genome.fa.s57.2.7.7.80.10.50.1000.24.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   

This is table  24  of  27  ( 3137 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)
3364876--3364931	17	2.9	21	70	22	59	51	0	0	48	1.00
3364934--3364968	18	2.0	18	94	5	63	34	0	2	62	1.10
3365486--3365725	120	2.0	122	96	1	448	41	9	7	41	1.65
3367289--3367343	16	3.4	16	71	28	53	45	0	0	54	0.99
3367291--3367361	32	2.1	34	87	10	103	45	0	0	54	0.99
3367749--3367789	19	2.2	19	91	8	66	51	4	0	43	1.23
3368184--3368226	22	2.0	22	86	4	61	34	0	2	62	1.08
3368578--3368658	30	2.4	35	70	21	82	44	0	0	55	0.99
3368611--3368659	23	2.1	24	85	7	66	40	0	0	59	0.98
3368824--3368881	20	2.8	21	76	10	66	50	0	0	50	1.00
3368885--3368946	18	3.2	19	80	13	63	53	0	1	45	1.10
3369160--3369242	29	2.8	29	85	1	103	39	2	0	57	1.12
3369292--3369329	19	2.0	19	89	0	58	36	0	0	63	0.95
3376456--3376490	2	17.5	2	87	0	52	51	5	0	42	1.25
3376504--3376559	28	2.0	28	85	0	76	35	1	0	62	1.06
3378342--3378383	21	2.0	22	85	4	59	50	0	0	50	1.00
3378386--3378423	14	2.4	16	87	12	53	55	0	0	44	0.99
3378695--3378733	20	1.9	21	89	5	62	53	0	0	46	1.00
3378698--3378753	14	4.0	14	74	6	51	51	0	0	48	1.00
3378795--3378839	21	2.2	21	92	4	74	28	4	2	64	1.25
3378809--3378850	16	2.6	16	75	14	50	28	4	2	64	1.26
3379333--3379364	3	10.7	3	100	0	64	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379567--3379607	17	2.4	18	80	12	50	29	2	0	68	1.03
3379677--3379744	19	3.4	19	71	16	57	39	1	17	41	1.59
3382363--3382427	15	4.0	17	73	15	57	50	1	0	47	1.10
3382859--3382902	3	14.7	3	100	0	88	65	0	0	34	0.93
3385798--3385840	2	21.5	2	100	0	86	48	0	0	51	1.00
3386400--3386452	27	1.9	26	85	11	70	45	0	0	54	0.99
3386386--3386470	35	2.4	34	82	5	107	51	0	0	48	1.00
3386826--3386864	2	19.5	2	100	0	78	48	0	0	51	1.00
3387359--3387430	36	2.0	37	83	2	92	56	0	0	43	0.99
3387903--3387983	41	1.9	42	82	5	101	48	0	1	50	1.08
3387930--3388001	17	4.1	17	74	22	69	41	0	1	56	1.07
3388994--3389023	16	1.9	16	93	6	53	46	6	0	46	1.29
3390595--3390660	35	1.9	33	84	6	87	59	0	0	40	0.98
3396207--3396513	155	2.0	155	100	0	614	32	18	21	27	1.96
3402974--3402999	2	13.0	2	100	0	52	50	0	0	50	1.00
3403495--3403565	35	2.0	35	97	0	133	57	21	5	15	1.58
3404243--3404368	6	17.9	7	68	20	50	57	0	0	42	1.04
3404240--3404298	14	4.4	14	79	14	70	57	0	1	40	1.09
3404288--3404348	33	2.0	32	84	12	83	55	0	0	44	0.99
3404243--3404378	8	17.0	8	65	22	54	57	0	0	41	1.09
3405311--3405348	20	1.9	20	88	0	58	15	5	2	76	1.08
3407785--3407842	30	1.9	31	82	3	73	43	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3407797--3407870	28	2.8	28	82	10	84	48	0	0	51	1.00
3417796--3417828	18	1.9	18	88	11	52	33	0	0	66	0.92
3417782--3417833	25	2.1	23	83	16	61	34	0	0	65	0.93
3418249--3418294	16	2.9	16	78	12	58	52	4	0	43	1.21
3425091--3425237	22	6.8	22	66	25	57	59	0	1	38	1.06
3425120--3425271	5	31.4	5	67	20	74	58	0	1	40	1.06
3425110--3425360	46	5.5	46	71	15	130	56	0	0	42	1.04
3425223--3425278	18	3.1	19	72	15	55	51	0	1	46	1.11
3425202--3425295	32	3.1	32	78	15	94	55	0	1	43	1.06
3425274--3425327	23	2.3	22	76	17	56	50	0	0	50	1.00
3425292--3425336	14	3.1	15	84	12	58	44	0	0	55	0.99
3425684--3425713	8	3.6	8	91	8	51	50	0	0	50	1.00
3425684--3425725	17	2.5	17	85	11	52	50	0	0	50	1.00
3425900--3425938	17	2.3	17	86	0	51	43	2	0	53	1.14
3427851--3427901	25	2.1	24	82	13	61	23	11	13	50	1.74
