genome.fa.s7.2.7.7.80.10.50.1000.18.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   31   32   
          33   34   35   36   37   

This is table  18  of  37  ( 4421 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)
3196852--3196899	16	2.9	16	75	6	51	50	0	8	41	1.33
3197094--3197228	67	2.0	67	100	0	270	39	16	20	23	1.92
3198046--3198210	89	1.9	89	90	0	267	26	25	17	30	1.97
3204136--3204654	166	3.2	164	79	7	583	34	11	13	40	1.80
3204757--3205122	153	2.4	152	79	7	384	28	15	16	38	1.90
3210332--3210452	52	2.3	52	97	0	224	28	18	18	34	1.94
3210332--3210472	52	2.7	51	90	4	212	30	17	18	33	1.94
3210461--3210485	13	1.9	13	100	0	50	36	16	16	32	1.90
3210552--3210576	13	1.9	13	100	0	50	32	16	16	36	1.90
3210530--3210596	33	2.0	33	88	0	98	40	13	11	34	1.81
3211395--3211789	171	2.3	171	94	1	691	36	14	24	24	1.93
3211466--3211624	49	3.1	49	76	6	147	35	15	23	24	1.94
3211637--3212111	49	9.9	49	80	10	536	32	17	24	25	1.97
3211689--3212111	92	4.5	93	88	8	529	31	17	24	25	1.97
3211747--3212111	141	2.6	141	92	2	598	30	18	25	25	1.98
3212111--3212180	33	2.1	35	94	5	126	20	17	37	25	1.94
3212185--3213512	34	40.6	33	79	13	876	31	13	34	20	1.91
3212294--3212347	27	2.0	27	92	0	90	22	14	40	22	1.90
3212315--3213458	393	2.9	381	94	3	864	31	13	35	20	1.90
3212185--3213523	359	3.7	352	81	12	1415	32	12	34	20	1.91
3213404--3213458	28	2.0	28	89	3	85	25	14	36	23	1.93
3221756--3221876	52	2.3	52	97	0	224	28	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3221756--3221896	52	2.7	51	90	4	212	30	17	18	33	1.94
3221885--3221909	13	1.9	13	100	0	50	36	16	16	32	1.90
3221976--3222000	13	1.9	13	100	0	50	32	16	16	36	1.90
3221954--3222020	33	2.0	33	88	0	98	40	13	11	34	1.81
3223204--3223246	23	1.9	23	90	4	70	74	2	16	6	1.14
3226523--3227015	44	11.2	44	75	7	356	22	23	14	39	1.91
3226553--3227021	132	3.6	132	82	3	566	22	24	14	39	1.91
3227291--3227576	84	3.4	83	75	8	265	19	24	13	42	1.87
3229151--3229216	15	4.2	15	75	22	64	75	0	21	3	0.93
3230085--3230139	28	2.0	28	96	0	101	43	9	0	47	1.35
3231192--3231487	156	1.9	154	81	2	360	27	16	16	39	1.90
3231200--3231541	156	2.2	154	79	6	341	27	16	16	38	1.91
3232447--3232483	13	2.7	13	91	8	56	18	2	0	78	0.87
3233323--3233353	11	2.7	11	95	5	53	0	22	0	77	0.77
3233317--3233349	10	3.4	10	87	4	50	0	18	0	81	0.68
3233909--3234535	165	3.8	162	80	8	619	48	9	12	29	1.72
3233909--3234536	166	3.8	166	80	7	511	48	9	12	29	1.72
3234224--3234620	166	2.4	164	79	6	399	49	11	12	26	1.74
3236098--3236140	20	2.2	20	82	0	50	58	6	6	27	1.50
3236710--3236933	123	1.8	123	80	7	267	31	8	8	52	1.61
3236822--3237269	167	2.7	166	81	6	455	29	10	10	49	1.72
3237398--3237447	5	9.8	5	79	12	57	22	0	4	74	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3237419--3237447	5	5.8	5	100	0	58	20	0	0	79	0.74
3239579--3239603	13	1.9	13	100	0	50	36	16	16	32	1.90
3239559--3239621	32	1.9	33	93	3	110	33	12	17	36	1.88
3239666--3239690	13	1.9	13	100	0	50	32	16	16	36	1.90
3239699--3239827	52	2.5	52	97	0	240	36	17	17	29	1.92
3248053--3248264	31	6.9	30	85	7	266	24	30	16	29	1.96
3248053--3248264	61	3.5	61	91	3	320	24	30	16	29	1.96
3248238--3248833	34	17.9	34	77	11	504	20	32	13	33	1.91
3248229--3248833	33	18.2	32	76	11	440	20	32	13	34	1.91
3248243--3248810	67	8.6	62	74	15	298	20	33	12	33	1.90
3248048--3248726	33	21.1	31	75	12	274	21	31	13	32	1.92
3248238--3248810	100	5.7	99	80	10	560	20	32	12	33	1.91
3248800--3249257	33	14.0	33	88	4	617	28	32	18	19	1.96
3248800--3249257	98	4.7	98	89	4	690	28	32	18	19	1.96
3248800--3249257	131	3.5	131	87	4	636	28	32	18	19	1.96
