genome.fa.s196.2.7.7.80.10.50.1000.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   

This is table  1  of  47  ( 5587 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7818--7867	2	25.5	2	95	4	93	52	0	0	48	1.00
9768--9808	20	2.2	20	86	8	59	51	4	0	43	1.23
10003--10064	2	31.0	2	96	0	115	50	0	1	48	1.10
12300--12335	14	2.6	14	91	4	56	52	0	0	47	1.00
17487--17589	51	2.0	51	98	0	197	56	3	6	33	1.44
20121--20149	14	2.0	15	93	6	51	17	6	6	68	1.34
33649--33696	22	2.2	22	88	0	69	47	10	0	41	1.37
36369--36484	51	2.3	51	90	3	180	31	12	23	31	1.92
36420--36628	109	1.9	107	82	3	258	35	15	21	27	1.94
37568--37606	19	2.1	19	100	0	78	33	25	10	30	1.89
39057--39082	13	2.0	13	100	0	52	38	15	15	30	1.88
39069--39110	21	2.0	21	90	0	66	28	23	7	40	1.81
39121--39178	13	4.0	13	74	23	53	34	15	15	34	1.89
39122--39195	32	2.3	32	92	0	121	35	14	14	35	1.88
39135--39195	19	3.5	19	70	25	62	36	14	13	36	1.85
39166--39227	19	3.2	19	69	13	54	29	11	14	45	1.80
39257--39311	20	2.7	21	94	5	103	36	14	12	36	1.84
39996--40081	42	2.0	42	82	8	104	40	13	26	18	1.88
40069--40676	61	10.4	61	85	7	657	25	20	27	26	1.99
40069--40676	177	3.5	175	83	9	703	25	20	27	26	1.99
40680--40948	61	4.5	60	83	9	354	25	20	29	24	1.99
40680--40948	116	2.3	117	87	7	375	25	20	29	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45120--45193	20	3.7	20	83	0	103	32	13	12	41	1.81
52085--52126	16	2.7	16	78	14	52	71	9	14	4	1.28
53432--53882	27	16.4	27	83	8	408	26	31	15	26	1.95
53432--53742	82	3.8	82	85	4	405	25	32	13	27	1.94
53433--53815	55	7.0	55	86	5	438	25	31	15	27	1.95
53429--54497	28	37.1	28	81	6	516	28	30	17	24	1.97
53429--54497	56	18.5	56	81	6	595	28	30	17	24	1.97
53711--54310	32	20.1	31	82	7	458	29	30	18	21	1.97
54569--54784	45	4.7	45	81	8	204	22	25	18	34	1.96
54608--54784	47	3.8	47	84	5	241	20	27	18	33	1.96
55162--55232	20	3.5	20	82	0	97	32	11	12	43	1.78
67290--67405	51	2.3	50	85	2	160	30	12	25	32	1.92
69972--70013	21	2.0	21	85	0	57	30	23	7	38	1.82
70038--70110	19	3.7	19	81	5	83	36	16	10	35	1.84
77242--77282	16	2.6	16	84	3	57	46	2	26	24	1.65
78382--78481	11	8.5	12	69	23	54	66	1	2	31	1.10
78383--78499	27	4.1	26	74	14	81	66	2	1	29	1.14
78448--78490	22	1.9	23	85	4	61	67	2	0	30	1.03
78440--78502	32	2.0	30	84	6	81	68	3	0	28	1.05
78654--78706	24	2.2	24	83	6	63	35	5	7	50	1.54
79140--79174	16	2.1	18	89	10	56	54	0	0	45	0.99
80456--80501	20	2.2	21	85	11	60	43	0	4	52	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
80456--80521	21	3.2	20	82	8	62	40	1	3	54	1.25
82708--82736	2	14.5	2	100	0	58	48	0	0	51	1.00
82962--83021	30	2.0	32	87	9	90	60	1	0	38	1.07
83524--83570	23	2.0	23	87	0	67	53	0	0	46	1.00
92214--92272	21	2.8	22	82	5	59	57	0	0	42	0.98
95077--95103	2	13.5	2	100	0	54	0	48	0	51	1.00
95630--95662	3	11.0	3	100	0	66	33	0	0	66	0.92
97027--97051	12	2.1	12	100	0	50	48	0	16	36	1.46
97782--97842	28	2.2	28	81	0	77	60	0	19	19	1.36
97794--97849	28	2.0	28	92	0	94	57	0	16	26	1.39
97859--97896	19	2.1	18	90	5	58	50	0	0	50	1.00
98189--98233	22	2.0	23	91	8	76	48	2	0	48	1.13
98532--98609	34	2.4	31	75	19	79	52	0	0	47	1.00
100944--100974	16	1.9	16	93	0	53	54	3	0	41	1.16
105483--105542	23	2.7	22	72	27	56	68	1	1	28	1.09
107425--107508	22	4.2	21	72	21	65	52	1	2	44	1.21
