genome.fa.s39.2.7.7.80.10.50.1000.24.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: Scaffold39
Parameters: 2 7 7 80 10 50 1000
Length:  4724573

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  24  of  27  ( 3195 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)
4076677--4076824	43	3.5	42	80	7	158	22	25	9	41	1.84
4076603--4076891	160	1.8	160	88	1	445	21	25	12	40	1.88
4076602--4076848	42	6.0	41	74	9	184	22	24	11	41	1.87
4077533--4077709	50	3.3	50	74	17	174	24	17	16	40	1.90
4080624--4081362	79	9.3	79	80	4	702	27	23	13	35	1.92
4080625--4081340	158	4.5	158	82	4	807	26	23	13	35	1.93
4080625--4081348	237	3.1	236	81	3	880	27	23	13	35	1.93
4081569--4081617	23	2.2	22	81	3	53	18	0	14	67	1.23
4084758--4084802	21	2.1	21	84	8	56	31	31	4	33	1.78
4086567--4086592	13	2.0	13	100	0	52	38	15	15	30	1.88
4088671--4088701	15	2.1	15	93	0	53	12	22	16	48	1.80
4092770--4092795	13	2.0	13	100	0	52	30	15	15	38	1.88
4096282--4096308	13	2.1	13	100	0	54	29	14	14	40	1.86
4096263--4096325	33	1.9	32	87	9	92	26	15	15	41	1.88
4096292--4096347	19	2.9	19	86	0	85	28	16	19	35	1.93
4096379--4096443	33	2.0	33	87	6	96	35	13	15	35	1.87
4104464--4104520	22	2.6	23	80	8	73	38	3	31	26	1.73
4105154--4105206	13	4.5	13	71	26	55	33	13	16	35	1.88
4105138--4105206	33	2.1	33	89	5	104	31	13	18	36	1.89
4105808--4105832	13	1.9	13	100	0	50	36	16	16	32	1.90
4105788--4105854	33	2.0	33	91	0	107	32	11	13	41	1.81
4105895--4105919	13	1.9	13	100	0	50	32	16	16	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4105908--4106052	52	2.8	50	85	6	191	34	17	17	30	1.93
4110912--4111446	120	4.4	122	81	7	570	23	24	19	32	1.97
4110912--4111449	62	8.8	62	82	5	598	23	24	19	32	1.98
4112797--4112851	20	2.7	21	82	5	76	41	10	18	29	1.84
4112637--4112975	165	2.1	165	86	1	473	34	12	17	35	1.88
4115119--4115307	98	1.9	97	83	1	243	27	23	12	37	1.90
4115116--4115352	97	2.4	97	80	5	255	27	25	13	33	1.93
4117871--4117923	22	2.4	22	80	0	70	9	15	28	47	1.76
4118369--4118436	29	2.3	29	87	0	91	13	19	13	54	1.71
4118388--4118445	29	2.0	29	93	0	98	12	18	12	56	1.65
4118910--4118957	14	3.8	13	84	15	66	22	0	0	77	0.78
4120416--4120444	15	1.9	15	100	0	58	41	0	13	44	1.44
4121270--4121477	106	2.0	107	82	10	257	49	8	7	34	1.62
4121501--4121550	19	2.7	18	79	11	57	64	10	4	22	1.41
4124304--4124344	20	2.1	19	90	4	64	48	14	4	31	1.65
4124428--4124505	33	2.4	33	84	0	111	38	14	16	30	1.88
4124439--4124504	20	3.7	19	70	27	63	39	15	16	28	1.89
4124943--4125439	58	8.6	57	75	7	360	28	9	15	46	1.77
4124948--4125439	116	4.3	115	76	10	414	28	8	15	46	1.76
4124948--4125480	173	3.1	170	77	9	472	28	9	15	46	1.76
4127187--4127213	2	13.5	2	100	0	54	51	0	0	48	1.00
4128099--4128137	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4128894--4128961	29	2.4	28	82	7	84	61	1	0	36	1.05
4128919--4128961	10	4.4	10	79	5	52	60	0	0	39	0.97
4133594--4133690	29	3.4	29	85	7	128	45	1	1	52	1.14
4133634--4133719	36	2.4	35	83	9	95	43	3	0	53	1.18
4135075--4135109	3	11.7	3	93	0	61	68	2	0	28	1.04
4136580--4136605	2	13.0	2	100	0	52	50	0	0	50	1.00
4136755--4136795	17	2.4	17	87	0	55	53	12	4	29	1.58
4136841--4136881	21	2.0	20	86	13	57	46	7	0	46	1.30
4137979--4138027	12	4.3	12	75	15	50	38	0	0	61	0.96
4137977--4138027	14	3.9	13	73	17	52	39	0	0	60	0.97
4137977--4138039	22	3.2	20	77	18	69	41	0	0	58	0.98
4138441--4138491	18	2.7	20	80	20	65	52	0	0	47	1.00
4138662--4138742	17	5.3	16	71	27	61	61	0	0	38	0.96
4138667--4138750	13	6.0	13	71	23	64	58	0	0	41	0.98
