Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008689.1 Hibiscus syriacus cultivar Beakdansim tig00111715_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: 959342
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 4 of 4
Found at i:707934 original size:36 final size:37
Alignment explanation
Indices: 707860--707937 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
707850 ATGGTTTTTA
* * * * *
707860 AAAATTATATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAGTATATATTATAT-AATATTTTAAAAACGCTTTC
707898 AAAAGTATATATTATAT-ATATTTTAAAAACGCTTTC
1 AAAAGTATATATTATATAATATTTTAAAAACGCTTTC
707934 AAAA
1 AAAA
707938 ACTATATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 19 0.54
38 16 0.46
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (37 bp):
AAAAGTATATATTATATAATATTTTAAAAACGCTTTC
Found at i:707956 original size:30 final size:28
Alignment explanation
Indices: 707910--707976 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
707900 AAGTATATAT
*
707910 TATATATATTTTAAAAACGCTTTCAAAAAC
1 TATATA-ATTTTAAAAA-GATTTCAAAAAC
* *
707940 TATATAATTTTCAAAAATATTTTAAAAAC
1 TATATAATTTT-AAAAAGATTTCAAAAAC
707969 TATATAAT
1 TATATAAT
707977 ATACATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.49, C:0.09, G:0.01, T:0.40
Consensus pattern (28 bp):
TATATAATTTTAAAAAGATTTCAAAAAC
Found at i:708003 original size:38 final size:37
Alignment explanation
Indices: 707946--708056 Score: 120
Period size: 38 Copynumber: 2.9 Consensus size: 37
707936 AAACTATATA
707946 ATTTTC-AAAAATATTTTAAAAACTATATA-ATATACAT
1 ATTTTCAAAAAATATTTT--AAACTATATATATATACAT
* **
707983 ATTTTCAAAAAATGTTTTAAACTATATATTATATATGT
1 ATTTTCAAAAAATATTTTAAACTATATA-TATATACAT
708021 ATTTTCAAAAACA-ATTTGTAAACTATATAATATATA
1 ATTTTCAAAAA-ATATTT-TAAACTATAT-ATATATA
708057 TGTGTATATA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
36 10 0.16
37 6 0.09
38 30 0.47
39 17 0.27
40 1 0.02
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (37 bp):
ATTTTCAAAAAATATTTTAAACTATATATATATACAT
Found at i:708048 original size:37 final size:36
Alignment explanation
Indices: 707940--708057 Score: 123
Period size: 36 Copynumber: 3.2 Consensus size: 36
707930 TTTCAAAAAC
* *
707940 TATATA-ATTTTCAAAAATATTTTAAAAACTATATAA
1 TATATATATTTTCAAAAA-AATTTATAAACTATATAA
* *
707976 TATACATATTTTC-AAAAAATGTTTTAAACTATATATTA
1 TATATATATTTTCAAAAAAAT-TTATAAACTATATA--A
* *
708014 TATATGTATTTTCAAAAACAATTTGTAAACTATATAA
1 TATATATATTTTCAAAAA-AATTTATAAACTATATAA
708051 TATATAT
1 TATATAT
708058 GTGTATATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
35 2 0.03
36 21 0.31
37 13 0.19
38 12 0.18
39 17 0.25
40 3 0.04
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATATATTTTCAAAAAAATTTATAAACTATATAA
Found at i:708055 original size:39 final size:38
Alignment explanation
Indices: 707946--708059 Score: 126
Period size: 39 Copynumber: 3.0 Consensus size: 38
707936 AAACTATATA
* * *
707946 ATTTTCAAAAATATTTTAAAAACTATATAATATACA--T
1 ATTTTCAAAAA-AATTTATAAACTATATAATATATATGT
* *
707983 ATTTTC-AAAAAATGTTTTAAACTATATATTATATATGT
1 ATTTTCAAAAAAAT-TTATAAACTATATAATATATATGT
*
708021 ATTTTCAAAAACAATTTGTAAACTATATAATATATATGT
1 ATTTTCAAAAA-AATTTATAAACTATATAATATATATGT
708060 GTATATATGT
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
35 2 0.03
36 21 0.32
37 6 0.09
38 7 0.11
39 26 0.40
40 3 0.05
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (38 bp):
ATTTTCAAAAAAATTTATAAACTATATAATATATATGT
Found at i:708993 original size:164 final size:164
Alignment explanation
Indices: 708658--709564 Score: 1679
Period size: 164 Copynumber: 5.5 Consensus size: 164
708648 CGACCTCGGA
** * *
708658 GGTCTTTAACAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
* * *
708723 GTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
66 GTAGTCGAACTCAAAGGTC-TTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
708788 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
130 TTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
708823 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
*
708888 GTAGTCGAACTCAAAGGTCTTTGCTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
66 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
708953 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
131 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
708987 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
709052 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
66 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
*
709117 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAA
131 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
709151 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
709216 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
66 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
* * *
709281 TATGCCTTTGAAGCTGAGTGTAATCAAACTTAAA
131 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
709315 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
709380 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
66 GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
709445 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
131 TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
*
709479 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGC
1 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
*
709544 GTAGTCGAACTCGAAGGTCTT
66 GTAGTCGAACTCAAAGGTCTT
709565 GGTGGCAGGT
Statistics
Matches: 727, Mismatches: 15, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
164 648 0.89
165 79 0.11
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (164 bp):
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
GTAGTCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGT
TATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
Found at i:712995 original size:17 final size:19
Alignment explanation
Indices: 712959--713004 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
712949 AGTTAATGTG
*
712959 AATGCAGAGAAAATAATAA
1 AATGCAAAGAAAATAATAA
712978 AATGCAAAGAAAAATAA-AA
1 AATGCAAAG-AAAATAATAA
712997 AATGCAAA
1 AATGCAAA
713005 ACGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (19 bp):
AATGCAAAGAAAATAATAA
Found at i:726729 original size:21 final size:21
Alignment explanation
Indices: 726703--726749 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
726693 TGATACTCGA
726703 ATTCAAACTAGCCTCTTCCTC
1 ATTCAAACTAGCCTCTTCCTC
726724 ATTCAAACTAGCCTCTTCCTC
1 ATTCAAACTAGCCTCTTCCTC
726745 ATTCA
1 ATTCA
726750 TCCTCTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.36, G:0.04, T:0.34
Consensus pattern (21 bp):
ATTCAAACTAGCCTCTTCCTC
Found at i:728345 original size:50 final size:51
Alignment explanation
Indices: 728253--728375 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 51
728243 ATTTATATCG
* * * *
728253 GTGTAAGTATATACATC-TCTCAACCTAAAAGTAAACATATACTTACACGA
1 GTGTAAGTATGTATATCTTCTCAACCTAAAAGTAAACACATACTTACACCA
*
728303 GTGTAAGTATGTATATCTTC-CAACCTATAAA-TAAGCACATACTTACACCA
1 GTGTAAGTATGTATATCTTCTCAACCTA-AAAGTAAACACATACTTACACCA
*
728353 ATGTAAGTATGTATATC-TCTCAA
1 GTGTAAGTATGTATATCTTCTCAA
728376 TATTTAGAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
49 2 0.03
50 57 0.89
51 5 0.08
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (51 bp):
GTGTAAGTATGTATATCTTCTCAACCTAAAAGTAAACACATACTTACACCA
Found at i:728476 original size:26 final size:25
Alignment explanation
Indices: 728447--728508 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
728437 AAAAGATAGA
728447 AAATTATATATGATAAAAATTATATT
1 AAATTATATAT-ATAAAAATTATATT
* * *
728473 AAATTATTTATATACAAATTTTATT
1 AAATTATATATATAAAAATTATATT
*
728498 AAA-AATATATA
1 AAATTATATATA
728509 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 6 0.19
25 15 0.48
26 10 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AAATTATATATATAAAAATTATATT
Found at i:728497 original size:25 final size:26
Alignment explanation
Indices: 728447--728500 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
728437 AAAAGATAGA
728447 AAATTATATATGATAAAAATTATATT
1 AAATTATATATGATAAAAATTATATT
* * *
728473 AAATTATTTAT-ATACAAATTTTATT
1 AAATTATATATGATAAAAATTATATT
728498 AAA
1 AAA
728501 AATATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATTATATATGATAAAAATTATATT
Found at i:734993 original size:23 final size:23
Alignment explanation
Indices: 734967--735030 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
734957 TACTTCTGTA
734967 TTGAATCATTCAACACTATTTTG
1 TTGAATCATTCAACACTATTTTG
734990 TTGAATCATTCAACACTATTTTG
1 TTGAATCATTCAACACTATTTTG
* * *
735013 TTAAATCAGTCAGCACTA
1 TTGAATCATTCAACACTA
735031 AATCATTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (23 bp):
TTGAATCATTCAACACTATTTTG
Found at i:735686 original size:21 final size:23
Alignment explanation
Indices: 735662--735709 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
735652 TTATTTTTAT
735662 TTTTTA-TTTATAATATTA-AAA
1 TTTTTATTTTATAATATTATAAA
**
735683 -TTTTATTTTATGTTATTATAAA
1 TTTTTATTTTATAATATTATAAA
735705 TTTTT
1 TTTTT
735710 TACGATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 3 0.14
23 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTATTTTATAATATTATAAA
Found at i:740457 original size:2 final size:2
Alignment explanation
Indices: 740450--740479 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
740440 CGTGAATGTG
740450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
