genome.fa.s43.2.7.7.80.10.50.1000.9.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: Scaffold43
Parameters: 2 7 7 80 10 50 1000
Length:  2559314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  9  of  19  ( 2200 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)
1055166--1055190	12	2.1	12	100	0	50	8	8	0	84	0.79
1055341--1055381	20	2.2	20	82	8	50	51	2	2	43	1.28
1057730--1057763	11	3.1	11	86	0	50	41	0	0	58	0.98
1058056--1058096	21	2.0	20	90	4	64	41	0	9	48	1.36
1064679--1064726	24	2.0	24	83	0	60	37	0	2	60	1.09
1065276--1065320	3	15.0	3	100	0	90	66	0	0	33	0.92
1068414--1068459	24	2.0	23	84	12	60	56	2	0	41	1.11
1068412--1068468	30	1.9	30	82	13	73	56	1	0	42	1.10
1068709--1068755	13	3.3	15	80	17	55	31	0	0	68	0.90
1068718--1068750	13	2.6	13	95	4	59	33	0	0	66	0.92
1072293--1072369	20	3.8	20	77	6	84	40	14	15	29	1.87
1079654--1079685	16	2.0	16	100	0	64	43	12	18	25	1.85
1080601--1080627	3	9.0	3	100	0	54	66	0	0	33	0.92
1080953--1081030	38	2.0	41	85	10	108	56	0	2	41	1.13
1081000--1081046	6	8.2	6	88	9	71	63	0	0	36	0.94
1081005--1081046	11	3.7	11	85	14	59	64	0	0	35	0.94
1081005--1081046	17	2.5	17	100	0	84	64	0	0	35	0.94
1081377--1081403	2	13.5	2	100	0	54	51	0	0	48	1.00
1083154--1083195	18	2.5	17	84	7	50	59	0	0	40	0.97
1083571--1083611	21	1.9	22	85	14	59	34	0	2	63	1.08
1084659--1084703	23	2.0	22	83	12	56	42	0	0	57	0.98
1085231--1085277	2	23.5	2	100	0	94	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085962--1085987	13	2.0	13	100	0	52	46	7	7	38	1.61
1087096--1087140	10	4.5	10	83	10	56	28	0	0	71	0.87
1087098--1087145	9	5.2	9	82	7	53	29	0	0	70	0.87
1087395--1087426	2	16.5	2	93	6	57	46	0	0	53	1.00
1088885--1088919	17	2.1	17	88	0	52	71	0	2	25	1.00
1090581--1090612	2	15.5	2	93	6	55	50	3	0	46	1.17
1092456--1092495	20	2.1	19	85	4	53	27	7	0	65	1.20
1093105--1093133	2	14.5	2	100	0	58	0	48	0	51	1.00
1095318--1095345	2	14.0	2	100	0	56	50	0	0	50	1.00
1095695--1095730	3	12.0	3	100	0	72	33	0	0	66	0.92
1096383--1096425	17	2.5	18	82	17	56	46	9	2	41	1.48
1096569--1096627	23	2.7	21	76	23	59	52	0	1	45	1.10
1096640--1096677	18	2.1	18	90	0	58	63	0	2	34	1.09
1099578--1099621	17	2.6	18	82	13	58	50	0	0	50	1.00
1099582--1099624	16	2.6	17	81	3	52	48	0	0	51	1.00
1099623--1099651	11	2.5	12	94	5	51	72	0	0	27	0.85
1100152--1100198	2	24.0	2	91	4	78	51	2	0	46	1.13
1100989--1101019	16	1.9	16	93	0	53	58	0	0	41	0.98
1101424--1101488	27	2.4	27	87	5	87	53	0	0	46	1.00
1104481--1104553	34	2.1	35	84	2	94	39	0	4	56	1.19
1104481--1104547	32	2.0	35	82	8	86	38	0	4	56	1.19
1106513--1106545	16	2.1	16	88	11	50	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1106498--1106566	24	2.8	24	71	28	65	42	1	0	56	1.08
1106629--1106657	15	1.9	15	100	0	58	48	0	3	48	1.18
1106703--1106764	17	3.7	17	72	21	51	38	0	1	59	1.07
1109078--1109124	21	2.3	20	85	7	60	38	2	0	59	1.09
1109548--1109598	23	2.2	23	96	0	93	25	3	11	58	1.50
1109551--1109608	23	2.6	22	89	7	91	25	5	12	56	1.56
1110150--1110202	19	2.7	20	82	11	65	62	0	3	33	1.13
1110132--1110310	33	5.3	33	67	19	84	60	0	1	38	1.04
1110206--1110250	18	2.7	16	80	10	54	51	0	0	48	1.00
1110211--1110247	18	2.1	18	94	0	65	45	0	0	54	1.00
1110233--1110308	11	6.7	11	73	10	55	60	0	0	39	0.97
1110191--1110306	44	2.7	44	75	12	123	57	0	0	42	0.98
1110191--1110307	45	2.6	46	79	11	120	58	0	0	41	0.98
1110252--1110300	19	2.7	20	78	15	52	61	0	0	38	0.96
1114692--1114755	30	2.2	29	85	2	83	51	0	1	46	1.10
