genome.fa.s106.2.7.7.80.10.50.1000.23.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  23  of  27  ( 3135 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)
3949822--3949899	8	9.4	8	72	15	52	33	0	2	64	1.08
3949923--3949972	11	4.5	11	80	9	66	30	2	0	68	1.01
3949923--3949972	22	2.3	22	89	6	75	30	2	0	68	1.01
3951569--3951601	17	1.9	17	93	0	57	45	0	0	54	0.99
3951833--3951975	72	2.0	72	94	0	250	41	10	0	47	1.43
3952006--3952039	2	17.0	2	100	0	68	50	0	0	50	1.00
3960489--3960590	28	3.7	28	70	16	72	43	1	0	54	1.11
3960509--3960593	28	3.2	27	74	22	90	42	2	0	55	1.12
3960573--3960619	21	2.2	21	77	7	51	29	0	0	70	0.88
3960580--3960627	18	2.5	20	83	10	64	29	0	0	70	0.87
3962782--3962838	17	3.5	16	77	13	62	40	1	0	57	1.09
3963218--3963246	2	14.5	2	100	0	58	51	0	0	48	1.00
3965056--3965098	18	2.3	19	88	8	61	69	0	0	30	0.88
3968202--3968240	17	2.4	17	82	4	53	51	0	2	46	1.14
3972532--3972559	2	14.0	2	100	0	56	50	0	0	50	1.00
3972545--3973028	158	2.9	160	87	8	713	49	7	8	34	1.62
3972870--3972894	2	12.5	2	100	0	50	52	0	0	48	1.00
3972537--3973045	175	3.0	173	88	8	789	50	7	8	33	1.62
3973973--3974007	10	3.4	10	92	4	52	74	0	2	22	0.95
3974575--3974641	34	2.0	34	82	5	82	59	5	1	32	1.31
3974865--3974890	2	13.0	2	100	0	52	50	0	0	50	1.00
3978257--3978311	29	1.9	28	82	10	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3981007--3981060	27	2.0	27	100	0	108	33	11	14	40	1.82
3992953--3992995	4	10.8	4	100	0	86	76	0	0	23	0.78
3997818--3997863	19	2.5	19	89	3	67	41	13	23	21	1.88
4001977--4002037	21	3.0	20	71	23	54	40	1	0	57	1.08
4006317--4006349	9	3.7	9	95	0	57	45	18	33	3	1.65
4009619--4009650	12	2.7	12	95	0	55	18	37	25	18	1.94
4009649--4009701	27	2.0	27	88	0	79	45	5	9	39	1.60
4009760--4009792	9	3.7	9	95	0	57	45	18	33	3	1.65
4011222--4011271	21	2.2	25	82	13	63	56	0	8	36	1.29
4011840--4011868	3	9.7	3	100	0	58	31	0	0	68	0.89
4012145--4012177	2	16.5	2	100	0	66	51	0	0	48	1.00
4013083--4013155	27	2.9	25	78	10	69	24	6	21	46	1.76
4020246--4020283	18	2.2	18	85	4	51	39	7	10	42	1.69
4024538--4024604	12	5.5	12	72	13	57	46	0	0	53	1.00
4025001--4025034	3	11.3	3	100	0	68	35	0	0	64	0.94
4025904--4026143	120	2.0	120	93	0	408	45	10	16	28	1.80
4026818--4026850	17	2.1	16	88	11	50	60	0	6	33	1.21
4028118--4028339	34	6.5	33	81	10	259	40	26	7	25	1.82
4028118--4028339	102	2.2	102	88	2	347	40	26	7	25	1.82
4032750--4032968	34	6.5	34	82	8	252	40	26	7	25	1.82
4032749--4032968	102	2.2	101	87	1	332	40	26	7	25	1.82
4035441--4035509	36	1.9	38	85	11	101	59	4	7	28	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4039412--4039529	20	5.8	19	75	11	74	47	5	4	42	1.47
4039452--4039526	10	7.3	10	73	21	57	49	8	4	38	1.51
4039412--4039498	40	2.2	40	81	8	97	45	5	3	44	1.44
4039452--4039530	9	7.5	11	74	24	57	49	7	3	39	1.49
4039513--4039568	28	2.0	27	83	10	69	66	7	1	25	1.27
4039645--4039701	20	2.8	19	76	7	60	59	5	0	35	1.20
4039623--4039701	41	1.9	41	89	5	124	58	6	1	34	1.32
4039607--4039750	21	6.9	21	73	10	100	53	8	2	35	1.46
4039635--4039730	42	2.3	41	82	7	113	54	8	3	34	1.46
4039793--4039897	42	2.5	42	81	9	117	54	2	3	39	1.33
4039787--4039895	21	5.2	21	70	16	84	52	2	4	40	1.36
4039789--4039898	11	10.4	11	69	18	65	52	2	3	40	1.33
4040378--4040424	19	2.4	18	82	10	58	57	4	0	38	1.18
4040758--4040809	2	26.0	2	96	0	86	53	0	0	46	1.00
4041325--4041391	22	2.9	23	78	14	68	61	0	1	37	1.05