740480 TTGTGATGTG
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):
AT
Found at i:740983 original size:20 final size:20
Alignment explanation
Indices: 740958--740998 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
740948 CAAGCCTTGG
740958 AAAAGAGGACCAAAATAACA
1 AAAAGAGGACCAAAATAACA
740978 AAAAGAGGACCAAAATAACA
1 AAAAGAGGACCAAAATAACA
740998 A
1 A
740999 TAGATTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.15, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAGAGGACCAAAATAACA
Found at i:742485 original size:51 final size:54
Alignment explanation
Indices: 742381--742502 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 54
742371 TTTAGGATTA
* * *
742381 GATTATTATTTTATTAGGAATTAAGATAAGATAAAGTTAAAATATTATTTTTAGTT
1 GATTATTATTTTATTAGGAATTAAGATAAG--AAAGTCAAAAGATTATCTTTAGTT
* *
742437 TATTATTATTTTATTAGGAATTAGGAT-AG-AA-TCAAAAGATTATCTTTAGTT
1 GATTATTATTTTATTAGGAATTAAGATAAGAAAGTCAAAAGATTATCTTTAGTT
*
742488 GATTTTTATTTTATT
1 GATTATTATTTTATT
742503 CGGTAGTTAC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 30 0.51
52 2 0.03
55 2 0.03
56 25 0.42
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (54 bp):
GATTATTATTTTATTAGGAATTAAGATAAGAAAGTCAAAAGATTATCTTTAGTT
Found at i:746548 original size:21 final size:21
Alignment explanation
Indices: 746494--746555 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 21
746484 TTCCCCTGTG
746494 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGGTT-CCC-TCAA
*
746517 AGGGGGAATCGGTTCCCTCAT
1 AGGGGGAATCGGTTCCCTCAA
* *
746538 GGGGGGGATC-GTTCCCTC
1 AGGGGGAATCGGTTCCCTC
746556 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.22
21 11 0.31
22 3 0.08
23 14 0.39
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTCAA
Found at i:757951 original size:2 final size:2
Alignment explanation
Indices: 757946--757980 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
757936 TAGATCCAAT
757946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
757981 TGTTCAAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:759798 original size:21 final size:21
Alignment explanation
Indices: 759757--759798 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
759747 TTATTGTAAT
*
759757 ATTTTACAATTAATAATATTA
1 ATTTTACAATTAATAACATTA
*
759778 ATTTTATAA-TAATTAACATTA
1 ATTTTACAATTAA-TAACATTA
759799 TTACTGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTACAATTAATAACATTA
Found at i:760188 original size:12 final size:12
Alignment explanation
Indices: 760171--760195 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
760161 ATATTTTTAA
760171 AAAAATTATTTT
1 AAAAATTATTTT
760183 AAAAATTATTTT
1 AAAAATTATTTT
760195 A
1 A
760196 CGGTATTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:760316 original size:15 final size:14
Alignment explanation
Indices: 760280--760318 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
760270 TAACAAAAAA
*
760280 TATT-AATATAATT
1 TATTCAATATTATT
760293 TATTCAATATTATT
1 TATTCAATATTATT
760307 TATGTCAATATT
1 TAT-TCAATATT
760319 CTTATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 8 0.35
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (14 bp):
TATTCAATATTATT
Found at i:760598 original size:29 final size:29
Alignment explanation
Indices: 760565--760688 Score: 77
Period size: 29 Copynumber: 4.4 Consensus size: 29
760555 ATTAATACTT
*
760565 TATTATATATTATTAA-AATA-AATGTATAA
1 TATTACATATTA-TAATAATATAAT-TATAA
760594 TATTACATATTATAATAATATAATTATAA
1 TATTACATATTATAATAATATAATTATAA
* * * *
760623 CAATAAAATATAAT-ATAATATAA-TAT--
1 -TATTACATATTATAATAATATAATTATAA
*
760649 TATTA-AAATTATCAATAAATATAATT-TAA
1 TATTACATATTAT-AAT-AATATAATTATAA
760678 TAATTA-ATATT
1 T-ATTACATATT
760689 TTTATTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
24 5 0.07
25 3 0.04
26 2 0.03
27 8 0.11
28 7 0.09
29 30 0.40
30 20 0.27
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (29 bp):
TATTACATATTATAATAATATAATTATAA
Found at i:762079 original size:7 final size:7
Alignment explanation
Indices: 762069--762096 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
762059 TTAAATTTTA
762069 AAAATAT
1 AAAATAT
762076 AAAATAT
1 AAAATAT
762083 AAAATAT
1 AAAATAT
762090 AAAATAT
1 AAAATAT
762097 TTATTGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:762343 original size:7 final size:7
Alignment explanation
Indices: 762333--762364 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
762323 TTAAATTTTA
762333 AAAATAT
1 AAAATAT
762340 AAAATAT
1 AAAATAT
762347 AAAATAT
1 AAAATAT
*
762354 GAAATAT
1 AAAATAT
762361 AAAA
1 AAAA
762365 AACCTCCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:764790 original size:17 final size:17
Alignment explanation
Indices: 764768--764803 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
764758 TAAAATATAT
*
764768 TTTTATTATAATTAAAA
1 TTTTATAATAATTAAAA
*
764785 TTTTATAATAATTTAAA
1 TTTTATAATAATTAAAA
764802 TT
1 TT
764804 GATATATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTATAATAATTAAAA
Found at i:765010 original size:15 final size:17
Alignment explanation
Indices: 764990--765026 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
764980 TATTGATATT
*
764990 ATATTTTTTA-AT-AAA
1 ATATTTTGTATATAAAA
765005 ATATTTTGTATATAAAA
1 ATATTTTGTATATAAAA
765022 ATATT
1 ATATT
765027 ATTAATGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATTTTGTATATAAAA
Found at i:769007 original size:36 final size:36
Alignment explanation
Indices: 768967--769078 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
768957 CTTTGTTGGA
768967 AGATAGTGGATGGTATCAATCTAACTATAGCATGGC
1 AGATAGTGGATGGTATCAATCTAACTATAGCATGGC
* ** * * * *
769003 AGATAGTCTTGATTGGGGTC--GC-AA-T-TTG-TTGGA
1 AGATAG--TGGA-TGGTATCAATCTAACTATAGCATGGC
769036 AGATAGTGGATGGTATCAATCTAACTATAGCATGGC
1 AGATAGTGGATGGTATCAATCTAACTATAGCATGGC
769072 AGATAGT
1 AGATAGT
769079 CTTGATTGGG
Statistics
Matches: 53, Mismatches: 14, Indels: 18
0.62 0.16 0.21
Matches are distributed among these distances:
30 5 0.09
31 3 0.06
32 1 0.02
33 11 0.21
34 3 0.06
35 3 0.06
36 18 0.34
37 1 0.02
38 3 0.06
39 5 0.09
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (36 bp):
AGATAGTGGATGGTATCAATCTAACTATAGCATGGC
Found at i:769069 original size:69 final size:69
Alignment explanation
Indices: 768958--769095 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
768948 TGACTTTGGC
768958 TTTGTTGGAAGATAGTGGATGGTATCAATCTAACTATAGCATGGCAGATAGTCTTGATTGGGGTC
1 TTTGTTGGAAGATAGTGGATGGTATCAATCTAACTATAGCATGGCAGATAGTCTTGATTGGGGTC
769023 GCAA
66 GCAA
769027 TTTGTTGGAAGATAGTGGATGGTATCAATCTAACTATAGCATGGCAGATAGTCTTGATTGGGGTC
1 TTTGTTGGAAGATAGTGGATGGTATCAATCTAACTATAGCATGGCAGATAGTCTTGATTGGGGTC
769092 GCAA
66 GCAA
769096 CCAAGGAACC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.32
Consensus pattern (69 bp):
TTTGTTGGAAGATAGTGGATGGTATCAATCTAACTATAGCATGGCAGATAGTCTTGATTGGGGTC
GCAA
Found at i:769855 original size:15 final size:17
Alignment explanation
Indices: 769835--769871 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
769825 TATTGATATT
*
769835 ATATTTTTTA-AT-AAA
1 ATATTTTGTATATAAAA
769850 ATATTTTGTATATAAAA
1 ATATTTTGTATATAAAA
769867 ATATT
1 ATATT
769872 ATTAATGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 2 0.11
17 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATTTTGTATATAAAA
Found at i:778710 original size:38 final size:38
Alignment explanation
Indices: 778630--778712 Score: 130
Period size: 38 Copynumber: 2.2 Consensus size: 38
778620 TATTGTTGTG
* *
778630 TTTGATTCGTTTAACAAGAATATTGTAAGATTACAATG
1 TTTGGTTCGTTTAACAAGAATATTGTAAGATTACAATA
* *
778668 TTTGGTTCGTTTATCAAGAATATTGTAAGATTATAATA
1 TTTGGTTCGTTTAACAAGAATATTGTAAGATTACAATA
778706 TTTGGTT
1 TTTGGTT
778713 GAAGTAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.45
Consensus pattern (38 bp):
TTTGGTTCGTTTAACAAGAATATTGTAAGATTACAATA
Found at i:778843 original size:2 final size:2
Alignment explanation
Indices: 778838--778883 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
778828 TAAATTCATA
778838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
778880 AT AT
1 AT AT
778884 TTACAAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:780888 original size:9 final size:9
Alignment explanation
Indices: 780874--780936 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
780864 AAATACTCTT
780874 TTTTATTTA
1 TTTTATTTA
*
780883 TTTTATGTA
1 TTTTATTTA
*
780892 TTCT-TTTA
1 TTTTATTTA
**
780900 -TTTA-CCA
1 TTTTATTTA
780907 TTGTTTATTTA
1 TT-T-TATTTA
780918 TTTTATTTA
1 TTTTATTTA
780927 TTTTATTTA
1 TTTTATTTA
780936 T
1 T
780937 CATTGTTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 28 0.68
10 3 0.07
11 3 0.07
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (9 bp):
TTTTATTTA
Found at i:780941 original size:32 final size:34
Alignment explanation
Indices: 780875--780960 Score: 103
Period size: 32 Copynumber: 2.7 Consensus size: 34
780865 AATACTCTTT
*
780875 TTTATTTATTTTATGTATTCTTTTATTTACCATTG
1 TTTATTTATTTTA-GTATTATTTTATTTACCATTG
*
780910 TTTATTTATTTTA-T-TTATTTTATTTATCATTG
1 TTTATTTATTTTAGTATTATTTTATTTACCATTG
780942 TTTA---ATTTTAGTA-TATTTT
1 TTTATTTATTTTAGTATTATTTT
780961 GTGTGAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
29 6 0.13
30 7 0.15
32 20 0.43
33 1 0.02
35 13 0.28
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.69
Consensus pattern (34 bp):
TTTATTTATTTTAGTATTATTTTATTTACCATTG
Found at i:783422 original size:43 final size:43