1115023--1115068	20	2.4	19	85	3	65	60	0	0	39	0.97
1115016--1115057	20	2.2	19	86	4	57	61	0	0	38	0.96
1115375--1115429	27	2.0	28	82	3	67	43	0	0	56	0.99
1116194--1116253	25	2.4	25	81	10	61	45	0	0	55	0.99
1117937--1118024	6	14.3	6	73	19	67	47	4	0	47	1.22
1117997--1118069	28	2.6	29	77	4	85	56	1	0	42	1.08
1118056--1118124	29	2.2	32	87	12	99	49	0	4	46	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118267--1118294	2	14.0	2	100	0	56	50	0	0	50	1.00
1118530--1118578	22	2.1	24	82	14	59	48	0	4	46	1.20
1118570--1118625	25	2.4	23	88	8	78	51	0	0	48	1.00
1118575--1118653	37	2.2	35	86	8	106	50	0	0	49	1.00
1118571--1118627	23	2.4	24	80	11	73	50	0	0	49	1.00
1119136--1119265	8	15.8	8	73	13	52	43	0	0	55	1.05
1119136--1119198	9	7.0	9	79	12	58	39	0	0	60	0.97
1119224--1119282	24	2.4	25	80	13	68	42	0	0	57	0.98
1119193--1119279	30	3.1	30	70	18	78	44	0	1	54	1.07
1119565--1119641	26	2.9	26	77	14	77	54	1	1	42	1.16
1119800--1119859	25	2.3	27	82	5	70	56	0	0	43	0.99
1119815--1119858	15	2.7	17	83	16	58	52	0	0	47	1.00
1119815--1119864	16	3.2	15	79	20	50	54	0	0	46	1.00
1119815--1119864	17	3.2	15	75	25	50	54	0	0	46	1.00
1120114--1120183	26	2.7	24	76	12	59	62	5	0	31	1.18
1120144--1120226	22	3.6	22	73	10	69	55	1	0	43	1.07
1120511--1120572	26	2.4	27	76	15	69	37	0	3	59	1.13
1120713--1120755	17	2.4	18	84	3	52	39	0	2	58	1.11
1121762--1121925	18	9.4	18	70	19	91	37	0	0	61	1.01
1121763--1121954	28	6.6	29	71	18	107	38	0	0	60	1.05
1121759--1121811	23	2.5	21	81	9	63	37	0	0	62	0.96
1121788--1121881	35	2.7	36	79	12	106	40	1	0	58	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121892--1121956	12	5.5	12	73	10	62	38	0	1	60	1.07
1121890--1121953	24	2.7	24	80	7	78	40	0	1	57	1.08
1122552--1122656	19	5.5	21	68	25	63	40	0	0	59	0.98
1122554--1122626	35	2.1	36	85	12	98	43	0	0	56	0.99
1122621--1122658	20	1.9	19	89	5	58	34	0	0	65	0.93
1123427--1123490	3	20.7	3	90	6	101	29	3	0	67	1.06
1125682--1125712	16	1.9	16	93	0	53	48	0	0	51	1.00
1125953--1125988	2	18.0	2	100	0	72	50	0	0	50	1.00
1126635--1126710	2	38.5	2	86	2	109	44	0	5	50	1.24
1128767--1128809	21	2.0	21	90	0	68	65	6	13	13	1.46
1132298--1132362	26	2.5	26	78	14	64	46	0	0	53	1.00
1132264--1132352	21	4.4	21	67	23	57	42	0	0	57	0.98
1132690--1132756	31	2.2	31	77	17	77	62	0	0	37	0.95
1132681--1132757	15	5.0	15	77	13	77	62	0	0	37	0.96
1132926--1132963	10	3.8	10	86	10	51	28	0	7	63	1.23
1132997--1133037	20	2.1	20	90	4	66	43	0	0	56	0.99
1133205--1133241	17	2.2	17	90	9	58	56	0	0	43	0.99
1134328--1134362	18	1.9	18	88	0	52	42	0	0	57	0.99
1134311--1134397	14	5.7	15	73	18	65	41	0	0	58	0.98
1134318--1134373	16	3.2	19	73	21	59	41	0	0	58	0.98
1134315--1134410	15	5.6	17	70	21	58	39	0	0	60	0.97
1134346--1134452	29	3.7	29	75	17	89	41	0	0	57	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134346--1134453	14	7.4	14	75	21	66	41	0	0	57	1.05
1134432--1134498	23	2.9	23	80	4	73	47	0	2	49	1.16
1134482--1134527	17	2.6	18	86	13	60	34	0	8	56	1.30
1135909--1135939	3	10.3	3	92	0	53	35	3	0	61	1.12
1136067--1136147	17	4.5	18	76	14	60	66	1	1	30	1.07
1137787--1137836	23	2.2	23	82	7	57	54	4	4	38	1.38
1141748--1141797	22	2.3	23	82	6	59	10	2	26	62	1.38
1144260--1144324	15	4.3	14	72	22	51	53	0	0	46	1.00
1144253--1144311	17	3.5	18	70	23	56	55	0	0	44	0.99
1145937--1145993	16	3.3	17	72	20	55	40	1	5	52	1.34

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19