4138663--4138757	16	6.1	17	75	22	61	60	0	0	40	0.97
4138657--4138744	30	3.0	30	71	17	76	62	0	0	37	0.95
4138667--4138750	42	2.0	42	88	9	127	58	0	0	41	0.98
4138691--4138729	11	3.3	11	83	16	51	56	0	0	43	0.99
4138667--4138750	41	2.0	41	88	9	125	58	0	0	41	0.98
4138980--4139110	66	2.0	66	95	3	237	50	6	2	40	1.42
4139009--4139132	22	5.4	23	70	7	74	53	6	1	38	1.37
4139077--4139156	28	2.9	27	73	17	74	58	6	0	35	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4140946--4140989	23	1.9	24	82	17	58	47	6	4	40	1.50
4143733--4143757	2	12.5	2	100	0	50	48	0	0	52	1.00
4143891--4143924	17	2.0	17	88	11	52	41	2	0	55	1.15
4143980--4144024	22	2.1	22	84	12	58	42	0	2	55	1.12
4144883--4144960	20	3.9	20	78	9	79	25	1	25	47	1.60
4145444--4145483	20	2.0	21	95	5	73	32	20	20	27	1.97
4147992--4148040	5	10.0	5	80	10	57	77	2	2	18	0.96
4147997--4148049	24	2.2	25	86	10	74	77	3	1	16	1.01
4148028--4148099	30	2.4	30	85	0	99	68	11	2	18	1.32
4148066--4148097	12	2.7	12	95	0	55	65	15	3	15	1.39
4149073--4149140	19	3.9	19	78	21	85	35	11	14	38	1.83
4149075--4149137	32	2.0	32	96	0	117	34	12	15	36	1.86
4149094--4149118	13	1.9	13	100	0	50	36	16	16	32	1.90
4149180--4149205	13	2.0	13	100	0	52	30	15	15	38	1.88
4149160--4149226	33	2.0	33	85	0	89	26	14	14	43	1.85
4151688--4151764	28	2.8	28	87	0	100	23	33	19	23	1.97
4153331--4153393	32	2.0	32	93	0	108	34	11	17	36	1.85
4153350--4153374	13	1.9	13	100	0	50	36	16	16	32	1.90
4153437--4153461	13	1.9	13	100	0	50	32	16	16	36	1.90
4156521--4156618	19	5.8	19	68	26	85	35	12	16	35	1.86
4156522--4156616	32	3.0	32	95	0	172	35	12	16	34	1.87
4156541--4156597	13	3.9	13	72	24	51	36	14	15	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4170600--4170668	1	69.0	1	77	0	66	88	7	2	1	0.67
4170610--4170668	9	6.6	9	84	5	75	89	6	1	1	0.60
4170613--4170667	28	2.0	28	92	0	92	89	7	1	1	0.63
4172113--4172271	57	2.8	57	86	5	196	33	29	17	19	1.95
4172113--4172252	28	4.9	28	78	13	142	32	30	17	20	1.96
4172281--4173218	49	19.1	49	84	5	1139	24	27	17	30	1.97
4174061--4174190	19	7.8	19	68	27	107	34	12	17	35	1.87
4174062--4174188	32	4.0	32	98	0	245	34	12	18	34	1.88
4174081--4174169	13	5.9	13	72	27	70	34	13	17	33	1.89
4178019--4178407	78	4.9	78	80	5	372	35	13	22	27	1.92
4178019--4178407	157	2.5	157	82	2	451	35	13	22	27	1.92
4181955--4182023	32	2.2	32	86	5	95	36	27	11	24	1.90
4182266--4182483	52	4.2	52	82	5	199	24	24	15	35	1.94
4182265--4182598	104	3.1	103	76	8	296	26	25	14	34	1.94
4183249--4183299	20	2.5	21	81	9	61	37	9	19	33	1.85
4183342--4183459	49	2.3	52	89	4	179	28	14	13	43	1.83
4183414--4183493	32	2.5	32	91	4	126	23	17	18	40	1.91
4184336--4184362	8	3.4	8	100	0	54	22	0	14	62	1.31
4185855--4186054	97	2.1	97	85	3	269	28	21	14	37	1.91
4194117--4194142	12	2.2	12	100	0	52	34	7	26	30	1.85
4195210--4195235	13	2.0	13	100	0	52	38	15	15	30	1.88
4197394--4197435	21	2.0	21	81	9	50	30	7	23	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199133--4199197	31	2.1	31	91	5	105	32	13	27	26	1.94
4199054--4199416	110	3.3	108	86	3	460	33	12	25	29	1.92
4199352--4199435	31	2.7	31	96	0	159	30	11	28	28	1.92
4201729--4201780	20	2.6	20	84	0	68	44	11	15	28	1.81
4201820--4201875	21	2.7	21	97	0	103	30	14	21	33	1.93
4205174--4205231	17	3.4	17	83	9	73	39	6	20	32	1.79
4213166--4213190	13	1.9	13	100	0	50	36	16	16	32	1.90
4213173--4213209	19	2.1	18	90	10	58	40	16	13	29	1.86
4213143--4213210	33	2.1	33	88	2	102	35	14	16	33	1.89
4215215--4215267	20	2.5	21	84	12	72	3	20	49	26	1.66

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