genome.fa.s105.2.7.7.80.10.50.1000.15.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: Scaffold105
Parameters: 2 7 7 80 10 50 1000
Length:  2918491

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  15  of  16  ( 1849 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)
2524750--2524794	19	2.4	19	81	3	56	40	0	2	57	1.11
2524773--2524830	25	2.3	25	82	14	66	39	3	3	53	1.35
2525288--2525355	20	3.4	21	75	19	65	66	1	0	32	1.01
2525304--2525336	17	1.9	17	93	0	57	72	0	0	27	0.85
2525295--2525347	28	2.0	26	85	14	72	69	0	0	30	0.88
2525951--2526001	24	2.2	23	82	10	59	49	0	0	50	1.00
2526277--2526313	2	19.0	2	94	5	67	51	0	0	48	1.00
2526276--2526320	6	6.9	7	85	14	53	53	0	0	46	1.00
2526531--2526572	16	2.6	16	85	10	59	69	2	2	26	1.13
2526699--2526740	13	3.4	12	83	12	50	45	0	0	54	0.99
2527446--2527475	13	2.4	12	94	5	51	43	0	0	56	0.99
2527907--2528018	32	3.4	33	81	13	115	56	0	1	41	1.10
2527936--2527987	16	3.3	15	72	17	52	57	0	0	42	0.98
2528639--2528686	18	2.8	17	78	6	51	60	0	6	33	1.22
2529288--2529332	19	2.3	19	81	11	56	71	11	0	17	1.14
2529497--2529549	17	3.2	17	72	20	58	41	1	1	54	1.22
2532311--2532339	2	14.5	2	100	0	58	48	0	0	51	1.00
2538544--2538596	21	2.5	21	81	0	61	49	1	0	49	1.12
2538643--2539111	228	2.0	230	83	5	583	48	5	5	40	1.49
2539207--2540000	387	2.0	394	80	6	871	44	3	6	44	1.49
2540488--2540540	26	2.0	26	85	0	70	49	1	1	47	1.23
2540777--2540854	32	2.5	31	81	8	86	52	1	0	46	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2540797--2540845	16	3.1	17	75	25	61	48	0	0	51	1.00
2540752--2540861	30	3.7	30	75	17	104	55	0	0	43	1.06
2540799--2540873	31	2.2	32	79	15	80	53	0	0	46	1.00
2541333--2541358	13	2.0	13	100	0	52	46	0	0	53	1.00
2542207--2542276	22	3.3	22	74	18	60	44	0	0	55	0.99
2542206--2542276	23	3.0	22	75	19	63	45	0	0	54	0.99
2545715--2545752	2	19.0	2	100	0	76	50	0	0	50	1.00
2546212--2546242	15	2.1	15	100	0	62	67	12	6	12	1.40
2546431--2546472	2	21.0	2	100	0	84	50	0	0	50	1.00
2549114--2549149	2	18.0	2	100	0	72	50	0	0	50	1.00
2554852--2555150	101	3.0	101	98	0	580	31	18	12	37	1.88
2559349--2559384	2	18.5	2	94	5	65	47	0	0	52	1.00
2559848--2559874	7	3.9	7	100	0	54	11	14	14	59	1.62
2560492--2560534	17	2.6	17	85	10	54	32	2	0	65	1.06
2561347--2561426	28	2.8	29	76	12	85	38	2	1	57	1.20
2561501--2561535	17	2.0	18	88	5	54	22	0	0	77	0.78
2565086--2565126	2	20.5	2	100	0	82	48	0	0	51	1.00
2565638--2565700	28	2.1	28	85	8	81	46	3	0	50	1.17
2577277--2577309	2	17.0	2	87	6	50	45	0	3	51	1.16
2583073--2583146	21	3.6	20	81	15	73	43	5	4	47	1.45
2592798--2592827	2	15.0	2	100	0	60	50	0	50	0	1.00
2593080--2593145	24	2.7	25	79	11	82	37	0	1	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2593641--2593723	24	3.5	23	73	14	78	40	1	1	56	1.15
2593676--2593755	31	2.8	28	73	17	74	47	2	2	47	1.29
2593952--2593991	16	2.6	15	85	14	55	57	0	0	42	0.98
2596848--2597120	146	1.9	146	85	0	375	28	12	16	41	1.85
2599810--2599880	32	2.2	32	82	12	83	50	1	1	46	1.18
2601028--2601095	32	2.1	33	83	8	86	48	8	7	35	1.62
2603763--2603891	21	6.1	21	70	14	52	34	1	6	57	1.35
2603745--2603817	30	2.5	30	84	2	85	28	0	5	65	1.14
2603773--2603912	10	13.4	10	68	20	65	35	1	6	56	1.34
2603861--2603912	21	2.5	21	81	9	61	36	1	5	55	1.35
2604005--2604048	21	2.2	20	84	12	54	34	6	9	50	1.61
2604035--2604071	10	3.5	11	82	10	51	45	0	0	54	1.00
2604207--2604266	21	2.9	21	80	9	68	40	5	3	51	1.40
2604643--2604667	2	12.5	2	100	0	50	48	0	0	52	1.00
