genome.fa.s196.2.7.7.80.10.50.1000.40.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  40  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)
6452029--6452100	32	2.2	33	82	2	83	48	12	8	30	1.70
6456600--6456768	79	2.1	79	89	2	250	29	13	28	28	1.94
6456637--6457008	79	4.7	79	87	4	466	31	15	26	26	1.95
6456881--6457084	106	1.9	108	85	6	281	29	16	27	26	1.97
6456968--6457035	27	2.5	27	90	7	102	26	22	27	23	1.99
6457019--6457151	52	2.6	52	89	2	205	31	10	26	31	1.90
6459521--6459562	21	2.0	21	100	0	84	28	19	9	42	1.82
6459587--6459631	19	2.5	18	92	7	74	35	15	13	35	1.87
6460523--6460599	21	3.8	20	80	3	82	42	12	15	28	1.84
6460523--6460576	20	2.6	21	91	2	83	40	11	16	31	1.84
6460644--6460700	20	2.8	20	89	5	78	28	10	12	49	1.73
6465117--6465143	8	3.4	8	100	0	54	11	0	0	88	0.50
6465729--6465770	20	2.1	19	86	13	57	33	0	0	66	0.92
6466404--6466448	18	2.6	18	82	3	56	37	0	0	62	0.96
6466679--6466703	2	12.5	2	100	0	50	48	0	0	52	1.00
6471226--6471265	21	1.9	21	85	10	55	5	22	2	70	1.19
6471234--6471284	18	2.8	18	73	8	50	3	25	3	66	1.26
6472179--6472256	28	2.8	28	82	0	93	21	20	26	30	1.98
6472279--6472443	81	2.0	81	84	0	195	24	18	21	34	1.96
6472359--6472469	28	4.1	28	65	23	67	23	18	22	35	1.96
6472305--6472469	81	2.0	81	92	0	276	24	18	23	34	1.96
6472551--6472626	28	2.7	28	79	0	89	27	22	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6472923--6472962	18	2.2	18	100	0	80	37	5	15	42	1.68
6483300--6483341	16	2.6	17	85	7	52	71	2	9	16	1.23
6486868--6486907	3	13.3	3	100	0	80	67	0	0	32	0.91
6487201--6487290	9	10.1	9	74	11	69	1	18	0	80	0.78
6487204--6487301	14	6.9	14	74	15	69	1	19	0	79	0.79
6487201--6487289	18	5.1	17	75	14	83	1	19	0	79	0.79
6487201--6487286	26	3.2	26	79	12	95	1	19	0	79	0.80
6487231--6487299	4	18.8	4	80	14	53	1	21	0	76	0.86
6487208--6487301	30	3.3	28	80	11	93	1	20	0	78	0.81
6487544--6487726	96	1.9	95	92	1	303	19	22	13	44	1.85
6492193--6492269	20	3.8	20	74	6	75	38	11	16	32	1.85
6492213--6492351	71	2.0	71	94	0	242	38	10	18	31	1.85
6492286--6492340	20	2.8	20	80	0	65	36	12	16	34	1.87
6492164--6492337	91	1.9	91	83	2	224	39	11	18	30	1.86
6494054--6494126	22	3.4	22	66	7	60	36	20	9	32	1.85
6495168--6495201	17	2.0	17	88	11	52	70	0	0	29	0.87
6495149--6495201	22	2.4	21	81	12	54	67	1	1	28	1.11
6495387--6495444	18	3.4	19	71	24	56	53	3	0	43	1.17
6495412--6495465	29	1.9	27	85	7	72	50	1	0	48	1.11
6495932--6496002	29	2.4	30	81	9	85	29	2	1	66	1.15
6496998--6497066	19	3.7	19	90	3	104	44	0	11	43	1.40
6497271--6497297	13	2.1	13	100	0	54	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6497398--6497432	17	2.0	18	88	5	54	65	0	0	34	0.93
6498574--6498625	23	2.3	23	84	12	65	71	9	0	19	1.13
6498736--6498765	14	2.1	14	93	0	51	0	23	0	76	0.78
6498744--6498781	12	3.3	12	85	7	53	0	21	0	78	0.74
6501194--6501223	14	2.1	14	93	0	51	10	23	16	50	1.75
6507747--6507789	3	14.3	3	100	0	86	32	0	0	67	0.91
6508207--6508236	15	2.0	15	93	0	51	46	0	10	43	1.37
6511126--6511162	2	18.5	2	100	0	74	48	0	0	51	1.00
6511723--6511756	17	2.0	17	94	0	59	61	0	2	35	1.11
6512816--6512849	15	2.3	15	90	5	52	44	0	0	55	0.99
6519182--6519246	21	3.2	21	77	18	66	41	0	0	58	0.98
6520588--6520614	2	13.5	2	100	0	54	48	0	0	51	1.00
6524595--6524812	34	6.4	34	86	2	287	24	7	26	40	1.82
6524595--6524812	102	2.1	101	90	1	346	24	7	26	40	1.82
6529226--6529444	34	6.5	34	87	2	298	25	7	26	40	1.82
6529226--6529444	102	2.2	101	91	1	357	25	7	26	40	1.82
