genome.fa.s407.2.7.7.80.10.50.1000.25.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  25  of  28  ( 3302 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)
3833372--3833497	61	2.0	62	93	1	218	35	11	23	30	1.89
3834142--3836994	475	6.0	476	84	4	3243	37	13	17	31	1.88
3834422--3836112	159	10.7	158	68	11	596	37	14	16	31	1.89
3837618--3839026	475	3.0	471	85	3	1796	36	13	19	30	1.90
3838044--3838708	159	4.2	157	69	13	419	35	13	19	31	1.90
3841213--3842279	476	2.2	475	85	2	1401	36	13	18	31	1.90
3842535--3844024	469	3.2	465	81	6	1758	37	13	16	32	1.88
3844022--3845237	476	2.6	476	86	1	1657	37	13	17	30	1.89
3845543--3853977	475	17.6	476	76	7	6753	36	13	18	31	1.90
3845910--3848035	158	13.5	157	65	15	515	36	13	18	31	1.90
3848447--3853977	949	5.8	948	83	3	6133	37	13	18	30	1.89
3849314--3850457	159	7.2	158	66	14	369	37	14	17	30	1.90
3853715--3854241	264	2.0	263	84	2	698	38	13	18	29	1.89
3853243--3854707	739	2.0	738	85	3	1971	36	13	18	30	1.90
3853979--3859565	475	11.8	475	82	3	6091	36	13	18	31	1.89
3853979--3859565	951	5.9	951	82	3	6337	36	13	18	31	1.89
3854318--3859238	159	31.1	159	66	12	1259	36	13	18	31	1.89
3860620--3860854	94	2.5	93	88	3	353	25	27	12	33	1.93
3862310--3862959	159	4.1	159	69	11	427	37	13	18	30	1.89
3861909--3863731	476	3.9	475	87	2	2458	36	13	17	31	1.90
3871967--3872022	19	2.8	20	79	12	71	33	16	16	33	1.91
3872345--3876390	475	8.5	475	83	3	4601	37	13	17	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3876687--3876759	20	3.6	20	81	3	101	35	13	19	31	1.91
3876705--3876780	21	3.7	21	80	3	100	42	11	17	28	1.84
3876687--3876780	41	2.3	41	98	0	179	39	12	18	29	1.88
3876819--3876844	13	2.0	13	100	0	52	38	15	15	30	1.88
3876899--3876936	20	1.9	20	94	0	67	42	13	10	34	1.78
3880906--3880936	15	2.1	15	93	0	53	48	16	22	12	1.80
3882950--3883028	20	3.7	21	75	15	72	26	13	15	44	1.84
3883015--3883053	13	3.0	13	96	0	69	30	17	15	35	1.91
3885483--3885555	20	3.6	20	81	3	101	35	13	19	31	1.91
3885501--3885576	21	3.7	21	80	3	100	42	11	17	28	1.84
3885483--3885576	41	2.3	41	98	0	179	39	12	18	29	1.88
3885615--3885640	13	2.0	13	100	0	52	38	15	15	30	1.88
3885695--3885732	20	1.9	20	94	0	67	42	13	10	34	1.78
3886389--3893497	476	15.0	476	83	2	8126	36	13	18	30	1.90
3886395--3893497	949	7.5	948	83	3	8010	36	13	18	30	1.90
3897620--3897677	19	3.1	18	76	11	62	34	17	15	32	1.91
3898468--3898540	20	3.7	19	83	7	76	36	17	16	28	1.92
3908080--3908200	52	2.3	52	97	0	224	28	18	18	34	1.94
3908080--3908220	52	2.7	51	90	4	212	30	17	18	33	1.94
3908209--3908233	13	1.9	13	100	0	50	36	16	16	32	1.90
3908301--3908325	13	1.9	13	100	0	50	32	16	16	36	1.90
3908279--3908345	33	2.0	33	88	0	98	40	13	11	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3922273--3922401	52	2.5	52	92	0	213	30	17	17	34	1.93
3922273--3922421	52	2.9	51	87	4	201	31	16	18	33	1.93
3922390--3922442	20	2.7	20	100	0	106	39	15	18	26	1.90
3922430--3922454	13	1.9	13	100	0	50	36	16	16	32	1.90
3922498--3922549	19	2.7	19	93	0	95	40	17	11	30	1.85
3923339--3923465	67	1.9	68	86	1	184	39	12	24	23	1.89
3923468--3923853	49	8.0	49	78	9	366	32	17	25	24	1.96
3923478--3923843	92	3.9	92	79	12	341	31	18	25	24	1.97
3923468--3923833	141	2.6	140	88	2	498	32	17	25	24	1.97
3923903--3924464	58	9.7	58	80	7	493	20	16	31	31	1.95
3923909--3924464	89	6.3	87	83	5	581	20	16	31	30	1.95
3923906--3924458	147	3.8	144	82	8	604	20	16	31	31	1.95
3925909--3925955	14	3.3	14	81	3	58	2	0	14	82	0.75
3925906--3925953	18	2.7	18	76	0	60	2	0	14	83	0.74
