genome.fa.s168.2.7.7.80.10.50.1000.10.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: Scaffold168
Parameters: 2 7 7 80 10 50 1000
Length:  2098754

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

This is table  10  of  16  ( 1854 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)
1026675--1026753	33	2.4	32	80	4	86	43	1	0	55	1.07
1026650--1026757	27	3.9	27	68	18	78	38	0	0	60	1.03
1032277--1032349	36	2.0	36	100	0	146	21	21	16	39	1.92
1036855--1036896	18	2.4	18	96	4	77	57	4	9	28	1.51
1042229--1042265	17	2.2	17	100	0	74	37	5	16	40	1.71
1048630--1048862	115	2.0	118	81	5	278	47	18	11	23	1.80
1050596--1050690	43	2.2	43	98	0	181	45	4	25	25	1.71
1055685--1055715	15	2.1	15	100	0	62	32	22	25	19	1.97
1055843--1055974	64	2.1	64	94	0	228	26	8	20	44	1.79
1059552--1059602	16	3.2	16	72	16	52	11	31	1	54	1.47
1070105--1070144	16	2.5	16	87	0	62	25	30	5	40	1.77
1072083--1072194	51	2.2	50	85	9	147	48	0	3	47	1.25
1072255--1072311	23	2.4	24	83	16	75	71	0	1	26	0.95
1072235--1072313	15	5.1	15	71	18	63	68	0	2	29	1.03
1072532--1072588	19	3.1	19	72	20	57	54	0	0	45	0.99
1075093--1075133	10	4.2	10	79	14	50	29	0	2	68	1.03
1075095--1075132	19	2.0	20	85	15	53	31	0	2	65	1.06
1075331--1075362	3	10.7	3	100	0	64	34	0	0	65	0.93
1076078--1076116	2	20.0	2	89	5	53	43	0	0	56	0.99
1076616--1076683	30	2.3	29	77	7	73	52	0	0	47	1.00
1076721--1076777	28	2.0	28	82	0	69	59	0	0	40	0.97
1077085--1077111	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078496--1078538	6	7.2	6	82	7	52	65	0	0	34	0.93
1078485--1078538	12	4.5	12	76	21	51	62	0	0	37	0.95
1078500--1078540	13	3.2	13	82	6	57	63	0	0	36	0.95
1080095--1080141	4	11.8	4	95	0	85	48	23	2	25	1.62
1083078--1083120	19	2.3	19	88	8	61	34	0	2	62	1.08
1087454--1087585	43	3.1	43	93	0	210	18	19	18	43	1.89
1090807--1090837	16	1.9	16	93	0	53	67	0	0	32	0.91
1090785--1090839	27	2.0	27	82	6	67	61	0	0	38	0.96
1103388--1103442	27	2.0	28	82	10	69	43	3	0	52	1.18
1103663--1103697	12	2.9	12	88	12	54	31	0	0	68	0.90
1104169--1104271	43	2.4	43	77	12	115	56	0	0	42	1.06
1104360--1104438	29	2.7	29	79	14	90	64	0	1	34	1.02
1104359--1104441	33	2.8	31	84	12	95	65	0	1	33	1.01
1104686--1104739	21	2.6	22	78	21	64	46	0	0	53	1.00
1106901--1106991	16	5.7	16	72	16	57	57	0	1	41	1.06
1107267--1107324	15	3.8	15	76	15	57	50	0	1	48	1.11
1107709--1107733	3	8.3	3	100	0	50	32	0	0	68	0.90
1107891--1107916	2	13.0	2	100	0	52	50	0	0	50	1.00
1108304--1108370	23	3.0	23	81	16	70	59	1	1	37	1.16
1108910--1108960	23	2.3	23	76	6	61	31	0	0	68	0.90
1108910--1108960	11	4.6	11	80	7	59	31	0	0	68	0.90
1109395--1109450	27	2.0	28	86	3	78	51	1	0	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1109757--1109810	18	2.9	18	86	5	63	29	1	0	68	1.00
1110896--1110938	11	3.8	11	81	6	59	34	0	0	65	0.93
1110891--1110939	17	2.8	18	81	6	57	36	0	0	63	0.95
1110891--1110938	23	2.1	23	92	7	80	35	0	0	64	0.94
1110902--1110954	22	2.3	23	87	3	72	39	0	0	60	0.97
1111006--1111081	29	2.6	29	75	12	84	43	0	2	53	1.14
1111007--1111074	14	4.8	13	77	12	64	42	0	2	54	1.15
1111030--1111086	14	4.4	13	81	14	64	49	0	0	50	1.00
1111361--1111412	10	5.8	8	76	24	50	36	0	1	61	1.07
1111361--1111409	20	2.6	19	87	9	73	34	0	2	63	1.06
1111770--1111821	25	2.0	27	85	10	74	46	0	0	53	1.00
1111908--1111945	18	2.2	18	86	9	53	36	7	7	47	1.62
1113341--1113375	2	17.5	2	100	0	70	51	0	0	48	1.00
1113676--1113713	5	7.6	5	93	0	58	52	0	0	47	1.00