Alignment explanation
Indices: 783325--783425 Score: 139
Period size: 43 Copynumber: 2.3 Consensus size: 43
783315 AATGTCGTAA
* * ** * *
783325 TAGGTTTTGATGTTTAGCGGCGTTTTCCCTACAAACGCTGCAG
1 TAGGTGTTGATATTTAGCGGCGTTTAACCTACAAACACCGCAG
*
783368 TAGGTGTTGATATTTAGCGGCGTTTAACTTACAAACACCGCAG
1 TAGGTGTTGATATTTAGCGGCGTTTAACCTACAAACACCGCAG
783411 TAGGTGTTGATATTT
1 TAGGTGTTGATATTT
783426 TACGGCATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.36
Consensus pattern (43 bp):
TAGGTGTTGATATTTAGCGGCGTTTAACCTACAAACACCGCAG
Found at i:783521 original size:129 final size:129
Alignment explanation
Indices: 783271--783521 Score: 294
Period size: 129 Copynumber: 1.9 Consensus size: 129
783261 GCGTTTCAAT
* * * *
783271 AAACGCCGCAATAGGTGTTGTTATTTAGCGGCGTTTTTCACAAAAATGTCGTAATAGGTTTTGAT
1 AAACACCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCACAAAAATGTCGCAATAGGTTATGAT
* * * * *
783336 GTTTAGCGGCGTTTTCCCTACAAACGCTGCAGTAGGTGTTGATATTTAGCGGCGTTTAACTTAC
66 GTTTAGCAGCGTTTTCCCTACAAACGCTGCAGTAGGTGTTCAGATTAAGCGACGTTTAACTTAC
* * *
783400 AAACACCGCAGTAGGTGTTGATATTTTA-CGGCATTTTTTCA-ACAAATGTCGCAATAGGTTATG
1 AAACACCGCAATAGGTGTTGATA-TTTAGCGGC-GTTTTTCACAAAAATGTCGCAATAGGTTATG
* * * *
783463 ATGTTTAGCAGCGTTTCTCCC-ATAAATG-TCGCATTAGGTTTTCAGATTAAGCGACGTTT
64 ATGTTTAGCAGCGTTT-TCCCTACAAACGCT-GCAGTAGGTGTTCAGATTAAGCGACGTTT
783522 GTATCGAAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
128 1 0.01
129 86 0.84
130 15 0.15
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (129 bp):
AAACACCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCACAAAAATGTCGCAATAGGTTATGAT
GTTTAGCAGCGTTTTCCCTACAAACGCTGCAGTAGGTGTTCAGATTAAGCGACGTTTAACTTAC
Found at i:784040 original size:21 final size:21
Alignment explanation
Indices: 784015--784085 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
784005 ATTCTTCACA
*
784015 TCTCTGCTGATA-TGCTGCTTC
1 TCTCTG-TGATACCGCTGCTTC
*
784036 TCTCTGTGCTACCGCTGCTTC
1 TCTCTGTGATACCGCTGCTTC
* ** *
784057 TCTCTGTGCTGTCGATGCTTC
1 TCTCTGTGATACCGCTGCTTC
784078 TCTCTGTG
1 TCTCTGTG
784086 CTGTCTCTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 4 0.09
21 40 0.91
ACGTcount: A:0.06, C:0.31, G:0.21, T:0.42
Consensus pattern (21 bp):
TCTCTGTGATACCGCTGCTTC
Found at i:784086 original size:21 final size:21
Alignment explanation
Indices: 784028--784099 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
784018 CTGCTGATAT
**
784028 GCTGCTTCTCTCTGTGCTACC
1 GCTGCTTCTCTCTGTGCTGTC
784049 GCTGCTTCTCTCTGTGCTGTC
1 GCTGCTTCTCTCTGTGCTGTC
*
784070 GATGCTTCTCTCTGTGCTGTC
1 GCTGCTTCTCTCTGTGCTGTC
*
784091 TCTGCTTCT
1 GCTGCTTCT
784100 GCTGCTGCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.03, C:0.33, G:0.21, T:0.43
Consensus pattern (21 bp):
GCTGCTTCTCTCTGTGCTGTC
Found at i:784108 original size:21 final size:21
Alignment explanation
Indices: 784029--784119 Score: 103
Period size: 21 Copynumber: 4.3 Consensus size: 21
784019 TGCTGATATG
** *
784029 CTGCTTCTCTCTGTGCTACCG
1 CTGCTTCTCTCTGTGCTGTCT
*
784050 CTGCTTCTCTCTGTGCTGTCG
1 CTGCTTCTCTCTGTGCTGTCT
*
784071 ATGCTTCTCTCTGTGCTGTCT
1 CTGCTTCTCTCTGTGCTGTCT
* *
784092 CTGCTTCT-GCTGCTGCTCTCT
1 CTGCTTCTCTCTG-TGCTGTCT
784113 CTGCTTC
1 CTGCTTC
784120 CCTTGCTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 3 0.05
21 59 0.95
ACGTcount: A:0.02, C:0.35, G:0.20, T:0.43
Consensus pattern (21 bp):
CTGCTTCTCTCTGTGCTGTCT
Found at i:784115 original size:15 final size:16
Alignment explanation
Indices: 784076--784117 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
784066 TGTCGATGCT
784076 TCTCTCTG-TGCTGTC
1 TCTCTCTGCTGCTGTC
784091 TCTGCTTCTGCTGCTG-C
1 TCT-C-TCTGCTGCTGTC
784108 TCTCTCTGCT
1 TCTCTCTGCT
784118 TCCCTTGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 2 0.08
17 8 0.33
18 5 0.21
ACGTcount: A:0.00, C:0.36, G:0.19, T:0.45
Consensus pattern (16 bp):
TCTCTCTGCTGCTGTC
Found at i:787522 original size:18 final size:18
Alignment explanation
Indices: 787495--787531 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
787485 TTCAAGAATT
787495 ATCGAGACTAAATTAATC
1 ATCGAGACTAAATTAATC
*
787513 ATCGATACTAAATTAATC
1 ATCGAGACTAAATTAATC
787531 A
1 A
787532 AAATATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (18 bp):
ATCGAGACTAAATTAATC
Found at i:788977 original size:28 final size:28
Alignment explanation
Indices: 788937--788995 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
788927 ACATGTGTGA
788937 AGTCTGGTGAGACACATACTTGATCCCT
1 AGTCTGGTGAGACACATACTTGATCCCT
788965 AGTCTGGTGAGACACATACTTGATCCCT
1 AGTCTGGTGAGACACATACTTGATCCCT
788993 AGT
1 AGT
788996 ATATGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (28 bp):
AGTCTGGTGAGACACATACTTGATCCCT
Found at i:789117 original size:23 final size:23
Alignment explanation
Indices: 789040--789116 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
789030 CCTTATGGAC
789040 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATATGGCACTACGGTGCA
* * * *
789064 ATTCTACACGGCACTCCGGTGCA
1 ATTATATATGGCACTACGGTGCA
* *
789087 ATTATATGTGGCACTTCGGTGCA
1 ATTATATATGGCACTACGGTGCA
789110 ATTATAT
1 ATTATAT
789117 GAGCTGTGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATTATATATGGCACTACGGTGCA
Found at i:794963 original size:103 final size:103
Alignment explanation
Indices: 794738--794955 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
794728 GTCGAGGGTC
794738 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
794803 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
*
794841 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
794906 TTGATCCTTAGTATATGTATATGATTTTTAAGGAATGA
66 TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
794944 TATGTGGTCCTT
1 TATGTGGTCCTT
794956 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:795038 original size:23 final size:23
Alignment explanation
Indices: 794962--795039 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
794952 CCTTATGGAC
*
794962 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
794986 ATTCTACGCGTCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
795009 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
795032 ATTATATG
1 ATTATATG
795040 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 40 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:795901 original size:21 final size:21
Alignment explanation
Indices: 795875--795920 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
795865 ATTCTGGGCT
* * *
795875 AGGGGAATCGGTACCTATTCA
1 AGGGGAACCGATACCCATTCA
*
795896 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
795917 AGGG
1 AGGG
795921 AATAAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.17
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:795989 original size:23 final size:22
Alignment explanation
Indices: 795945--795989 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
795935 AATGTCATGG
*
795945 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
795967 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
795990 AAATTGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:797579 original size:103 final size:103
Alignment explanation
Indices: 797354--797571 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
797344 GTCGAGGGTC
* *
797354 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTAAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATAC
*
797419 TTGATCCCTAGTATATGTATATGATTCTTGAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
* *
797457 TATATGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATAC
797522 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
797560 TATGTGGTCCTT
1 TATGTGGTCCTT
797572 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTAAAGTCTGGCGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:797618 original size:23 final size:23
Alignment explanation
Indices: 797587--797693 Score: 115
Period size: 23 Copynumber: 4.7 Consensus size: 23
797577 CATTATTATA
*
797587 TGGCACTACGGTGTAACTCTACG
1 TGGCACTACGGTGCAACTCTACG
* * **
797610 CGGCACTACGGTGCAATTCTATA
1 TGGCACTACGGTGCAACTCTACG
797633 TGGCACTACGGTGCAACTCTACG
1 TGGCACTACGGTGCAACTCTACG
** * **
797656 TGGCACTAAAGTGCAATTCTATA
1 TGGCACTACGGTGCAACTCTACG
*
797679 TGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
797694 TTTATATGAG
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAACTCTACG
Found at i:797635 original size:46 final size:46
Alignment explanation
Indices: 797583--797693 Score: 177
Period size: 46 Copynumber: 2.4 Consensus size: 46
797573 TGGACATTAT
* **
797583 TATATGGCACTACGGTGTAACTCTACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTAAAGTGCAATTC
*
797629 TATATGGCACTACGGTGCAACTCTACGTGGCACTAAAGTGCAATTC
1 TATATGGCACTACGGTGCAACTCTACGCGGCACTAAAGTGCAATTC
*
797675 TATATGGCACTTCGGTGCA
1 TATATGGCACTACGGTGCA
797694 TTTATATGAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (46 bp):
TATATGGCACTACGGTGCAACTCTACGCGGCACTAAAGTGCAATTC
Found at i:800258 original size:18 final size:17
Alignment explanation
Indices: 800237--800281 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
800227 TTTCATCCAT
*
800237 TTATTTTTATTTATATTG
1 TTATTATTATTT-TATTG
800255 TTATTATTATTTTATT-
1 TTATTATTATTTTATTG
*
800271 ATATTATTATT
1 TTATTATTATT
800282 AATAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTATTATTTTATTG
Found at i:800359 original size:17 final size:17
Alignment explanation
