATAGTGCCAATACGGTAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* ** * **
117531 AACTCGTTATGAATTAAGTGGGGTTGCGCACATAGTATCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
*
117586 AACTCATTATGAATTTCGTGGGGCTGCACACATAGTGCCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* *
117641 AACTCATTATGAATTTCGTGGGGTTGCACTCATAGTGCCAATACATAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * *
117696 AACTCATTATGAATTTTGTGGGGTTGTACACTTAGTGCCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * *
117751 AACTCATTATGAATTTTGTGGGGCTGCACACATAGTGTCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
*
117806 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGTCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* **
117861 AACTCATTATGAATTTCATGGGGTTATACACATAGTGCCAATACAGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * * *
117916 AACTCATTATGAATTTCGTGGGGTTGCACACATAATGCCCATACGGTAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * * * * ** *
117971 AACTCATTATTAATTACGTGAGATTGAACACATAGTGCCAATATGGAAATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * *
118026 AACTCATTATGAATTAT-GTGGGGTTTCATACATAGTGCCAATACGGAAATTCATA
1 AACTCATTATGAATT-TCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* * * *
118081 AACTCATTCTGAATTTTGTGGGGTTGCACACATAGTACCAATACTGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
* *
118136 AACTCATTATGAATTTCGTGGGGTTACACACATAGTGCCAATACAAAAATT
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATT
118187 GCAGCATATA
Statistics
Matches: 622, Mismatches: 79, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
51 29 0.05
52 14 0.02
54 15 0.02
55 564 0.91
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (55 bp):
AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACAGAAATTCATA
Found at i:118859 original size:20 final size:21
Alignment explanation
Indices: 118816--118859 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
118806 CAACTAACTT
** *
118816 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
118837 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
118857 ACA
1 ACA
118860 CTCAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:128323 original size:26 final size:28
Alignment explanation
Indices: 128269--128323 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
128259 GATTCTATTT
* *
128269 AATATATATATATATATAATTTTTTAAA
1 AATATATATATATATATAAGTTTTGAAA
128297 AATATATATA-ATATAT-AGTTTTGAAA
1 AATATATATATATATATAAGTTTTGAAA
128323 A
1 A
128324 CATTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 6 0.24
28 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
AATATATATATATATATAAGTTTTGAAA
Found at i:128341 original size:39 final size:38
Alignment explanation
Indices: 128289--128522 Score: 282
Period size: 37 Copynumber: 6.5 Consensus size: 38
128279 TATATATAAT
*
128289 TTTTTAAAAATATATATAATATATAG-TTTTGAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
* *
128326 TTTTAAAAAATATATATAATATATAGTTTTTGAAAACC
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
* *
128364 TTTCGAAAAAATATATATAATATATAGTTTTTAAAAACA
1 TTTTG-AAAAATATATATAATATATAGTTTTTGAAAACA
128403 TTTTG-AAAATATATATAATATATAGTTTTTG-AAA-A
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
* *
128438 ---T-----ATATATATAATATATAGTTTTTTACAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
128468 TTTTG-AAAATATATATAATATATAG-TTTTGAAAACA
1 TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
*
128504 TTTTG-AATATATATATAAT
1 TTTTGAAAAATATATATAAT
128523 TTTAAAATGT
Statistics
Matches: 173, Mismatches: 13, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
28 22 0.13
29 2 0.01
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 30 0.17
37 67 0.39
38 13 0.08
39 35 0.20
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (38 bp):
TTTTGAAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:128378 original size:65 final size:66
Alignment explanation
Indices: 128269--128556 Score: 257
Period size: 65 Copynumber: 4.3 Consensus size: 66
128259 GATTCTATTT
* * * * *
128269 AATATATATATATATATAATTTTTTAAAA-ATATA-TATA-ATATATAGTTTTGAAAACATTTTA
1 AATATATATA-ATATATAGTTTTTGAAAACATTTAGAATATATATATAGTTTTTAAAACATTTT-
*
128331 AAA
64 GAA
* *
128334 AATATATATAATATATAGTTTTTGAAAACCTTTCGAAAAAATATATATAATATATAGTTTTTAAA
1 AATATATATAATATATAGTTTTTGAAAACATTT-------AGA-ATAT-ATATATAGTTTTT-AA
128399 AACATTTTGAA
56 AACATTTTGAA
* * * *
128410 AATATATATAATATATAGTTTTTGAAAATATATA-TATA-ATATATAGTTTTTTACAACATTTTG
