genome.fa.s72.2.7.7.80.10.50.1000.30.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  30  of  39  ( 4596 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)
4305245--4305289	16	2.6	18	75	13	58	48	2	0	48	1.13
4305210--4305268	21	2.9	21	70	10	50	42	0	0	57	0.98
4305381--4305417	18	2.1	19	85	10	51	56	0	0	43	0.99
4305661--4305716	18	3.1	18	80	10	62	41	0	0	58	0.98
4305666--4305704	19	2.0	20	90	5	62	35	0	0	64	0.94
4305659--4305716	16	3.5	16	76	19	57	41	0	0	58	0.98
4305702--4305749	25	1.9	25	86	0	69	54	4	0	41	1.20
4305806--4305854	21	2.5	21	81	18	61	34	6	2	57	1.35
4305881--4305926	11	4.3	11	80	2	58	23	0	0	76	0.79
4306284--4306317	16	2.1	17	88	5	52	17	2	0	79	0.86
4307240--4307317	38	2.1	37	80	7	86	44	0	0	55	0.99
4307266--4307320	14	3.9	14	77	20	53	40	0	0	60	0.97
4307978--4308012	17	2.1	17	100	0	70	71	0	0	28	0.86
4308365--4308425	30	2.0	30	90	0	95	54	1	4	39	1.32
4308376--4308465	29	3.1	28	80	4	99	57	1	4	36	1.26
4308669--4308721	27	2.0	27	88	7	81	56	1	0	41	1.10
4308704--4308744	18	2.4	17	84	15	50	70	2	0	26	0.99
4310449--4310508	21	2.7	22	80	12	70	43	0	0	56	0.99
4311351--4311465	37	3.1	37	74	18	105	60	0	0	39	0.97
4311351--4311431	36	2.2	37	83	14	105	58	0	0	41	0.98
4311368--4311450	18	4.5	19	76	8	75	62	0	0	37	0.95
4311375--4311525	9	16.9	9	67	16	64	62	0	0	36	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4311412--4311485	18	4.1	18	81	13	80	64	0	0	35	0.94
4311351--4311489	18	7.6	18	72	17	74	59	0	0	40	0.97
4311737--4311773	10	3.5	11	85	14	51	40	0	0	59	0.97
4311744--4311786	22	2.0	22	85	0	59	44	0	0	55	0.99
4311735--4311815	16	4.8	18	73	13	75	45	0	0	54	0.99
4311820--4311870	25	2.1	24	81	3	57	47	0	0	52	1.00
4311737--4311867	13	9.8	14	67	27	56	47	0	0	52	1.00
4314164--4314322	83	1.9	82	87	1	228	37	19	8	34	1.83
4314328--4314378	2	26.0	2	88	4	77	47	1	0	50	1.12
4317825--4317872	19	2.5	19	75	0	51	29	0	4	66	1.10
4318170--4318240	35	2.1	35	82	7	85	53	4	5	36	1.44
4318544--4318591	14	3.4	14	78	18	55	31	2	4	62	1.26
4318765--4318840	30	2.5	29	80	18	91	53	0	0	46	1.00
4318766--4318840	31	2.4	29	83	16	98	54	0	0	45	0.99
4318722--4319138	102	4.0	101	69	22	281	54	1	1	41	1.21
4319033--4319119	23	3.9	23	82	11	110	67	1	0	31	0.98
4319033--4319117	22	3.9	21	80	13	91	68	1	0	30	0.97
4319033--4319116	21	3.9	21	79	14	82	67	1	0	30	0.98
4319034--4319119	43	2.0	45	86	9	124	68	1	0	30	0.97
4319045--4319140	23	4.3	22	70	15	63	66	2	0	31	1.03
4320109--4320161	24	2.3	23	81	12	63	64	0	1	33	1.05
4320517--4320576	19	3.1	19	73	17	52	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4320546--4320601	28	2.0	28	86	6	78	53	0	0	46	1.00
4321021--4321058	20	1.9	20	89	10	60	34	0	0	65	0.93
4321229--4321264	15	2.4	16	90	9	58	63	0	0	36	0.94
4321565--4321608	18	2.4	19	84	3	54	50	0	0	50	1.00
4321720--4321751	2	17.0	2	87	12	50	50	0	0	50	1.00
4322067--4322136	33	2.1	33	89	0	104	21	2	2	72	1.10
4322566--4322618	18	2.9	19	77	8	56	58	5	0	35	1.22
4323483--4323520	19	2.0	20	85	15	53	42	0	0	57	0.98
4323561--4323594	17	2.1	17	94	5	61	58	0	2	38	1.13
4323536--4323597	16	3.9	15	77	12	61	61	1	1	35	1.16
4324790--4324822	3	11.0	3	93	0	57	0	30	0	69	0.88
4331193--4331234	20	2.0	21	86	13	61	61	0	0	38	0.96
4333749--4333773	3	8.3	3	100	0	50	68	0	32	0	0.90
4335612--4335671	26	2.4	25	82	2	75	58	3	1	36	1.25
4335621--4335664	20	2.2	19	84	15	54	63	0	0	36	0.95
