genome.fa.s42.2.7.7.80.10.50.1000.20.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: Scaffold42
Parameters: 2 7 7 80 10 50 1000
Length:  3911082

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   

This is table  20  of  24  ( 2843 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)
3029768--3030624	135	6.5	135	83	7	716	20	32	13	32	1.92
3030626--3030891	32	8.2	32	85	9	344	27	35	17	18	1.94
3030626--3030900	65	4.2	64	86	6	385	28	36	17	18	1.94
3030629--3030900	99	2.8	98	87	6	385	27	35	17	18	1.94
3030893--3031500	49	12.7	49	84	6	768	25	24	18	30	1.98
3031297--3031363	21	3.1	21	62	26	50	25	28	19	26	1.99
3031276--3031343	22	3.1	22	62	26	54	23	25	20	30	1.98
3031224--3031500	91	3.0	92	90	2	448	25	24	18	30	1.98
3031410--3031563	52	2.9	53	81	4	193	24	24	16	35	1.95
3031513--3031639	67	1.9	68	85	1	175	23	24	12	39	1.89
3032381--3032405	13	1.9	13	100	0	50	36	16	16	32	1.90
3032361--3032427	33	2.0	33	88	0	98	32	11	14	40	1.83
3032466--3032526	13	5.1	13	69	18	51	39	11	14	34	1.82
3032445--3032528	34	2.5	34	84	0	105	38	13	13	35	1.83
3032535--3032659	52	2.4	52	95	0	223	36	18	17	28	1.94
3036107--3036170	25	2.6	25	100	0	128	39	3	17	40	1.65
3036794--3036858	33	2.0	33	84	0	85	36	13	15	33	1.87
3038452--3038489	3	12.7	3	94	0	67	36	0	34	28	1.58
3039100--3039127	13	2.2	13	100	0	56	28	7	17	46	1.75
3046957--3047579	49	12.8	49	76	8	556	31	16	26	25	1.96
3047251--3047425	87	2.0	88	88	1	262	28	19	25	26	1.99
3047101--3047571	237	2.0	238	90	0	746	30	16	26	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3047339--3047579	101	2.4	97	84	5	313	31	17	25	25	1.97
3047576--3047901	34	9.9	33	80	9	346	36	13	31	18	1.89
3047869--3047922	27	2.0	27	85	0	72	31	16	31	20	1.95
3047916--3048331	64	6.6	64	84	7	473	31	15	29	24	1.95
3047869--3048333	30	15.1	30	79	7	470	32	15	29	23	1.95
3051600--3051624	13	1.9	13	100	0	50	36	16	16	32	1.90
3051684--3051708	13	1.9	13	100	0	50	32	16	16	36	1.90
3051663--3051728	32	2.0	33	97	2	125	34	18	12	34	1.88
3052526--3053038	43	10.7	52	76	14	341	32	17	24	25	1.97
3052632--3053038	43	8.9	44	80	12	473	31	18	25	25	1.97
3052580--3053038	92	4.9	92	94	1	792	31	17	25	25	1.97
3053044--3053472	33	13.1	33	90	3	670	20	17	34	27	1.95
3053474--3054194	34	21.7	36	73	18	341	32	14	34	19	1.91
3053543--3053568	12	2.2	12	100	0	52	26	23	42	7	1.81
3053478--3053636	82	2.0	79	85	3	210	33	15	33	17	1.91
3053557--3054203	34	19.9	33	75	13	471	32	13	34	19	1.91
3053558--3054189	102	6.5	97	78	13	553	32	13	34	19	1.91
3053922--3054155	61	3.9	61	93	3	381	29	13	36	20	1.91
3053592--3054193	122	4.7	124	83	8	509	32	13	34	19	1.91
3054016--3054189	90	2.0	88	88	4	260	29	13	36	20	1.91
3054138--3054264	34	3.9	32	73	12	98	33	14	29	21	1.93
3055235--3055268	17	2.0	17	88	0	50	0	8	8	82	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3055518--3055558	9	4.9	9	88	11	61	0	0	9	90	0.46
3055519--3055557	8	4.9	8	87	12	62	0	0	10	89	0.48
3055506--3055558	24	2.2	24	86	3	72	0	1	11	86	0.64
3055520--3055556	15	2.4	15	95	4	65	0	0	10	89	0.49
3055517--3055570	24	2.3	23	81	9	63	3	3	7	85	0.83
3062555--3062593	12	3.3	12	96	3	71	0	0	23	76	0.78
3062555--3062593	11	3.5	11	93	6	69	0	0	23	76	0.78
3073466--3073521	20	2.8	20	94	0	94	30	14	12	42	1.82
3073506--3073530	13	1.9	13	100	0	50	36	16	16	32	1.90
3075983--3076009	13	2.1	13	100	0	54	29	14	14	40	1.86
3076080--3076130	13	3.9	13	94	0	84	37	15	11	35	1.84
3079780--3080162	164	2.3	166	80	7	424	32	9	8	49	1.64
3080486--3080528	17	2.6	17	85	3	52	79	0	2	18	0.85
3080511--3080550	21	2.0	20	90	5	62	77	0	12	10	0.99
