genome.fa.s127.2.7.7.80.10.50.1000.14.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  14  of  26  ( 3103 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)
2358311--2358343	16	2.0	17	88	5	50	30	3	0	66	1.06
2365615--2365658	21	2.1	21	83	8	54	56	0	0	43	0.99
2365943--2365972	3	10.0	3	100	0	60	33	0	0	66	0.92
2366239--2366299	27	2.2	26	80	11	68	47	0	3	49	1.18
2367418--2367443	2	13.0	2	100	0	52	50	0	0	50	1.00
2367534--2367576	7	5.7	7	86	13	59	58	0	0	41	0.98
2368238--2368263	11	2.4	11	100	0	52	42	0	0	57	0.98
2379112--2379166	16	3.3	16	75	20	51	41	0	0	58	0.98
2381337--2381391	19	2.8	20	70	25	62	45	12	16	25	1.83
2385176--2385237	20	3.2	20	76	2	63	38	0	1	59	1.07
2385172--2385264	38	2.5	37	73	15	91	43	0	2	54	1.12
2385560--2385587	2	14.0	2	100	0	56	50	0	0	50	1.00
2385983--2386028	23	2.0	24	87	12	69	39	0	0	60	0.97
2387404--2387490	25	3.3	25	74	17	70	35	3	1	59	1.22
2388663--2388693	14	2.2	14	100	0	62	38	12	0	48	1.42
2393653--2393708	2	28.0	2	100	0	112	50	0	50	0	1.00
2394352--2394383	15	2.1	16	88	11	50	65	3	0	31	1.08
2396291--2396339	18	3.0	16	77	13	55	59	0	2	38	1.09
2396415--2396517	37	3.0	34	78	14	106	56	1	0	40	1.17
2396430--2396513	16	4.6	18	72	25	70	58	1	1	39	1.14
2396655--2396697	22	1.9	23	85	4	61	41	2	0	55	1.12
2397271--2397313	19	2.3	18	80	11	52	53	0	2	44	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2397835--2397934	24	4.1	24	70	21	75	45	0	0	55	0.99
2397835--2397880	23	2.0	23	87	12	67	47	0	0	52	1.00
2397876--2397917	22	1.9	22	90	9	68	38	0	0	61	0.96
2398543--2398650	27	3.8	27	71	18	76	41	0	0	58	0.98
2398561--2398649	19	4.6	20	71	18	71	41	0	0	58	0.98
2398573--2398649	31	2.5	30	81	12	77	40	0	0	59	0.97
2398571--2398656	10	8.6	11	70	17	64	39	0	0	60	0.97
2398561--2398639	20	4.1	20	74	16	78	43	0	0	56	0.99
2398565--2398649	39	2.2	39	78	17	97	40	0	0	60	0.97
2398897--2398933	5	7.2	5	90	6	56	56	0	0	43	0.99
2398883--2398933	26	2.0	26	84	7	68	54	1	1	41	1.22
2398976--2399009	10	3.4	10	83	0	50	55	0	0	44	0.99
2398971--2399034	20	3.3	19	77	16	67	50	0	0	50	1.00
2399004--2399057	23	2.4	22	84	6	72	53	0	0	46	1.00
2399004--2399057	20	2.5	22	82	11	60	53	0	0	46	1.00
2399382--2399442	22	2.8	23	72	18	58	50	0	0	49	1.00
2399494--2399564	8	8.1	8	73	17	61	40	0	0	59	0.98
2399499--2399642	11	13.2	11	65	19	61	38	0	0	60	1.02
2399494--2399642	27	5.7	27	70	18	109	38	0	0	60	1.02
2399830--2399862	7	4.7	7	100	0	66	84	0	0	15	0.61
2401794--2401822	8	3.6	8	100	0	58	89	0	10	0	0.48
2406569--2406631	24	2.6	23	76	18	65	49	1	1	47	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2407427--2407461	15	2.3	15	95	0	61	31	8	5	54	1.54
2407760--2407831	39	1.9	39	81	13	89	51	0	0	48	1.00
2407761--2407828	22	3.0	23	74	6	68	54	0	0	45	0.99
2408839--2408895	29	1.9	30	85	3	80	52	0	0	47	1.00
2409079--2409140	21	2.9	21	83	9	72	66	1	0	32	1.02
2409726--2409768	22	2.0	22	85	0	59	44	0	0	55	0.99
2410366--2410399	16	2.1	17	94	5	61	67	0	0	32	0.91
2410468--2410523	20	2.8	20	81	8	69	58	0	0	41	0.98
2410888--2410945	3	18.3	3	96	3	89	62	0	0	37	0.96
2411327--2411364	19	2.0	20	89	5	60	57	0	0	42	0.98
2411969--2412020	11	4.5	11	77	17	61	50	0	0	50	1.00
2412046--2412070	13	1.9	13	100	0	50	40	4	0	56	1.18
2416151--2416189	20	1.9	21	85	15	55	51	0	0	48	1.00
2418150--2418346	8	25.6	8	66	20	57	41	0	1	56	1.12
2418179--2418212	11	3.2	11	87	8	52	29	0	0	70	0.87
