genome.fa.s8.2.7.7.80.10.50.1000.31.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  31  of  33  ( 3942 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)
5697285--5697952	82	8.1	81	92	2	1066	29	14	33	22	1.94
5697285--5697952	137	4.9	136	92	1	1104	29	14	33	22	1.94
5699659--5699693	12	2.7	13	91	8	54	0	14	0	85	0.59
5700801--5700906	45	2.2	48	81	6	128	29	21	30	18	1.97
5700939--5701470	32	17.2	32	89	3	724	18	18	32	30	1.95
5700939--5701470	159	3.4	158	86	6	734	18	18	32	30	1.95
5700951--5702598	27	57.9	28	87	6	388	25	16	33	24	1.96
5700983--5702112	27	39.2	28	87	5	470	24	17	33	25	1.96
5701515--5702569	27	38.6	27	91	2	1653	29	14	33	22	1.93
5701515--5702569	82	12.9	82	92	2	1667	29	14	33	22	1.93
5701515--5702569	191	5.5	189	92	3	1664	29	14	33	22	1.93
5703621--5703648	14	2.0	14	100	0	56	0	0	14	85	0.59
5709831--5709881	23	2.1	25	82	7	61	50	5	1	41	1.37
5710406--5710441	17	2.1	17	89	0	54	0	16	0	83	0.65
5714838--5714883	21	2.1	22	84	4	58	30	19	30	19	1.97
5716767--5716837	27	2.6	27	88	6	99	22	7	23	46	1.76
5720274--5720323	25	2.0	25	84	7	66	48	6	0	46	1.27
5733415--5733457	2	21.5	2	100	0	86	48	0	0	51	1.00
5735676--5735713	2	19.0	2	100	0	76	50	0	0	50	1.00
5749801--5749833	17	1.9	17	100	0	66	33	0	0	66	0.92
5749801--5749835	3	12.0	3	93	6	63	34	0	0	65	0.93
5750002--5750071	31	2.3	30	82	7	86	44	5	2	47	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5750114--5750185	18	3.7	18	71	20	63	56	2	2	37	1.28
5750171--5750233	31	2.0	31	87	0	90	47	6	4	41	1.50
5750444--5750482	19	2.1	19	90	0	60	38	7	0	53	1.30
5750655--5750711	29	2.0	29	85	0	78	43	1	1	52	1.21
5760383--5760443	29	2.1	29	93	0	104	40	6	0	52	1.27
5771150--5771181	2	16.0	2	100	0	64	50	0	0	50	1.00
5771932--5771971	17	2.3	17	87	12	55	42	0	2	55	1.13
5771913--5772074	16	10.2	16	67	14	61	38	0	1	59	1.10
5779790--5779850	30	2.0	31	90	3	97	37	22	6	32	1.80
5779884--5779914	2	15.5	2	100	0	62	48	0	0	51	1.00
5781212--5781262	11	4.9	10	73	17	50	82	1	1	13	0.85
5783332--5783367	15	2.4	15	85	0	54	33	5	0	61	1.19
5792255--5792463	104	2.0	104	98	0	400	36	7	38	17	1.78
5795841--5796260	214	2.0	214	84	3	551	34	11	17	36	1.86
5811796--5811835	20	2.0	20	95	0	71	35	7	15	42	1.75
5823777--5823824	16	3.1	16	75	6	53	41	0	0	58	0.98
5823793--5823853	22	2.8	22	82	5	61	50	0	1	47	1.10
5825115--5825154	20	2.0	20	85	0	53	40	2	0	57	1.12
5825412--5825695	142	2.0	142	100	0	568	22	17	17	42	1.89
5834515--5834561	2	24.0	2	93	4	78	46	0	2	51	1.13
5837007--5837039	13	2.5	13	90	9	50	54	0	0	45	0.99
5837008--5837070	29	2.2	29	85	0	81	46	1	0	52	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5837764--5837790	4	6.8	4	100	0	54	77	0	22	0	0.76
5837836--5837865	2	15.0	2	100	0	60	50	0	0	50	1.00
5842050--5842089	2	20.0	2	100	0	80	50	0	0	50	1.00
5846080--5846505	137	3.1	135	83	6	428	33	5	5	55	1.45
5846187--5846547	137	2.6	135	87	4	503	35	5	4	54	1.46
5846861--5846886	2	13.0	2	100	0	52	0	50	0	50	1.00
5848713--5848739	2	13.5	2	100	0	54	51	0	48	0	1.00
5853999--5854026	2	14.0	2	100	0	56	0	50	0	50	1.00
5854467--5854493	3	9.0	3	100	0	54	0	0	33	66	0.92
5859675--5860100	1	426.0	1	97	0	798	0	98	0	0	0.13
5886750--5886849	52	1.9	52	95	0	182	29	26	5	40	1.77
5891377--5891406	2	15.0	2	100	0	60	50	0	0	50	1.00
5892026--5892075	2	25.0	2	91	0	82	48	4	0	48	1.20
5893334--5893399	33	2.0	33	82	5	80	42	3	0	54	1.15
5895505--5895545	20	2.0	21	85	4	57	58	0	2	39	1.11
