genome.fa.s193.2.7.7.80.10.50.1000.6.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: Scaffold193
Parameters: 2 7 7 80 10 50 1000
Length:  3104049

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2130 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)
946323--946476	30	4.6	34	78	10	158	19	33	12	33	1.90
946304--946426	64	1.9	65	91	5	205	19	34	13	31	1.91
946377--946475	33	2.9	35	86	4	130	21	31	12	35	1.90
946478--946643	32	5.2	32	87	2	235	28	36	18	17	1.93
946487--946645	63	2.5	66	92	5	272	28	36	18	15	1.92
947606--947630	13	1.9	13	100	0	50	36	16	16	32	1.90
947726--947854	52	2.5	52	94	0	222	34	18	17	28	1.94
951421--951571	50	3.0	50	90	0	230	32	19	19	29	1.96
951915--951939	13	1.9	13	100	0	50	32	16	16	36	1.90
951976--952082	52	2.1	52	92	0	178	30	18	14	36	1.90
952119--952165	20	2.3	21	73	23	55	34	12	21	31	1.91
953923--953983	21	2.9	22	75	20	67	54	3	24	18	1.58
956274--956330	28	2.1	27	93	3	96	40	0	28	31	1.57
956274--956330	27	2.1	28	90	3	89	40	0	28	31	1.57
961218--961838	309	2.0	309	99	0	1215	20	23	12	43	1.86
962649--962788	50	2.8	50	93	0	235	34	21	18	25	1.96
969697--969750	26	2.1	26	82	6	65	44	5	1	48	1.37
969942--969993	27	1.9	27	92	0	86	44	15	23	17	1.86
971706--971768	19	3.6	19	76	24	84	33	12	15	38	1.86
971725--971749	13	1.9	13	100	0	50	36	16	16	32	1.90
971704--971776	32	2.3	32	100	0	146	34	12	16	36	1.86
971793--971834	21	2.0	21	100	0	84	42	9	19	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971821--971846	13	2.0	13	100	0	52	30	15	15	38	1.88
974217--974338	52	2.3	52	84	2	156	31	26	11	31	1.91
974353--974608	79	3.2	79	82	2	307	26	28	14	30	1.95
979738--979766	14	2.0	15	93	6	51	55	0	0	44	0.99
980057--980102	24	2.0	23	82	4	56	28	4	8	58	1.47
980344--980384	17	2.5	17	84	7	59	43	0	0	56	0.99
980982--981018	5	7.6	5	93	6	67	21	0	0	78	0.75
982381--982430	15	3.5	14	81	10	57	36	0	0	64	0.94
983278--983313	6	6.0	6	86	0	54	2	19	0	77	0.88
983362--983407	24	2.0	23	83	12	58	52	0	2	45	1.13
983351--983437	28	3.1	27	73	12	77	52	0	1	45	1.08
983594--983632	3	13.0	3	94	0	69	66	0	2	30	1.05
984279--984316	11	3.5	11	79	13	51	44	2	0	52	1.14
984625--984705	40	2.1	39	85	2	108	54	0	3	41	1.18
984838--984869	12	2.6	13	90	9	50	50	0	0	50	1.00
985516--985566	22	2.5	20	81	12	59	15	3	7	72	1.23
985767--985798	14	2.3	14	100	0	64	53	12	9	25	1.68
988585--988627	21	2.2	19	87	8	59	27	2	0	69	1.00
988758--988799	2	21.0	2	100	0	84	50	0	0	50	1.00
991063--991087	13	1.9	13	100	0	50	32	0	4	64	1.12
994538--994562	13	1.9	13	100	0	50	0	12	0	88	0.53
995133--995162	12	2.5	12	100	0	60	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
996134--996158	13	1.9	13	100	0	50	52	0	0	48	1.00
997163--997216	14	3.7	15	80	9	58	51	0	1	46	1.11
997182--997259	24	3.4	24	72	21	67	44	0	0	55	0.99
997222--997247	11	2.4	11	100	0	52	34	0	0	65	0.93
1004802--1004854	17	2.9	17	83	13	54	1	22	0	75	0.90
1006378--1006451	19	3.6	19	73	19	76	48	21	5	24	1.71
1015045--1015074	12	2.4	13	88	11	53	53	0	0	46	1.00
1015359--1015427	30	2.3	28	79	20	77	34	0	0	65	0.93
1015353--1015438	38	2.3	38	80	9	97	37	0	0	62	0.95
1015368--1015431	15	4.2	17	70	20	52	34	0	0	65	0.93
1161828--1161853	13	2.0	13	100	0	52	38	15	15	30	1.88
1161811--1161873	32	1.9	33	90	3	101	42	15	14	26	1.86
1163948--1163995	23	2.0	24	84	11	64	56	2	0	41	1.11
1164707--1164738	5	6.4	5	92	0	55	0	25	18	56	1.42
1165097--1165133	2	18.5	2	88	0	56	0	43	0	56	0.99