2605174--2605219	3	15.0	3	90	4	74	63	0	2	34	1.07
2607195--2607234	17	2.4	17	91	0	62	50	2	2	45	1.28
2608888--2608925	4	9.5	4	94	0	67	52	23	0	23	1.47
2612220--2612275	3	18.7	3	83	7	69	60	1	33	3	1.24
2618176--2618200	2	12.5	2	100	0	50	52	0	0	48	1.00
2618200--2618226	2	13.5	2	100	0	54	51	0	48	0	1.00
2625793--2625843	25	2.0	25	100	0	102	45	19	19	15	1.86
2628657--2628687	2	15.5	2	93	0	53	45	0	3	51	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2630163--2630211	24	2.2	21	82	10	53	38	4	0	57	1.18
2637234--2637288	13	3.9	14	75	15	51	49	1	0	49	1.11
2637228--2637291	29	2.2	29	85	0	83	45	1	1	51	1.20
2649265--2649355	1	91.0	1	77	0	74	86	5	7	0	0.69
2649264--2649355	33	2.7	34	93	6	161	85	5	8	0	0.72
2649268--2649362	29	3.1	28	75	19	84	83	5	10	1	0.86
2655567--2655600	16	2.1	17	88	5	52	26	14	11	47	1.79
2659928--2659959	2	16.0	2	100	0	64	50	0	0	50	1.00
2661292--2661317	2	13.0	2	100	0	52	50	0	0	50	1.00
2664967--2665000	10	3.5	10	92	8	61	73	0	0	26	0.83
2667228--2667258	12	2.6	12	94	0	53	45	19	16	19	1.86
2674236--2674329	32	2.9	33	83	9	106	55	1	0	43	1.06
2674283--2674334	6	8.5	6	76	19	54	61	0	0	38	0.96
2676252--2676421	83	2.1	82	92	1	277	35	17	15	31	1.91
2678180--2678308	64	2.0	64	93	0	222	42	16	14	26	1.86
2680631--2680664	18	1.9	18	88	5	52	50	0	0	50	1.00
2681376--2681432	24	2.4	24	85	2	71	56	1	0	42	1.10
2686407--2686437	2	15.5	2	100	0	62	0	51	0	48	1.00
2687854--2687896	20	2.1	21	91	4	70	41	0	2	55	1.12
2687852--2687891	7	5.9	7	85	5	55	45	0	0	55	0.99
2689158--2689193	6	6.2	6	87	6	56	63	0	2	33	1.08
2689477--2689532	27	2.1	27	83	12	71	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2689490--2689540	18	2.9	18	78	21	63	47	0	0	52	1.00
2693108--2693138	15	2.1	15	93	0	53	38	25	19	16	1.92
2696118--2696146	3	9.7	3	100	0	58	68	0	0	31	0.89
2715863--2715905	22	1.9	24	86	13	65	41	4	6	46	1.51
2716788--2716861	27	2.6	28	81	16	73	50	0	1	48	1.09
2720630--2720683	16	3.2	16	84	12	56	64	1	1	31	1.14
2720679--2720727	13	3.6	13	81	13	55	42	0	0	57	0.99
2720679--2720736	28	2.1	28	83	6	73	46	0	0	53	1.00
2720700--2720739	21	2.0	21	85	5	55	42	0	0	57	0.98
2725534--2725558	3	8.3	3	100	0	50	0	36	0	64	0.94
2730322--2730349	14	2.0	14	100	0	56	28	0	0	71	0.86
2731451--2731493	2	21.5	2	100	0	86	51	0	48	0	1.00
2731765--2731801	18	2.1	18	100	0	74	51	0	10	37	1.37
2734152--2734177	6	4.3	6	100	0	52	34	15	15	34	1.89
2734871--2734951	39	2.0	42	83	7	105	54	0	0	45	0.99
2735144--2735183	20	2.1	19	86	13	55	70	0	0	30	0.88
2735161--2735230	36	1.9	37	91	2	115	55	5	0	38	1.24
2736077--2736106	3	10.0	3	92	0	51	30	3	0	66	1.07
2761401--2761937	229	2.3	232	91	3	875	38	21	14	25	1.91
2762534--2762650	58	2.0	58	96	0	216	41	24	10	23	1.86
2771202--2771249	20	2.3	20	85	3	60	47	6	12	33	1.66
2771348--2771372	12	2.1	12	100	0	50	36	16	8	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2772033--2772069	2	18.5	2	94	0	65	51	2	45	0	1.15
2772486--2772523	19	2.1	19	90	5	60	47	0	0	52	1.00
2772482--2772536	18	3.1	18	80	15	69	49	0	0	50	1.00
2772482--2772535	17	3.1	17	75	19	58	48	0	0	51	1.00
2772509--2772564	29	2.0	28	82	3	67	60	0	1	37	1.07
2772737--2772790	22	2.5	22	81	6	65	48	1	0	50	1.11
2772751--2772786	11	3.3	11	100	0	72	50	0	0	50	1.00
2772754--2772790	12	3.2	12	92	3	58	43	0	0	56	0.99
2773035--2773063	14	2.1	14	100	0	58	20	0	0	79	0.74
2773512--2773555	22	1.9	23	86	9	63	40	4	4	50	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16