genome.fa.s2.2.7.7.80.10.50.1000.37.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: Scaffold2
Parameters: 2 7 7 80 10 50 1000
Length:  5794061

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   38   

This is table  37  of  38  ( 4457 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)
5652274--5652298	13	1.9	13	100	0	50	32	16	16	36	1.90
5652307--5652435	52	2.5	52	98	0	249	34	18	18	27	1.95
5655741--5656120	51	7.5	51	81	7	425	35	11	24	29	1.90
5655740--5656120	150	2.5	150	88	3	559	35	11	24	29	1.90
5658478--5658503	13	2.0	13	100	0	52	38	15	15	30	1.88
5658556--5658607	21	2.6	21	90	6	81	32	15	13	38	1.86
5663071--5663144	20	3.7	19	82	10	87	27	16	13	43	1.85
5665591--5665646	28	2.0	28	86	6	78	23	23	16	37	1.93
5665622--5666026	79	5.1	79	85	2	499	26	25	16	32	1.96
5665622--5665983	158	2.3	158	90	0	555	26	25	16	31	1.96
5672190--5672625	55	7.4	60	86	8	532	26	26	20	27	1.99
5672664--5672836	60	2.9	60	84	0	220	26	27	19	26	1.99
5672779--5673060	109	2.6	109	94	1	487	23	28	16	31	1.96
5672719--5673225	278	1.8	279	92	1	856	24	27	17	31	1.97
5672888--5673261	169	2.2	171	91	2	601	24	28	16	31	1.96
5672997--5673111	60	1.9	61	94	1	205	25	30	18	26	1.98
5673238--5673514	55	4.9	55	85	7	317	27	27	20	24	1.99
5673174--5673514	111	3.0	110	83	9	391	26	26	19	26	1.99
5673380--5673667	154	1.9	155	90	2	463	25	28	20	25	1.99
5673535--5673737	61	3.5	60	84	8	267	24	26	21	27	1.99
5673324--5673769	215	2.1	210	84	6	578	24	28	19	26	1.99
5673733--5674004	42	6.6	42	76	15	212	18	26	13	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5673905--5674003	41	2.5	40	85	8	121	19	24	12	44	1.84
5674649--5674753	20	5.6	19	71	19	78	28	18	12	40	1.86
5674649--5674754	53	2.0	53	83	3	133	28	18	12	40	1.87
5677063--5677204	52	2.8	52	77	9	123	33	24	7	33	1.84
5677107--5677204	52	1.9	51	83	6	126	32	23	6	37	1.80
5677149--5677596	79	5.7	78	82	3	432	28	25	12	33	1.92
5677194--5677564	158	2.3	158	87	3	505	27	25	12	34	1.92
5681537--5681599	19	3.6	19	72	24	75	33	11	19	36	1.87
5681535--5681612	32	2.4	32	95	0	138	34	12	17	34	1.88
5681653--5681678	13	2.0	13	100	0	52	30	15	15	38	1.88
5683882--5683948	27	2.5	27	97	0	125	25	47	13	13	1.79
5690027--5690685	31	20.9	30	77	9	403	24	28	13	32	1.94
5690034--5690719	64	10.9	62	78	10	488	24	28	13	32	1.94
5690033--5690690	222	3.0	220	86	4	905	24	28	13	32	1.94
5690666--5690909	61	4.0	61	89	1	355	20	32	12	34	1.90
5690670--5691003	95	3.6	87	78	15	295	20	32	12	34	1.90
5690977--5691101	29	4.3	30	79	9	143	33	30	16	20	1.94
5690977--5691101	57	2.2	58	83	2	153	33	30	16	20	1.94
5691110--5691667	48	12.0	48	73	13	323	25	26	17	30	1.97
5691184--5691422	39	5.7	39	72	16	190	26	28	19	25	1.99
5691123--5691470	87	4.0	87	88	0	491	26	26	18	28	1.98
5691396--5691667	52	5.5	49	79	6	262	24	25	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5691398--5691667	101	2.7	100	82	4	305	24	25	17	32	1.96
5691399--5691713	101	3.2	100	78	9	304	24	24	16	33	1.96
5693764--5693794	3	10.3	3	100	0	62	32	0	0	67	0.91
5698996--5699031	14	2.6	14	91	8	56	19	0	0	80	0.71
5699468--5699526	30	2.0	28	90	6	91	40	1	0	57	1.09
5699572--5699601	8	3.8	8	90	0	51	83	3	0	13	0.77
5699572--5699603	16	2.0	16	100	0	64	81	6	0	12	0.87
5700228--5700260	2	16.0	2	93	6	57	48	0	3	48	1.17
5700829--5700928	15	6.9	15	69	20	61	41	0	1	58	1.05
5701079--5701130	26	2.0	26	84	0	68	26	0	1	71	0.97
5701162--5701207	21	2.1	22	92	4	76	36	6	2	54	1.39
5705157--5705269	56	2.0	56	96	0	208	30	13	15	40	1.85
5708998--5709048	20	2.5	20	90	6	77	35	17	13	33	1.89
5709079--5709136	19	3.1	18	88	11	89	32	17	15	34	1.91
