genome.fa.s15.2.7.7.80.10.50.1000.22.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: Scaffold15
Parameters: 2 7 7 80 10 50 1000
Length:  4011073

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   

This is table  22  of  25  ( 2909 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)
3515626--3515700	20	3.8	20	80	3	80	40	12	13	34	1.81
3515623--3515700	40	2.0	39	87	2	111	39	12	12	34	1.82
3516324--3516382	20	3.0	21	79	18	65	32	0	0	67	0.91
3516366--3516527	31	5.1	31	75	13	118	41	2	1	53	1.25
3516360--3516423	17	4.0	16	73	17	53	39	0	1	59	1.07
3521025--3521056	15	2.1	15	94	0	55	59	3	0	37	1.13
3521790--3521880	39	2.3	40	83	12	116	57	0	0	42	0.99
3521814--3521880	8	8.8	8	74	8	50	59	0	0	40	0.97
3521807--3521880	15	5.4	14	73	12	55	56	0	0	43	0.99
3522038--3522075	20	1.9	20	88	0	58	52	0	0	47	1.00
3522605--3522642	18	2.0	20	90	10	62	34	0	0	65	0.93
3522653--3522692	19	2.0	20	85	4	55	32	0	2	65	1.06
3522641--3522731	47	2.0	46	81	12	107	34	0	4	61	1.16
3523187--3523284	11	9.5	11	72	19	68	41	0	0	58	0.98
3523177--3523275	39	2.6	38	78	13	96	40	0	1	58	1.05
3523258--3523312	29	1.9	28	89	10	85	27	0	0	72	0.85
3523244--3523314	15	4.6	16	80	18	80	32	0	0	67	0.91
3523263--3523326	29	2.2	30	80	11	78	29	0	1	68	0.99
3524835--3524867	11	3.0	11	95	0	57	63	21	0	15	1.30
3524835--3524867	17	1.9	17	88	11	50	63	21	0	15	1.30
3525024--3525058	12	3.0	12	87	4	54	71	0	0	28	0.86
3525225--3525340	54	2.2	54	82	1	144	59	6	0	33	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3531436--3531473	14	2.6	14	80	19	51	31	0	0	68	0.90
3532991--3533039	13	4.2	13	75	24	56	36	16	14	32	1.89
3533102--3533151	19	2.5	20	83	3	66	28	16	22	34	1.95
3533741--3533765	12	2.1	12	100	0	50	16	24	8	52	1.70
3541445--3541654	104	2.0	104	98	0	402	33	13	18	34	1.90
3541928--3541952	13	1.9	13	100	0	50	36	16	16	32	1.90
3541911--3541973	33	1.9	32	87	3	90	30	15	20	33	1.94
3541962--3542002	20	2.0	20	95	0	73	29	12	24	34	1.91
3543847--3543994	58	2.6	58	83	0	197	49	16	6	27	1.71
3544403--3544456	20	2.7	20	91	0	81	37	12	16	33	1.87
3549877--3549913	13	2.8	13	91	0	56	40	16	10	32	1.83
3551606--3551689	40	2.1	40	86	0	114	39	8	15	36	1.78
3554153--3554259	54	2.0	54	94	0	187	46	11	8	33	1.70
3554394--3554434	12	3.4	12	90	6	57	0	17	0	82	0.66
3554380--3554437	14	4.2	14	82	14	68	3	17	0	79	0.87
3558020--3558070	20	2.5	20	83	0	66	39	3	0	56	1.18
3558093--3558117	9	2.8	9	100	0	50	56	0	0	44	0.99
3560378--3560419	22	1.9	22	85	9	59	33	0	2	64	1.07
3562496--3562529	15	2.3	15	84	0	50	29	11	38	20	1.88
3564132--3564162	2	15.5	2	100	0	62	51	0	0	48	1.00
3567095--3567161	14	4.5	15	73	14	50	37	0	1	61	1.05
3571668--3571702	16	2.1	17	89	5	54	60	17	5	17	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3574859--3574909	20	2.5	21	83	6	68	43	11	13	31	1.80
3577475--3577778	79	3.8	78	77	8	256	27	25	9	37	1.87
3577724--3577875	79	1.9	79	87	2	225	26	23	11	38	1.88
3578584--3578735	79	1.9	79	87	2	225	26	23	11	38	1.88
3583392--3583416	13	1.9	13	100	0	50	36	16	16	32	1.90
3583511--3583639	52	2.5	52	93	0	222	34	17	17	29	1.94
3597481--3597565	9	8.9	9	86	11	116	87	12	0	0	0.56
3597477--3597567	20	4.6	21	85	12	122	86	13	0	0	0.56
3597479--3597568	15	6.3	15	84	13	120	87	12	0	0	0.54
3597479--3597568	29	3.2	28	85	13	130	87	12	0	0	0.54
3597479--3597568	1	90.0	1	75	0	81	87	12	0	0	0.54
3599015--3599486	30	15.8	29	78	7	326	29	28	16	25	1.97
3599015--3599484	59	7.9	60	77	9	340	29	28	16	25	1.97
3599255--3599329	35	2.2	34	82	2	96	22	32	9	36	1.86
3599320--3599504	28	6.4	28	91	2	244	35	27	17	20	1.95
