genome.fa.s7.2.7.7.80.10.50.1000.23.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  23  of  37  ( 4421 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)
4010109--4010241	59	2.3	58	82	3	151	33	19	23	24	1.97
4010445--4010542	28	3.5	27	72	6	70	32	28	19	19	1.96
4010405--4010603	84	2.4	84	80	6	199	31	24	20	23	1.98
4010465--4010575	56	2.0	56	87	0	159	33	23	18	24	1.97
4010473--4010614	28	5.1	28	71	13	96	32	23	19	24	1.97
4010421--4010614	56	3.5	56	76	5	142	31	24	19	24	1.98
4011157--4011187	2	15.5	2	100	0	62	48	0	0	51	1.00
4016303--4016328	2	13.0	2	100	0	52	50	0	0	50	1.00
4019035--4019108	20	3.7	20	83	0	94	32	14	12	40	1.83
4021304--4021545	96	2.5	95	88	4	351	27	29	13	29	1.94
4022504--4022560	13	3.9	13	76	24	60	35	14	17	33	1.90
4022484--4022581	32	3.0	32	96	1	178	34	12	17	35	1.87
4022482--4022579	19	5.8	18	71	28	90	33	12	17	36	1.87
4022620--4022646	13	2.1	13	100	0	54	33	14	14	37	1.88
4022655--4022832	52	3.4	52	95	0	311	35	17	17	28	1.94
4024548--4024621	36	2.0	37	87	12	107	39	13	24	22	1.90
4027258--4027375	1	118.0	1	68	0	65	83	13	2	0	0.74
4027258--4027374	8	14.9	8	75	15	102	83	13	2	0	0.74
4027258--4027375	31	3.9	30	78	13	127	83	13	2	0	0.74
4028805--4028980	30	6.0	30	77	10	184	30	30	15	23	1.95
4028796--4028941	28	5.1	28	76	12	143	34	29	15	21	1.93
4028796--4028971	58	3.0	58	92	0	280	31	31	15	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4028952--4029022	34	2.1	34	97	0	133	19	35	12	32	1.90
4029047--4029379	43	7.1	43	75	14	207	24	26	18	31	1.97
4029090--4029491	52	8.1	50	80	7	428	23	26	17	32	1.97
4029045--4029491	150	3.1	144	81	10	507	23	26	17	31	1.97
4030285--4030341	13	3.9	13	76	24	60	35	14	17	33	1.90
4030265--4030362	32	3.0	32	96	1	178	34	12	17	35	1.87
4030263--4030360	19	5.8	18	71	28	90	33	12	17	36	1.87
4030403--4030427	13	1.9	13	100	0	50	32	16	16	36	1.90
4030416--4030561	52	2.8	50	89	6	220	34	19	17	28	1.95
4033413--4033853	233	1.9	232	83	5	568	25	24	21	29	1.99
4042520--4042572	19	2.7	20	91	2	90	32	11	16	39	1.85
4042614--4042742	52	2.5	52	93	0	213	34	17	18	28	1.94
4043581--4043628	21	2.3	20	80	13	53	27	16	12	43	1.84
4048134--4048189	9	5.9	9	83	8	67	82	14	3	0	0.81
4048136--4048201	34	1.9	34	84	6	89	81	13	3	1	0.87
4048134--4048201	18	4.1	15	78	19	64	82	13	2	1	0.86
4049420--4051199	28	62.1	28	82	5	1900	28	29	18	23	1.97
4049420--4051199	116	15.5	113	85	5	2014	28	29	18	23	1.97
4053846--4053884	18	2.2	18	95	0	69	23	30	15	30	1.95
4054171--4054413	97	2.5	97	89	2	364	29	30	11	29	1.91
4055805--4055851	23	2.0	23	91	0	76	38	23	10	27	1.88
4057146--4057201	21	2.7	21	100	0	112	35	10	17	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4057236--4057302	19	3.9	18	72	23	72	32	10	17	38	1.84
4057240--4057310	32	2.2	32	89	0	115	30	12	18	38	1.88
4057327--4057368	21	2.0	21	100	0	84	42	9	19	28	1.82
4057355--4057380	13	2.0	13	100	0	52	30	15	15	38	1.88
4059800--4059874	27	2.7	27	89	6	107	24	33	20	22	1.97
4059751--4059956	108	1.9	107	86	4	288	27	27	16	29	1.96
4060068--4060302	79	3.0	78	79	5	265	26	28	14	30	1.95
4072680--4072782	1	103.0	1	68	0	62	84	11	2	0	0.78
4072680--4072782	11	9.9	10	75	18	86	84	11	2	0	0.78
4072681--4072782	27	3.7	26	80	16	100	84	11	2	0	0.79
4072681--4072770	16	5.4	16	82	15	87	83	13	2	1	0.80
4073842--4075007	55	20.3	55	83	9	1245	26	28	20	24	1.99
4073834--4075007	344	3.4	343	89	4	1698	26	28	20	24	1.99
4075815--4075877	19	3.7	18	76	24	73	33	12	17	36	1.88
4075834--4075858	13	1.9	13	100	0	50	36	16	16	32	1.90
