genome.fa.s53.2.7.7.80.10.50.1000.20.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: Scaffold53
Parameters: 2 7 7 80 10 50 1000
Length:  4419549

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   

This is table  20  of  28  ( 3325 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)
3018901--3019181	66	4.2	66	94	1	472	21	36	12	29	1.90
3019224--3019321	32	3.1	31	91	5	160	27	37	18	16	1.92
3019229--3019326	33	3.0	33	92	7	164	27	36	18	17	1.93
3019326--3019843	49	10.6	49	85	6	664	24	25	17	32	1.97
3019326--3019910	98	5.9	98	90	5	789	24	25	17	32	1.97
3019622--3019800	43	4.0	44	83	9	236	25	25	19	30	1.98
3019574--3019844	92	2.9	92	95	1	470	25	24	18	31	1.97
3019758--3019895	52	2.6	52	82	3	159	24	23	16	34	1.95
3020032--3020125	43	2.2	43	100	0	188	27	23	17	31	1.96
3019862--3020286	213	2.0	212	97	1	807	23	25	14	36	1.93
3020926--3020995	33	2.1	33	89	0	104	34	11	14	40	1.82
3020946--3020970	13	1.9	13	100	0	50	36	16	16	32	1.90
3021035--3021059	13	1.9	13	100	0	50	32	16	16	36	1.90
3021068--3021196	52	2.5	52	92	0	213	37	17	15	30	1.90
3024419--3024461	21	2.0	21	100	0	86	27	23	20	27	1.99
3028088--3028158	1	71.0	1	74	0	61	87	12	0	0	0.55
3028092--3028158	16	4.3	15	82	14	75	86	13	0	0	0.57
3028399--3028430	16	2.0	16	93	0	55	84	9	6	0	0.78
3029349--3029535	31	5.9	31	78	8	146	22	30	16	29	1.96
3029349--3029502	61	2.5	61	84	6	175	24	29	16	29	1.97
3029473--3030006	34	16.2	32	84	10	627	21	35	11	31	1.89
3029479--3029965	66	7.4	66	92	3	754	21	36	12	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3029473--3029973	100	5.1	100	88	7	690	21	36	11	30	1.89
3030008--3030105	32	3.1	31	91	5	160	27	37	18	16	1.92
3030013--3030110	33	3.0	33	92	7	164	27	36	18	17	1.93
3030110--3030627	49	10.6	49	85	6	664	24	25	17	32	1.97
3030110--3030694	98	5.9	98	90	5	789	24	25	17	32	1.97
3030406--3030584	43	4.0	44	83	9	236	25	25	19	30	1.98
3030358--3030628	92	2.9	92	95	1	470	25	24	18	31	1.97
3030542--3030679	52	2.6	52	82	3	159	24	23	16	34	1.95
3030816--3030909	43	2.2	43	100	0	188	27	23	17	31	1.96
3030646--3031070	213	2.0	212	97	1	807	23	25	14	36	1.93
3031710--3031779	33	2.1	33	89	0	104	34	11	14	40	1.82
3031730--3031754	13	1.9	13	100	0	50	36	16	16	32	1.90
3031819--3031843	13	1.9	13	100	0	50	32	16	16	36	1.90
3031852--3031980	52	2.5	52	92	0	213	37	17	15	30	1.90
3035874--3035936	19	3.6	19	76	24	84	36	19	15	28	1.92
3035892--3035949	13	4.0	13	76	23	62	37	17	15	29	1.90
3035874--3035969	32	3.0	32	93	1	156	39	17	14	28	1.89
3038170--3038219	21	2.3	21	80	10	57	56	4	18	22	1.58
3042126--3042163	13	2.9	13	92	0	58	31	18	18	31	1.95
3042275--3042320	21	2.2	20	81	11	58	32	19	4	43	1.71
3044699--3044724	13	2.0	13	100	0	52	38	15	15	30	1.88
3044681--3044744	32	2.0	33	87	3	94	40	17	14	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3045570--3045635	34	1.9	34	100	0	132	45	3	18	33	1.65
3046240--3046294	20	2.8	19	88	5	74	45	14	14	25	1.83
3047421--3047470	20	2.5	19	81	18	57	44	4	20	32	1.70
3050604--3050653	21	2.5	21	90	6	77	42	12	16	30	1.84
3050708--3050733	13	2.0	13	100	0	52	30	15	15	38	1.88
3050721--3050855	51	2.6	49	89	4	171	32	17	15	34	1.91
3053141--3053380	51	4.7	51	78	6	238	30	23	12	33	1.92
3053141--3053380	102	2.3	103	82	4	290	30	23	12	33	1.92
3053385--3053640	79	3.2	79	94	0	440	26	27	15	30	1.96
3053574--3053693	51	2.4	51	91	0	186	26	26	15	31	1.95
3053495--3053772	130	2.1	130	91	1	441	26	27	14	31	1.95
3053416--3053799	209	1.8	209	94	1	680	26	27	15	30	1.96
3053625--3053808	79	2.3	79	93	0	314	25	28	16	30	1.96
3055482--3055520	13	3.0	13	100	0	78	38	15	15	30	1.88
