genome.fa.s21.2.7.7.80.10.50.1000.8.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: Scaffold21
Parameters: 2 7 7 80 10 50 1000
Length:  2821038

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

This is table  8  of  15  ( 1753 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)
1076703--1076754	21	2.5	20	73	11	52	50	0	0	50	1.00
1079978--1080053	38	2.0	38	97	0	143	17	23	25	34	1.96
1081591--1081627	2	18.5	2	100	0	74	51	0	48	0	1.00
1082149--1082206	31	1.9	31	82	10	75	32	3	0	63	1.11
1082191--1082252	5	12.6	5	75	17	51	27	1	0	70	0.96
1082156--1082252	48	2.0	48	82	11	119	30	2	0	67	1.03
1082217--1082250	13	2.6	13	85	0	50	29	0	0	70	0.87
1084358--1084400	20	2.3	19	88	8	61	53	0	0	46	1.00
1084368--1084425	20	2.8	20	82	12	57	55	0	0	44	0.99
1085126--1085162	15	2.4	16	82	13	51	37	0	0	62	0.96
1085732--1085777	11	4.0	13	74	25	50	65	0	0	34	0.93
1085743--1085787	18	2.4	18	85	10	56	71	0	0	28	0.87
1085758--1085782	11	2.3	11	100	0	50	72	0	0	28	0.86
1085746--1085794	24	2.0	24	84	7	64	71	2	0	26	0.97
1087572--1087606	16	2.1	18	89	10	56	54	5	8	31	1.54
1089559--1089657	2	48.5	2	89	4	90	38	1	11	49	1.45
1090286--1090358	25	2.9	25	83	6	76	38	2	6	52	1.43
1092510--1092563	21	2.6	20	82	8	72	55	0	0	44	0.99
1092925--1092969	11	4.2	11	82	5	56	55	2	2	40	1.24
1093128--1093187	30	2.0	31	90	3	95	36	0	0	63	0.95
1096565--1096720	80	1.9	81	88	3	235	33	12	19	33	1.90
1097697--1097742	19	2.3	20	85	11	67	30	6	4	58	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101750--1102000	131	1.9	132	94	0	441	38	18	19	23	1.93
1105153--1105208	19	2.8	21	72	22	57	50	0	0	50	1.00
1105321--1105765	224	2.0	224	92	1	750	48	4	5	40	1.47
1106607--1106642	3	12.0	3	93	0	63	30	0	2	66	1.06
1108913--1108964	23	2.3	22	81	15	61	51	1	0	46	1.12
1109730--1109773	21	2.1	21	82	0	52	36	2	0	61	1.09
1110369--1110409	21	2.0	21	85	9	57	39	2	0	58	1.11
1110958--1111013	16	3.4	17	73	14	55	35	0	0	64	0.94
1110949--1111026	33	2.3	36	75	18	87	38	0	0	61	0.96
1113804--1113882	25	3.1	26	74	15	67	55	0	1	43	1.07
1114371--1114400	16	1.9	15	93	6	51	60	3	0	36	1.14
1114367--1114419	18	2.7	19	74	14	54	66	1	1	30	1.13
1118981--1119052	37	1.9	37	94	0	126	47	9	12	30	1.74
1121223--1121252	2	15.5	2	93	6	53	50	0	0	50	1.00
1122356--1122402	8	6.0	8	78	14	53	36	0	2	61	1.08
1122373--1122402	15	1.9	16	93	6	53	40	0	0	60	0.97
1122357--1122431	16	4.9	15	73	15	55	33	0	2	64	1.08
1123469--1123516	21	2.2	22	85	3	62	45	0	0	54	0.99
1124519--1124552	15	2.2	15	89	5	50	55	0	0	44	0.99
1125325--1125352	2	14.0	2	100	0	56	50	0	0	50	1.00
1130771--1130859	44	2.0	44	83	12	112	35	2	0	61	1.08
1131253--1131280	5	5.6	5	100	0	56	21	0	57	21	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1131775--1131810	2	18.0	2	100	0	72	50	0	0	50	1.00
1132272--1132306	2	17.5	2	100	0	70	51	0	0	48	1.00
1137249--1137296	16	3.1	16	74	17	55	52	4	0	43	1.20
1137230--1137296	31	2.1	32	86	8	93	53	4	1	40	1.30
1137240--1137314	19	4.4	17	73	22	59	50	5	0	44	1.24
1151235--1151259	3	8.3	3	100	0	50	32	0	0	68	0.90
1153096--1153136	21	2.0	21	85	4	57	34	0	4	60	1.18
1155076--1155133	29	2.0	29	83	6	73	37	3	0	58	1.15
1155057--1155135	11	7.3	11	74	20	69	36	3	0	59	1.16
1157753--1157805	27	2.0	27	85	7	72	35	3	7	52	1.48
1158273--1158343	32	2.3	31	82	7	90	54	1	1	42	1.17
1158270--1158395	37	3.3	39	77	15	113	53	0	0	44	1.11
1158294--1158380	15	5.7	15	69	17	54	56	0	0	43	0.99
1158294--1158345	24	2.2	22	80	12	59	53	0	0	46	1.00