5896928--5896955	2	14.0	2	100	0	56	50	0	0	50	1.00
5911329--5911357	14	2.0	15	93	6	51	55	6	37	0	1.27
5911501--5911597	16	6.6	15	70	23	64	45	0	0	54	0.99
5911504--5911566	11	5.8	11	70	17	51	42	0	0	57	0.99
5911762--5911786	3	8.3	3	100	0	50	64	0	0	36	0.94
5913665--5913792	63	2.0	63	93	0	220	36	5	5	52	1.48
5913921--5913963	21	2.0	23	90	9	72	65	9	6	18	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5919616--5919648	3	11.0	3	100	0	66	33	0	0	66	0.92
5920854--5920895	21	2.0	21	86	9	59	47	2	2	47	1.28
5920862--5920899	17	2.2	17	90	9	60	47	0	2	50	1.15
5920871--5920905	17	2.1	17	88	0	52	54	0	2	42	1.15
5921711--5921807	40	2.4	40	84	1	113	47	4	4	44	1.41
5921787--5921820	15	2.3	15	90	10	52	61	0	0	38	0.96
5921843--5921895	23	2.3	23	74	6	54	64	1	0	33	1.05
5923733--5923786	24	2.2	25	80	9	67	55	0	0	44	0.99
5923895--5923964	31	2.2	32	87	2	97	50	4	0	45	1.21
5925452--5925719	75	3.6	76	74	6	240	30	21	19	28	1.98
5933415--5933480	29	2.2	28	86	10	87	48	0	0	51	1.00
5934301--5934338	2	19.0	2	100	0	76	50	0	0	50	1.00
5943989--5944042	27	2.0	27	96	0	99	31	18	11	38	1.86
5950008--5950041	6	5.7	6	96	0	50	50	8	0	41	1.34
5950420--5950444	12	2.1	12	100	0	50	80	0	0	20	0.72
5950438--5950462	12	2.1	12	100	0	50	52	0	0	48	1.00
5950434--5950520	36	2.5	34	80	14	97	57	0	1	41	1.06
5950464--5950504	19	2.1	20	86	4	57	56	0	0	43	0.99
5950640--5950680	20	2.0	22	85	9	59	46	0	0	53	1.00
5951252--5951285	2	17.0	2	87	0	50	52	2	0	44	1.16
5957282--5957312	15	2.1	15	100	0	62	19	19	12	48	1.81
5971886--5971911	2	13.0	2	100	0	52	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5972890--5972945	19	2.9	19	79	10	69	42	0	1	55	1.10
5975034--5975081	19	2.5	19	78	21	55	39	6	0	54	1.26
5976538--5976562	13	1.9	13	100	0	50	52	0	0	48	1.00
5976873--5976922	17	3.1	16	70	18	50	36	2	4	58	1.29
5978479--5978504	12	2.2	12	100	0	52	65	0	0	34	0.93
5978963--5979596	165	3.9	158	78	10	487	32	10	7	49	1.65
5981599--5981631	2	16.5	2	100	0	66	48	0	0	51	1.00
5982251--5982326	21	3.6	21	77	7	82	34	0	0	65	0.93
5982256--5982321	10	6.4	10	70	6	51	31	0	0	68	0.90
5985115--5985151	2	18.5	2	100	0	74	48	0	0	51	1.00
5993592--5993651	24	2.5	24	81	13	61	40	0	6	53	1.27
5994206--5994263	25	2.3	24	83	13	73	37	0	0	62	0.96
5994206--5994256	24	2.2	23	86	13	70	37	0	0	62	0.95
5995335--5995392	31	1.9	31	85	3	82	51	1	3	43	1.28
5995653--5995685	3	11.0	3	100	0	66	66	0	0	33	0.92
5995684--5995712	3	9.7	3	100	0	58	34	0	31	34	1.58
5996512--5996568	8	6.5	8	80	11	51	40	0	0	59	0.97
5996526--5996678	61	2.5	62	77	13	160	46	0	0	52	1.05
5996550--5996640	28	2.9	31	76	17	89	47	0	0	52	1.00
5996552--5996616	16	3.8	17	73	19	64	47	0	0	52	1.00
5996508--5996675	28	5.7	28	70	20	85	44	0	0	54	1.04
5996508--5996675	22	8.1	22	69	20	69	44	0	0	54	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5996603--5996676	10	7.3	10	72	24	50	43	1	0	55	1.08
5996591--5996680	28	3.1	29	78	18	89	46	1	0	52	1.07
5996549--5996682	39	3.7	36	76	21	104	46	0	0	52	1.05
6005367--6005415	2	24.5	2	95	0	89	51	2	0	46	1.12
6006316--6006360	23	2.0	23	95	0	81	40	0	4	55	1.20
6006322--6006368	23	2.1	23	84	4	60	51	0	4	44	1.21
6006957--6006985	2	14.5	2	100	0	58	48	0	0	51	1.00
6013112--6013145	2	17.0	2	100	0	68	0	50	0	50	1.00
6013907--6014005	37	2.6	39	82	9	123	32	30	14	23	1.94
6016863--6016895	2	16.5	2	100	0	66	48	0	51	0	1.00

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