Indices: 800334--800373 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
800324 CAGTCCAGAT
*
800334 GACCCATTTACAAACCC
1 GACCTATTTACAAACCC
*
800351 GACCTATTTACAAGCCC
1 GACCTATTTACAAACCC
*
800368 AACCTA
1 GACCTA
800374 GATCCAGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.38, G:0.07, T:0.20
Consensus pattern (17 bp):
GACCTATTTACAAACCC
Found at i:801806 original size:14 final size:15
Alignment explanation
Indices: 801787--801819 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
801777 TATTATTAAG
801787 TTATATAA-ATATAT
1 TTATATAATATATAT
*
801801 TTATATAATATTTAT
1 TTATATAATATATAT
801816 TTAT
1 TTAT
801820 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:804280 original size:14 final size:14
Alignment explanation
Indices: 804242--804295 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
804232 ATTTTAAATA
*
804242 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
804256 TTTTACATTTGCAT
1 ATTTACATTTGCAT
804270 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
804285 CTTTGCATTTG
1 ATTTACATTTG
804296 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:807259 original size:2 final size:2
Alignment explanation
Indices: 807252--807309 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
807242 TTATCCTTTA
807252 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
807294 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
807310 CCTTTGTTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:809277 original size:93 final size:93
Alignment explanation
Indices: 809118--809388 Score: 481
Period size: 93 Copynumber: 2.9 Consensus size: 93
809108 AGAAGACTCA
* *
809118 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGTATGAACCACAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
809183 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATGAATGTGCTC
*
809211 ATAGCATCTTCTGGAAGTGTTCATTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
809276 TCATTGAATTTGGAAGATGAATGTGCTC
66 TCATTGAATTTGGAAGATGAATGTGCTC
*
809304 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTCGGTATGAACCCC-AAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
* *
809368 TCATTGGATTAGGAAGATGAA
66 TCATTGAATTTGGAAGATGAA
809389 CTGCATGATC
Statistics
Matches: 171, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
92 27 0.16
93 144 0.84
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (93 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAAACCAA
TCATTGAATTTGGAAGATGAATGTGCTC
Found at i:811631 original size:54 final size:54
Alignment explanation
Indices: 811544--811701 Score: 168
Period size: 54 Copynumber: 3.0 Consensus size: 54
811534 TAATTGAGAA
811544 ATCTAAGCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGCTTTACGAAC
1 ATCTAAGCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGCTTTACGAAC
* * * *
811598 ATCTGAGCAGAAGCTACAAGAAAGAA-A-GAATGTGTTTTCAAATGTTTTAC--AC
1 ATCTAAGCAGAAGCCAC-AGAAA-AAGATGAATGTGTTGTCAAATGCTTTACGAAC
* * * *
811650 --CT-AGACAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1 ATCTAAG-CAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGCTTTACGAAC
811702 CAGTGATTAT
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
48 2 0.02
49 7 0.08
50 31 0.35
52 4 0.05
54 36 0.41
55 6 0.07
56 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (54 bp):
ATCTAAGCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGCTTTACGAAC
Found at i:811689 original size:50 final size:52
Alignment explanation
Indices: 811549--811697 Score: 162
Period size: 50 Copynumber: 2.9 Consensus size: 52
811539 GAGAAATCTA
* *
811549 AGCAGAAGCCACAGAAAAAGATGAATGTGTTGTCAAATGCTTTACGAACATCTG
1 AGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC-AACA-CTG
* * * *
811603 AGCAGAAGCTACAAG-AAAGAAAGAATGTGTTTTCAAATGTTTTAC-AC-CT-
1 AGCAGAAGCCACAGGAAAAG-ATGAATGTGTTGTCAAATGTTTTACAACACTG
* *
811652 AGACAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTAC
1 AG-CAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTAC
811698 GAACCAGTGA
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
49 2 0.03
50 34 0.43
51 4 0.05
52 2 0.03
53 4 0.05
54 34 0.43
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (52 bp):
AGCAGAAGCCACAGGAAAAGATGAATGTGTTGTCAAATGTTTTACAACACTG
Found at i:812048 original size:22 final size:22
Alignment explanation
Indices: 812022--812100 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
812012 ACATCTACAT
812022 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
812044 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
812066 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
812088 TTTTCAAAGATGA
1 TCTTCAAAGATGA
812101 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:812698 original size:113 final size:113
Alignment explanation
Indices: 812565--813172 Score: 1069
Period size: 113 Copynumber: 5.4 Consensus size: 113
812555 AAACTCATCT
812565 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
812630 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
66 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
812678 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
*
812743 CAGCATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAA
66 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
812791 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
*
812856 CAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
66 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
812904 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
*
812969 CAGCATTGCCAGGTCGAGTTTATAATGAGAAGAACTCATCTGAAGAAA
66 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
*
813017 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCATTCGATGGAT
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
* * ****
813082 CAACATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAG--A
66 CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
* * *
813128 GGATAATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTC
1 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTC
813173 GACTCTATCG
Statistics
Matches: 478, Mismatches: 16, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
111 37 0.08
112 5 0.01
113 436 0.91
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (113 bp):
GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTCAAATTCATCACTCGATGGAT
CAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAA
Found at i:813629 original size:18 final size:17
Alignment explanation
Indices: 813608--813652 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
813598 TTTCATCCAT
*
813608 TTATTTTTATTTATATTG
1 TTATTATTATTT-TATTG
813626 TTATTATTATTTTATT-
1 TTATTATTATTTTATTG
*
813642 ATATTATTATT
1 TTATTATTATT
813653 AATAAATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTATTATTTTATTG
Found at i:813731 original size:17 final size:17
Alignment explanation
Indices: 813705--813744 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
813695 CAGTCCAGAT
*
813705 GACCCATTTACAAACCC
1 GACCCGTTTACAAACCC
*
813722 GACCCGTTTACAAGCCC
1 GACCCGTTTACAAACCC
*
813739 AACCCG
1 GACCCG
813745 GATCCAACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.42, G:0.12, T:0.15
Consensus pattern (17 bp):
GACCCGTTTACAAACCC
Found at i:815176 original size:14 final size:15
Alignment explanation
Indices: 815157--815189 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
815147 TATTATTAAG
815157 TTATATAA-ATATAT
1 TTATATAATATATAT
*
815171 TTATATAATATTTAT
1 TTATATAATATATAT
815186 TTAT
1 TTAT
815190 TTATTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATATAATATATAT
Found at i:818795 original size:103 final size:103
Alignment explanation
Indices: 818570--818787 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
818560 GTCGAGGGTC
* *
818570 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGCGAGACACATAC
818635 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
818673 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGCGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGCGAGACACATAC
818738 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
818776 TATGTGGTCCTT
1 TATGTGGTCCTT
818788 ATGGACATTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGCGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:818910 original size:69 final size:67
Alignment explanation
Indices: 818798--818939 Score: 257
Period size: 69 Copynumber: 2.1 Consensus size: 67
818788 ATGGACATTA
818798 TTATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTCTATATGGCACTACGGTGC
1 TTATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTCTATATGGCACTACGGTGC
818863 AAT
66 -AT
*
818866 TCTATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTCTATATGGCACTTCGGTG
1 T-TATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTCTATATGGCACTACGGTG
818931 CAT
65 CAT
818934 TTATAT
1 TTATAT
818940 AAGCTGTGGT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
67 5 0.07
68 4 0.06
69 63 0.88
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (67 bp):
TTATATGGCACTACGGTGCAACTCTACGTGGCACTACGGTGCAATTCTATATGGCACTACGGTGC
AT
Found at i:818940 original size:23 final size:23
Alignment explanation
Indices: 818799--818939 Score: 205
Period size: 23 Copynumber: 6.2 Consensus size: 23
818789 TGGACATTAT
*
818799 TATATGGCACTACGGTGCAACTC
1 TATATGGCACTACGGTGCAATTC
**
818822 TACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
818845 TATATGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