4335630--4335672	19	2.1	21	83	12	54	60	2	0	37	1.10
4341071--4341102	13	2.4	14	85	15	50	56	0	0	43	0.99
4341173--4341205	15	2.1	16	94	5	59	54	0	0	45	0.99
4341190--4341241	28	1.9	27	84	7	70	51	0	0	48	1.00
4341738--4341823	23	3.7	23	73	11	70	45	0	0	54	0.99
4341825--4341858	6	5.3	6	86	13	50	64	0	0	35	0.94
4341849--4341880	14	2.1	16	88	11	50	50	6	6	37	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4342045--4342094	2	25.0	2	100	0	100	50	0	0	50	1.00
4342368--4342393	13	2.0	13	100	0	52	61	0	0	38	0.96
4342625--4342661	19	1.9	19	94	0	65	40	2	0	56	1.13
4346139--4346171	17	2.0	17	88	5	50	51	0	3	45	1.16
4347235--4347287	22	2.5	20	88	8	79	39	1	0	58	1.09
4347201--4347291	26	3.7	26	75	15	102	41	2	1	54	1.19
4348473--4348591	59	2.0	59	96	0	220	38	9	14	37	1.78
4356388--4356435	19	2.5	19	75	25	55	39	0	2	58	1.10
4357126--4357166	20	2.1	20	86	4	57	60	0	0	39	0.96
4359052--4359088	19	1.9	20	94	5	67	45	0	5	48	1.25
4359213--4359281	32	2.2	32	89	5	104	37	1	5	55	1.33
4365327--4365369	22	2.0	22	86	13	63	58	0	0	41	0.98
4365327--4365373	12	4.1	11	81	15	51	57	0	0	42	0.98
4367155--4367195	19	2.2	18	86	4	55	65	0	0	34	0.93
4367532--4367569	3	12.7	3	100	0	76	31	0	0	68	0.90
4369080--4369119	2	20.5	2	89	5	64	0	47	0	52	1.00
4369802--4369874	29	2.5	29	82	4	94	43	0	1	54	1.08
4370164--4370253	25	3.8	23	72	18	69	54	0	0	45	0.99
4370204--4370252	11	4.2	12	80	12	57	53	0	0	46	1.00
4370202--4370263	24	2.6	24	82	10	74	50	0	0	50	1.00
4370454--4370488	15	2.3	15	90	9	54	82	2	14	0	0.77
4371200--4371226	2	13.5	2	100	0	54	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)
4375204--4375276	30	2.4	30	81	4	85	31	35	23	9	1.87
4376196--4376249	25	2.2	24	83	6	65	44	1	0	53	1.11
4376307--4376353	25	1.9	24	91	4	76	46	2	6	44	1.40
4376673--4376755	26	3.2	26	71	11	80	30	8	10	50	1.67
4376672--4376755	27	3.2	27	76	6	100	29	8	10	51	1.66
4376671--4376755	28	3.2	27	77	13	95	29	8	10	51	1.65
4386311--4386368	24	2.3	24	80	11	64	51	0	0	48	1.00
4386405--4386470	26	2.5	28	80	14	86	65	1	0	33	1.02
4386793--4386851	30	2.0	30	90	6	93	54	0	0	45	0.99
4391245--4391280	2	18.0	2	94	0	63	50	0	47	2	1.15
4402883--4402918	3	12.0	3	100	0	72	66	0	0	33	0.92
4402954--4402978	5	5.0	5	100	0	50	60	40	0	0	0.97
4403584--4403636	27	1.9	28	96	3	99	66	0	1	32	1.03
4405681--4405730	22	2.2	23	85	3	66	70	2	6	22	1.20
4409703--4409743	2	20.5	2	100	0	82	51	0	0	48	1.00
4409952--4410008	12	4.9	12	79	16	66	63	0	3	33	1.12
4412816--4412861	14	3.3	14	81	6	58	36	0	0	63	0.95
4413192--4413238	6	7.8	6	92	0	76	12	19	34	34	1.89
4425928--4425975	22	2.2	23	79	20	59	52	2	0	45	1.12
4426356--4426404	12	4.2	12	87	10	57	38	0	4	57	1.18
4426375--4426404	6	4.8	6	95	4	51	36	0	0	63	0.95
4427471--4427503	5	6.6	5	89	10	50	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4431288--4431337	26	2.0	25	84	4	64	68	0	0	32	0.90
4433328--4433380	9	5.8	9	80	4	61	0	20	0	79	0.74
4433331--4433377	25	1.9	24	91	4	76	0	21	0	78	0.75
4434543--4434584	14	2.9	15	79	13	61	66	0	0	33	0.92
4434675--4434715	19	2.2	19	91	4	66	0	9	4	85	0.73
4436232--4436304	4	19.0	4	80	8	71	4	19	0	76	0.94
4436228--4436304	23	3.3	23	75	12	77	3	18	0	77	0.91
4436354--4436402	3	16.3	3	91	8	82	65	0	2	32	1.04
4436526--4436576	23	2.1	23	92	7	84	0	15	0	84	0.63
4436526--4436586	17	3.2	17	74	24	59	0	18	0	81	0.68

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