5709120--5709146	13	2.1	13	100	0	54	40	14	14	29	1.86
5709101--5709164	32	2.0	32	90	3	101	39	15	15	29	1.89
5714729--5714754	13	2.0	13	100	0	52	30	15	15	38	1.88
5719008--5719062	20	2.8	20	100	0	110	36	18	10	34	1.86
5719028--5719094	33	2.0	33	88	5	100	37	16	13	32	1.88
5719005--5719078	13	6.6	13	65	32	55	37	16	12	33	1.85
5719122--5719179	19	3.1	19	81	16	75	31	15	15	37	1.89
5722529--5722559	10	3.1	10	95	0	53	41	3	29	25	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5722585--5722720	53	2.5	53	90	1	209	29	17	16	36	1.92
5722689--5722739	20	2.5	20	87	6	68	29	11	17	41	1.85
5728746--5728947	78	2.6	79	82	3	228	29	16	29	24	1.97
5728903--5728970	28	2.4	28	87	0	91	25	19	32	23	1.97
5728959--5729292	52	6.3	52	68	17	188	32	12	25	29	1.92
5729115--5729183	27	2.5	27	88	6	95	23	21	30	24	1.99
5728845--5729237	107	3.7	105	73	11	332	31	14	26	27	1.95
5728892--5729297	212	1.9	212	89	3	629	31	13	26	28	1.94
5729174--5729292	51	2.3	53	84	7	145	33	10	22	32	1.89
5731662--5731687	13	2.0	13	100	0	52	38	15	15	30	1.88
5731641--5731707	33	2.0	33	88	0	98	43	16	14	25	1.86
5731727--5731794	19	3.9	18	76	23	83	38	14	11	35	1.83
5731749--5731773	13	1.9	13	100	0	50	32	16	16	36	1.90
5731730--5731792	32	2.0	32	96	0	117	36	15	12	34	1.86
5731850--5731906	21	2.7	21	97	0	105	36	19	10	33	1.86
5731911--5731956	1	46.0	1	93	0	65	4	2	0	93	0.41
5731914--5731959	23	2.0	23	100	0	92	8	4	0	86	0.68
5732552--5733229	55	12.3	55	91	4	1025	20	20	29	29	1.98
5732848--5732936	29	3.2	29	67	20	89	19	19	33	28	1.96
5734210--5734267	1	58.0	1	82	0	71	0	1	6	91	0.49
5734210--5734268	25	2.4	24	88	2	91	0	1	8	89	0.54
5746680--5746881	78	2.6	79	82	3	228	29	16	29	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5746837--5746904	28	2.4	28	87	0	91	25	19	32	23	1.97
5746893--5747226	52	6.3	52	68	17	188	32	12	25	29	1.92
5747049--5747117	27	2.5	27	88	6	95	23	21	30	24	1.99
5746779--5747171	107	3.7	105	73	11	332	31	14	26	27	1.95
5746826--5747231	212	1.9	212	89	3	629	31	13	26	28	1.94
5747108--5747226	51	2.3	53	84	7	145	33	10	22	32	1.89
5749596--5749621	13	2.0	13	100	0	52	38	15	15	30	1.88
5749575--5749641	33	2.0	33	88	0	98	43	16	14	25	1.86
5749661--5749728	19	3.9	18	76	23	83	38	14	11	35	1.83
5749683--5749707	13	1.9	13	100	0	50	32	16	16	36	1.90
5749664--5749726	32	2.0	32	96	0	117	36	15	12	34	1.86
5749784--5749840	21	2.7	21	97	0	105	36	19	10	33	1.86
5749845--5749888	1	44.0	1	93	0	61	4	2	0	93	0.42
5749850--5749891	21	2.0	21	100	0	84	9	4	0	85	0.72
5751370--5751395	8	3.2	8	100	0	52	61	0	0	38	0.96
5753620--5753699	39	2.1	39	92	0	133	35	17	18	28	1.94
5756688--5756744	21	2.8	20	94	5	96	49	10	14	26	1.75
5756783--5756808	13	2.0	13	100	0	52	38	15	15	30	1.88
5760870--5760900	15	2.1	15	93	0	53	48	16	22	12	1.80
5762972--5763009	13	2.9	13	92	0	58	34	15	15	34	1.90
5764846--5764941	48	2.0	48	97	0	183	38	8	28	25	1.84
5765495--5765567	20	3.6	20	81	3	101	36	13	17	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5765512--5765588	21	3.7	21	79	6	95	44	11	15	28	1.82
5765495--5765588	41	2.3	41	96	3	172	40	12	17	29	1.86
5765627--5765652	13	2.0	13	100	0	52	38	15	15	30	1.88
5767925--5768210	49	5.9	49	77	8	282	33	18	25	23	1.97
5768009--5768201	92	2.1	92	91	1	307	33	17	24	24	1.96
5768219--5768435	57	3.8	57	78	10	228	21	16	30	31	1.95
5768219--5768433	29	7.5	29	77	8	172	21	16	30	32	1.95
5769869--5769902	3	11.7	3	90	6	52	0	0	26	73	0.83
5769869--5769966	19	5.0	20	78	10	80	0	3	18	78	0.88
5769869--5769931	23	2.8	22	90	4	90	0	1	20	77	0.85

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   38