genome.fa.s29.2.7.7.80.10.50.1000.26.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   

This is table  26  of  34  ( 4030 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)
3999536--3999616	40	2.0	40	100	0	162	32	27	12	28	1.93
4002909--4002984	12	6.9	11	75	15	52	39	2	48	9	1.49
4002908--4002993	24	3.8	24	72	17	85	41	2	45	10	1.51
4002899--4003017	42	2.8	42	92	0	193	42	2	46	8	1.47
4013492--4013585	9	11.1	9	76	11	74	13	39	0	46	1.44
4013500--4013564	12	5.7	12	72	22	50	13	38	0	47	1.43
4013492--4013576	33	2.6	33	92	3	136	14	38	0	47	1.44
4013464--4013606	75	1.9	75	86	2	207	13	41	0	44	1.48
4013516--4013606	42	2.2	42	88	4	130	15	40	0	43	1.46
4017295--4017356	28	2.2	29	82	8	74	66	4	14	14	1.41
4017434--4017546	52	2.2	53	95	1	201	23	11	14	50	1.75
4021406--4021437	16	2.0	16	93	0	55	18	15	18	46	1.84
4022083--4022239	70	2.2	70	98	0	305	31	8	28	31	1.88
4026408--4027028	310	2.0	311	89	2	953	42	18	16	23	1.89
4031695--4031813	42	2.8	42	92	0	193	8	46	2	42	1.47
4031728--4031803	12	6.9	11	75	15	52	9	48	2	39	1.49
4031719--4031804	24	3.8	24	72	17	85	10	45	2	41	1.51
4031710--4031780	18	3.6	18	69	20	52	9	43	2	43	1.52
4036661--4036725	21	3.3	18	69	29	51	10	49	0	40	1.38
4039648--4039832	64	2.9	63	78	8	196	45	16	12	24	1.83
4041477--4041533	27	2.1	27	96	0	105	33	24	10	31	1.89
4046082--4046106	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046170--4046194	13	1.9	13	100	0	50	32	16	16	36	1.90
4046203--4046331	52	2.5	52	94	2	224	34	19	17	28	1.95
4050458--4050484	10	2.7	10	100	0	54	0	0	22	77	0.76
4060128--4060225	1	98.0	1	73	0	70	85	14	0	0	0.59
4060128--4060225	18	5.2	19	80	14	107	85	14	0	0	0.59
4060128--4060225	19	5.2	20	79	13	118	85	14	0	0	0.59
4060128--4060224	12	7.8	12	82	10	115	85	14	0	0	0.60
4060128--4060225	32	3.1	31	82	15	128	85	14	0	0	0.59
4060127--4060225	39	2.7	37	79	17	125	84	15	0	0	0.61
4061666--4061950	30	9.6	29	78	8	236	29	28	16	25	1.97
4061663--4061974	59	5.2	60	73	12	216	30	28	15	24	1.96
4061994--4062217	48	4.8	48	72	15	175	25	23	16	33	1.96
4063112--4063136	13	1.9	13	100	0	50	36	16	16	32	1.90
4063200--4063224	13	1.9	13	100	0	50	32	16	16	36	1.90
4063233--4063361	52	2.5	52	94	2	224	34	19	17	28	1.95
4071940--4072058	42	2.8	42	88	2	168	8	45	2	43	1.47
4071943--4072049	21	5.1	22	69	18	77	9	45	2	42	1.51
4071934--4072052	21	5.5	23	68	20	71	8	46	2	42	1.47
4088899--4088952	28	1.9	28	84	0	72	27	16	31	24	1.96
4089118--4089225	29	3.8	29	80	9	100	25	16	29	27	1.97
4089180--4089660	31	15.4	31	78	7	436	23	21	26	28	1.99
4089592--4089721	37	3.6	36	79	6	95	23	16	26	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4089628--4089766	74	1.9	74	83	8	185	24	12	25	37	1.91
4089635--4089772	37	3.7	37	84	5	156	24	10	25	39	1.88
4090939--4091007	32	2.1	33	84	7	88	37	11	17	33	1.86
4091167--4091294	47	2.7	47	92	0	202	17	10	29	42	1.82
4092385--4092423	15	2.6	15	79	0	51	82	2	12	2	0.89
4093161--4093279	42	2.8	42	89	0	175	43	2	44	9	1.49
4096524--4096565	21	2.0	21	86	9	59	7	45	0	47	1.30
4096543--4096595	18	2.9	18	81	10	56	5	45	1	47	1.37
4096552--4096670	42	2.8	42	92	0	193	8	46	1	43	1.44
4096585--4096660	12	6.9	11	75	15	52	9	48	2	39	1.49
4096576--4096661	24	3.8	24	72	17	85	10	45	2	41	1.51
4096567--4096637	18	3.6	18	69	20	52	9	43	2	43	1.52
4099550--4099593	21	2.0	21	82	4	52	54	9	15	20	1.68
4104385--4104599	79	2.7	78	83	5	270	32	16	27	23	1.96
4105167--4105263	35	2.8	35	83	0	113	20	16	25	37	1.93
4105311--4105427	32	3.7	32	87	0	171	28	20	29	21	1.98