2418164--2418295	51	2.5	55	74	21	120	37	0	2	59	1.16
2418243--2418326	37	2.2	39	82	14	104	41	0	2	55	1.12
2418389--2418420	16	2.0	16	93	0	55	40	0	0	59	0.97
2418367--2418415	21	2.3	23	76	23	61	34	0	0	65	0.93
2419243--2419281	19	2.1	19	85	0	51	43	2	2	51	1.29
2419454--2419487	5	6.8	5	93	0	59	38	0	2	58	1.13
2419609--2419649	5	8.2	5	86	10	57	41	2	0	56	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2419363--2419687	169	2.0	164	91	3	533	41	9	12	36	1.74
2422121--2422163	21	2.0	21	100	0	86	34	32	18	13	1.90
2422635--2422680	22	2.1	21	84	11	58	67	13	10	8	1.42
2423474--2423516	2	21.5	2	95	0	77	46	2	0	51	1.13
2430571--2430678	31	3.6	30	73	18	100	53	0	0	46	1.00
2430571--2430681	57	1.9	57	80	10	129	53	0	0	46	1.00
2432877--2432923	19	2.5	19	85	0	58	51	2	0	46	1.13
2433531--2433574	23	2.0	21	86	13	61	54	0	0	45	0.99
2433959--2434003	3	15.0	3	95	0	81	31	0	2	66	1.04
2435253--2435287	2	17.5	2	100	0	70	51	0	48	0	1.00
2435697--2435735	19	2.1	19	85	9	53	46	0	0	53	1.00
2436062--2436100	11	3.5	11	89	0	51	71	0	0	28	0.86
2436097--2436150	18	3.0	18	77	17	58	51	0	0	48	1.00
2437867--2437895	2	14.5	2	100	0	58	48	0	51	0	1.00
2439523--2439560	14	2.7	14	80	12	51	68	0	0	31	0.90
2439511--2439573	28	2.1	31	82	8	78	60	1	0	38	1.07
2441064--2441102	19	2.1	18	85	4	51	35	5	5	53	1.45
2443116--2443149	17	2.0	17	100	0	68	29	5	0	64	1.17
2443411--2443496	23	3.7	22	72	22	70	37	0	1	61	1.04
2443433--2443498	33	2.0	33	96	0	123	34	0	1	63	1.04
2448307--2448346	21	2.0	21	90	5	64	5	50	7	37	1.53
2449075--2449105	7	4.6	7	92	8	55	25	0	0	74	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2449075--2449105	13	2.3	14	94	5	55	25	0	0	74	0.82
2449111--2449187	17	4.4	18	73	14	72	32	1	0	66	1.00
2449117--2449186	30	2.4	31	79	11	76	31	1	0	67	1.00
2449142--2449223	23	3.5	23	75	15	71	29	2	1	67	1.11
2449599--2449643	10	4.6	10	75	25	51	26	0	11	62	1.29
2450077--2450114	17	2.2	18	86	13	53	55	5	0	39	1.23
2450126--2450176	22	2.4	21	81	15	61	47	0	0	52	1.00
2450129--2450189	26	2.3	27	83	11	81	49	0	0	50	1.00
2451837--2451865	2	15.0	2	92	7	51	48	0	0	51	1.00
2457055--2457136	28	2.9	28	78	7	85	56	3	3	36	1.35
2457055--2457131	30	2.6	30	80	8	88	55	3	2	37	1.32
2458065--2458112	23	2.0	24	88	4	71	41	0	0	58	0.98
2458056--2458112	23	2.6	21	74	15	53	42	0	1	56	1.10
2458130--2458176	25	1.9	24	83	12	60	48	0	0	51	1.00
2459188--2459274	8	9.9	9	67	21	51	39	0	0	60	0.97
2459191--2459266	27	2.8	28	82	11	95	40	0	0	59	0.98
2459171--2459235	20	3.5	19	80	18	66	41	1	0	56	1.08
2459186--2459273	43	2.1	42	83	14	110	38	0	0	61	0.96
2459203--2459261	20	3.0	20	75	14	59	40	0	0	59	0.97
2460584--2460632	24	2.0	24	84	7	64	22	46	4	26	1.69
2461565--2461605	20	2.1	19	86	4	55	46	0	4	48	1.23
2461892--2461941	20	2.5	21	90	6	77	62	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2461892--2461966	20	3.8	20	82	7	73	54	0	0	45	0.99
2461887--2461975	20	4.5	20	76	14	53	57	0	0	42	0.98
2462684--2462708	2	12.5	2	100	0	50	0	48	0	52	1.00
2465881--2465915	18	1.9	18	94	0	61	54	0	8	37	1.31
2466120--2466184	18	3.4	19	75	12	62	43	3	0	53	1.16
2467649--2467701	17	3.1	16	81	10	52	35	1	1	60	1.19
2468062--2468135	32	2.2	35	79	13	84	45	0	0	54	1.00
2475292--2475328	2	18.5	2	94	0	65	48	0	0	51	1.00
2480051--2480082	2	16.0	2	100	0	64	0	50	0	50	1.00
2480082--2480113	2	16.0	2	100	0	64	50	0	0	50	1.00

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