1158427--1158458	7	4.6	7	100	0	64	12	0	0	87	0.54
1159424--1159468	7	6.3	7	82	14	56	53	0	0	46	1.00
1160032--1160087	24	2.3	25	78	3	60	58	0	3	37	1.15
1160955--1160980	2	13.0	2	100	0	52	50	0	0	50	1.00
1161090--1161165	15	5.4	14	68	23	52	46	0	0	53	1.00
1161113--1161168	7	7.6	7	80	8	58	42	0	0	57	0.99
1161115--1161177	22	2.8	23	77	13	69	41	1	0	57	1.08
1161112--1161178	15	4.5	15	81	3	73	40	1	0	58	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1162748--1162790	22	2.0	21	90	4	68	53	0	2	44	1.13
1163123--1163150	2	14.0	2	100	0	56	50	0	0	50	1.00
1163506--1163547	22	1.9	22	85	0	57	50	0	0	50	1.00
1164307--1164345	21	1.9	21	89	5	62	46	0	2	51	1.14
1165179--1165217	19	1.9	19	85	10	51	41	0	0	58	0.98
1171943--1171975	2	16.5	2	100	0	66	0	0	48	51	1.00
1173045--1173074	15	1.9	16	93	6	53	43	0	0	56	0.99
1173589--1173618	11	2.7	11	100	0	60	63	0	0	36	0.95
1173589--1173645	14	3.8	16	71	15	50	59	1	0	38	1.08
1173594--1173643	19	2.7	20	75	12	52	60	2	0	38	1.09
1173728--1173761	17	2.0	17	88	0	50	55	0	2	41	1.15
1173729--1173801	20	3.7	19	68	25	53	56	0	2	41	1.14
1173779--1173849	16	4.4	17	72	24	55	49	0	1	49	1.09
1173766--1173836	18	4.3	18	68	26	50	52	0	1	46	1.09
1173724--1173849	33	3.7	33	78	9	112	53	0	2	44	1.13
1177205--1177235	2	15.5	2	100	0	62	48	0	0	51	1.00
1180244--1180294	24	2.0	24	85	7	66	58	0	0	41	0.98
1180282--1180319	20	1.9	20	89	10	60	52	0	0	47	1.00
1182253--1182289	17	2.2	17	95	0	65	37	0	0	62	0.96
1183323--1183419	37	2.6	38	81	14	98	34	1	0	64	1.00
1183347--1183391	23	2.0	23	91	8	74	26	0	0	73	0.84
1183353--1183420	12	5.7	12	75	5	57	29	1	0	69	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1183351--1183443	5	18.8	5	71	18	52	35	1	0	63	1.02
1183332--1183445	11	10.5	11	71	21	73	36	0	0	62	1.02
1184698--1184744	24	2.0	24	88	8	71	17	4	10	68	1.35
1187393--1187421	5	5.8	5	100	0	58	20	0	58	20	1.39
1187442--1187508	18	3.6	18	75	15	64	68	0	0	31	0.90
1187442--1187513	27	2.6	28	82	6	83	66	0	0	33	0.92
1187526--1187556	15	2.1	15	94	5	55	64	0	0	35	0.94
1188094--1188127	13	2.6	13	100	0	68	41	0	0	58	0.98
1189560--1189591	3	10.7	3	100	0	64	68	0	0	31	0.90
1197892--1197917	2	13.0	2	100	0	52	50	0	0	50	1.00
1197926--1197972	15	3.1	15	77	22	53	46	0	0	53	1.00
1198100--1198161	29	2.1	29	84	0	79	38	1	3	56	1.25
1198589--1198636	24	2.0	24	91	0	78	64	2	6	27	1.28
1198870--1198907	17	2.1	18	85	9	51	63	2	2	31	1.22
1198907--1198943	2	18.5	2	88	0	56	48	2	2	45	1.30
1198943--1198967	2	12.5	2	100	0	50	52	0	48	0	1.00
1203912--1203971	18	3.3	19	77	17	65	41	0	0	58	0.98
1203926--1203986	17	3.7	16	77	16	54	44	0	0	55	0.99
1204127--1204170	18	2.2	21	88	11	67	52	0	2	45	1.13
1204573--1204613	12	3.2	13	78	21	50	48	0	0	51	1.00
1204564--1204613	21	2.3	21	83	16	66	50	0	0	50	1.00
1211293--1211324	2	16.0	2	100	0	64	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)
1211896--1211992	17	5.7	16	73	15	70	43	1	3	52	1.23
1211913--1212002	38	2.4	37	86	1	117	45	2	1	51	1.21
1211947--1212031	13	6.5	13	75	17	70	49	3	0	47	1.18
1211947--1212035	27	3.5	26	81	13	87	49	4	0	46	1.22
1222940--1222972	3	10.7	3	93	6	57	30	0	0	69	0.88
1228527--1228559	3	11.0	3	100	0	66	33	0	0	66	0.92
1229129--1229176	2	24.0	2	95	0	87	47	0	2	50	1.12
1231721--1231759	2	19.5	2	100	0	78	48	0	0	51	1.00
1232248--1232337	42	2.2	39	80	9	92	52	1	1	45	1.15
1234204--1234240	2	19.0	2	88	5	58	45	0	2	51	1.15

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