107463--107508	15	3.1	15	81	9	58	56	0	2	41	1.11
107443--107502	17	3.4	17	73	15	59	53	0	1	45	1.10
107516--107564	24	2.0	24	88	0	71	46	0	2	51	1.12
108588--108658	21	3.2	21	73	13	63	50	0	2	46	1.16
108588--108687	44	2.3	45	81	13	111	52	0	2	46	1.12
109506--109567	31	2.0	31	81	6	72	25	38	11	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115145--115171	2	13.5	2	100	0	54	0	0	48	51	1.00
115578--115643	30	2.2	30	83	5	80	39	7	3	50	1.46
120922--120987	20	3.1	21	79	14	73	40	1	4	53	1.31
121012--121061	20	2.5	19	81	15	57	38	2	6	54	1.37
121809--121864	20	2.8	21	76	15	64	33	5	12	48	1.64
122935--123014	28	3.1	24	71	22	65	53	1	0	45	1.08
122933--123005	23	3.0	23	76	18	69	56	1	0	42	1.08
123807--123845	16	2.4	16	78	0	51	41	0	5	53	1.23
125083--125117	17	2.1	17	88	0	52	42	25	0	31	1.55
126253--126295	12	3.4	12	87	12	68	74	0	0	25	0.82
126255--126288	14	2.5	14	95	4	61	76	0	0	23	0.79
127152--127191	2	20.0	2	94	0	71	2	50	0	47	1.14
128563--128611	18	2.7	18	81	9	55	55	0	0	44	0.99
128856--128895	11	3.5	11	83	10	53	52	0	0	47	1.00
129666--129773	18	6.2	18	68	20	52	52	1	0	45	1.11
131178--131263	32	2.7	32	90	0	136	41	9	12	36	1.75
132337--132393	21	2.6	23	76	13	59	1	31	0	66	1.02
133007--133104	51	1.9	51	89	0	151	33	7	9	50	1.62
134054--134096	21	2.0	22	90	4	70	13	23	16	46	1.83
135504--135533	2	15.0	2	100	0	60	0	50	0	50	1.00
135899--135923	3	8.3	3	100	0	50	68	0	0	32	0.90
136167--136209	2	21.5	2	95	0	77	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137657--137710	27	2.0	26	82	3	63	35	14	14	35	1.88
141907--141931	13	1.9	13	100	0	50	92	0	8	0	0.40
143308--143342	2	17.5	2	100	0	70	48	0	0	51	1.00
147534--147706	50	3.5	50	88	1	240	33	23	16	27	1.95
148598--148660	25	2.5	25	85	12	76	73	3	1	22	1.07
148616--148644	14	2.0	15	93	6	51	75	0	0	24	0.80
148565--148657	31	3.0	31	72	10	82	70	4	2	22	1.15
148735--148844	34	3.3	32	78	10	98	63	4	0	30	1.20
148964--149005	12	3.2	14	74	19	54	64	0	21	14	1.29
148983--149350	182	2.0	182	87	6	532	37	13	10	39	1.79
150419--150463	15	3.1	15	78	18	51	46	0	0	53	1.00
151743--151799	11	5.2	11	77	6	53	50	0	0	49	1.00
151748--151835	21	4.2	21	72	16	58	51	0	0	48	1.00
151774--151818	22	2.1	21	84	12	56	42	0	0	57	0.98
152524--152567	17	2.5	18	88	7	72	50	6	4	38	1.50
152516--152572	29	2.0	29	82	6	71	49	7	5	38	1.53
152608--152676	35	1.9	36	85	8	97	43	0	5	50	1.26
152863--152943	31	2.7	30	83	5	110	50	1	11	37	1.46
153604--153665	27	2.3	28	80	8	74	32	1	1	64	1.13
153620--153754	7	18.1	7	70	23	82	34	0	0	65	0.93
153620--153738	27	4.5	26	73	19	86	36	0	0	63	0.94
153620--153734	61	1.9	60	83	7	151	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
153649--153703	29	1.9	28	85	10	76	43	0	0	56	0.99
153717--153758	10	4.2	10	85	8	59	26	0	0	73	0.83
153679--153766	21	3.9	23	72	18	78	35	0	0	64	0.94
154945--154999	16	3.7	15	79	9	60	58	3	0	38	1.16
159953--160060	2	54.5	2	86	1	155	46	1	0	51	1.11
160160--160194	16	2.2	16	89	0	52	34	0	8	57	1.29
160343--160472	32	4.2	31	75	8	104	40	3	10	46	1.54
161698--161750	21	2.7	19	81	13	63	47	1	7	43	1.42
162764--162817	21	2.7	20	75	24	51	57	3	1	37	1.27
164309--164439	23	5.6	23	71	13	72	37	3	1	58	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47