genome.fa.s194.2.7.7.80.10.50.1000.22.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: Scaffold194
Parameters: 2 7 7 80 10 50 1000
Length:  3945165

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   

This is table  22  of  24  ( 2800 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)
3567160--3567202	4	10.8	4	94	0	77	74	0	25	0	0.82
3571322--3571351	2	15.0	2	92	0	51	46	0	0	53	1.00
3573344--3573368	13	1.9	13	100	0	50	16	0	28	56	1.41
3573373--3573446	16	4.6	16	73	8	60	25	2	17	54	1.56
3574110--3574136	3	9.0	3	100	0	54	33	0	0	66	0.92
3575666--3576044	88	4.3	88	78	8	374	44	5	14	35	1.69
3575680--3576027	177	2.0	178	84	4	461	45	6	15	33	1.70
3575982--3576114	69	1.9	71	84	6	182	43	5	14	36	1.68
3575896--3576366	158	2.9	157	79	8	484	43	6	15	35	1.72
3576212--3576444	89	2.6	89	81	4	299	39	7	16	36	1.77
3575896--3576367	163	2.9	157	79	8	511	43	6	15	34	1.72
3578077--3578164	23	3.8	23	77	15	92	36	0	1	62	1.03
3578055--3578157	46	2.2	46	86	10	147	34	0	2	62	1.11
3578077--3578164	22	3.8	22	75	18	81	36	0	1	62	1.03
3578055--3578163	47	2.3	47	86	7	143	35	0	2	61	1.10
3578808--3578857	20	2.7	17	75	19	55	46	0	2	52	1.12
3578810--3578847	20	1.9	20	88	0	58	47	0	0	52	1.00
3578794--3578870	18	4.1	19	77	15	70	44	0	2	53	1.14
3581926--3581971	22	2.1	22	84	4	58	36	0	4	58	1.18
3581926--3582012	36	2.4	35	83	9	95	39	0	2	58	1.11
3581926--3582012	18	4.7	19	70	24	71	39	0	2	58	1.11
3581998--3582051	21	2.5	22	80	17	60	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3582852--3582909	29	2.0	29	83	6	73	37	5	1	55	1.33
3583744--3583778	18	1.9	18	88	11	54	62	0	0	37	0.95
3590901--3590986	43	2.0	43	97	0	163	26	13	19	39	1.90
3592906--3592938	2	17.0	2	93	6	59	51	0	0	48	1.00
3596058--3596097	21	1.9	21	90	10	64	60	0	0	40	0.97
3596499--3596561	24	2.5	24	76	5	63	42	3	1	52	1.27
3597259--3597300	22	1.9	22	85	9	59	54	0	0	45	0.99
3597844--3597891	20	2.4	20	73	13	53	50	0	0	50	1.00
3598164--3598215	15	3.5	15	79	10	54	51	0	1	46	1.12
3598664--3598730	21	3.4	20	75	23	70	65	0	0	34	0.93
3598664--3598784	11	11.5	11	67	19	55	62	0	0	37	0.95
3598679--3598816	16	8.2	16	69	18	70	60	0	0	39	0.97
3598698--3598779	35	2.5	31	81	14	103	60	0	0	39	0.96
3598679--3598806	54	2.4	55	84	12	160	59	0	0	40	0.97
3598766--3598833	27	2.5	27	82	2	73	54	0	1	44	1.09
3602343--3602382	20	2.0	20	85	9	55	30	2	0	67	1.04
3603278--3603312	13	2.7	13	90	0	61	54	5	8	31	1.54
3603635--3603680	2	23.0	2	100	0	92	50	0	0	50	1.00
3604815--3604853	20	2.0	20	84	0	51	58	0	0	41	0.98
3613299--3613336	11	3.6	11	82	13	53	31	0	0	68	0.90
3614891--3614927	18	2.1	18	90	5	58	45	0	2	51	1.15
3614890--3614928	17	2.3	16	83	12	51	48	0	2	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3616621--3616653	16	1.9	18	88	11	52	27	0	3	69	1.03
3621506--3621532	8	3.4	8	100	0	54	37	0	0	62	0.95
3626760--3626998	97	2.5	96	87	5	340	29	14	28	27	1.95
3633953--3633982	15	2.0	15	93	0	51	63	10	13	13	1.52
3634890--3635034	38	3.8	38	85	1	184	31	28	11	28	1.91
3639569--3639687	38	3.1	38	81	4	150	35	31	8	25	1.86
3639584--3639700	38	3.1	38	83	0	117	34	29	8	27	1.87
3646842--3646888	22	2.1	22	88	7	69	48	2	2	46	1.25
3653338--3654269	465	2.0	466	95	0	1677	31	22	18	26	1.97
3660477--3660554	38	2.1	37	88	7	113	44	8	6	39	1.61
3662761--3662821	29	2.1	29	90	0	95	55	3	0	40	1.16
3663168--3663219	19	2.7	19	81	3	59	26	19	15	38	1.91
3663187--3663224	19	2.0	19	89	0	58	28	23	13	34	1.92
3663267--3663331	33	2.0	33	84	6	87	38	10	18	32	1.85
3664402--3664495	38	2.5	37	77	8	100	50	6	4	39	1.48