3599011--3599504	87	5.5	88	75	12	316	29	28	16	25	1.96
3599552--3599741	52	3.9	50	79	12	223	22	26	20	30	1.98
3599604--3599740	43	3.0	44	75	16	141	23	27	20	28	1.99
3599553--3599740	95	2.0	95	91	4	308	22	27	20	29	1.99
3600534--3600558	13	1.9	13	100	0	50	36	16	16	32	1.90
3600652--3600780	52	2.5	52	92	0	213	35	17	17	29	1.93
3603944--3603999	19	2.9	19	86	2	76	37	17	14	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603984--3604009	13	2.0	13	100	0	52	38	15	15	30	1.88
3604522--3604576	26	2.1	26	82	0	65	21	23	5	49	1.70
3604629--3604711	36	2.3	37	82	14	102	33	28	1	36	1.65
3606547--3606586	13	3.1	13	85	0	53	40	17	15	27	1.89
3612638--3612706	33	2.1	33	91	5	113	36	18	11	33	1.87
3612668--3612705	20	1.9	20	94	0	67	39	18	10	31	1.85
3612638--3612685	13	4.2	13	75	25	54	35	18	12	33	1.89
3612735--3612807	20	3.7	20	83	7	87	39	16	13	30	1.87
3613798--3613853	20	2.7	20	86	5	67	44	12	12	30	1.79
3613901--3613956	20	2.7	21	80	5	69	30	14	14	41	1.85
3613921--3613974	20	2.6	21	82	2	65	35	14	9	40	1.78
3617441--3617575	69	2.0	66	84	8	173	40	9	16	34	1.81
3618231--3618276	23	2.0	23	91	0	74	34	19	15	30	1.93
3619088--3619317	79	2.9	79	86	0	307	37	12	24	25	1.90
3619181--3619448	130	2.1	130	85	1	367	36	12	23	27	1.91
3619252--3619370	51	2.3	51	88	0	184	35	11	24	28	1.91
3619304--3619841	79	6.8	79	83	3	566	36	12	22	28	1.90
3619093--3619525	209	2.1	210	83	4	554	36	11	23	27	1.90
3619304--3619844	158	3.4	157	83	6	655	36	12	22	28	1.90
3619327--3619761	236	1.8	236	84	5	594	37	11	22	28	1.89
3622248--3622309	24	2.7	22	82	5	70	37	11	9	41	1.74
3622403--3622435	16	2.1	16	88	5	50	24	6	24	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622550--3622574	13	1.9	13	100	0	50	36	16	16	32	1.90
3622668--3622796	52	2.5	52	93	0	222	34	17	17	29	1.94
3624986--3625014	1	29.0	1	100	0	58	100	0	0	0	0.00
3625952--3626033	30	2.7	31	88	1	112	25	28	18	28	1.98
3626010--3627376	62	20.9	61	91	5	1414	21	32	12	32	1.91
3626602--3626653	27	1.9	27	96	0	95	23	38	17	21	1.93
3627018--3627071	27	2.0	27	85	0	72	25	33	16	24	1.96
3627042--3627383	33	9.9	35	87	7	425	20	33	11	34	1.89
3627455--3628491	49	20.8	49	75	13	847	24	25	16	33	1.96
3627800--3627978	43	4.0	44	83	9	236	25	25	19	30	1.98
3627752--3628022	92	2.9	92	95	1	470	25	24	18	31	1.97
3627936--3628073	52	2.6	52	82	3	159	25	23	15	34	1.95
3628101--3628429	92	3.5	92	91	3	496	25	24	17	32	1.96
3627694--3629058	407	3.4	407	97	0	2544	24	24	16	33	1.96
3628343--3628480	52	2.6	52	82	3	159	25	23	15	34	1.95
3628508--3628902	49	8.1	49	79	11	427	25	24	16	33	1.96
3628508--3628836	92	3.5	92	91	3	487	25	24	17	32	1.96
3628750--3628887	52	2.6	52	82	3	159	25	23	15	34	1.95
3628915--3629101	49	3.9	49	81	10	224	26	22	17	33	1.96
3628925--3629059	43	3.0	44	84	7	182	26	22	18	31	1.97
3630028--3630094	33	2.0	33	88	0	98	34	11	13	40	1.81
3630048--3630072	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3630137--3630161	13	1.9	13	100	0	50	32	16	16	36	1.90
3630170--3630290	52	2.3	52	97	0	224	34	18	18	28	1.94
3633285--3633564	79	3.5	79	81	2	303	37	12	22	27	1.90
3636125--3636157	16	2.1	16	88	5	50	24	6	24	45	1.75
3636272--3636296	13	1.9	13	100	0	50	36	16	16	32	1.90
3636390--3636518	52	2.5	52	93	0	222	34	17	17	29	1.94
3639684--3639739	19	2.9	19	86	2	76	37	17	14	30	1.90
3639724--3639749	13	2.0	13	100	0	52	38	15	15	30	1.88
3640262--3640316	26	2.1	26	82	0	65	21	23	5	49	1.70
3642287--3642326	13	3.1	13	92	0	62	42	17	12	27	1.85

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