4105311--4105978	64	10.5	64	80	6	698	29	22	26	21	1.99
4105429--4105978	32	17.0	32	84	2	627	30	22	26	21	1.99
4108844--4108940	29	3.4	29	70	5	90	30	22	23	22	1.99
4109564--4109682	59	1.9	62	83	8	154	47	15	12	25	1.80
4109741--4109766	9	2.9	9	100	0	52	92	0	7	0	0.39
4109740--4109768	9	3.0	10	90	10	51	89	0	10	0	0.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109824--4109887	28	2.3	29	81	8	78	14	15	9	60	1.57
4111862--4113000	166	6.9	166	83	5	1332	28	11	8	51	1.66
4111862--4113000	331	3.5	329	86	5	1423	28	11	8	51	1.66
4113284--4113316	15	2.2	15	94	0	57	63	0	36	0	0.95
4113284--4113316	17	1.9	17	93	0	57	63	0	36	0	0.95
4114914--4115287	154	2.5	153	82	6	438	24	18	18	37	1.94
4122964--4123387	48	8.9	47	81	4	440	18	20	18	42	1.89
4122965--4123387	96	4.4	96	83	3	509	18	20	18	42	1.89
4122964--4123387	144	3.0	142	84	4	534	18	20	18	42	1.89
4123597--4124430	170	5.0	169	78	6	741	19	24	13	43	1.87
4123868--4124153	85	3.4	85	69	6	220	18	22	13	45	1.85
4123616--4124455	328	2.5	330	79	7	847	19	24	13	43	1.87
4125411--4125898	165	3.0	165	81	7	542	30	10	6	52	1.61
4126131--4126169	4	10.0	4	89	10	55	23	0	0	76	0.78
4126124--4126180	27	2.1	27	81	9	64	24	1	1	71	1.04
4126797--4127162	185	2.0	185	96	0	678	22	13	17	46	1.83
4127645--4127949	164	1.9	163	81	4	373	38	12	10	39	1.77
4127926--4127962	20	1.9	20	94	5	67	72	5	0	21	1.04
4131079--4131142	28	2.3	29	78	15	80	12	15	9	62	1.54
4133965--4134214	79	3.2	79	84	3	324	31	14	26	28	1.94
4134151--4134369	51	4.3	51	85	1	305	34	12	23	30	1.91
4134151--4134369	102	2.1	102	92	0	357	34	12	23	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4134339--4134423	28	2.9	30	91	5	106	30	16	28	24	1.96
4134355--4134423	28	2.5	28	97	0	129	24	17	31	26	1.97
4134303--4134503	107	1.9	107	93	0	348	29	13	28	27	1.95
4134370--4134582	80	2.7	78	87	5	313	30	14	27	27	1.95
4134303--4134662	187	1.9	186	93	1	614	30	14	27	27	1.95
4134548--4134610	28	2.2	28	91	0	99	28	20	26	23	1.99
4134466--4134662	107	1.8	108	92	1	333	30	15	27	26	1.96
4134595--4134713	51	2.3	52	86	4	170	33	10	24	31	1.90
4137062--4137240	76	2.3	77	83	3	218	37	18	22	20	1.94
4137285--4137953	61	10.9	61	85	3	792	27	18	28	25	1.98
4137223--4137980	183	4.1	186	83	4	871	27	18	28	25	1.98
4138929--4138977	20	2.5	20	86	6	64	0	10	6	83	0.80
4149239--4149284	4	11.5	4	90	9	76	76	0	2	21	0.90
4151351--4151421	28	2.5	28	90	0	106	22	19	32	25	1.98
4151377--4151628	79	3.2	79	82	2	308	30	13	27	28	1.94
4151565--4151730	51	3.3	51	87	2	235	31	10	26	31	1.90
4151743--4151862	51	2.4	51	87	2	161	30	16	26	25	1.97
4151616--4151861	130	1.9	130	86	3	352	32	13	25	28	1.94
4151610--4151887	130	2.1	131	82	4	348	33	14	24	28	1.94
4151903--4152019	51	2.3	51	86	0	153	34	11	25	28	1.91
4151723--4152030	158	1.9	158	86	0	436	35	14	23	27	1.93
4154389--4154499	50	2.2	50	93	0	186	42	15	17	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4157889--4158060	52	3.3	53	73	8	183	40	11	20	26	1.87
4160556--4160629	21	3.6	21	81	7	80	29	17	14	37	1.90
4162281--4162305	5	5.0	5	100	0	50	60	0	0	40	0.97
4162536--4163191	166	3.9	164	78	8	600	48	8	12	30	1.72
4162527--4163167	335	1.9	331	79	8	712	48	9	12	29	1.72
4164390--4165027	42	15.2	43	66	13	164	47	13	21	18	1.82
4164161--4165062	85	10.7	82	78	7	673	46	13	21	18	1.83
4164482--4165062	247	2.3	249	82	6	674	46	13	21	18	1.83
4164759--4164989	42	5.5	40	73	10	174	48	11	20	19	1.80
4164153--4165062	332	2.7	334	79	6	830	46	13	21	18	1.83

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