1113672--1113713	15	2.8	15	88	0	66	52	0	0	47	1.00
1113672--1113709	20	1.9	20	100	0	76	52	0	0	47	1.00
1113682--1113750	25	2.7	25	75	18	70	50	0	0	49	1.00
1113672--1113752	15	5.3	15	70	11	58	49	0	0	50	1.00
1113744--1113798	18	3.2	18	75	17	62	54	0	0	45	0.99
1113886--1113910	13	1.9	13	100	0	50	56	0	0	44	0.99
1114722--1114819	34	3.1	33	69	24	84	46	1	0	52	1.07
1114761--1114808	16	3.1	16	81	6	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114755--1114816	28	2.3	27	79	17	67	50	0	0	50	1.00
1114755--1114816	26	2.3	27	83	10	74	50	0	0	50	1.00
1114727--1114824	19	4.9	18	71	22	56	45	2	0	52	1.12
1115365--1115425	16	3.9	16	77	14	65	52	0	0	47	1.00
1115368--1115466	42	2.3	40	80	16	112	54	0	0	45	0.99
1115512--1115542	2	15.5	2	100	0	62	51	0	0	48	1.00
1118322--1118366	18	2.5	17	85	7	63	51	0	0	48	1.00
1122126--1122400	151	1.8	150	82	5	358	28	14	18	38	1.90
1124128--1124152	2	12.5	2	100	0	50	48	0	0	52	1.00
1124243--1124349	26	4.0	28	75	18	97	57	0	0	41	1.05
1124261--1124349	26	3.5	27	77	14	100	60	0	0	39	0.97
1124281--1124353	18	3.9	19	76	13	64	63	0	0	36	0.95
1130501--1130570	23	3.0	24	76	21	69	47	0	0	52	1.00
1131094--1131132	20	2.0	20	89	0	60	28	12	28	30	1.93
1133415--1133446	15	2.1	15	94	0	55	40	25	15	18	1.90
1134588--1134627	21	1.9	21	89	0	62	20	30	0	50	1.49
1135882--1135921	20	2.0	20	90	0	62	32	17	22	27	1.96
1138896--1139011	34	3.4	34	71	14	96	48	0	2	48	1.21
1138889--1139012	67	1.9	66	80	9	146	49	0	2	47	1.20
1143492--1143534	2	21.5	2	100	0	86	51	0	0	48	1.00
1143534--1143616	2	41.5	2	100	0	166	50	0	49	0	1.00
1143916--1143971	24	2.4	23	80	11	62	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144174--1144217	21	2.1	21	86	0	61	43	2	0	54	1.12
1144179--1144240	21	3.0	21	78	2	63	54	0	0	45	0.99
1144989--1145058	18	3.9	18	75	21	51	52	2	0	44	1.15
1145016--1145102	33	2.6	34	75	12	90	57	0	2	40	1.11
1145036--1145095	23	2.6	25	79	15	74	58	0	3	38	1.15
1145169--1145209	20	2.0	20	85	0	55	68	2	2	26	1.15
1155462--1155494	3	11.3	3	93	6	59	69	0	0	30	0.88
1155844--1155884	21	2.0	21	85	0	55	73	0	0	26	0.84
1155911--1155960	14	3.3	15	75	16	50	52	0	0	48	1.00
1155918--1155978	17	3.5	17	74	24	56	49	0	0	50	1.00
1155915--1155990	17	4.6	17	73	11	52	44	0	0	55	0.99
1156176--1156262	13	6.5	13	71	20	63	45	1	2	50	1.21
1158017--1158056	18	2.2	19	86	4	55	45	0	0	55	0.99
1158213--1158276	14	4.5	14	78	16	53	51	0	0	48	1.00
1158560--1158596	13	3.0	13	80	15	51	40	0	0	59	0.97
1158560--1158720	76	2.1	75	89	2	243	42	1	4	51	1.29
1158851--1158889	19	2.0	19	85	5	51	46	0	0	53	1.00
1158877--1158926	26	2.0	25	84	4	64	50	2	2	46	1.24
1162561--1162610	2	25.0	2	100	0	100	0	50	0	50	1.00
1167892--1167920	2	14.5	2	100	0	58	51	0	48	0	1.00
1173589--1173646	28	2.0	30	83	6	75	41	0	0	58	0.98
1173583--1173647	34	1.9	34	81	6	78	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173951--1174001	21	2.4	21	80	9	59	52	0	1	45	1.12
1177125--1177185	22	2.8	21	76	20	63	44	0	0	55	0.99
1177152--1177198	14	3.0	15	75	22	51	44	0	0	55	0.99
1177308--1177341	17	1.9	18	88	5	52	41	2	2	52	1.31
1177810--1177893	36	2.3	36	85	4	105	45	3	3	47	1.37
1178072--1178113	2	21.5	2	90	4	68	50	2	47	0	1.14
1186943--1187002	16	3.7	17	81	16	74	46	0	0	53	1.00
1186951--1187034	32	2.9	27	71	23	71	45	0	0	54	0.99
1186957--1187037	16	4.9	16	73	15	60	44	0	0	55	0.99
1186957--1187040	33	2.6	32	86	3	105	44	0	0	55	0.99

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