genome.fa.s196.2.7.7.80.10.50.1000.36.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: Scaffold196
Parameters: 2 7 7 80 10 50 1000
Length:  7488280

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   38   39   40   41   42   43   44   45   46   47   

This is table  36  of  47  ( 5587 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)
5851302--5851350	20	2.4	21	83	10	57	44	4	2	48	1.33
5851316--5851359	21	2.2	20	84	12	54	45	2	0	52	1.13
5852530--5852577	19	2.5	20	82	3	62	62	2	0	35	1.07
5852517--5852588	19	3.9	18	71	18	60	65	2	0	31	1.07
5852696--5852816	56	2.2	56	93	0	206	57	9	18	15	1.64
5852861--5852918	2	32.0	2	74	19	56	51	0	0	48	1.00
5852861--5852916	24	2.4	24	85	11	73	51	0	0	48	1.00
5852861--5852910	22	2.3	22	86	13	68	50	0	0	50	1.00
5852869--5852921	26	2.1	26	82	3	72	56	0	0	43	0.99
5852870--5852932	28	2.3	26	82	12	81	53	0	0	46	1.00
5852978--5853026	25	2.0	25	88	8	73	32	0	0	67	0.91
5854332--5854380	19	2.5	19	81	18	57	67	2	0	30	1.02
5854752--5854800	16	3.0	16	82	5	62	36	0	4	59	1.17
5854995--5855038	16	2.7	16	78	3	52	29	0	2	68	1.02
5856474--5856514	15	2.7	15	88	0	55	29	0	4	65	1.13
5856536--5856600	27	2.4	27	79	7	78	44	1	0	53	1.09
5856749--5856828	34	2.4	33	82	10	92	51	0	2	46	1.14
5857071--5857115	19	2.5	19	89	7	67	51	2	2	44	1.26
5857866--5857927	32	1.9	32	83	0	79	35	0	3	61	1.12
5858204--5858237	16	2.1	16	100	0	68	44	0	0	55	0.99
5860072--5860120	17	2.9	17	79	14	57	28	0	0	71	0.86
5860077--5860123	14	3.3	15	75	19	55	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5860071--5860133	29	2.2	29	85	5	83	33	0	0	66	0.92
5860160--5860252	22	4.1	21	64	17	53	48	1	0	50	1.07
5862843--5862893	22	2.4	21	74	9	50	25	7	23	43	1.81
5863981--5864124	48	3.0	48	81	7	150	20	10	23	45	1.81
5865135--5865191	24	2.3	26	75	9	64	45	36	0	17	1.49
5865164--5865239	20	3.5	20	71	22	62	52	28	0	18	1.45
5866570--5866735	51	3.3	50	85	5	219	33	10	24	31	1.90
5866825--5866898	28	2.6	28	87	4	105	22	20	33	22	1.97
5866672--5866949	107	2.6	106	78	5	319	30	15	25	28	1.96
5866885--5867028	51	2.8	51	83	0	189	33	11	23	31	1.91
5869351--5869420	33	2.1	33	97	0	131	40	14	17	28	1.88
5869370--5869400	13	2.4	13	100	0	62	38	16	16	29	1.90
5869351--5869420	20	3.8	20	75	24	82	40	14	17	28	1.88
5869384--5869437	20	2.7	20	88	5	74	44	14	14	25	1.84
5869453--5869482	13	2.3	13	100	0	60	40	13	16	30	1.87
5869464--5869520	20	2.8	20	91	0	96	45	12	14	28	1.80
5876226--5876276	20	2.5	20	90	0	84	31	11	17	39	1.86
5877899--5877940	21	2.0	21	85	0	57	42	4	28	23	1.74
5878362--5878405	21	2.1	21	91	0	70	61	0	18	20	1.35
5878362--5878420	21	2.8	21	84	0	55	59	1	22	16	1.46
5881754--5881807	20	2.7	20	97	0	99	25	16	14	42	1.87
5881803--5881858	19	2.9	19	89	2	85	32	16	16	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5881904--5881933	13	2.3	13	94	0	51	36	16	13	33	1.88
5883715--5883776	32	1.9	33	86	3	90	35	8	16	40	1.78
5883821--5883845	13	1.9	13	100	0	50	32	16	16	36	1.90
5883834--5883979	52	2.8	53	88	2	181	34	19	16	28	1.94
5896594--5896643	15	3.3	15	81	10	57	78	12	8	2	1.05
5898060--5898183	31	4.1	31	78	7	130	25	33	13	28	1.94
5898200--5898362	29	5.7	29	78	7	118	26	23	11	38	1.88
5898262--5898353	30	3.2	29	81	7	98	27	21	13	38	1.90
5898200--5898515	28	11.0	29	73	11	152	25	25	12	36	1.91
5898460--5898578	29	4.1	29	85	3	150	28	28	16	26	1.97
5898460--5898578	57	2.1	59	85	3	161	28	28	16	26	1.97
5898684--5899883	156	7.8	155	74	6	537	26	23	13	36	1.92
5898667--5900102	104	13.9	104	73	7	602	26	24	13	35	1.93
5898667--5899244	52	11.1	52	77	2	417	26	22	14	36	1.92
