genome.fa.s174.2.7.7.80.10.50.1000.6.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: Scaffold174
Parameters: 2 7 7 80 10 50 1000
Length:  2085601

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  6  of  15  ( 1687 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)
675648--675690	20	2.0	22	91	8	72	39	0	4	55	1.20
679096--679136	20	2.2	19	80	20	50	63	0	0	36	0.95
680939--680969	3	10.3	3	100	0	62	35	0	0	64	0.94
681878--681911	6	5.7	6	100	0	68	32	35	17	14	1.91
682089--682162	33	2.4	31	82	10	89	52	2	0	44	1.15
682851--682976	48	2.6	48	85	0	189	40	19	23	16	1.91
686321--686641	164	2.0	163	86	6	451	38	12	18	30	1.87
690235--690291	21	2.7	20	79	15	62	49	0	3	47	1.18
694334--694368	2	18.0	2	88	5	54	48	0	2	48	1.16
696168--696204	6	6.2	6	93	0	65	32	2	0	64	1.07
701141--701215	23	3.1	24	79	14	82	38	1	0	60	1.06
701157--701195	17	2.4	17	95	4	71	43	0	0	56	0.99
702215--702243	15	1.9	15	100	0	58	37	0	0	62	0.96
702162--702269	8	13.0	8	69	17	51	35	0	0	62	1.08
702218--702307	33	2.8	31	77	9	92	32	2	1	64	1.13
702218--702307	11	8.5	11	74	17	75	32	2	1	64	1.13
703169--703212	10	4.4	10	82	8	54	43	0	0	56	0.99
703197--703257	25	2.5	24	72	15	63	47	0	0	52	1.00
703981--704012	2	16.0	2	100	0	64	50	0	0	50	1.00
704434--704514	14	5.6	14	71	15	58	54	0	3	41	1.18
704460--704506	24	2.0	24	84	16	62	53	0	4	42	1.20
704781--704845	8	7.3	9	78	13	55	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704781--704815	17	2.0	18	88	5	54	57	0	0	42	0.99
705875--705926	21	2.5	21	85	14	72	46	0	0	53	1.00
706513--706560	21	2.3	20	80	16	53	39	0	0	60	0.97
707401--707459	14	4.3	15	77	16	56	62	0	0	37	0.95
707404--707445	21	2.0	21	86	9	59	69	0	0	30	0.89
709356--709403	16	3.1	15	76	8	51	37	6	8	47	1.59
713513--713546	18	1.9	18	94	5	61	50	5	0	44	1.26
714268--714300	15	2.1	17	88	11	52	36	0	0	63	0.95
714341--714376	17	2.1	18	89	5	56	61	2	0	36	1.11
714439--714484	16	2.6	17	83	13	58	65	10	2	21	1.35
715051--715090	21	1.9	21	90	10	64	60	0	0	40	0.97
715747--715794	24	2.0	24	84	15	64	58	0	0	41	0.98
718689--718722	2	17.0	2	100	0	68	50	0	0	50	1.00
719092--719170	20	3.8	20	72	21	74	41	0	0	58	0.98
721967--722029	5	12.4	5	75	18	51	41	0	1	57	1.08
721965--722029	12	5.8	11	74	13	53	41	0	1	56	1.08
722432--722468	6	6.3	6	82	17	51	16	0	0	83	0.64
722427--722468	17	2.5	16	88	7	57	14	0	2	83	0.75
722753--722793	19	2.1	20	90	4	66	60	0	2	36	1.10
722753--722793	5	8.4	5	79	15	50	60	0	2	36	1.10
722761--722791	14	2.2	14	94	0	53	61	0	3	35	1.12
722727--722807	36	2.3	35	81	12	94	58	0	3	38	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723264--723304	14	2.8	15	88	3	57	68	0	0	31	0.90
723455--723511	16	3.6	16	82	0	69	49	10	8	31	1.68
723503--723545	16	2.7	16	89	7	61	37	25	20	16	1.93
724175--724285	53	2.1	54	83	5	136	38	26	13	21	1.90
724257--724307	16	3.1	16	83	8	50	43	27	13	15	1.85
724280--724334	16	3.4	16	79	0	65	43	34	10	10	1.75
724490--724532	17	2.5	18	74	11	54	55	2	0	41	1.12
724522--724552	15	2.1	15	93	0	53	74	0	0	25	0.82
724975--725004	11	2.6	11	94	5	51	63	0	0	36	0.95
725907--725935	2	14.5	2	100	0	58	51	0	0	48	1.00
728666--728694	3	9.7	3	100	0	58	68	0	0	31	0.89
729526--729561	16	2.2	16	90	9	56	75	0	0	25	0.81
729527--729563	20	1.9	18	89	10	56	75	0	0	24	0.80
729897--729930	3	11.3	3	100	0	68	67	0	0	32	0.91