3055557--3055612	21	2.6	22	94	5	105	37	10	25	26	1.88
3055600--3055630	10	3.1	10	90	0	53	41	6	29	22	1.78
3055655--3055791	53	2.6	53	94	1	238	26	17	18	37	1.93
3055761--3055831	20	3.5	20	77	11	74	29	14	16	39	1.88
3055872--3055912	21	2.0	21	85	9	57	39	9	12	39	1.76
3059597--3059640	19	2.2	20	88	4	63	43	15	13	27	1.85
3059771--3059798	13	2.2	13	100	0	56	39	14	14	32	1.86
3059750--3059816	33	2.0	33	94	5	118	37	16	11	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3059751--3059816	20	3.7	19	73	26	72	36	16	12	34	1.86
3059463--3059896	237	1.8	235	79	8	504	32	15	16	35	1.91
3062181--3062233	24	2.1	26	86	6	74	49	1	1	47	1.23
3062736--3062775	21	1.9	21	90	10	64	22	17	0	60	1.37
3064044--3064079	18	2.0	18	100	0	72	50	0	0	50	1.00
3064154--3064204	24	2.1	25	88	3	77	52	0	0	47	1.00
3064168--3064225	24	2.4	25	83	8	68	53	0	0	46	1.00
3066901--3066927	3	9.0	3	100	0	54	33	0	0	66	0.92
3068705--3068748	21	2.1	21	95	4	81	50	0	0	50	1.00
3070086--3070110	2	12.5	2	100	0	50	48	0	0	52	1.00
3070310--3070344	11	3.2	11	83	0	52	20	0	2	77	0.90
3071217--3071248	14	2.3	14	100	0	64	56	18	12	12	1.67
3072685--3072747	27	2.3	26	86	7	90	65	0	0	34	0.93
3072691--3072743	14	3.9	14	80	5	63	64	0	0	35	0.94
3073069--3073127	21	2.8	20	80	7	64	52	0	6	40	1.28
3073493--3073529	16	2.3	16	90	0	56	70	0	10	18	1.16
3079949--3080344	155	2.5	155	81	6	469	37	17	14	29	1.90
3089535--3089559	13	1.9	13	100	0	50	40	8	16	36	1.77
3090401--3090899	101	4.8	100	78	12	355	33	16	26	23	1.96
3090395--3090684	52	5.7	50	79	9	291	33	17	24	24	1.96
3090705--3090899	49	3.9	49	85	5	221	31	16	27	24	1.96
3090579--3090797	113	1.9	114	88	2	334	35	14	26	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090527--3090846	162	2.0	164	86	5	459	34	15	25	24	1.95
3090916--3091011	28	3.4	28	86	11	149	15	16	33	34	1.91
3092456--3092578	4	30.2	4	82	9	110	0	0	17	80	0.81
3092454--3092576	10	13.3	9	80	16	96	0	0	17	81	0.79
3096999--3097024	13	2.0	13	100	0	52	30	15	15	38	1.88
3096979--3097042	32	2.0	33	90	3	103	28	14	15	42	1.86
3097094--3097146	20	2.7	20	100	0	106	33	20	15	30	1.93
3102089--3102300	105	2.0	105	100	0	424	18	22	25	33	1.97
3105251--3105339	13	5.9	13	72	27	70	34	13	17	33	1.89
3105231--3105356	32	3.9	32	96	1	225	34	11	17	35	1.87
3105401--3105425	13	1.9	13	100	0	50	32	16	16	36	1.90
3105414--3105562	52	2.9	52	92	2	246	32	18	18	30	1.95
3119406--3119441	15	2.5	14	95	4	63	86	13	0	0	0.58
3120883--3121114	34	6.8	33	80	8	234	19	33	10	36	1.87
3120871--3121109	67	3.5	67	90	2	334	20	33	10	35	1.86
3120924--3121114	101	1.9	100	84	5	260	18	35	10	35	1.86
3121082--3121180	27	3.6	28	81	6	96	29	32	15	23	1.95
3121202--3121433	49	4.8	49	80	8	208	27	26	17	28	1.98
3121546--3121945	52	7.8	52	69	10	266	23	28	16	32	1.96
3121390--3122051	154	4.3	154	95	0	1128	22	28	16	32	1.95
3122686--3122742	13	3.9	13	76	24	60	35	14	17	33	1.90
3122664--3122761	19	5.8	18	71	28	90	34	12	16	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3122666--3122763	32	3.0	32	95	1	169	35	12	16	35	1.86
3122804--3122828	13	1.9	13	100	0	50	32	16	16	36	1.90
3122837--3122965	52	2.5	52	100	0	258	35	18	17	27	1.94
3125082--3125132	27	2.0	26	85	11	70	23	39	17	19	1.92
3129006--3129057	13	3.5	13	73	26	50	36	17	13	32	1.89
3129006--3129076	32	2.2	32	97	0	133	36	18	12	32	1.88
3129013--3129098	19	4.8	18	71	25	74	34	16	13	34	1.88
3141651--3141740	41	2.2	41	88	2	128	8	18	36	35	1.83
3141733--3141816	37	2.3	35	85	4	105	14	10	32	42	1.80
3142131--3142218	44	2.0	44	95	0	158	17	23	20	38	1.93

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