genome.fa.s165.2.7.7.80.10.50.1000.5.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: Scaffold165
Parameters: 2 7 7 80 10 50 1000
Length:  1947055

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  5  of  11  ( 1218 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)
989104--989146	21	2.0	22	86	4	61	51	0	20	27	1.48
989346--989398	20	2.7	20	75	21	58	54	16	1	26	1.53
993761--993800	3	13.3	3	100	0	80	32	35	0	32	1.58
995655--995679	12	2.1	12	100	0	50	32	16	16	36	1.90
996387--996430	21	2.1	21	83	8	54	25	31	4	38	1.76
998243--998268	13	2.0	13	100	0	52	38	15	15	30	1.88
1000343--1000373	15	2.1	15	93	0	53	12	22	16	48	1.80
1002173--1002223	21	2.5	20	79	14	52	23	21	5	49	1.71
1004439--1004464	13	2.0	13	100	0	52	30	15	15	38	1.88
1005270--1005324	20	2.8	20	97	0	101	38	16	10	34	1.84
1005270--1005343	20	3.7	19	89	7	87	36	16	13	33	1.88
1008554--1008605	20	2.6	20	96	0	95	46	15	11	26	1.80
1010369--1010399	15	2.1	15	93	0	53	48	16	22	12	1.80
1012480--1012517	13	2.9	13	96	0	67	34	18	15	31	1.92
1012638--1012683	21	2.2	20	81	11	58	32	19	4	43	1.71
1015074--1015099	13	2.0	13	100	0	52	38	15	15	30	1.88
1015056--1015119	32	2.0	33	87	3	94	43	15	12	28	1.83
1015154--1015192	20	1.9	21	94	5	71	43	10	10	35	1.73
1023114--1023172	32	1.9	30	83	13	75	59	10	10	20	1.58
1023453--1023478	13	2.0	13	100	0	52	30	15	15	38	1.88
1023432--1023496	32	2.0	33	93	6	114	27	12	15	44	1.82
1023432--1023496	19	3.6	19	73	26	70	27	12	15	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025549--1025591	20	2.1	20	82	4	50	9	27	44	18	1.80
1026024--1026048	13	1.9	13	100	0	50	32	16	20	32	1.94
1029857--1029887	15	2.1	15	93	0	53	12	22	16	48	1.80
1033614--1033672	32	1.9	30	83	13	75	59	10	10	20	1.58
1033953--1034010	13	4.0	13	76	23	62	29	13	15	41	1.86
1033934--1034028	32	2.9	32	96	3	172	28	12	14	44	1.82
1033934--1034028	19	5.5	19	70	29	88	28	12	14	44	1.82
1034797--1034822	13	2.0	13	100	0	52	30	15	15	38	1.88
1038343--1038878	260	2.1	261	97	1	1024	39	12	25	23	1.89
1039005--1039064	24	2.5	24	75	8	59	73	0	20	6	1.05
1039443--1039471	12	2.4	12	100	0	58	41	0	6	51	1.28
1040979--1041003	12	2.1	12	100	0	50	24	16	8	52	1.70
1045434--1045514	36	2.3	35	81	10	85	71	9	13	4	1.28
1046819--1047216	28	14.4	28	88	8	525	22	32	14	29	1.94
1046819--1047216	82	4.8	82	92	2	625	22	32	14	29	1.94
1046843--1047216	27	13.6	27	92	3	586	22	33	14	29	1.93
1047221--1047302	29	2.8	29	82	10	105	26	29	17	26	1.97
1047289--1047935	32	20.2	32	95	0	1159	30	34	18	16	1.93
1048766--1049302	260	2.1	261	97	1	1024	39	11	25	23	1.89
1049429--1049488	24	2.5	24	75	8	59	73	0	20	6	1.05
1049867--1049895	12	2.4	12	100	0	58	41	0	6	51	1.28
1051403--1051427	12	2.1	12	100	0	50	24	16	8	52	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055332--1055370	13	3.0	13	92	0	69	30	12	15	41	1.85
1057978--1058002	13	1.9	13	100	0	50	36	16	16	32	1.90
1066076--1066132	21	2.7	21	97	0	105	33	10	19	36	1.86
1066188--1066255	19	3.9	19	78	21	85	35	11	14	38	1.83
1066209--1066233	13	1.9	13	100	0	50	36	16	16	32	1.90
1066190--1066252	32	2.0	32	96	0	117	34	12	15	36	1.86
1066295--1066320	13	2.0	13	100	0	52	30	15	15	38	1.88
1066275--1066341	33	2.0	33	88	0	98	25	14	16	43	1.86
1068782--1068857	27	2.8	28	89	2	109	23	34	21	21	1.97
1068674--1069061	52	7.4	51	71	11	241	29	25	13	31	1.93
1069049--1069120	28	2.6	28	86	0	90	22	33	19	25	1.97
1068672--1069171	263	1.9	262	89	2	779	28	26	14	31	1.94
1069074--1069277	78	2.6	78	83	2	239	24	29	17	28	1.97
1081679--1081745	8	8.6	8	77	12	59	83	5	10	0	0.80