818868 TATATGGCACTACGGTGCAACTC
1 TATATGGCACTACGGTGCAATTC
**
818891 TACGTGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
*
818914 TATATGGCACTTCGGTGC-ATT-
1 TATATGGCACTACGGTGCAATTC
818935 TATAT
1 TATAT
818940 AAGCTGTGGT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
21 5 0.05
22 3 0.03
23 98 0.92
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:822403 original size:132 final size:131
Alignment explanation
Indices: 822148--822397 Score: 340
Period size: 132 Copynumber: 1.9 Consensus size: 131
822138 TTTAGGAGAT
*
822148 TACAATAGTTTGAATAAACCGAGTTGTTAACTTCTAATAGGACTTTTTTTCTAAAGATAAAATTC
1 TACAATAGTTTAAATAAACCGAGTTGTTAACTTCTAATAGGACTTTTTTTCTAAAGATAAAATTC
* * * *
822213 TATCTAGAGATAGAGATTACAAAGATTCCTAAGGCTTATCTTTCTTATCGTGATAGACTCCTAAA
66 TATCTAGAGATAGAGA-TACAAAGACTCCTAAGACTTAACTTTCTTATCATGATAGACTCCTAAA
822278 CA
130 CA
* * * * *
822280 TACAATAGTTTAAATAAACTGAGTTGTTGACTTGTAATAGGAATTTTTTTCTTCTAAATATAAAA
1 TACAATAGTTTAAATAAACCGAGTTGTTAACTTCTAATAGG-A-CTTTTT-TTCTAAAGATAAAA
* *
822345 TTCTATCTAGAGATCGAG-TACAAAGGCTCCTAAGACTTAACATTTCTTATCAT
63 TTCTATCTAGAGATAGAGATACAAAGACTCCTAAGACTTAAC-TTTCTTATCAT
822398 AAGACTAAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
132 37 0.36
133 20 0.20
134 15 0.15
135 30 0.29
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (131 bp):
TACAATAGTTTAAATAAACCGAGTTGTTAACTTCTAATAGGACTTTTTTTCTAAAGATAAAATTC
TATCTAGAGATAGAGATACAAAGACTCCTAAGACTTAACTTTCTTATCATGATAGACTCCTAAAC
A
Found at i:825399 original size:41 final size:40
Alignment explanation
Indices: 825269--825400 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 40
825259 AGTACATGTT
* *
825269 TTGCGGCG-TTTTT-AAAAATGCCACTATAAACAAACATA
1 TTGCGGCGTTTTTTCAAAAATGCCGCTATAAACAAACCTA
* * * * * ** *
825307 TGGCGGCGTTTGTTCTACAAACGTCGCTA-AATTATTAATCTA
1 TTGCGGCGTTTTTTC-AAAAATGCCGCTATAA--ACAAACCTA
*
825349 TTGTGGCGTTTTTTGCAAAAATGCCGCTATAAACAAACCTA
1 TTGCGGCGTTTTTT-CAAAAATGCCGCTATAAACAAACCTA
825390 TTGCGGCGTTT
1 TTGCGGCGTTT
825401 GTTTAATCAG
Statistics
Matches: 67, Mismatches: 20, Indels: 11
0.68 0.20 0.11
Matches are distributed among these distances:
38 7 0.10
39 4 0.06
40 2 0.03
41 25 0.37
42 26 0.39
43 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (40 bp):
TTGCGGCGTTTTTTCAAAAATGCCGCTATAAACAAACCTA
Found at i:825442 original size:83 final size:83
Alignment explanation
Indices: 825271--825483 Score: 208
Period size: 83 Copynumber: 2.6 Consensus size: 83
825261 TACATGTTTT
* *
825271 GCGGCGTTT-TT--AAAAATGCCACTATAAACAAACATATGGCGGCGTTTGTTCTACAAACGTCG
1 GCGGCGTTTGTTAGAAAAATGCCACTATAAACAAACCTATTGCGGCGTTTGTTCTACAAACGTCG
*
825333 CTAAATTATTAATCTATT
66 CTAAATTATTAATCTATA
* * * *
825351 GTGGCGTTT-TTTGCAAAAATGCCGCTATAAACAAACCTATTGCGGCGTTTGTT-T--AATCAGT
1 GCGGCGTTTGTTAG-AAAAATGCCACTATAAACAAACCTATTGCGGCGTTTGTTCTACAAAC-GT
825412 GCCGCTAAATTAATT-ATCTATA
64 --CGCTAAATT-ATTAATCTATA
* * * * * *
825434 GCGTCGTTTGTTAGACAAACGCCATTATAAACAACCCTGTTGCGGCGTTT
1 GCGGCGTTTGTTAGAAAAATGCCACTATAAACAAACCTATTGCGGCGTTT
825484 ATTGAAAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
80 13 0.12
81 2 0.02
82 1 0.01
83 88 0.80
84 6 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (83 bp):
GCGGCGTTTGTTAGAAAAATGCCACTATAAACAAACCTATTGCGGCGTTTGTTCTACAAACGTCG
CTAAATTATTAATCTATA
Found at i:831264 original size:24 final size:23
Alignment explanation
Indices: 831220--831265 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
831210 AAATTTAATA
831220 TTAATAAAATATTTTAATATTATT
1 TTAATAAAATA-TTTAATATTATT
831244 TTAATCAAAATA-TTAATTATTA
1 TTAAT-AAAATATTTAA-TATTA
831266 AAATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATAAAATATTTAATATTATT
Found at i:831312 original size:26 final size:24
Alignment explanation
Indices: 831250--831312 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
831240 TATTTTAATC
831250 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
831274 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
831297 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
831313 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:831314 original size:22 final size:23
Alignment explanation
Indices: 831284--831330 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
831274 AAAATATATT
831284 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
831307 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
831329 TA
1 TA
831331 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:831344 original size:32 final size:32
Alignment explanation
Indices: 831278--831357 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
831268 ATATTTAAAA
* *
831278 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
831310 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
831342 TATATTATAATAATAT
1 TATATT-TATTAATAT
831358 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:831470 original size:54 final size:54
Alignment explanation
Indices: 831379--831516 Score: 133
Period size: 54 Copynumber: 2.5 Consensus size: 54
831369 TTTTTATTTT
* *
831379 AATAATATATAATAAATTATTAATAAAATTTATATTATTTAT-TAATTTAATAGA
1 AATAATATATAATAAATTATTAATAAAATTAACATTATTTATAT-ATTTAATAGA
*
831433 AATAATAT-T-ATAAAATTATTAATAATGAA-TAACATTATTTATATATTTAATATTA
1 AATAATATATAAT-AAATTATTAATAA--AATTAACATTATTTATATATTTAATA-GA
*
831488 ATATAATAATCTAATAATATT-TTAATAAA
1 A-ATAAT-ATATAATAA-ATTATTAATAAA
831517 GATATTTTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
52 2 0.03
53 14 0.20
54 27 0.38
55 5 0.07
56 6 0.08
57 2 0.03
58 10 0.14
59 5 0.07
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (54 bp):
AATAATATATAATAAATTATTAATAAAATTAACATTATTTATATATTTAATAGA
Found at i:831677 original size:18 final size:20
Alignment explanation
Indices: 831651--831691 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
831641 AAAAACAATT
831651 ATAAAAAAT-AA-TATTTTA
1 ATAAAAAATAAATTATTTTA
*
831669 ATAATAAATAAATTATTTTA
1 ATAAAAAATAAATTATTTTA
831689 ATA
1 ATA
831692 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAAATAAATTATTTTA
Found at i:838756 original size:19 final size:20
Alignment explanation
Indices: 838727--838764 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
838717 AAAAATTTGT
838727 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
838747 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
838765 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:838817 original size:63 final size:63
Alignment explanation
Indices: 838732--838890 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
838722 TTTGTTGAAG
* * * * *
838732 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
838795 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
*
838858 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCAT
838891 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 0.95
64 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:839524 original size:149 final size:149
Alignment explanation
Indices: 839346--839649 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
839336 TGGTAGAGGG
839346 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
839411 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
839476 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
839495 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAGCATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
839560 ACTTGATCTCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
839625 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
839644 TCTACG
1 TCTACG
839650 TGGCACTTTG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:839662 original size:23 final size:23
Alignment explanation
Indices: 839627--839672 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
839617 CATTATTATA
*
839627 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
**
839650 TGGCACTTTGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
839673 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:845804 original size:19 final size:20
Alignment explanation
Indices: 845775--845812 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
845765 AAAAATTTGT
845775 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
845795 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
845813 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:845865 original size:63 final size:63
Alignment explanation
Indices: 845780--845938 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
845770 TTTGTTGAAG
* * * * *
845780 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
845843 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
*
845906 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCAT
845939 GCCTCCATTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 0.95
64 4 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (63 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:846594 original size:149 final size:150
Alignment explanation
Indices: 846394--846699 Score: 544
Period size: 149 Copynumber: 2.0 Consensus size: 150
846384 TGGTAGAGGG
*
846394 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAATATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGGA-ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
*
846459 ATACTTGATC-CTTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCCTATGGACATTA
65 ATACTTGATCTC-TAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCCTATGGAAATTA
846523 TTATATGGCACTACGGTGCAAT