4041335--4041393	25	2.3	25	82	11	75	61	0	1	37	1.07
4041325--4041391	25	3.0	20	73	25	53	61	0	1	37	1.05
4042175--4042209	3	11.7	3	100	0	70	34	0	0	65	0.93
4043061--4043300	120	2.0	120	88	1	356	46	9	14	29	1.76
4044712--4044736	13	1.9	13	100	0	50	64	0	0	36	0.94
4046024--4046066	19	2.3	19	84	11	54	67	2	0	30	1.03
4046003--4046063	29	2.1	29	84	6	79	67	1	0	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046013--4046130	63	1.9	62	81	8	141	58	1	1	38	1.18
4050572--4050625	21	2.5	22	80	14	67	44	0	3	51	1.19
4050570--4050639	22	3.2	21	77	4	68	40	0	2	57	1.14
4052582--4052645	21	3.3	18	74	21	58	68	1	1	28	1.07
4052584--4052646	33	1.9	32	81	15	76	68	1	1	28	1.08
4058305--4058378	27	2.7	27	87	0	112	45	18	8	27	1.77
4059738--4059827	21	4.3	21	80	5	76	54	4	3	37	1.37
4059912--4059970	21	2.9	20	83	14	84	49	11	6	32	1.66
4060863--4061048	50	3.7	50	80	7	216	27	13	23	35	1.93
4060863--4061046	100	1.8	100	84	4	255	27	13	23	35	1.92
4064447--4064513	22	3.2	22	68	20	70	37	14	28	19	1.91
4064435--4064517	41	2.0	41	97	0	157	37	15	27	19	1.92
4065462--4065721	50	5.2	50	89	0	369	30	18	17	32	1.95
4066385--4066424	9	4.9	8	85	14	55	75	0	0	25	0.81
4066388--4066424	17	2.2	17	90	9	58	78	0	0	21	0.75
4066752--4066820	32	2.2	31	84	7	86	53	0	0	46	1.00
4070545--4070612	10	6.7	10	70	14	50	54	2	2	39	1.31
4070545--4070723	21	8.9	21	67	12	108	53	3	2	40	1.32
4070531--4070610	40	2.0	40	82	5	97	53	3	3	38	1.37
4070916--4070971	20	2.7	21	88	5	87	44	0	5	50	1.25
4072442--4072521	11	6.9	11	76	19	65	62	5	2	30	1.29
4073289--4073323	3	11.7	3	100	0	70	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4076645--4076673	2	14.5	2	100	0	58	51	0	0	48	1.00
4078123--4078403	142	2.0	142	100	0	562	26	15	14	42	1.86
4079121--4079236	58	2.0	58	100	0	232	29	20	22	27	1.99
4079490--4079706	34	6.4	34	90	0	335	41	34	0	24	1.59
4079581--4079682	25	4.4	25	63	25	69	41	35	0	23	1.55
4084415--4084631	34	6.4	34	91	0	335	40	34	0	24	1.59
4084506--4084607	25	4.4	25	63	25	69	41	35	0	23	1.55
4088820--4088889	27	2.5	28	82	13	83	44	22	7	25	1.78
4089527--4089581	22	2.4	24	82	14	71	50	0	0	49	1.00
4089535--4089603	26	2.7	25	75	11	68	52	0	0	47	1.00
4090639--4090697	5	12.0	5	72	16	52	57	0	0	42	0.98
4090633--4090697	11	5.8	11	76	8	60	58	0	0	41	0.98
4090633--4090694	28	2.2	29	83	13	85	59	0	0	40	0.97
4090672--4090731	15	3.9	15	76	18	61	58	0	0	41	0.98
4091446--4091496	21	2.5	21	83	3	68	54	0	0	45	0.99
4092328--4092402	31	2.5	30	78	16	77	46	0	0	53	1.00
4096540--4096582	22	2.0	22	90	0	68	46	0	4	48	1.22
4097060--4097094	15	2.4	14	86	9	52	48	0	0	51	1.00
4098097--4098126	14	2.2	13	94	5	51	36	0	0	63	0.95
4099383--4099418	2	18.0	2	94	0	63	47	52	0	0	1.00
4100112--4100175	27	2.4	28	80	12	71	39	9	0	51	1.34
4101801--4101852	21	2.5	21	87	0	68	19	67	11	1	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4101818--4101853	12	3.0	12	83	0	54	22	66	8	2	1.31
4101801--4101853	24	2.2	24	89	0	79	20	66	11	1	1.33
4103034--4103071	14	2.9	14	84	11	53	44	0	0	55	0.99
4109011--4109080	34	2.1	35	84	10	92	50	0	0	50	1.00
4109678--4109725	20	2.3	21	82	13	64	64	0	0	35	0.94
4115565--4115591	2	13.5	2	100	0	54	48	0	0	51	1.00
4115920--4115999	18	4.4	18	68	12	56	33	1	0	65	1.01
4116245--4116277	12	2.8	12	86	13	50	48	0	0	51	1.00
4119184--4119227	15	3.1	14	78	9	54	59	0	0	40	0.98
4119244--4119297	25	2.2	24	83	3	63	37	14	1	46	1.56

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