3249303--3249576	43	6.1	43	83	9	350	26	25	17	30	1.97
3249252--3249629	92	4.1	92	93	1	603	25	26	16	31	1.96
3249530--3249651	52	2.3	55	80	9	146	27	23	11	36	1.90
3250502--3250526	13	1.9	13	100	0	50	36	16	16	32	1.90
3250482--3250547	32	2.0	33	94	2	116	34	12	16	36	1.86
3250622--3250750	52	2.5	52	93	2	215	37	17	17	27	1.92
3252009--3252067	32	1.9	30	83	13	75	59	10	10	20	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3252348--3252373	13	2.0	13	100	0	52	30	15	15	38	1.88
3252328--3252391	32	2.0	33	87	3	94	28	14	17	40	1.88
3254920--3254957	13	2.9	13	96	0	67	31	15	18	34	1.92
3257031--3257060	15	2.0	15	93	0	51	13	23	13	50	1.77
3266532--3266577	20	2.2	21	84	7	58	36	19	8	34	1.83
3268236--3268799	58	9.9	58	73	9	266	26	10	14	48	1.77
3268621--3268707	28	3.0	29	65	20	74	26	13	13	45	1.81
3269003--3269200	78	2.6	79	80	7	221	36	15	16	31	1.90
3274790--3274873	39	2.2	39	93	0	141	45	9	7	38	1.64
3278319--3278369	24	2.1	24	100	0	102	47	21	11	19	1.81
3282169--3282197	15	1.9	15	100	0	58	93	0	0	6	0.36
3282173--3282197	13	1.9	13	100	0	50	96	0	0	4	0.24
3288589--3288633	23	1.9	24	81	4	56	46	20	13	20	1.83
3288785--3288826	19	2.2	19	100	0	84	69	11	9	9	1.38
3294896--3295550	150	4.3	149	83	2	722	34	17	21	26	1.95
3296381--3296693	165	1.9	164	84	6	418	47	16	6	29	1.72
3300757--3302396	831	2.0	833	98	0	3194	30	12	16	40	1.86
3307157--3307208	19	2.6	21	87	6	72	38	11	15	34	1.83
3309672--3309951	78	3.6	78	88	2	391	26	26	15	31	1.95
3309909--3309984	28	2.8	28	86	6	102	19	34	21	25	1.96
3309967--3310080	50	2.3	51	87	1	167	31	27	12	28	1.93
3312463--3312490	13	2.2	13	100	0	56	32	14	14	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3312444--3312508	32	2.0	33	90	3	105	36	10	12	40	1.78
3312551--3312575	13	1.9	13	100	0	50	32	16	16	36	1.90
3312584--3312711	51	2.5	52	94	2	231	35	16	17	29	1.92
3319511--3319553	16	3.0	13	78	21	50	83	13	2	0	0.74
3319798--3319855	28	2.0	28	83	12	73	74	6	17	1	1.12
3320817--3321304	34	14.7	34	77	12	247	20	31	14	33	1.92
3320813--3321304	65	7.4	66	76	11	294	20	31	14	33	1.92
3321012--3321112	35	2.9	35	87	7	145	18	29	14	36	1.91
3320918--3321096	97	1.8	98	86	3	263	21	29	15	33	1.94
3320882--3321127	131	1.9	129	82	8	311	21	30	14	32	1.93
3320849--3321304	100	4.6	100	78	8	337	20	32	14	33	1.92
3321304--3321435	32	4.1	33	88	3	205	29	36	16	17	1.92
3321435--3321945	49	10.9	45	80	12	507	25	25	18	30	1.98
3321430--3321958	92	5.6	92	91	3	806	24	26	18	30	1.98
3321800--3321949	52	2.9	52	91	0	246	22	24	18	34	1.96
3325453--3325601	52	2.9	51	86	4	217	30	17	18	32	1.94
3325590--3325614	13	1.9	13	100	0	50	36	16	16	32	1.90
3325653--3325710	20	3.0	20	84	2	73	46	13	10	29	1.77
3326526--3326715	52	3.8	51	77	14	209	30	18	27	23	1.98
3326527--3326714	95	2.0	95	90	4	299	29	19	27	23	1.98
3326737--3326860	28	4.4	28	87	5	171	17	16	27	38	1.91
3327324--3327348	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)
3327304--3327370	33	2.0	33	88	0	98	32	11	14	40	1.83
3327389--3327469	13	7.1	12	68	28	61	35	16	12	35	1.86
3327390--3327469	34	2.4	34	97	0	151	35	16	12	36	1.86
3327478--3327606	52	2.5	52	93	0	213	35	16	17	31	1.92
3332787--3333118	160	2.1	160	98	0	646	22	25	10	41	1.86
3334871--3335496	61	10.2	61	82	6	696	24	26	20	28	1.99
3335479--3335667	42	4.5	42	71	18	126	20	25	13	40	1.89
3335749--3335913	83	1.9	87	82	10	207	20	27	12	39	1.89
3335749--3335935	42	4.4	43	75	14	176	21	26	13	37	1.92
3336634--3336685	19	2.6	21	87	6	72	38	11	15	34	1.83

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   31   32   
          33   34   35   36   37