3942518--3942579	28	2.2	28	86	8	83	45	17	12	24	1.84
3942856--3942957	52	2.0	52	84	0	132	23	24	17	34	1.96
3943200--3943360	31	5.1	31	79	12	175	30	32	16	19	1.95
3943410--3943507	52	1.9	51	89	2	151	23	23	17	35	1.95
3944272--3944323	20	2.7	20	90	3	79	28	11	21	38	1.88
3944356--3944410	20	2.7	21	85	2	76	27	16	14	41	1.87
3945035--3945108	35	2.1	35	97	0	139	33	27	4	35	1.76
3947113--3947137	7	3.6	7	100	0	50	32	28	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3947134--3947159	8	3.2	8	100	0	52	61	23	0	15	1.33
3953059--3953126	33	2.1	32	88	2	100	32	13	20	33	1.91
3953158--3953209	20	2.5	21	84	3	70	26	15	15	42	1.87
3953525--3953663	52	2.7	52	89	0	206	26	23	14	35	1.93
3953627--3953699	36	2.0	36	89	0	110	30	24	12	32	1.92
3953576--3953751	88	2.0	88	86	0	244	26	23	15	34	1.94
3953703--3953871	61	2.8	61	77	5	155	24	24	13	37	1.91
3960809--3960937	52	2.5	52	90	0	204	29	17	17	35	1.93
3960809--3960956	52	2.8	51	87	4	163	30	16	18	34	1.93
3961023--3961087	19	3.7	19	71	23	70	38	15	12	33	1.85
3961015--3961085	32	2.2	32	94	0	124	36	16	12	33	1.87
3961015--3961094	32	2.5	32	87	4	90	37	16	12	33	1.86
3962140--3962344	89	2.3	88	78	4	223	47	12	18	21	1.81
3963164--3963195	16	2.1	16	94	5	57	6	18	0	75	1.01
3963171--3963220	17	2.8	18	82	14	59	4	20	0	76	0.95
3963497--3963540	12	3.5	12	79	11	52	2	4	6	86	0.77
3963484--3963539	24	2.2	26	84	6	71	7	5	7	80	1.02
3963491--3963539	25	2.0	26	88	8	75	6	4	8	81	0.97
3963497--3963547	25	2.1	25	85	10	70	1	3	9	84	0.83
3965131--3965197	37	1.9	35	88	11	102	29	25	11	32	1.92
3965645--3965687	20	2.2	20	100	0	86	30	9	16	44	1.79
3965723--3965776	21	2.5	22	93	6	101	37	11	25	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3965764--3965794	10	3.1	10	90	0	53	41	6	29	22	1.78
3965818--3965954	53	2.6	53	92	1	229	26	16	18	37	1.92
3965942--3965996	21	2.7	20	80	5	65	30	14	16	38	1.89
3966035--3966075	21	2.0	21	85	9	57	39	9	12	39	1.76
3967023--3967079	13	3.9	13	76	24	60	33	14	19	33	1.91
3967022--3967104	32	2.7	30	90	3	121	32	10	19	37	1.86
3967182--3967310	52	2.5	52	90	0	204	36	17	16	30	1.91
3972782--3972818	18	2.1	18	100	0	74	35	16	16	32	1.91
3973661--3973718	28	2.1	28	93	0	98	10	15	37	36	1.82
3973779--3973828	17	2.9	17	87	0	73	2	24	18	56	1.52
3973890--3973952	21	3.0	21	88	2	81	7	22	15	53	1.67
3974285--3974340	20	2.5	22	80	13	62	0	28	1	69	0.98
3974297--3974335	21	1.9	21	89	5	62	0	28	0	71	0.86
3974493--3974543	22	2.4	22	87	6	70	5	27	21	45	1.75
3974838--3974896	14	4.4	14	78	18	63	62	0	1	35	1.05
3975118--3975641	167	3.1	167	81	4	569	50	8	9	32	1.64
3978340--3978396	21	2.7	21	76	13	55	45	0	1	52	1.11
3982096--3982265	20	8.9	19	71	15	120	41	14	12	32	1.83
3982096--3982265	40	4.0	40	73	20	146	41	14	12	32	1.83
3982068--3982278	92	2.3	92	95	2	381	42	13	14	30	1.83
3982828--3984029	28	41.9	29	86	5	1461	23	17	30	28	1.97
3982874--3984031	229	5.1	226	85	5	1485	23	17	31	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3985271--3985321	13	4.2	12	85	11	61	0	1	9	88	0.60
3985273--3985315	19	2.2	20	91	4	70	0	2	11	86	0.67
3985278--3985322	24	1.9	23	90	4	72	0	0	13	86	0.57
3985272--3985318	20	2.4	19	92	7	76	0	2	10	87	0.63
3985271--3985322	11	4.9	11	80	17	65	0	1	11	86	0.65
3998929--3999003	20	3.8	20	80	3	80	41	9	12	37	1.74
3998926--3999003	40	2.0	39	82	7	95	41	10	11	37	1.75
3998898--3999108	92	2.3	92	90	2	336	43	10	15	30	1.81
3999018--3999090	20	3.7	20	78	7	76	41	12	13	32	1.82
4003890--4003962	26	2.8	26	87	2	101	57	2	1	38	1.22

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