3083439--3083821	156	2.5	156	81	5	438	24	16	19	40	1.91
3083372--3083865	155	3.2	153	76	10	475	25	16	19	39	1.91
3086285--3086900	28	21.5	28	82	4	674	22	16	30	29	1.96
3086285--3086900	85	7.2	85	85	4	709	22	16	30	29	1.96
3086285--3086900	113	5.4	113	83	3	698	22	16	30	29	1.96
3088126--3088172	19	2.5	19	86	3	60	4	0	10	85	0.74
3088123--3088206	33	2.5	33	84	11	100	2	2	13	82	0.87
3095073--3095131	32	1.9	30	83	13	75	61	10	8	20	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3097974--3098011	13	2.9	13	96	0	67	31	15	18	34	1.92
3100095--3100125	15	2.1	15	93	0	53	12	22	16	48	1.80
3101924--3101972	21	2.3	22	85	3	64	20	20	4	55	1.60
3103861--3103919	32	1.9	30	83	13	75	61	10	8	20	1.54
3104200--3104225	13	2.0	13	100	0	52	30	15	15	38	1.88
3104180--3104243	32	2.0	33	87	3	94	28	14	17	40	1.88
3104770--3104834	21	3.6	19	73	26	70	44	15	12	27	1.82
3104788--3104813	13	2.0	13	100	0	52	38	15	15	30	1.88
3104770--3104834	34	2.0	33	93	6	114	44	15	12	27	1.82
3108883--3108913	15	2.1	15	93	0	53	48	16	22	12	1.80
3110984--3111008	13	1.9	13	100	0	50	36	16	16	32	1.90
3113538--3113602	21	3.6	19	73	26	70	44	15	12	27	1.82
3113556--3113581	13	2.0	13	100	0	52	38	15	15	30	1.88
3113538--3113602	34	2.0	33	93	6	114	44	15	12	27	1.82
3115322--3115346	13	1.9	13	100	0	50	36	16	16	32	1.90
3115302--3115368	33	2.0	33	88	0	98	32	11	14	40	1.83
3115409--3115433	13	1.9	13	100	0	50	32	16	16	36	1.90
3115442--3115570	52	2.5	52	93	0	213	34	17	17	30	1.93
3126215--3126271	19	2.9	19	86	2	78	31	17	14	36	1.89
3126321--3126345	13	1.9	13	100	0	50	36	16	16	32	1.90
3127963--3127997	15	2.3	15	90	0	52	40	0	31	28	1.57
3132550--3132589	13	3.1	13	77	0	53	30	15	15	40	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3135032--3135088	19	2.9	19	86	2	78	35	17	12	35	1.87
3135117--3135170	20	2.7	20	85	0	72	35	14	16	33	1.90
3136368--3136429	29	2.1	29	100	0	124	19	27	17	35	1.94
3136626--3136692	33	2.0	33	88	0	98	34	11	13	40	1.81
3136646--3136670	13	1.9	13	100	0	50	36	16	16	32	1.90
3136733--3136757	13	1.9	13	100	0	50	32	16	16	36	1.90
3136766--3136893	52	2.5	52	97	1	240	33	16	17	32	1.93
3144625--3144695	20	3.6	19	81	7	88	38	12	14	35	1.84
3145112--3145282	45	3.7	45	82	5	200	33	16	26	22	1.95
3145072--3145248	47	3.8	47	82	4	205	35	17	26	20	1.95
3145072--3145273	92	2.2	94	86	3	275	35	17	25	21	1.95
3145359--3145672	28	11.1	28	84	4	373	25	18	27	28	1.98
3145646--3145997	32	11.0	32	88	0	506	20	19	28	31	1.97
3146000--3146404	27	14.9	27	90	1	578	28	14	33	24	1.94
3146000--3146404	55	7.4	55	90	2	579	28	14	33	24	1.94
3153911--3153988	20	3.9	20	77	12	88	39	11	15	33	1.83
3156221--3156274	20	2.7	20	97	0	99	40	11	14	33	1.82
3156237--3156378	51	2.8	52	89	2	205	43	13	15	27	1.84
3156437--3156507	20	3.5	20	92	5	108	30	21	9	38	1.86
3158396--3158881	251	1.9	251	90	0	767	33	19	16	31	1.94
3162530--3162555	13	2.0	13	100	0	52	38	15	15	30	1.88
3164774--3164820	21	2.2	22	84	3	60	55	4	17	23	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168666--3168745	20	3.8	20	75	15	79	26	15	15	43	1.85
3168731--3168769	13	3.0	13	96	0	69	30	17	15	35	1.91
3171311--3171336	13	2.0	13	100	0	52	38	15	15	30	1.88
3173971--3174126	48	3.3	48	88	4	212	33	18	28	19	1.96
3174248--3175002	28	26.1	28	82	6	586	22	16	30	30	1.95
3174198--3174745	86	6.4	84	81	5	535	22	16	29	31	1.96
3174531--3174899	32	12.3	32	82	7	270	21	17	29	31	1.96
3174531--3174899	87	4.1	92	81	9	300	21	17	29	31	1.96
3174891--3175011	27	4.5	27	91	0	179	26	13	33	26	1.93
3174891--3175011	54	2.2	54	92	0	197	26	13	33	26	1.93

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