5899297--5900088	52	15.1	52	72	10	411	27	25	13	34	1.93
5899100--5899456	195	1.8	195	88	0	543	25	24	14	36	1.93
5899297--5899931	207	3.1	205	76	7	618	27	24	12	34	1.92
5900708--5900749	19	2.2	19	95	0	75	50	9	9	30	1.67
5904734--5904774	22	1.9	21	90	5	64	53	2	4	39	1.35
5906132--5906449	157	2.0	156	83	3	397	40	8	13	37	1.75
5907035--5907346	156	2.0	156	92	2	520	42	13	9	33	1.77
5909318--5909385	34	2.0	34	97	0	127	48	5	13	32	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5909418--5909448	2	15.5	2	100	0	62	51	0	0	48	1.00
5912176--5912243	29	2.4	28	88	9	102	47	0	0	52	1.00
5912227--5912267	18	2.3	18	87	4	57	51	2	4	41	1.36
5912613--5912645	2	16.5	2	100	0	66	0	0	51	48	1.00
5916401--5916445	23	2.0	23	82	8	56	35	0	0	64	0.94
5923781--5923807	13	2.1	13	100	0	54	40	14	14	29	1.86
5924602--5924639	20	1.9	20	94	0	67	34	13	7	44	1.72
5932857--5932978	52	2.3	53	95	2	221	30	18	18	33	1.94
5932857--5932997	52	2.7	50	86	8	201	31	17	18	32	1.94
5932986--5933010	13	1.9	13	100	0	50	36	16	16	32	1.90
5933078--5933102	13	1.9	13	100	0	50	32	16	16	36	1.90
5933056--5933122	33	2.0	33	88	0	98	40	13	11	34	1.81
5937762--5937828	33	2.0	33	85	0	89	37	13	10	38	1.79
5937872--5937929	22	2.7	23	89	7	86	39	13	17	29	1.88
5944714--5944789	32	2.4	32	95	0	134	26	19	22	31	1.98
5944798--5944822	13	1.9	13	100	0	50	36	16	16	32	1.90
5944865--5944914	19	2.6	19	96	0	91	38	18	12	32	1.87
5944903--5944927	13	1.9	13	100	0	50	32	16	16	36	1.90
5947397--5947530	6	22.3	6	85	0	178	47	4	2	45	1.38
5947397--5947530	14	9.6	14	87	0	178	47	4	2	45	1.38
5947397--5947529	22	6.0	22	86	3	176	46	4	3	45	1.38
5950009--5950043	10	3.6	10	88	7	54	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5950611--5950654	13	3.5	13	81	3	54	70	6	0	22	1.11
5951766--5951794	2	14.5	2	100	0	58	48	0	51	0	1.00
5955553--5955579	1	27.0	1	100	0	54	0	0	100	0	0.00
5956593--5956689	39	2.6	39	82	8	112	54	1	2	42	1.19
5963552--5963598	15	3.1	15	81	12	51	63	0	0	36	0.94
5963664--5963714	25	2.0	26	82	14	63	33	3	0	62	1.13
5963827--5963865	18	2.2	18	86	9	53	43	0	5	51	1.24
5964802--5964849	19	2.5	20	79	3	53	37	10	20	31	1.87
5965478--5965509	16	2.0	16	93	0	55	56	3	0	40	1.15
5966326--5966391	29	2.2	30	89	2	98	43	6	0	50	1.27
5967890--5967916	13	2.1	13	100	0	54	40	14	14	29	1.86
5975017--5975060	21	2.1	21	83	8	54	38	13	11	36	1.81
5975110--5975152	20	2.1	21	91	4	70	44	4	0	51	1.22
5982348--5982379	2	16.0	2	100	0	64	0	50	0	50	1.00
5984234--5984262	14	2.1	14	100	0	58	13	20	20	44	1.85
5985067--5985137	32	2.2	32	87	5	99	45	7	12	35	1.70
5987838--5987865	2	14.0	2	100	0	56	50	0	0	50	1.00
5988264--5988448	93	2.0	93	94	0	325	27	18	23	30	1.98
5992404--5992433	13	2.4	12	94	5	51	10	0	0	90	0.47
5993594--5993755	29	5.8	28	72	17	90	43	1	1	53	1.19
5993732--5993779	17	2.8	17	90	3	78	52	0	0	47	1.00
5994923--5994963	2	20.5	2	100	0	82	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5998006--5998035	2	15.0	2	92	0	51	0	50	3	46	1.18
6002559--6002585	2	13.5	2	100	0	54	51	0	48	0	1.00
6010086--6010121	7	5.1	7	100	0	72	44	41	13	0	1.44
6010089--6010136	21	2.3	21	85	0	60	45	39	10	4	1.58
6011450--6011552	52	2.0	52	86	0	143	39	15	8	35	1.78
6011456--6011574	52	2.3	52	82	2	132	39	18	8	33	1.81
6012394--6012543	38	3.9	38	89	6	216	28	8	8	54	1.61
6023288--6023341	27	2.0	27	100	0	108	37	14	7	40	1.74
6023930--6023979	22	2.2	22	86	10	66	32	12	10	46	1.74
6028391--6028444	27	2.0	27	92	0	90	42	9	27	20	1.82

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   38   39   40   41   42   43   44   45   46   47