genome.fa.s160.2.7.7.80.10.50.1000.19.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: Scaffold160
Parameters: 2 7 7 80 10 50 1000
Length:  5021213

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   

This is table  19  of  30  ( 3592 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)
3032385--3032428	21	2.1	21	83	8	54	25	31	4	38	1.76
3038155--3038199	21	2.1	21	84	8	56	22	20	4	53	1.63
3040417--3040442	13	2.0	13	100	0	52	30	15	15	38	1.88
3042866--3043072	112	1.8	112	84	4	283	31	14	14	39	1.87
3044177--3044232	20	2.7	22	81	16	82	33	14	16	35	1.88
3044177--3044235	21	2.9	21	85	12	86	32	15	15	37	1.88
3044461--3044516	21	2.6	22	82	2	60	33	12	8	44	1.73
3046339--3046386	2	24.0	2	91	0	78	4	0	45	50	1.21
3047351--3047607	78	3.3	78	83	7	324	33	14	25	26	1.94
3047541--3047654	51	2.2	51	88	0	183	34	8	26	30	1.87
3047592--3047875	79	3.6	77	81	6	313	32	11	27	28	1.92
3047459--3047737	130	2.2	128	84	3	362	32	12	26	27	1.93
3047329--3047856	287	1.8	286	86	2	765	33	12	25	28	1.92
3050233--3050320	35	2.5	35	96	0	158	38	17	12	31	1.87
3050233--3050347	35	3.5	33	88	5	137	38	17	14	29	1.90
3050930--3051280	41	8.4	41	83	6	338	41	11	25	21	1.87
3050929--3051280	82	4.2	84	81	9	375	40	11	25	21	1.87
3051263--3051717	61	7.4	60	85	5	581	29	17	27	26	1.97
3052694--3052738	21	2.1	21	83	0	54	8	8	0	82	0.85
3057863--3057930	33	2.1	32	91	2	109	35	14	14	35	1.87
3057885--3057910	13	2.0	13	100	0	52	38	15	15	30	1.88
3057962--3058014	20	2.6	21	78	3	63	28	15	15	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3058002--3058030	13	2.2	13	100	0	58	37	13	17	31	1.89
3058016--3058066	20	2.5	20	87	0	66	33	15	15	35	1.90
3057954--3058259	151	2.0	151	97	0	578	29	16	15	38	1.89
3058153--3058181	13	2.2	13	100	0	58	37	13	17	31	1.89
3058167--3058217	20	2.5	20	87	0	66	33	15	15	35	1.90
3066339--3066406	33	2.1	32	88	2	100	33	14	16	35	1.89
3066361--3066386	13	2.0	13	100	0	52	38	15	15	30	1.88
3074695--3075207	79	6.5	77	75	11	353	35	13	23	27	1.92
3074705--3075127	157	2.7	155	78	6	451	36	13	23	26	1.92
3074743--3075190	236	1.9	236	80	2	515	36	12	23	27	1.91
3074754--3075240	79	6.2	78	76	6	383	36	12	23	27	1.91
3077651--3077705	20	2.8	20	83	8	76	43	9	18	29	1.80
3078404--3078433	15	2.0	15	93	0	51	43	13	10	33	1.77
3080262--3080302	19	2.2	19	86	8	57	19	21	17	41	1.90
3083136--3083194	22	2.7	22	80	17	70	32	10	8	49	1.67
3084230--3084499	76	3.6	74	77	7	274	29	15	10	44	1.80
3084638--3084842	92	2.2	92	90	3	331	28	27	12	30	1.93
3084638--3084874	92	2.6	92	87	2	298	29	26	12	31	1.93
3084729--3085105	171	2.2	172	83	3	456	28	25	12	32	1.93
3085481--3086454	44	22.2	43	74	9	535	19	22	17	40	1.91
3085982--3086392	219	1.9	219	80	3	477	20	21	17	41	1.91
3085498--3086498	88	11.4	89	76	6	754	19	22	17	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3085501--3086463	132	7.3	132	77	7	715	19	22	17	41	1.91
3091158--3091282	63	2.0	63	86	9	175	42	9	18	29	1.82
3091568--3091624	18	3.1	17	85	10	69	52	0	1	45	1.11
3091787--3091835	16	3.1	16	84	0	62	46	32	14	6	1.69
3092176--3092254	25	3.2	25	66	16	58	41	6	7	44	1.58
3092159--3092266	48	2.3	47	76	13	121	38	6	8	46	1.60
3092566--3092608	3	14.3	3	100	0	86	32	0	0	67	0.91
3093325--3093393	19	3.6	19	76	18	63	78	1	2	17	0.95
3093333--3093397	12	5.3	12	74	17	53	80	1	3	15	0.92
3094795--3094831	18	2.1	18	90	10	58	37	0	8	54	1.30
3095847--3095885	2	19.5	2	100	0	78	48	0	0	51	1.00
3098096--3098172	36	2.2	35	86	6	102	54	0	0	45	0.99
3101678--3101709	15	2.1	15	94	0	55	0	12	50	37	1.41
3109584--3109623	16	2.4	16	83	8	53	10	0	12	77	0.99