129 TTATATGGCACTACGGTGCAAT
*
846545 TCTACGCGGTCCTTCGGG-ATATATATATATTCTGTGGAGCATGTGTGAAGTCTTGTAAGACACA
1 TCTACGCGGTCCTTCGGGAATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
*
846609 TACTTGATCTCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGAAATTATT
66 TACTTGATCTCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCCTATGGAAATTATT
846674 ATATGGCACTACGGTGCAAT
131 ATATGGCACTACGGTGCAAT
846694 TCTACG
1 TCTACG
846700 TGGCACTTTG
Statistics
Matches: 150, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
149 131 0.87
150 1 0.01
151 18 0.12
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGAATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACA
TACTTGATCTCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCCTATGGAAATTATT
ATATGGCACTACGGTGCAAT
Found at i:846703 original size:23 final size:23
Alignment explanation
Indices: 846677--846722 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
846667 AATTATTATA
*
846677 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
**
846700 TGGCACTTTGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
846723 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:866452 original size:36 final size:36
Alignment explanation
Indices: 866405--866512 Score: 180
Period size: 36 Copynumber: 3.0 Consensus size: 36
866395 AAACCCTGGG
* *
866405 GGTTCATCAAGTGTTCCAAAGAAACCCAAGTTGATT
1 GGTTCATCAAGTGTTCGAAAGAAACGCAAGTTGATT
*
866441 GGTTCATCAAGTGTTCGAAAGAAATGCAAGTTGATT
1 GGTTCATCAAGTGTTCGAAAGAAACGCAAGTTGATT
*
866477 GGTTCATCAAGTGTTCGAAAGAGACGCAAGTTGATT
1 GGTTCATCAAGTGTTCGAAAGAAACGCAAGTTGATT
866513 TGGACTTTGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (36 bp):
GGTTCATCAAGTGTTCGAAAGAAACGCAAGTTGATT
Found at i:869374 original size:12 final size:12
Alignment explanation
Indices: 869357--869383 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
869347 GGCCCATGCC
869357 CAAGAATAGTGG
1 CAAGAATAGTGG
869369 CAAGAATAGTGG
1 CAAGAATAGTGG
869381 CAA
1 CAA
869384 CAATGGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.15
Consensus pattern (12 bp):
CAAGAATAGTGG
Found at i:875510 original size:21 final size:21
Alignment explanation
Indices: 875484--875523 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
875474 CAGAACCCTA
*
875484 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
875505 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
875524 TCAAAAGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:886808 original size:36 final size:37
Alignment explanation
Indices: 886737--886821 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
886727 ATCCCATTAT
*
886737 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
886773 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
886809 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
886822 TTGGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 13 0.30
37 30 0.70
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:891395 original size:36 final size:37
Alignment explanation
Indices: 891324--891407 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
891314 ATCTCATTAT
891324 CATTTTTC-AACAAACATCTACTAAACTTTGAAAAAC
1 CATTTTTCAAACAAACATCTACTAAACTTTGAAAAAC
* * *
891360 TATTTTTCAAAGAAACATTTA-TCAAACTTTG-AAAAC
1 CATTTTTCAAACAAACATCTACT-AAACTTTGAAAAAC
891396 CATTTTTTCAAA
1 CA-TTTTTCAAA
891408 ATTGGTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 14 0.34
37 27 0.66
ACGTcount: A:0.43, C:0.18, G:0.04, T:0.36
Consensus pattern (37 bp):
CATTTTTCAAACAAACATCTACTAAACTTTGAAAAAC
Found at i:895188 original size:3 final size:3
Alignment explanation
Indices: 895174--895213 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
895164 CTACAAATGT
895174 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
895214 CAGAATCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:895437 original size:27 final size:25
Alignment explanation
Indices: 895393--895442 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
895383 CCTCCGTTGG
*
895393 TAACTTATTAAATGTATTTTATTAT
1 TAACTTATTAAATATATTTTATTAT
895418 TAACTTAATTTAAATATATTTTATT
1 TAACTT-A-TTAAATATATTTTATT
895443 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.27
26 1 0.05
27 15 0.68
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (25 bp):
TAACTTATTAAATATATTTTATTAT
Found at i:895451 original size:21 final size:20
Alignment explanation
Indices: 895426--895480 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
895416 ATTAACTTAA
895426 TTTAAATATATTTTATTTTAT
1 TTTAAA-ATATTTTATTTTAT
*
895447 TTTAAAA-ATATATATTTTAT
1 TTTAAAATAT-TTTATTTTAT
* *
895467 GTTAAAATGTTTTA
1 TTTAAAATATTTTA
895481 AAGTCAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 2 0.07
20 19 0.68
21 7 0.25
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTAAAATATTTTATTTTAT
Found at i:899465 original size:23 final size:23
Alignment explanation
Indices: 899404--899459 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
899394 TTAGGTATCA
899404 CTTATATAATGTAATAAGTAGCG
1 CTTATATAATGTAATAAGTAGCG
*
899427 CTTATATAATGTAATATGTAGCG
1 CTTATATAATGTAATAAGTAGCG
899450 CTTATATAAT
1 CTTATATAAT
899460 AAAATAGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (23 bp):
CTTATATAATGTAATAAGTAGCG
Found at i:900285 original size:110 final size:111
Alignment explanation
Indices: 899959--900392 Score: 618
Period size: 112 Copynumber: 3.9 Consensus size: 111
899949 TTTTATTATG
* * * *
899959 ACAATATAACAAGTAAAAATATGACAAAATCAATTTTATTATGACAAAATCGGTAAAATTTACCT
1 ACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAAATTTACCT
* * *
900024 GATATGTTGAAAGTATCGATTCTTTTTATAAAAAGGATCGATACTTT
66 GATATGTTGAAAGTATCGA-TCCTTTTATAAAAAGAATAGATACTTT
* * * * * *
900071 ACAATATAATAGGTAAAAATATGACAAAACCAATTTTATTATGAAAAAAAACGATAAAATTTACT
1 ACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATG-ACAAAACCGGTAAAATTTACC
*
900136 TGATATATTGAAAGTATCGATCCTTTTATAAAAAGAATAGATACTTT
65 TGATATGTTGAAAGTATCGATCCTTTTATAAAAAGAATAGATACTTT
* * * *
900183 ACAATATTACAGGTAAAAATATAACAAAACCAGTTTCATTATGACAAAA-GGGTAAAATTTACCT
1 ACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAAATTTACCT
*
900247 AATATGTTGAAAGTATCGATCCTTTTATAAAAAGAATAGATACTTT
66 GATATGTTGAAAGTATCGATCCTTTTATAAAAAGAATAGATACTTT
* *
900293 ACAATATAACATGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGGTAAAATTTACCT
1 ACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAAATTTACCT
* * *
900358 GATATTTTGAAAGTATAGATACTTTTTATAAAAAG
66 GATATGTTGAAAGTATCGAT-CCTTTTATAAAAAG
900393 GATCGATATT
Statistics
Matches: 289, Mismatches: 30, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
110 102 0.35
111 36 0.12
112 115 0.40
113 36 0.12
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (111 bp):
ACAATATAACAGGTAAAAATATGACAAAACCAATTTCATTATGACAAAACCGGTAAAATTTACCT
GATATGTTGAAAGTATCGATCCTTTTATAAAAAGAATAGATACTTT
Found at i:909688 original size:17 final size:17
Alignment explanation
Indices: 909668--909700 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
909658 ACTTGATATC
909668 TTAAA-TCACTTTATAAA
1 TTAAATTCAC-TTATAAA
909685 TTAAATTCACTTATAA
1 TTAAATTCACTTATAA
909701 CATTTAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATTCACTTATAAA
Found at i:913473 original size:21 final size:21
Alignment explanation
Indices: 913447--913497 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
913437 TTCCAGATTT
913447 GCAACGCGAACATCGACTATC
1 GCAACGCGAACATCGACTATC
*
913468 GCAACGCGAACTTCGACTATC
1 GCAACGCGAACATCGACTATC
*
913489 GCAATGCGA
1 GCAACGCGA
913498 TTTTTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.16
Consensus pattern (21 bp):
GCAACGCGAACATCGACTATC
Found at i:913535 original size:21 final size:21
Alignment explanation
Indices: 913509--913624 Score: 150
Period size: 21 Copynumber: 5.6 Consensus size: 21
913499 TTTTCAAATT
*
913509 CGTTGCGATAGTTCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
913530 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
913551 CGTTGCGATAGTCCAAGTT--
1 CGTTGCGATAGTCCAAGTTCG
*
913570 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
913591 CGTTGCGATTTATTCCAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
913612 CGTTGCGATAGTC
1 CGTTGCGATAGTC
913625 GAATACTATC
Statistics
Matches: 85, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
19 22 0.26
21 55 0.65
23 8 0.09
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:913588 original size:61 final size:60
Alignment explanation
Indices: 913507--913624 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 60
913497 ATTTTTCAAA
*
913507 TTCGTTGCGATAGTTCAAGTTCGCGTTGCGA-TAGTCCAAGTTCGCGTTGCGATAGTCCAAG
1 TTCGTTGCGATAGTTCAAGTTCGCGTTGCGATTAGTCCAAATT--CGTTGCGATAGTCCAAG
*
913568 TTCGTTGCGATAG-TCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTCGTTGCGATAGTTC-AAGTTCGCGTTGCGA-TTAGTCCAAATTCGTTGCGATAGTC
913625 GAATACTATC
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
60 2 0.04
61 41 0.79
63 9 0.17
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (60 bp):
TTCGTTGCGATAGTTCAAGTTCGCGTTGCGATTAGTCCAAATTCGTTGCGATAGTCCAAG
Found at i:913719 original size:21 final size:18
Alignment explanation
Indices: 913694--913867 Score: 62
Period size: 19 Copynumber: 8.6 Consensus size: 18
913684 GATTTTGGAC
913694 TATCGCAACGAATTTGAAA
1 TATCGCAACGAATTTG-AA
* *
913713 TAAATCGCAACGCGAACTTCGAC
1 T--ATCGCAA--CGAA-TTTGAA
* *
913736 TATCGCAACGAACTTGGAC
1 TATCGCAACGAA-TTTGAA
913755 TATCGCAACGAATTTGTAA