3664481--3664543	14	4.5	14	75	13	58	57	1	1	39	1.18
3664471--3664535	28	2.3	29	84	10	82	56	1	1	40	1.18
3664853--3664907	24	2.2	26	81	18	73	34	0	1	63	1.05
3664855--3664910	23	2.4	23	80	13	71	35	0	1	62	1.06
3665007--3665051	14	3.1	14	78	12	54	62	0	0	37	0.96
3665006--3665053	15	3.2	15	80	11	62	62	0	0	37	0.95
3673428--3673476	26	1.9	26	88	12	75	38	0	2	59	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3673460--3673565	34	3.1	34	75	11	85	43	0	0	56	0.99
3673497--3673539	22	2.0	20	86	8	59	41	0	0	58	0.98
3674002--3674037	17	2.1	17	89	0	54	44	8	2	44	1.48
3673910--3674162	123	2.1	122	83	3	310	45	5	6	41	1.55
3674122--3674160	17	2.3	17	95	0	69	38	10	7	43	1.67
3674213--3674294	28	3.0	26	82	12	69	52	2	0	45	1.14
3674232--3674293	27	2.3	27	84	13	83	58	1	0	40	1.08
3675555--3675602	2	24.5	2	95	4	89	50	0	0	50	1.00
3676891--3676931	2	20.5	2	100	0	82	51	0	0	48	1.00
3679316--3679356	16	2.6	16	75	17	50	48	0	0	51	1.00
3679535--3679575	14	2.9	14	80	19	50	65	7	0	26	1.18
3680004--3680691	52	13.9	50	73	13	455	54	3	2	39	1.34
3680321--3680355	17	2.1	17	89	5	54	65	0	0	34	0.93
3680002--3680691	96	6.9	103	73	14	370	54	3	2	39	1.33
3680168--3680662	98	5.0	97	74	12	318	54	3	3	38	1.35
3680784--3680834	22	2.3	22	79	0	57	43	7	9	39	1.67
3681065--3681122	22	2.6	22	83	0	80	48	5	6	39	1.52
3681065--3681133	22	3.1	22	79	10	77	47	4	7	40	1.51
3681197--3681354	44	3.3	44	79	17	149	37	0	5	56	1.23
3681242--3681375	52	2.6	51	84	9	164	34	0	5	58	1.27
3681272--3681536	52	5.1	52	76	13	233	37	1	5	54	1.35
3681279--3681529	105	2.4	100	81	9	265	37	1	4	55	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3682089--3682138	21	2.6	18	80	17	64	60	6	6	28	1.44
3682332--3682376	14	3.1	15	76	23	51	40	0	2	57	1.11
3682495--3682539	24	1.9	23	81	4	54	51	2	0	46	1.13
3687241--3687796	282	2.0	272	89	4	855	36	18	14	30	1.90
3689155--3689340	79	2.4	78	82	2	203	31	17	27	23	1.97
3689300--3689373	28	2.6	28	87	8	98	24	17	32	25	1.97
3689391--3689527	52	2.6	52	82	4	161	32	13	26	27	1.94
3689246--3689696	213	2.1	212	87	1	627	30	13	27	28	1.94
3689510--3689585	27	2.8	28	85	2	100	21	19	34	25	1.96
3689241--3689636	107	3.7	106	74	10	356	30	13	28	28	1.95
3692059--3692084	13	2.0	13	100	0	52	38	15	15	30	1.88
3692038--3692104	33	2.0	33	88	0	98	43	14	14	26	1.85
3692124--3692191	19	3.9	18	76	23	83	38	14	11	35	1.83
3692146--3692170	13	1.9	13	100	0	50	32	16	16	36	1.90
3692127--3692189	32	2.0	32	96	0	117	36	15	12	34	1.86
3692227--3692303	21	3.7	21	89	3	111	35	16	12	35	1.88
3693056--3693137	28	3.0	28	63	21	64	21	23	28	26	1.99
3693056--3693628	55	10.0	59	89	4	713	25	21	27	25	1.99
3693036--3693628	118	5.2	119	89	4	766	25	21	27	25	1.99
3694596--3694679	1	84.0	1	71	0	60	0	1	13	85	0.65
3694602--3694676	9	8.6	9	84	7	75	0	0	14	85	0.60
3694604--3694680	13	6.0	12	82	14	100	0	0	15	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3707234--3707305	28	2.6	28	88	0	99	23	19	34	22	1.96
3707351--3707464	52	2.2	52	84	6	142	31	16	26	25	1.97
3707183--3707633	213	2.1	212	87	1	627	31	13	27	27	1.94
3707447--3707522	27	2.8	27	90	6	109	22	19	32	25	1.97
3707508--3707628	51	2.3	53	87	7	167	33	12	23	31	1.91
3709433--3709462	11	2.8	11	95	5	53	0	0	20	80	0.72
3709972--3710026	20	2.8	20	82	0	74	45	16	14	23	1.84
3710046--3710113	19	3.9	18	73	23	74	38	13	11	36	1.81
3710049--3710111	32	2.0	32	93	0	108	36	14	12	36	1.84
3712402--3712556	76	2.0	76	97	0	292	32	14	18	34	1.91

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