3114409--3114866	166	2.9	156	82	10	532	27	14	7	50	1.70
3114533--3114906	166	2.2	165	86	5	506	25	15	7	51	1.69
3114533--3114951	166	2.5	165	82	8	435	26	15	8	49	1.73
3115698--3115747	22	2.2	22	86	13	66	80	2	18	0	0.82
3115697--3115739	12	3.6	12	78	12	52	81	0	18	0	0.69
3116769--3116802	12	2.6	13	90	9	52	76	0	0	23	0.79
3117203--3118334	155	7.3	155	82	4	1092	22	16	22	38	1.93
3130067--3130135	11	6.4	11	70	14	54	76	11	5	5	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3130065--3130135	32	2.2	33	82	7	83	76	12	5	5	1.15
3131374--3131534	27	5.9	27	83	2	180	26	34	13	26	1.93
3131584--3132541	296	3.3	294	86	4	1223	29	28	17	24	1.97
3131539--3132748	28	41.7	28	81	6	1015	29	28	16	25	1.97
3132743--3132818	32	2.4	32	80	4	91	30	32	15	21	1.94
3136621--3136687	33	2.0	33	88	0	98	34	11	13	40	1.81
3136641--3136665	13	1.9	13	100	0	50	36	16	16	32	1.90
3136731--3136755	13	1.9	13	100	0	50	32	16	16	36	1.90
3141562--3141600	21	1.9	21	89	5	62	53	12	12	20	1.71
3142497--3142576	20	3.9	20	78	12	81	41	11	13	33	1.80
3143420--3143852	89	4.9	88	83	5	478	30	16	15	38	1.89
3144179--3144212	14	2.3	15	90	5	52	8	26	20	44	1.81
3146244--3146303	21	2.9	21	79	0	75	53	10	0	36	1.35
3147632--3148078	156	2.9	155	80	4	447	37	20	17	24	1.94
3149840--3149886	19	2.5	18	83	16	60	2	19	2	76	0.99
3150409--3150929	165	3.2	161	80	6	523	49	8	12	30	1.69
3151810--3151923	43	2.7	43	79	4	115	35	12	32	19	1.89
3152131--3152985	44	19.6	44	73	9	635	40	15	23	20	1.90
3152130--3153012	131	6.7	130	79	7	831	40	15	23	19	1.90
3152128--3153012	87	10.1	85	74	9	583	40	15	23	20	1.90
3152998--3153131	48	2.8	48	91	0	214	39	18	20	20	1.93
3153121--3153428	60	5.1	60	76	9	259	41	10	22	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153119--3153216	30	3.3	29	77	5	97	43	13	21	21	1.86
3153239--3153400	30	5.4	30	68	17	104	43	9	20	27	1.82
3153422--3153591	35	4.9	35	85	0	241	39	11	26	22	1.88
3153827--3154064	91	2.6	90	83	6	293	28	16	24	30	1.97
3154449--3154507	20	2.8	20	79	5	64	37	10	13	38	1.79
3159873--3159911	20	2.0	20	90	10	62	7	15	0	76	0.99
3160297--3160333	6	6.7	6	85	14	53	0	10	0	89	0.49
3160297--3160333	11	3.4	11	88	11	58	0	10	0	89	0.49
3160291--3160333	22	2.0	21	86	4	59	4	11	0	83	0.78
3160297--3160332	10	3.4	10	92	7	54	0	11	0	88	0.50
3163677--3163704	13	2.2	13	100	0	56	39	17	14	28	1.89
3163728--3163779	13	3.5	13	73	26	50	36	17	13	32	1.89
3163736--3163798	19	3.7	18	76	24	73	36	17	12	33	1.88
3163728--3163798	32	2.2	32	97	0	133	36	18	12	32	1.88
3166744--3166935	79	2.4	79	80	1	215	30	16	28	24	1.97
3166887--3166958	28	2.6	28	88	0	99	23	19	34	22	1.96
3170799--3171129	156	2.1	156	81	1	367	39	19	16	23	1.92
3173643--3174132	163	3.0	164	83	3	653	51	7	13	27	1.68
3175190--3175222	14	2.4	14	90	5	50	75	6	9	9	1.18
3175779--3175823	16	2.8	16	82	3	63	84	6	0	8	0.78
3197381--3197461	1	81.0	1	72	0	63	86	12	0	1	0.63
3197382--3197460	9	8.9	9	82	12	101	86	12	0	1	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3197384--3197458	34	2.2	34	88	7	107	85	13	0	1	0.67
3201967--3202096	52	2.5	52	94	0	242	29	17	18	34	1.94
3202105--3202129	13	1.9	13	100	0	50	36	16	16	32	1.90
3202174--3202257	13	5.5	13	71	28	60	35	17	13	33	1.89
3202182--3202278	19	5.8	18	72	27	97	37	17	12	32	1.87
3202174--3202276	32	3.2	32	98	0	197	35	18	12	33	1.89
3202860--3202915	20	2.8	20	94	0	103	26	16	12	44	1.83
3202940--3202992	20	2.6	21	87	3	72	30	16	15	37	1.90
3202980--3203034	20	2.7	21	77	2	58	34	10	12	41	1.78
3203689--3203810	31	3.9	31	73	6	104	15	25	31	27	1.96

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