1 TATCGCAACGAATTTG-AA
* *
913774 TAAATCGCAACGCGAACTTGGAC
1 T--ATCGCAA--CGAA-TTTGAA
*
913797 TATCGCAACAAATTTGGAA
1 TATCGCAACGAATTT-GAA
* * *
913816 TAAATCGTAACGCGAACTTGGAC
1 T--ATCGCAA--CGAA-TTTGAA
913839 TATCGCAACGAATTTGGTAA
1 TATCGCAACGAATTT-G-AA
913859 -ATCGCAACG
1 TATCGCAACG
913868 CGAACTTCGA
Statistics
Matches: 119, Mismatches: 17, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
18 7 0.06
19 45 0.38
20 1 0.01
21 40 0.34
23 18 0.15
24 8 0.07
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (18 bp):
TATCGCAACGAATTTGAA
Found at i:913783 original size:61 final size:61
Alignment explanation
Indices: 913688--913814 Score: 218
Period size: 61 Copynumber: 2.1 Consensus size: 61
913678 CGTTGCGATT
*
913688 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACAAAC
* * *
913749 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTGGACTATCGCAACAAAT
1 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACAAAC
913810 TTGGA
1 TTGGA
913815 ATAAATCGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (61 bp):
TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACAAAC
Found at i:913803 original size:42 final size:41
Alignment explanation
Indices: 913737--913888 Score: 229
Period size: 42 Copynumber: 3.7 Consensus size: 41
913727 AACTTCGACT
913737 ATCGCAA--CGAACTTGGACTATCGCAACGAATTTGTAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTG-AATAA
*
913777 ATCGCAACGCGAACTTGGACTATCGCAACAAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTT-GAATAA
* *
913819 ATCGTAACGCGAACTTGGACTATCGCAACGAATTTG-GTAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
*
913859 ATCGCAACGCGAACTTCGACTATCGCAACG
1 ATCGCAACGCGAACTTGGACTATCGCAACG
913889 CGAACTTGGA
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
40 38 0.37
41 1 0.01
42 63 0.61
43 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGAATAA
Found at i:913867 original size:103 final size:102
Alignment explanation
Indices: 913688--913900 Score: 288
Period size: 103 Copynumber: 2.1 Consensus size: 102
913678 CGTTGCGATT
*
913688 TTGGACTATCGCAACGAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
1 TTGGACTATCGCAACAAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
* *
913753 ACTATCGCAA-CGAA-TTTGTAATAAATCGCAACGCGAAC
66 ACAATCGCAACCGAACTTCG-AAT--ATCGCAACGCGAAC
* * * *
913791 TTGGACTATCGCAACAAATTTGGAATAAATCGTAACGCGAACTTGGACTATCGCAACGAATTTGG
1 TTGGACTATCGCAACAAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
*
913856 TA-AATCGCAACGCGAACTTCGACTATCGCAACGCGAAC
66 -ACAATCGCAAC-CGAACTTCGAATATCGCAACGCGAAC
913894 TTGGACT
1 TTGGACT
913901 GTCACAATGC
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
103 88 0.90
104 1 0.01
105 6 0.06
106 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (102 bp):
TTGGACTATCGCAACAAATTTGAAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGG
ACAATCGCAACCGAACTTCGAATATCGCAACGCGAAC
Found at i:913912 original size:21 final size:21
Alignment explanation
Indices: 913863--913913 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
913853 TGGTAAATCG
*
913863 CAACGCGAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCA
* *
913884 CAACGCGAACTTGGACTGTCA
1 CAACGCGAACTTCGACTATCA
*
913905 CAATGCGAA
1 CAACGCGAA
913914 TATGTAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCA
Found at i:913952 original size:21 final size:21
Alignment explanation
Indices: 913928--913974 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
913918 TAAATCGCAA
913928 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
*
913949 TGCGATATTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
913970 TGCGA
1 TGCGA
913975 ATCTGGAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:916257 original size:17 final size:17
Alignment explanation
Indices: 916235--916267 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
916225 GACAGAGTTT
916235 TGGGAT-GCAATGAGAGA
1 TGGGATAGCAA-GAGAGA
916252 TGGGATAGCAAGAGAG
1 TGGGATAGCAAGAGAG
916268 GTTAGAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.06, G:0.42, T:0.15
Consensus pattern (17 bp):
TGGGATAGCAAGAGAGA
Found at i:923127 original size:16 final size:16
Alignment explanation
Indices: 923106--923139 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
923096 TTACTATTCA
*
923106 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
923122 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
923138 CG
1 CG
923140 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:936713 original size:117 final size:115
Alignment explanation
Indices: 936478--936761 Score: 430
Period size: 115 Copynumber: 2.5 Consensus size: 115
936468 TTTCCCGAAA
* * **
936478 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACAAAGCGAGGAGTCTGCAGTAATA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGAAAGGAGTCTGCAGTAATA
936543 ACTTCTCTATCCAGTCACCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 ACTTCTCTATCCAGTCACCCAATCACTACAATGTGTAGGTTCCCCAGAAC
* *
936593 CATACACCCACCTGCACACCAGTAAGGACATACCCTGAGCACACAGTAAAGGAGTCTGCGGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAG-AAAGGAGTCTGCAGTAAT
936658 AACTT-TCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
65 AACTTCTCT-ATCCAGTCAC-CCAATCACTACAATGTGTAGGTTCCCCAGAAC
* * *
936710 CATACACCTACTTG--CACCAATAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAG-AAAGGAG
936762 CTTGAAATGC
Statistics
Matches: 155, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
115 81 0.52
116 30 0.19
117 44 0.28
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.19
Consensus pattern (115 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGAAAGGAGTCTGCAGTAATA
ACTTCTCTATCCAGTCACCCAATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:937728 original size:29 final size:29
Alignment explanation
Indices: 937689--937877 Score: 152
Period size: 28 Copynumber: 6.6 Consensus size: 29
937679 ATTTTTTTTA
* * *
937689 AATTACGAAAATATCACCATTTTGAAATT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
937718 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
937747 AATTACTAAAATATCACTC-TTTTAAAAAT
1 AATTACCAAAATATCAC-CATTTTCAAAAT
* * * * * * *
937776 -TTTACGAAATTGTCACCTTTTTAAAAAA
1 AATTACCAAAATATCACCATTTTCAAAAT
*
937804 AATTA-CAAAATAGCACCATTTTCAAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* * * *
937832 AATTACCAGAATAGCATCA-TTTCCAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
937860 AATTACTAAAATGTCACC
1 AATTACCAAAATATCACC
937878 CGATCAACGG
Statistics
Matches: 126, Mismatches: 30, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
27 1 0.01
28 63 0.50
29 61 0.48
30 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTACCAAAATATCACCATTTTCAAAAT
Found at i:937820 original size:28 final size:28
Alignment explanation
Indices: 937688--937871 Score: 122
Period size: 29 Copynumber: 6.4 Consensus size: 28
937678 CATTTTTTTT
* * *
937688 AAATTACGAAAATATCACCATTTTGAAAT
1 AAATTAC-AAAATAGCACCATTTTCAAAA
* *
937717 TAATTACCAAAATAGCATCATTTTCAAAA
1 AAATTA-CAAAATAGCACCATTTTCAAAA
* *
937746 TAATTACTAAAATATCACTC-TTTT-AAAA
1 AAATTAC-AAAATAGCAC-CATTTTCAAAA
** * * * *
937774 ATTTTACGAAATTGTCACCTTTTTAAAAA
1 AAATTACAAAATAG-CACCATTTTCAAAA
937803 AAATTACAAAATAGCACCATTTTCAAAA
1 AAATTACAAAATAGCACCATTTTCAAAA
* * * *
937831 TAATTACCAGAATAGCATCA-TTTCCAAA
1 AAATTA-CAAAATAGCACCATTTTCAAAA
*
937859 TAATTACTAAAAT
1 AAATTAC-AAAAT
937872 GTCACCCGAT
Statistics
Matches: 123, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
27 6 0.05
28 50 0.41
29 65 0.53
30 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (28 bp):
AAATTACAAAATAGCACCATTTTCAAAA
Found at i:937875 original size:85 final size:87
Alignment explanation
Indices: 937689--937877 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 87
937679 ATTTTTTTTA
* * ** * *
937689 AATTACGAAAATATCACCATTTTGAAATTAATTACCAAAATAGCATCATTTTCAAAATAATTACT
1 AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
* *
937754 AAAATATCACTCTTTTAAAAAT
66 AAAATAGCACTCATTTAAAAAT
* * *
937776 -TTTACGAAATTGTCACCTTTTTAAAAAAAATTA-CAAAATAGCACCATTTTCAAAATAATTACC
1 AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
* **
937839 AGAATAGCA-TCATTTCCAAAT
66 AAAATAGCACTCATTTAAAAAT
*
937860 AATTACTAAAATGTCACC
1 AATTACGAAAATGTCACC
937878 CGATCAACGG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 9 0.11
85 49 0.58
86 26 0.31
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.33
Consensus pattern (87 bp):
AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
AAAATAGCACTCATTTAAAAAT
Found at i:938620 original size:3 final size:3
Alignment explanation
Indices: 938614--938640 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
938604 AATTCAATTA
938614 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
938641 TTCAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:939060 original size:10 final size:10
Alignment explanation
Indices: 939028--939054 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
939018 TCCAAATCAG
939028 AAAAAAAACT
1 AAAAAAAACT
939038 AAAAAAAACT
1 AAAAAAAACT
939048 AAAAAAA
1 AAAAAAA
939055 GGTAAATTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAACT
Found at i:944820 original size:29 final size:28
Alignment explanation
Indices: 944757--944820 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
944747 TAACTACATT
944757 ATATAAATATAATATTAATTTATTTTAA
1 ATATAAATATAATATTAATTTATTTTAA
* *
944785 ATAATAAATCATTAT-TTGATTTATTTTAA
1 AT-ATAAAT-ATAATATTAATTTATTTTAA