1 AATATATATAATATATAGTTTTTGAAAACATTTAGAATATATATATAG-TTTTTAAAACATTTTG
128473 AA
65 AA
* * **
128475 AATATATATAATATATAG-TTTTGAAAACATTTTGAATATATATATA-ATTTTAAAATGTTTTTG
1 AATATATATAATATATAGTTTTTGAAAACATTTAGAATATATATATAGTTTTTAAAA-CATTTTG
128538 AA
65 AA
128540 AATATATATAATATATA
1 AATATATATAATATATA
128557 TAGTTTGATG
Statistics
Matches: 186, Mismatches: 20, Indels: 34
0.77 0.08 0.14
Matches are distributed among these distances:
64 35 0.19
65 77 0.41
66 12 0.06
67 3 0.02
69 1 0.01
72 1 0.01
74 3 0.02
76 44 0.24
77 10 0.05
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (66 bp):
AATATATATAATATATAGTTTTTGAAAACATTTAGAATATATATATAGTTTTTAAAACATTTTGA
A
Found at i:128432 original size:26 final size:28
Alignment explanation
Indices: 128403--128460 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
128393 TTTAAAAACA
128403 TTTTG-AAA-ATATATATAATATATAGT
1 TTTTGAAAATATATATATAATATATAGT
128429 TTTTGAAAATATATATATAATATATAGT
1 TTTTGAAAATATATATATAATATATAGT
128457 TTTT
1 TTTT
128461 TACAACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 5 0.17
27 3 0.10
28 22 0.73
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (28 bp):
TTTTGAAAATATATATATAATATATAGT
Found at i:128525 original size:29 final size:29
Alignment explanation
Indices: 128480--128551 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
128470 TTGAAAATAT
*
128480 ATATAATATATAGTTTTGAAAA-CATTTTGA
1 ATAT-ATATATAATTTT-AAAATCATTTTGA
**
128510 ATATATATATAATTTTAAAATGTTTTTGA
1 ATATATATATAATTTTAAAATCATTTTGA
*
128539 AAATATATATAAT
1 ATATATATATAAT
128552 ATATATAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 4 0.11
29 29 0.78
30 4 0.11
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (29 bp):
ATATATATATAATTTTAAAATCATTTTGA
Found at i:128613 original size:15 final size:14
Alignment explanation
Indices: 128582--128630 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
128572 GTTTCGAAAA
128582 TATTTTTAATATT-TT
1 TATTTTT-AT-TTATT
128597 TATTATTTATTTATT
1 TATT-TTTATTTATT
128612 TATTTTTA-TT-TT
1 TATTTTTATTTATT
128624 TATTTTT
1 TATTTTT
128631 TTCTATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.28
13 2 0.06
14 6 0.19
15 12 0.38
16 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:128619 original size:6 final size:6
Alignment explanation
Indices: 128591--128630 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
128581 ATATTTTTAA
128591 TATTTT TATTATT TATTTATT TATTTT TATTTT TATTTT T
1 TATTTT TATT-TT TA-TT-TT TATTTT TATTTT TATTTT T
128631 TTCTATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 19 0.59
7 6 0.19
8 7 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TATTTT
Found at i:128627 original size:16 final size:16
Alignment explanation
Indices: 128606--128639 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
128596 TTATTATTTA
128606 TTTATTTATTTT-TATT
1 TTTATTT-TTTTCTATT
128622 TTTATTTTTTTCTATT
1 TTTATTTTTTTCTATT
128638 TT
1 TT
128640 AGGTCCAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTATTTTTTTCTATT
Found at i:140561 original size:39 final size:39
Alignment explanation
Indices: 140470--140803 Score: 432
Period size: 39 Copynumber: 8.6 Consensus size: 39
140460 TATAATACAT
* * *
140470 AAAAAATTTCGAAAATATATATATAATATATAG-TTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
*
140508 AAAACATTTTGAAAAAATGTATATAATATATAGTTTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
* * *
140547 AAAAAAATTCG--AAAATATATATAATATATAGTTTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
* *
140584 AAAACATTTTGAAAAAATATATATAATATTTAGTTTTTT
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
* * *
140623 AAAACCTTTAGAATATATATATATATATATATATATATAGTTTTTT
1 AAAACATTTTG-A-A-A-A-A-ATATATATA-ATATATAGTTTTTG
140669 AAAACATTTTG--AAAATATATATAATATATAGTTTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
140706 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
140745 AAAACATTTTG--AAAATATATATAATATATAG-TTTTG
1 AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
*
140781 AAAACATTTTGAAAATATATATA
1 AAAACATTTTGAAAAAATATATA
140804 ATTTTAAAAC
Statistics
Matches: 262, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
36 16 0.06
37 77 0.29
38 47 0.18
39 84 0.32
40 2 0.01
41 2 0.01
42 1 0.00
43 1 0.00
44 1 0.00
45 9 0.03
46 22 0.08
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (39 bp):
AAAACATTTTGAAAAAATATATATAATATATAGTTTTTG
Found at i:140640 original size:2 final size:2