4075813--4075883	32	2.2	32	97	0	133	35	11	16	36	1.85
4075930--4075957	13	2.2	13	100	0	56	28	14	17	39	1.89
4078299--4078541	52	4.6	52	68	11	188	29	27	11	31	1.92
4078299--4078647	160	2.2	160	90	2	549	28	26	13	31	1.94
4078527--4078597	27	2.6	27	86	6	90	25	32	19	22	1.98
4078791--4079014	79	2.8	78	80	5	252	26	29	15	29	1.96
4080021--4080445	169	2.5	168	85	6	546	28	9	7	55	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4082710--4083694	155	6.5	154	82	5	1034	26	16	19	37	1.93
4085622--4085715	47	2.0	47	100	0	188	29	19	6	44	1.75
4087465--4087649	51	3.6	51	85	2	253	33	11	25	29	1.91
4087261--4087534	79	3.4	78	80	5	300	31	13	27	28	1.93
4090006--4090031	13	2.0	13	100	0	52	38	15	15	30	1.88
4090018--4090059	21	2.0	21	100	0	84	28	19	9	42	1.82
4091742--4091803	10	6.1	10	78	9	54	67	3	1	27	1.15
4092143--4092179	3	12.3	3	100	0	74	64	0	0	35	0.94
4092255--4092294	20	2.0	20	90	9	64	40	0	0	60	0.97
4093899--4093964	29	2.2	30	78	10	73	42	6	0	51	1.26
4094489--4094523	17	2.1	17	94	0	61	28	17	14	40	1.88
4094709--4094755	16	3.0	16	81	6	60	38	0	0	61	0.96
4094979--4095030	17	3.0	17	83	8	52	65	1	0	32	1.04
4094991--4095030	18	2.2	18	86	8	55	70	0	0	30	0.88
4095090--4095114	11	2.3	11	100	0	50	56	0	0	44	0.99
4095394--4095547	18	8.6	18	76	15	117	62	0	0	37	0.96
4095394--4095539	11	13.0	11	72	17	81	61	0	0	38	0.96
4095397--4095543	70	2.1	68	81	9	165	61	0	0	38	0.96
4100243--4100286	16	2.7	18	83	13	51	29	0	6	63	1.20
4100451--4100528	32	2.5	31	81	10	95	43	2	0	53	1.14
4100510--4100556	24	1.9	25	91	4	78	36	0	0	63	0.94
4100535--4100579	15	3.0	15	81	12	56	37	2	0	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4102504--4102544	21	2.0	21	85	9	57	39	12	9	39	1.76
4102581--4102637	21	2.8	20	81	5	69	40	15	14	29	1.87
4102625--4102761	53	2.6	53	92	1	220	37	18	16	27	1.92
4102785--4102815	10	3.1	10	90	0	53	22	29	6	41	1.78
4102803--4102858	21	2.6	22	94	5	105	26	25	10	37	1.88
4102849--4102894	23	2.0	23	87	8	67	23	28	13	34	1.92
4102929--4102953	13	1.9	13	100	0	50	32	16	20	32	1.94
4105589--4105622	14	2.3	15	90	10	52	38	0	2	58	1.13
4105567--4105612	20	2.3	20	75	17	51	45	2	2	50	1.26
4106498--4106562	33	2.0	33	93	0	112	36	15	13	33	1.87
4106656--4106741	43	2.0	43	88	0	127	34	17	13	33	1.89
4107207--4107324	20	5.8	20	70	16	73	33	18	16	31	1.93
4130190--4130234	21	2.1	21	84	8	56	22	20	4	53	1.63
4132452--4132477	13	2.0	13	100	0	52	30	15	15	38	1.88
4133844--4133898	20	2.8	20	100	0	110	45	20	10	23	1.82
4134017--4134060	20	2.1	22	91	8	74	40	20	9	29	1.83
4143172--4143245	20	3.8	19	82	8	69	40	16	12	31	1.85
4149432--4149456	13	1.9	13	100	0	50	36	16	16	32	1.90
4149476--4149542	33	2.0	33	85	0	89	40	13	11	34	1.81
4149498--4149522	13	1.9	13	100	0	50	32	16	16	36	1.90
4150319--4150445	67	1.9	68	85	1	175	38	12	24	24	1.90
4150395--4150966	49	11.7	52	82	9	447	30	17	26	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4150458--4150972	49	10.7	49	85	6	671	29	18	26	25	1.98
4150392--4150972	98	6.0	98	84	7	704	30	17	26	25	1.97
4150965--4151100	33	4.3	31	84	7	166	17	18	34	29	1.94
4150980--4151102	66	1.9	66	89	5	196	17	19	34	29	1.94
4151123--4151832	34	22.0	32	78	14	684	32	12	34	20	1.90
4151281--4151785	61	8.1	61	81	12	494	31	12	34	20	1.90
4151376--4151546	27	5.8	26	74	18	117	29	12	35	22	1.90
4151214--4151820	122	4.8	121	81	11	554	32	12	34	20	1.90
4151827--4151951	31	4.0	31	83	9	148	28	16	29	25	1.97
4159671--4159740	20	3.5	20	90	0	95	42	17	10	30	1.81

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