6532110--6532157	2	24.5	2	85	4	62	52	4	0	43	1.20
6535829--6535864	17	2.1	18	94	5	65	66	0	0	33	0.92
6535840--6535866	13	2.1	13	100	0	54	70	0	0	29	0.88
6539793--6539861	16	4.3	16	73	0	66	46	5	4	43	1.47
6539784--6539845	32	1.9	32	90	0	97	43	6	8	41	1.60
6540004--6540090	41	2.1	41	97	0	165	18	5	9	66	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6540671--6540782	51	2.1	51	88	4	161	34	14	7	43	1.72
6541151--6541189	20	2.1	19	85	9	53	64	0	0	35	0.94
6541135--6541192	24	2.5	24	83	8	66	63	0	0	36	0.94
6542138--6542186	9	5.7	9	83	7	50	77	0	0	22	0.77
6542136--6542186	17	3.0	17	78	21	54	78	0	0	21	0.75
6543109--6543157	3	17.0	3	83	8	66	67	0	2	30	1.02
6543817--6543841	12	2.1	12	100	0	50	32	0	0	68	0.90
6544833--6544877	3	15.3	3	95	4	83	31	0	0	68	0.89
6544941--6544990	26	1.9	26	91	0	82	40	16	10	34	1.81
6549032--6549199	51	3.3	51	87	0	219	30	11	27	30	1.91
6556483--6556543	29	2.1	29	100	0	122	44	16	11	27	1.82
6558170--6558205	18	2.0	18	94	0	63	55	2	0	41	1.14
6558502--6558537	18	2.0	18	88	0	54	55	5	0	38	1.23
6557869--6560376	334	7.5	334	95	1	4242	33	15	10	40	1.81
6557869--6560376	671	3.8	668	95	1	4285	33	15	10	40	1.81
6560450--6560486	19	1.9	20	94	5	67	54	5	2	37	1.38
6560101--6560653	277	2.0	275	97	0	1034	34	13	11	40	1.81
6559768--6560987	611	2.0	608	97	0	2296	34	14	10	40	1.81
6560376--6561137	334	2.3	335	96	0	1391	33	14	10	40	1.80
6565027--6565205	78	2.3	77	80	2	214	37	12	24	25	1.91
6575084--6575120	17	2.2	17	95	0	65	43	0	2	54	1.14
6578307--6578377	34	2.1	34	94	0	124	53	11	9	25	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6581992--6582032	22	1.9	22	90	5	66	34	9	4	51	1.56
6584024--6584236	76	2.8	75	76	0	210	28	12	13	45	1.80
6584125--6584272	76	1.9	76	81	6	174	25	13	16	44	1.84
6584224--6584356	39	3.4	39	86	2	187	29	13	15	42	1.85
6587008--6587065	29	2.0	29	100	0	116	44	13	13	27	1.82
6597164--6597229	32	2.0	34	85	5	91	43	12	6	37	1.67
6597713--6597791	33	2.4	33	91	2	124	44	10	13	31	1.78
6598097--6598140	22	2.0	23	81	4	54	47	6	6	38	1.57
6608420--6608463	12	3.6	12	81	3	52	70	0	2	27	0.99
6608411--6608455	17	2.7	16	83	10	63	71	0	2	26	0.98
6608413--6608538	57	2.2	58	78	8	141	60	0	1	38	1.07
6608421--6608531	59	1.9	58	81	5	136	59	0	1	38	1.08
6608478--6608541	17	3.6	17	80	14	58	54	0	0	45	0.99
6608869--6608929	22	2.6	22	82	10	59	44	0	0	55	0.99
6608920--6608965	16	2.8	16	87	9	58	56	0	0	43	0.99
6610229--6610315	16	5.4	16	72	2	66	39	1	4	55	1.28
6611163--6611199	11	3.5	11	82	14	51	54	0	2	43	1.14
6611172--6611212	20	2.0	20	85	0	55	56	0	0	43	0.99
6611630--6611692	20	3.2	20	71	11	58	60	0	0	39	0.97
6612182--6612240	24	2.5	24	80	0	64	13	54	15	16	1.72
6614793--6614897	55	1.9	55	86	3	149	26	17	18	38	1.92
6618436--6619373	57	16.5	57	74	6	623	31	13	20	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6618491--6618763	115	2.4	114	81	6	286	30	14	20	34	1.92
6618659--6619308	113	5.7	114	77	6	270	31	13	21	33	1.92
6618862--6619366	113	4.5	112	79	7	353	31	14	20	33	1.92
6618462--6619366	170	5.3	166	76	6	606	31	14	20	33	1.92
6626589--6626635	19	2.5	20	75	6	53	48	0	0	51	1.00
6626603--6626672	35	2.0	36	88	2	106	42	2	2	51	1.31
6626608--6626683	35	2.2	35	80	4	82	48	2	2	46	1.30
6626630--6627188	53	11.1	53	78	12	520	53	3	1	40	1.28
6626782--6626858	18	4.3	18	66	8	59	55	2	0	41	1.13
6626726--6627030	147	2.1	147	82	9	370	55	3	1	40	1.25

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