genome.fa.s223.2.7.7.80.10.50.1000.25.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: Scaffold223
Parameters: 2 7 7 80 10 50 1000
Length:  4172444

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   

This is table  25  of  26  ( 3021 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)
4019263--4019309	19	2.6	18	77	16	51	25	2	8	63	1.34
4023863--4023904	10	3.9	11	87	12	52	2	11	0	85	0.68
4023864--4023907	15	3.0	15	90	3	63	2	13	0	84	0.73
4023869--4023906	17	2.3	17	90	4	60	2	10	0	86	0.66
4025354--4025391	13	2.9	13	88	11	60	76	5	0	18	0.97
4025624--4025691	17	3.9	17	75	14	59	69	2	2	25	1.17
4025668--4025720	19	2.8	19	80	8	56	64	0	0	35	0.94
4025917--4025957	20	2.0	21	86	13	59	56	0	0	43	0.99
4025942--4025974	11	2.8	12	86	13	50	60	0	0	39	0.97
4026209--4026253	22	2.0	23	82	4	56	51	8	2	37	1.46
4031213--4031242	2	15.0	2	100	0	60	50	0	0	50	1.00
4031782--4031824	18	2.4	18	88	3	61	74	0	9	16	1.06
4033645--4033703	22	2.7	22	82	10	59	62	0	0	37	0.95
4033993--4034034	18	2.3	18	80	8	50	59	0	0	40	0.97
4034388--4034426	20	2.0	20	84	0	51	53	0	2	43	1.14
4034508--4034570	30	2.1	30	82	11	76	41	1	1	55	1.19
4034967--4035000	17	2.0	17	88	0	50	47	0	2	50	1.16
4035056--4035108	20	2.5	21	84	9	63	50	1	0	47	1.12
4035056--4035132	21	3.6	22	80	15	72	48	1	2	48	1.23
4035059--4035142	21	4.0	20	76	14	71	46	1	2	50	1.22
4035121--4035171	21	2.5	19	73	20	50	35	0	1	62	1.06
4035304--4035356	23	2.3	23	80	6	63	54	1	0	43	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036176--4036221	24	1.9	24	86	0	65	43	23	8	23	1.82
4036210--4036305	27	3.6	27	89	0	147	46	21	10	20	1.80
4038189--4038229	21	1.9	22	85	5	57	19	24	21	34	1.97
4040771--4040823	27	2.0	27	96	0	97	47	15	7	30	1.73
4040782--4040869	27	3.3	27	82	3	97	48	21	7	21	1.75
4041004--4041036	9	3.8	9	88	4	50	57	0	0	42	0.98
4041041--4041073	17	2.1	16	88	11	50	42	0	3	54	1.15
4042149--4042254	31	3.6	29	76	10	108	28	18	27	25	1.98
4042144--4042267	59	2.1	60	89	1	187	33	16	24	25	1.95
4042245--4042356	51	2.2	51	86	0	152	32	15	24	28	1.95
4042397--4042513	51	2.3	49	82	5	135	30	12	26	29	1.93
4042209--4042513	158	1.9	157	80	7	350	32	13	25	28	1.94
4044831--4044904	20	3.7	19	87	7	103	41	13	16	28	1.86
4046164--4046205	17	2.4	18	80	7	52	61	0	0	38	0.96
4046416--4046489	26	2.8	25	72	8	67	44	0	2	52	1.15
4046714--4046965	122	2.1	121	93	3	436	43	7	7	41	1.61
4047203--4047250	10	4.6	10	80	17	53	29	0	0	70	0.87
4047182--4047250	11	6.0	11	76	15	59	33	0	1	65	1.02
4047377--4047417	20	2.0	21	86	13	59	43	0	2	53	1.13
4048016--4048068	27	2.0	27	84	0	70	37	5	3	52	1.43
4048340--4048384	18	2.4	19	82	14	58	51	0	0	48	1.00
4047698--4049040	663	2.0	651	83	9	1649	42	4	7	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4048610--4048648	21	1.9	19	85	10	51	23	5	5	66	1.32
4049191--4049240	4	13.0	4	81	12	52	78	0	22	0	0.76
4049182--4049240	30	1.9	30	89	3	91	77	0	20	1	0.85
4049214--4049244	11	2.7	11	95	5	53	90	0	9	0	0.46
4049214--4049245	15	2.1	15	94	0	55	90	0	9	0	0.45
4049271--4049352	35	2.2	37	81	14	91	34	0	1	64	1.01
4050543--4050585	13	3.3	13	81	9	52	18	0	0	81	0.69
4050544--4050587	19	2.3	19	92	0	70	22	0	0	77	0.77
4051353--4051432	29	2.7	29	74	22	78	45	2	0	52	1.14
4051355--4051446	28	3.2	27	75	16	78	46	2	0	51	1.13
4051568--4051618	15	3.3	15	80	17	59	86	0	9	3	0.70
4051567--4051615	21	2.3	22	89	10	75	83	0	12	4	0.77
4051575--4051619	15	2.7	18	80	19	62	86	0	8	4	0.69
4051743--4051800	16	3.7	17	77	22	65	27	5	0	67	1.12