730966--731036	16	4.6	16	72	18	60	59	1	0	39	1.06
730947--731011	21	3.1	21	81	14	73	63	3	0	33	1.10
730968--731037	26	2.5	29	78	19	78	57	1	0	41	1.08
730965--731035	24	3.0	23	75	18	67	60	1	0	38	1.06
732411--732451	22	1.9	21	85	14	57	65	0	0	34	0.93
734092--734119	2	14.0	2	100	0	56	0	50	0	50	1.00
738953--739006	13	4.0	14	72	15	51	51	0	0	48	1.00
739797--739851	22	2.6	21	82	8	67	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
739797--739863	21	3.1	22	81	12	68	46	0	0	53	1.00
742336--742424	8	10.5	8	73	20	67	40	1	0	58	1.05
742342--742391	20	2.7	19	87	9	68	42	0	0	58	0.98
742340--742421	17	4.7	17	72	19	71	41	1	0	57	1.06
742412--742479	18	3.8	18	67	17	52	27	4	1	66	1.20
742681--742734	20	2.8	20	76	17	60	46	0	0	53	1.00
743592--743644	22	2.5	22	78	12	56	41	1	1	54	1.22
744063--744098	15	2.3	16	90	4	56	36	0	0	63	0.94
744057--744127	36	2.0	34	83	5	88	43	0	0	56	0.99
744295--744334	13	3.1	13	86	10	55	40	0	0	60	0.97
744550--744601	21	2.4	21	87	6	77	67	0	0	32	0.91
746733--747206	175	2.7	177	83	4	571	19	20	23	35	1.96
753314--753363	26	2.0	25	84	4	64	46	4	2	48	1.32
753813--753847	3	11.7	3	93	0	61	68	2	0	28	1.04
754433--755005	191	3.0	191	98	0	1101	45	9	12	32	1.75
755159--755213	23	2.5	23	82	5	60	63	1	0	34	1.05
755315--755341	3	9.0	3	100	0	54	33	0	0	66	0.92
756772--756804	15	2.2	15	94	0	57	30	0	12	57	1.35
756861--756937	32	2.4	32	82	2	102	15	11	29	42	1.82
758000--758083	16	5.2	17	68	11	61	20	14	23	41	1.89
758000--758094	32	3.0	32	80	6	102	18	14	25	41	1.89
757989--758096	48	2.2	48	81	10	123	17	13	28	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
758011--758094	16	5.2	16	73	11	73	19	15	25	40	1.90
759414--759440	9	3.0	9	100	0	54	33	11	22	33	1.89
759507--759585	30	2.5	31	82	12	99	39	0	1	59	1.06
759507--759588	16	5.2	16	80	10	89	40	0	1	58	1.06
759727--759770	16	2.8	16	82	3	54	40	0	2	56	1.11
760023--760064	23	1.9	22	90	9	68	54	16	4	23	1.61
762495--762554	19	3.2	19	81	9	70	58	0	1	40	1.08
762510--762556	24	1.9	24	83	12	60	59	0	2	38	1.09
762664--762693	12	2.5	12	94	0	51	60	0	0	40	0.97
763618--763725	32	3.6	32	72	18	81	43	0	0	56	0.99
763602--763697	21	4.2	24	69	23	73	44	0	0	55	0.99
763941--763988	17	3.0	17	82	14	50	41	2	0	56	1.11
763957--763988	5	6.6	5	92	7	57	37	0	0	62	0.95
763957--763988	14	2.2	15	94	5	57	37	0	0	62	0.95
764214--764271	16	3.6	16	77	13	57	34	1	1	62	1.16
764916--765058	33	4.0	33	78	18	151	31	13	23	32	1.93
764974--764998	11	2.3	11	100	0	50	36	16	20	28	1.93
764941--765031	44	2.1	44	93	0	155	31	13	23	31	1.93
764916--765058	77	1.9	77	92	0	241	31	13	23	32	1.93
766710--766748	19	2.1	19	90	0	60	38	10	12	38	1.78
770074--770103	4	7.5	4	92	0	51	23	3	0	73	0.98
770384--770410	13	2.1	13	100	0	54	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
770902--770952	18	2.9	17	77	5	57	56	0	0	43	0.99
770908--770954	22	2.1	23	84	11	62	59	0	0	40	0.97
770981--771094	26	4.5	26	69	15	87	53	0	0	45	1.06
771062--771091	12	2.5	12	94	0	51	60	0	0	40	0.97
771128--771177	18	2.7	19	78	9	59	60	2	0	38	1.09
771905--771947	13	3.3	13	80	6	52	25	0	2	72	0.97
773172--773219	19	2.5	19	76	13	53	35	0	0	64	0.94
773696--773724	2	14.5	2	100	0	58	48	0	51	0	1.00
777863--777899	2	18.5	2	100	0	74	51	0	0	48	1.00
779050--779083	16	2.2	15	89	5	50	73	0	0	26	0.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15