1165133--1165193	2	30.5	2	83	0	77	42	4	3	49	1.40
1166178--1166219	18	2.3	18	84	8	50	38	0	2	59	1.10
1176754--1176830	32	2.5	29	84	13	109	50	0	0	49	1.00
1187926--1188072	73	2.0	74	91	2	242	40	17	10	30	1.84
1189172--1189202	2	15.5	2	100	0	62	51	0	0	48	1.00
1191144--1191351	104	2.0	103	93	2	355	41	9	4	44	1.57
1191362--1191406	19	2.2	21	84	11	58	33	2	0	64	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191362--1191407	22	2.1	22	87	0	65	34	2	0	63	1.07
1191938--1191992	17	3.3	17	82	5	67	43	9	5	41	1.59
1191941--1191991	16	3.1	16	83	5	66	45	7	5	41	1.57
1192332--1192357	13	2.0	13	100	0	52	38	7	0	53	1.30
1192333--1192547	50	4.4	50	67	14	162	36	7	4	52	1.49
1192530--1192571	18	2.3	18	87	4	57	21	2	0	76	0.90
1193186--1193517	130	2.6	125	76	13	318	46	11	9	31	1.73
1194800--1194853	22	2.5	21	82	11	65	59	1	0	38	1.08
1194801--1194853	21	2.5	21	87	3	70	60	1	0	37	1.08
1197141--1197165	3	8.3	3	100	0	50	68	0	0	32	0.90
1206679--1206703	13	1.9	13	100	0	50	36	16	16	32	1.90
1206771--1206795	13	1.9	13	100	0	50	36	16	16	32	1.90
1215052--1215076	13	1.9	13	100	0	50	36	16	16	32	1.90
1215033--1215095	32	1.9	33	87	3	92	38	12	17	31	1.87
1218355--1218686	50	6.6	50	96	0	576	28	20	21	30	1.98
1223089--1223420	50	6.6	50	96	0	592	28	20	20	29	1.98
1223419--1223607	91	2.1	91	97	1	360	35	14	16	33	1.89
1223447--1223588	45	3.1	45	62	13	110	34	15	14	35	1.88
1226269--1226339	9	7.2	10	78	18	62	69	0	1	29	0.98
1226304--1226340	10	3.8	10	82	17	51	70	0	0	29	0.88
1226305--1226343	18	2.1	19	90	4	62	66	0	0	33	0.92
1230716--1230744	2	14.5	2	100	0	58	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1231504--1231581	16	4.8	16	80	9	95	38	1	1	58	1.14
1231504--1231598	49	1.9	48	81	8	111	37	4	2	55	1.31
1233500--1233570	23	3.1	23	61	15	56	40	7	7	45	1.58
1233496--1233585	46	2.1	45	85	10	125	43	6	5	44	1.53
1234917--1234946	6	5.0	6	100	0	60	66	0	0	33	0.92
1234874--1234974	50	2.0	49	81	9	116	51	0	0	47	1.07
1235667--1235691	12	2.1	12	100	0	50	84	0	0	16	0.63
1240522--1240570	21	2.4	21	86	3	64	42	16	12	28	1.84
1240593--1240709	40	3.0	40	89	1	173	40	11	8	39	1.73
1244398--1244453	20	2.8	20	97	0	103	35	14	12	37	1.84
1244440--1244465	13	2.0	13	100	0	52	30	15	15	38	1.88
1244399--1244586	104	1.8	104	86	4	272	30	17	14	37	1.90
1244504--1244611	20	5.8	19	76	18	93	28	17	13	39	1.88
1244521--1244590	33	2.1	33	94	0	122	28	20	14	37	1.91
1244541--1244571	13	2.4	13	100	0	62	29	16	16	38	1.90
1246900--1247076	51	3.5	50	80	6	187	28	25	11	33	1.91
1247010--1247154	78	1.9	77	82	4	184	29	26	13	29	1.94
1247091--1247205	51	2.3	50	86	1	167	30	28	12	28	1.93
1247188--1247259	28	2.6	28	87	12	96	23	26	20	29	1.99
1246958--1247236	129	2.2	129	86	3	400	29	27	12	30	1.93
1247141--1247338	107	1.9	106	89	5	310	26	26	16	30	1.97
1247216--1247390	79	2.2	79	84	6	221	25	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259742--1259808	1	67.0	1	75	0	62	88	7	4	0	0.64
1259741--1259808	12	5.8	11	83	11	82	86	8	4	0	0.69
1259745--1259797	19	2.7	19	94	2	88	88	9	1	0	0.58
1259741--1259808	30	2.3	29	87	2	91	86	8	4	0	0.69
1259742--1259797	17	3.2	17	85	12	69	89	8	1	0	0.56
1260805--1261261	55	8.0	55	83	7	513	27	27	19	26	1.99
1260979--1261119	27	5.1	27	58	3	66	26	26	21	25	1.99
1260805--1261261	116	4.0	115	83	8	542	27	27	19	26	1.99
1260774--1261261	171	2.8	171	89	4	669	26	27	19	26	1.99
1262136--1262161	13	2.0	13	100	0	52	30	15	15	38	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18