4051725--4051814	46	2.0	46	90	0	144	26	7	1	64	1.28
4052261--4052293	2	16.5	2	100	0	66	48	0	0	51	1.00
4052884--4052928	23	2.0	23	90	0	72	26	0	2	71	0.98
4052970--4053019	11	4.5	11	85	11	66	28	0	0	72	0.86
4052971--4053007	6	6.5	6	84	9	51	24	0	0	75	0.80
4052971--4053019	17	3.0	17	80	11	50	28	0	0	71	0.86
4052969--4053056	24	3.5	24	76	13	81	31	0	1	67	0.99
4052994--4053075	37	2.2	36	78	10	85	40	0	1	58	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4054087--4054111	13	1.9	13	100	0	50	16	0	4	80	0.87
4054104--4054147	19	2.2	20	88	4	63	29	0	0	70	0.88
4054091--4054157	32	2.1	32	82	0	80	26	0	2	70	1.02
4054978--4055093	9	12.5	10	70	21	67	44	0	0	55	0.99
4054974--4055090	31	3.8	31	75	20	113	44	0	0	55	0.99
4054974--4055097	8	14.9	8	73	20	78	43	0	0	56	0.99
4055409--4055487	36	2.2	35	80	8	88	30	6	6	56	1.49
4055748--4055840	34	2.5	37	80	18	113	33	0	1	65	1.00
4055810--4055842	16	2.1	16	100	0	66	30	0	0	69	0.88
4055773--4055838	19	3.4	21	72	18	70	30	0	1	68	0.99
4057165--4057193	2	14.5	2	100	0	58	51	0	0	48	1.00
4058541--4058578	16	2.2	18	86	9	53	55	0	2	42	1.14
4061526--4061595	1	70.0	1	79	0	68	0	5	5	88	0.63
4061526--4061589	11	5.7	11	83	3	83	0	4	6	89	0.61
4065115--4065202	1	88.0	1	79	0	77	0	7	4	87	0.66
4065114--4065203	36	2.6	36	85	3	112	0	10	4	85	0.72
4073522--4073546	2	12.5	2	100	0	50	48	0	0	52	1.00
4073718--4073782	26	2.4	27	82	10	80	29	0	1	69	0.98
4073718--4073761	13	3.3	13	81	15	54	29	0	0	70	0.88
4073856--4073905	10	5.1	10	79	15	52	32	0	0	68	0.90
4076109--4076157	17	2.7	18	75	9	55	57	2	2	38	1.22
4076990--4077028	3	13.0	3	100	0	78	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4078455--4078499	15	3.1	15	73	20	51	44	2	0	53	1.13
4080947--4080979	3	10.7	3	93	6	57	30	0	0	69	0.88
4081857--4081941	31	2.7	31	96	0	152	20	25	17	36	1.94
4081875--4081932	19	3.4	19	65	30	58	18	24	20	36	1.95
4082008--4082047	20	2.0	21	85	5	55	17	5	2	75	1.10
4082541--4082975	42	10.3	43	82	3	454	37	15	29	17	1.91
4082912--4083043	68	1.9	68	87	0	192	34	18	29	17	1.94
4082870--4083081	110	1.9	110	87	1	309	36	17	28	16	1.93
4082823--4083269	152	2.8	152	79	8	405	37	17	28	16	1.91
4082980--4083816	42	19.8	43	78	3	709	38	16	28	16	1.90
4082991--4084481	85	17.5	85	73	10	879	38	16	28	15	1.90
4098753--4098837	31	2.7	31	94	0	143	22	25	17	34	1.96
4098771--4098827	19	3.4	19	64	31	56	19	24	19	36	1.94
4105797--4105871	20	3.7	20	84	13	107	44	9	17	29	1.80
4105799--4105893	20	4.5	21	79	7	86	41	9	16	32	1.81
4105799--4105895	42	2.3	42	90	0	158	41	10	16	31	1.82
4106681--4107260	52	11.1	53	74	6	428	38	14	22	24	1.92
4106681--4107100	157	2.7	157	77	8	372	38	14	22	25	1.92
4106707--4107259	105	5.3	104	81	3	493	37	14	23	24	1.93
4106696--4107259	209	2.7	209	79	4	512	37	14	22	25	1.93
4107333--4107470	33	4.2	33	76	8	122	18	16	32	31	1.94
4107325--4107493	32	5.2	32	72	13	123	20	18	30	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4107511--4107596	34	2.5	34	75	16	88	33	15	29	22	1.94
4108578--4108944	181	2.0	182	96	1	675	24	12	18	44	1.84
4108933--4108989	8	6.8	8	88	11	87	0	0	12	87	0.54
4108952--4108998	24	2.0	24	82	0	58	4	4	8	82	0.91
4108931--4108989	1	59.0	1	75	0	55	0	0	11	88	0.53
4117749--4117797	13	2.9	18	69	30	54	40	12	10	36	1.77
4122498--4123070	60	9.8	60	72	11	373	31	16	18	33	1.94
4129097--4129136	20	2.0	20	85	9	55	50	0	0	50	1.00
4129175--4129220	20	2.3	20	82	17	60	34	0	0	65	0.93
4129690--4129730	18	2.4	17	87	4	55	70	2	0	26	0.99

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