Alignment explanation
Indices: 140635--140661 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
140625 AACCTTTAGA
140635 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
140662 GTTTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:140808 original size:29 final size:29
Alignment explanation
Indices: 140768--140834 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
140758 AATATATATA
*
140768 ATATATAGTTTTGAAAAC-ATTTTGAAAAT
1 ATATATAATTTT-AAAACGATTTTGAAAAT
*
140797 ATATATAATTTTAAAACGTTTTTGAAAAT
1 ATATATAATTTTAAAACGATTTTGAAAAT
140826 ATATATAAT
1 ATATATAAT
140835 ATATATAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (29 bp):
ATATATAATTTTAAAACGATTTTGAAAAT
Found at i:140818 original size:76 final size:75
Alignment explanation
Indices: 140645--140824 Score: 265
Period size: 76 Copynumber: 2.4 Consensus size: 75
140635 ATATATATAT
* *
140645 ATATATATATATATATAGTTTTTTAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAA
1 ATATATATA-ATATAAAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAA
140710 CATTTTGAAAAA
65 CATTTTG-AAAA
*
140722 ATATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAG-TTTTGAAAAC
1 ATATATATAATATAAAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAAC
140786 ATTTTG-AAA
66 ATTTTGAAAA
*
140795 ATATATATAATTTTAAAACGTTTTTGAAAA
1 ATATATATAA-TAT-AAA-GTTTTTGAAAA
140825 TATATATAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 7
0.91 0.03 0.07
Matches are distributed among these distances:
73 13 0.13
74 2 0.02
75 18 0.19
76 55 0.57
77 9 0.09
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (75 bp):
ATATATATAATATAAAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAAC
ATTTTGAAAA
Found at i:140918 original size:15 final size:15
Alignment explanation
Indices: 140867--140920 Score: 76
Period size: 14 Copynumber: 3.7 Consensus size: 15
140857 CTCGAAAACA
140867 TTTT-TTTTAATTTT
1 TTTTATTTTAATTTT
140881 TTTTA-TTTAATTTT
1 TTTTATTTTAATTTT
140895 TTTTAATTTTAATTTT
1 TTTT-ATTTTAATTTT
*
140911 TTCTATTTTA
1 TTTTATTTTA
140921 GGTCCAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 17 0.47
15 7 0.19
16 12 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTAATTTT
Found at i:143744 original size:26 final size:26
Alignment explanation
Indices: 143675--143746 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 26
143665 ATTTACAATC
143675 TAAATAAATTTAATATTTTTATATTT
1 TAAATAAATTTAATATTTTTATATTT
143701 TATAACTAAATTTAATATTTTTATATTT
1 TA-AA-TAAATTTAATATTTTTATATTT
*
143729 TAAAAAAATTTAATATTT
1 TAAATAAATTTAATATTT
143747 CTAGTTATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 15 0.35
27 4 0.09
28 24 0.56
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TAAATAAATTTAATATTTTTATATTT
Found at i:143812 original size:12 final size:14
Alignment explanation
Indices: 143781--143813 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
143771 AATATTATAG
143781 TATAAAAATGAAAT
1 TATAAAAATGAAAT
143795 TATAAAAAT-AAA-
1 TATAAAAATGAAAT
143807 TATAAAA
1 TATAAAA
143814 TTATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 3 0.16
14 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
TATAAAAATGAAAT
Found at i:143922 original size:34 final size:33
Alignment explanation
Indices: 143884--143948 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
143874 ATATACTAAA
*
143884 TATAAAATCTTAAATTTAAAAATAATAAAAATAG
1 TATAAAATATT-AATTTAAAAATAATAAAAATAG
* * *
143918 TATAAAATATTTATTTTAAAATATTAAAAAT
1 TATAAAATATTAATTTAAAAATAATAAAAAT
143949 GAATTTATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 17 0.63
34 10 0.37
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (33 bp):
TATAAAATATTAATTTAAAAATAATAAAAATAG
Found at i:145258 original size:31 final size:30
Alignment explanation
Indices: 145170--145302 Score: 142
Period size: 31 Copynumber: 4.4 Consensus size: 30
145160 CATTAAAAAC
* **
145170 TTTTATTTTTATCTTAACTTATTAAATATA
1 TTTTATTCTTATCTTAACTTAAAAAATATA
* * *
145200 ATTTATTATTATCTTAAC-TCAAAAATATA
1 TTTTATTCTTATCTTAACTTAAAAAATATA
* *
145229 TTTTATTCTTATTTTAATTTTAAAAAATATA
1 TTTTATTCTTATCTTAA-CTTAAAAAATATA
* **
145260 TTTTATTCTTACCTTAACTTAAAATTTTATA
1 TTTTATTCTTATCTTAACTTAAAA-AATATA
145291 TTTTATTCTTAT
1 TTTTATTCTTAT
145303 AATATTTAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
29 22 0.26
30 22 0.26
31 40 0.48
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (30 bp):
TTTTATTCTTATCTTAACTTAAAAAATATA
Done.