1081680--1081730	13	3.6	13	84	10	57	86	7	5	0	0.71
1082710--1083292	55	10.4	54	85	6	738	27	27	20	24	1.99
1082709--1083293	170	3.5	171	90	3	870	27	27	20	24	1.99
1082711--1083273	225	2.5	220	85	7	783	27	27	20	24	1.99
1083136--1083218	27	3.0	28	64	22	75	28	31	20	19	1.97
1084052--1084108	21	2.7	21	97	0	105	33	10	19	36	1.86
1084164--1084231	19	3.9	19	78	21	85	35	11	14	38	1.83
1084185--1084209	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084166--1084228	32	2.0	32	96	0	117	34	12	15	36	1.86
1084271--1084296	13	2.0	13	100	0	52	30	15	15	38	1.88
1084251--1084317	33	2.0	33	88	0	98	25	14	16	43	1.86
1086620--1087006	52	7.4	52	69	14	215	29	25	12	31	1.93
1086728--1086803	27	2.8	28	89	2	109	23	34	21	21	1.97
1086993--1087066	28	2.6	28	83	8	89	24	31	18	25	1.98
1086618--1087112	263	1.9	262	88	2	762	28	26	13	31	1.94
1087018--1087223	78	2.6	78	84	2	252	24	29	16	29	1.97
1090464--1090501	3	12.7	3	88	0	58	39	0	31	28	1.57
1096252--1096324	20	3.7	19	83	7	76	39	17	13	28	1.88
1096252--1096305	19	2.8	20	85	2	74	38	18	12	29	1.88
1098597--1098646	21	2.4	21	83	9	59	48	0	20	32	1.50
1098604--1098646	21	2.0	22	86	4	61	51	0	20	27	1.48
1102561--1102655	20	4.8	19	82	7	100	38	13	13	33	1.84
1102561--1102655	40	2.4	40	82	3	111	38	13	13	33	1.84
1102670--1102799	40	3.5	40	67	20	125	41	13	13	31	1.83
1102670--1102799	20	5.9	20	68	19	80	41	13	13	31	1.83
1102511--1102726	111	1.9	111	82	3	265	41	13	14	31	1.84
1102602--1102809	72	2.9	72	91	0	346	42	12	13	30	1.82
1103676--1103756	32	2.6	32	82	9	96	23	16	29	30	1.96
1103713--1103896	28	6.5	28	82	5	208	23	16	28	30	1.96
1105167--1105208	12	3.3	13	83	12	52	0	7	11	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105177--1105208	12	2.5	13	95	5	57	0	9	12	78	0.97
1149779--1149835	19	2.9	19	75	12	62	36	17	15	29	1.91
1149799--1149939	51	2.8	52	77	10	157	39	14	17	29	1.88
1154491--1154549	19	3.1	18	76	11	55	33	11	16	37	1.86
1158655--1158680	13	2.0	13	100	0	52	38	15	15	30	1.88
1158637--1158701	32	2.0	34	90	6	107	46	13	12	27	1.79
1160882--1160931	21	2.3	21	80	10	57	56	4	18	22	1.58
1162729--1162759	15	2.1	15	93	0	53	48	16	22	12	1.80
1164830--1164867	13	2.9	13	96	0	67	34	18	15	31	1.92
1164979--1165024	21	2.2	20	81	11	58	32	19	4	43	1.71
1167383--1167408	13	2.0	13	100	0	52	38	15	15	30	1.88
1167365--1167429	32	2.0	34	90	6	107	44	15	12	27	1.82
1178054--1178091	19	2.0	20	84	5	51	57	2	5	34	1.35
1178698--1179070	157	2.3	155	82	7	417	26	13	8	51	1.70
1178788--1179140	165	2.1	165	82	5	419	24	15	9	50	1.73
1180324--1180376	19	2.7	20	88	2	72	30	15	15	39	1.87
1181125--1181175	20	2.5	20	87	6	68	33	17	13	35	1.89
1181619--1181651	13	2.5	13	100	0	66	30	15	15	39	1.88
1187671--1187723	13	4.5	13	73	26	64	32	13	16	37	1.88
1187655--1187723	33	2.1	33	89	5	104	30	14	18	36	1.91
1189348--1189386	21	1.9	20	94	5	69	41	10	17	30	1.83
1191758--1191858	51	2.0	51	86	11	145	33	21	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1191867--1191918	27	2.0	25	82	10	61	30	34	15	19	1.93
1191895--1192051	79	2.0	79	85	6	210	28	24	14	33	1.94
1193364--1193949	308	1.9	309	85	3	824	24	19	19	37	1.94
1195462--1195488	13	2.1	13	100	0	54	29	14	14	40	1.86
1198168--1198211	21	2.1	21	83	8	54	25	31	4	38	1.76
1202104--1202134	15	2.1	15	93	0	53	12	22	16	48	1.80
1203938--1203982	21	2.1	21	88	8	65	22	17	4	55	1.60
1217461--1217518	1	58.0	1	78	0	62	89	5	5	0	0.58
1217460--1217517	29	2.0	29	96	0	107	87	5	6	0	0.65
1223416--1223463	22	2.2	22	84	0	60	31	4	33	31	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11