944814 CATATAA
1 -ATATAA
944821 TTTATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 23 0.74
30 6 0.19
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (28 bp):
ATATAAATATAATATTAATTTATTTTAA
Found at i:954429 original size:2 final size:2
Alignment explanation
Indices: 954422--954455 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
954412 CGGGCGGTTA
954422 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954456 GATGTTATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:954676 original size:20 final size:21
Alignment explanation
Indices: 954646--954684 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
954636 ATTACATATA
954646 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
954667 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
954685 AAAACGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:954953 original size:171 final size:166
Alignment explanation
Indices: 954708--955162 Score: 467
Period size: 171 Copynumber: 2.7 Consensus size: 166
954698 ATATGTGTCG
954708 AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCG-AACTTTCTGAATTT-AAA-AG-AGAAGTTATAGCGCC
* *
954773 TATAAAGTGTCGATACTTTAAAAAAATATATCAAT-C-AAC-AATAATAACAGGTAAAAATATGA
62 TAAAAAGTGTCGATACTTTAAAAAAATATATCAATCCTAACTAAT-ATAACAAGT--AAA-A--A
* *
954835 TAAACTGATCTCAAAAATGAAAAAACCGGAAAAA-ACCGGGATAT-ATGAA
121 T--A-TG-TCTCAAAAATGAAAAAACCGAAAAAATACC-GGATATGATAAA
* *
954884 AGTGTCAATAATTTAATATTAGTATCG-ACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTAAA
1 AGTGTCGATAATTTAATATAAGTATCGAACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTAAA
* ** * * *
954948 AAGTGTC-ACACTTTATGAAAATGTATCGATCCTTACTAATATAACAAGTAAAAATATGTCTCAA
66 AAGTGTCGATACTTTAAAAAAATATATCAATCCTAACTAATATAACAAGTAAAAATATGTCTCAA
* * *
955012 AAATGACAAAACCGAAAAAAGTTACCGTATATGTTAAA
131 AAATGAAAAAACCGAAAAAA--TACCGGATATGATAAA
* * *
955050 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAATTATTGCGCTT
1 AGTGTCGATAATTTAATATAAGTATCGA-ACTTTCTGAATTTAAAAGAG--AAGTTATAGCGCCT
** * *
955115 AAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAAC-AATATAA
63 AAAAAGTGTCGATACTTTAAAAAAATATATCAATCC-TAACTAATATAA
955163 TAGGTAAATT
Statistics
Matches: 244, Mismatches: 22, Indels: 31
0.82 0.07 0.10
Matches are distributed among these distances:
163 24 0.10
164 2 0.01
165 6 0.02
166 31 0.13
167 2 0.01
168 20 0.08
169 1 0.00
170 42 0.17
171 57 0.23
172 15 0.06
173 6 0.02
174 13 0.05
176 25 0.10
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (166 bp):
AGTGTCGATAATTTAATATAAGTATCGAACTTTCTGAATTTAAAAGAGAAGTTATAGCGCCTAAA
AAGTGTCGATACTTTAAAAAAATATATCAATCCTAACTAATATAACAAGTAAAAATATGTCTCAA
AAATGAAAAAACCGAAAAAATACCGGATATGATAAA
Found at i:955811 original size:195 final size:198
Alignment explanation
Indices: 955309--956580 Score: 1913
Period size: 195 Copynumber: 6.5 Consensus size: 198
955299 GTAAACTTAT
* * *
955309 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCAT-ATTATAATTTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * * *
955373 GGTAAATTAGTAATATTACCAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
955438 TCGACACGAAT-TAACAAGTGTTGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGA-ACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
955502 AAAC
195 AAAA
*
955506 GTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
955571 GGTAAATTAGAAATATAACCGGTCTAAATATACCGA-TTTTGAGAAAACAGGTGTAC-AAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
955634 TCG-ACAAATTGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGCACT-A
131 TCGAACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
955697 AAA
196 AAA
* *
955700 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
955765 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAGTC-GGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAA-ACAGGTGTACAAAAAGT
* *
955829 ATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTGCACT
130 ATCGA-ACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
955894 AAAAA
194 AAAAA
* *
955899 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCG-AAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
955963 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTA-AAAAA-TA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
956026 TCGACACAAATCAAATAAGTGTCGATAC-TTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGA-ACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
956090 AAAA
195 AAAA
956094 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * *
956159 GGTAAATTGGAAATATAACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
956224 TCG-ACACAATCGAACAAGTGTCGATACTTTT-TTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGAACA-AATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
956287 AAAA
195 AAAA
* *
956291 GTGTCGATACATTTGTAACAAGTG-CGATCCCAAAAACATC-AAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* *
956354 GGTAAATTAACAATATAATCGGTCTAAATATACCGATTTTTGAGAAAATC-GGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAA-CAGGTGTACAAAAAGT
*
956418 ATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG--C-
130 ATCGA-ACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
956480 ---AA
194 AAAAA
*
956482 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAAAAATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCC-AAAAACATCGAAAACCATAATTATAATGTAAT
* **
956547 AGGTAAATTAACAATATAATTGGTCTAAATATAC
65 AGGTAAATTAGCAATATAACCGGTCTAAATATAC
956581 TGGTTTAAAT
Statistics
Matches: 989, Mismatches: 65, Indels: 45
0.90 0.06 0.04
Matches are distributed among these distances:
191 25 0.03
192 7 0.01
193 8 0.01
194 158 0.16
195 226 0.23
196 164 0.17
197 179 0.18
198 178 0.18
199 44 0.04
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (198 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGAACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTAA
AAA
Found at i:956074 original size:393 final size:394
Alignment explanation
Indices: 955309--956580 Score: 1966
Period size: 392 Copynumber: 3.2 Consensus size: 394
955299 GTAAACTTAT
* * *
955309 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCAT-ATTATAATTTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * * *
955373 GGTAAATTAGTAATATTACCAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
*
955438 TCGACACGAAT-TAACAAGTGTTGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACAC-AATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
* *
955502 AAACGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
195 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAA-CATAATTATAATGT
*
955567 AATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGA-TTTTGAGAAAACAGGTGTACAAAA
259 AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAA
* * * * *
955631 GTATCG--ACAAATTGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGCA
324 ATATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
955694 CTAAAA
389 CTAAAA
* *
955700 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
955765 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAGTC-GGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAA-ACAAGTGTACAAAAAGT
* *
955829 ATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTGCACT
130 ATCGACAC-AATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACT
* *
955894 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAATCATAATTATAATGT
194 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACATAATTATAATGT
*
955959 AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTA-AAAA
259 AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAA
* *
956023 ATATCGACACAAATCAAATAAGTGTCGATAC-TTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
324 ATATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
956087 CTAAAAA
389 CT-AAAA
956094 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
956159 GGTAAATTGGAAATATAACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* *
956224 TCGACACAATCGAACAAGTGTCGATACTTTT-TTCTAGAATGTATTTCAAAACCAAGTGCACTAA
131 TCGACACAATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTAA
*
956288 AAAGTGTCGATACATTTGTAACAAGTG-CGATCCCAAAAACATC-AAAACTATAATTATAATGTA
196 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAC-ATAATTATAATGTA
* *
956351 ATAGGTAAATTAACAATATAATCGGTCTAAATATACCGATTTTTGAGAAAATC-GGTGTACAAAA
260 ATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAA-CAGGTGTACAAAA
*
956415 AGTATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG-
324 A-TATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
956479 -C---AA
388 ACTAAAA
*
956482 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAAAAATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCC-AAAAACATCGAAAACCATAATTATAATGTAAT
* **
956547 AGGTAAATTAACAATATAATTGGTCTAAATATAC
65 AGGTAAATTAGCAATATAACCGGTCTAAATATAC
956581 TGGTTTAAAT
Statistics
Matches: 811, Mismatches: 56, Indels: 30
0.90 0.06 0.03
Matches are distributed among these distances:
388 34 0.04
389 60 0.07
390 4 0.00
391 129 0.16
392 203 0.25
393 199 0.25
394 182 0.22
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (394 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
TCGACACAATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTAA
AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACATAATTATAATGTAA
TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAT
ATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
AAAA
Done.