3428449--3428519	27	2.6	28	73	8	74	46	0	1	52	1.09
3429057--3429096	21	1.9	21	89	0	62	55	0	0	45	0.99
3430491--3430533	2	21.5	2	100	0	86	51	0	0	48	1.00
3431476--3431598	5	23.8	5	73	14	90	42	0	0	57	0.98
3431476--3431617	17	7.1	20	69	22	84	41	0	0	58	0.98
3431451--3431596	26	5.3	28	72	17	83	42	0	0	56	1.04
3431438--3431594	87	1.9	82	83	11	201	42	0	0	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431438--3431624	87	2.2	84	80	12	195	42	0	0	56	1.07
3431546--3431607	19	3.0	20	83	6	63	38	0	0	61	0.96
3431564--3431615	22	2.4	21	75	9	52	36	0	0	63	0.95
3440306--3440361	22	2.5	23	77	13	64	35	0	0	64	0.94
3440587--3440663	29	2.6	30	76	13	88	49	0	0	50	1.00
3443506--3443534	2	14.5	2	100	0	58	0	48	0	51	1.00
3443830--3443900	22	3.2	22	70	9	54	36	0	1	61	1.05
3444488--3444526	13	2.9	14	80	7	53	51	2	0	46	1.14
3444730--3444817	25	3.7	25	72	15	87	60	0	2	37	1.10
3444778--3444847	26	2.4	31	75	18	78	60	0	1	38	1.06
3444730--3444832	24	4.3	24	71	13	79	58	0	1	39	1.09
3444741--3444855	46	2.5	46	78	7	117	59	0	1	39	1.08
3448819--3448883	14	5.2	12	75	15	51	27	1	0	70	0.96
3449230--3449254	2	12.5	2	100	0	50	0	0	48	52	1.00
3457885--3457923	17	2.3	17	86	8	53	66	0	0	33	0.92
3458276--3458301	2	13.0	2	100	0	52	50	0	0	50	1.00
3462354--3462380	14	1.9	14	100	0	54	77	0	0	22	0.76
3464845--3464869	2	12.5	2	100	0	50	48	0	0	52	1.00
3466221--3466250	6	5.0	6	91	0	51	33	0	13	53	1.40
3466397--3466438	2	21.0	2	100	0	84	50	0	0	50	1.00
3467981--3468025	19	2.4	19	80	0	54	75	13	0	11	1.05
3472988--3473038	19	2.7	20	78	6	61	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474002--3474055	20	2.8	20	80	8	58	53	0	0	46	1.00
3474010--3474097	31	3.0	27	74	18	77	47	1	1	50	1.16
3474088--3474139	18	3.0	17	80	5	68	44	0	0	55	0.99
3474133--3474178	20	2.3	20	78	14	51	47	0	0	52	1.00
3474182--3474251	12	6.2	11	75	18	72	60	1	0	38	1.06
3474183--3474267	29	3.0	28	73	15	75	57	1	0	41	1.06
3484274--3484321	16	3.1	15	80	14	53	70	0	2	27	0.98
3484515--3484563	14	3.4	15	75	16	50	63	0	2	34	1.06
3485061--3485113	11	4.5	11	76	19	54	22	3	3	69	1.20
3487038--3487088	24	2.1	24	82	7	59	60	0	0	39	0.97
3493019--3493047	2	14.5	2	100	0	58	51	0	0	48	1.00
3493179--3493223	18	2.5	18	92	7	74	33	0	0	66	0.92
3493188--3493234	17	2.8	17	81	9	60	36	0	0	63	0.94
3495699--3495727	14	2.1	14	100	0	58	34	20	6	37	1.80
3496685--3496733	20	2.5	19	87	12	64	40	0	0	59	0.98
3496712--3496772	27	2.4	25	72	5	59	39	1	0	59	1.08
3497055--3497095	14	2.9	15	78	14	50	46	7	0	46	1.30
3497258--3497286	2	14.5	2	100	0	58	48	0	0	51	1.00
3500127--3500164	16	2.4	16	100	0	76	36	7	15	39	1.77
3504517--3504551	2	17.5	2	100	0	70	0	48	0	51	1.00
3510399--3510438	19	2.1	19	90	9	64	37	0	0	62	0.95
3511773--3511803	3	10.3	3	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512926--3512962	16	2.2	18	85	9	51	35	0	0	64	0.94
3512928--3512974	25	1.9	24	82	4	58	44	0	0	55	0.99
3517606--3517635	2	15.0	2	100	0	60	50	0	0	50	1.00
3519219--3519270	26	2.0	26	84	0	68	46	0	0	53	1.00
3519228--3519298	31	2.3	31	83	11	85	45	0	0	54	0.99
3519251--3519298	15	3.2	14	77	13	51	45	0	0	54	0.99
3522001--3522041	12	3.4	12	81	18	50	60	0	0	39	0.96
3522274--3522361	9	10.6	9	72	14	55	45	1	0	53	1.07
3522322--3522359	15	2.5	15	87	8	51	39	2	0	57	1.12
3522863--3522906	15	3.0	14	81	12	52	36	0	0	63	0.95

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