genome.fa.s20.2.7.7.80.10.50.1000.8.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  8  of  25  ( 2919 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)
1086413--1086761	101	3.6	98	77	9	293	36	11	28	22	1.89
1086505--1086761	101	2.6	101	81	6	308	36	11	29	22	1.89
1086987--1087028	21	2.0	22	90	4	68	35	16	7	40	1.76
1092533--1092557	13	1.9	13	100	0	50	36	16	16	32	1.90
1092512--1092579	33	2.1	31	86	10	93	30	13	16	39	1.86
1092546--1092617	19	3.7	19	86	1	99	30	15	18	36	1.91
1092663--1092692	13	2.3	13	94	0	51	33	13	13	40	1.83
1092646--1092714	33	2.1	32	84	10	86	30	13	17	39	1.87
1095054--1095079	13	2.0	13	100	0	52	38	15	15	30	1.88
1108863--1108909	10	4.5	10	82	15	51	85	8	4	2	0.81
1108865--1108910	20	2.3	21	81	11	60	82	8	6	2	0.91
1108875--1108908	17	1.9	18	94	5	61	88	8	0	2	0.62
1109889--1109969	37	2.2	37	88	0	117	28	18	11	41	1.84
1113816--1113941	52	2.4	52	95	0	225	26	19	18	35	1.94
1113950--1113974	13	1.9	13	100	0	50	36	16	16	32	1.90
1116840--1116906	34	2.0	33	88	8	100	29	19	16	34	1.94
1116939--1116998	20	3.0	20	82	7	86	35	18	15	31	1.91
1116939--1116994	19	2.8	20	91	2	87	35	17	16	30	1.92
1125729--1125781	20	2.7	20	85	2	72	33	18	15	32	1.92
1125770--1125794	13	1.9	13	100	0	50	32	16	16	36	1.90
1125750--1125815	32	2.0	32	85	2	87	37	15	15	31	1.88
1132160--1132232	20	3.7	19	81	7	67	31	13	16	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132277--1132307	13	2.4	13	94	0	53	35	16	12	35	1.87
1132261--1132327	33	2.0	33	88	5	100	32	13	17	35	1.89
1132293--1132347	20	2.8	20	100	0	110	34	10	18	36	1.86
1132575--1132753	28	6.4	28	80	7	177	34	28	17	19	1.94
1132816--1132976	49	3.2	49	76	8	162	24	24	16	35	1.95
1132835--1133006	49	3.4	49	79	4	182	27	23	15	33	1.95
1132816--1133004	101	1.9	101	84	0	252	26	23	15	34	1.95
1132816--1133159	52	6.8	50	74	7	212	26	23	15	34	1.94
1136342--1136493	69	2.2	69	88	3	227	38	11	21	28	1.89
1138790--1138886	16	5.6	17	74	17	69	22	1	3	73	1.04
1143665--1143690	13	2.0	13	100	0	52	30	15	15	38	1.88
1144388--1144431	21	2.1	21	83	8	54	25	31	4	38	1.76
1146053--1146092	22	1.9	21	90	10	64	52	5	12	30	1.60
1148317--1148347	15	2.1	15	93	0	53	12	22	16	48	1.80
1152415--1152440	13	2.0	13	100	0	52	30	15	15	38	1.88
1153505--1153583	20	3.7	20	70	15	68	26	13	16	43	1.86
1153570--1153594	13	1.9	13	100	0	50	32	16	16	36	1.90
1156153--1156178	13	2.0	13	100	0	52	38	15	15	30	1.88
1161692--1161739	23	2.1	23	88	0	69	25	14	18	41	1.88
1162566--1162598	11	3.1	11	86	4	50	42	0	3	54	1.15
1164349--1164388	21	1.9	21	85	10	55	42	0	0	57	0.98
1169242--1169287	3	15.3	3	95	0	83	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1169448--1169492	16	2.9	15	77	9	54	51	0	2	46	1.13
1169779--1169841	31	2.0	32	84	3	83	50	4	9	34	1.56
1170512--1170589	38	2.1	37	80	7	86	66	1	1	30	1.07
1170627--1170681	8	7.1	8	81	8	51	5	10	0	83	0.79
1170939--1171214	153	1.8	151	80	1	327	35	6	8	48	1.60
1171163--1171231	36	1.9	36	82	5	86	39	2	5	52	1.41
1171992--1172030	11	3.5	11	82	0	51	58	2	5	33	1.33
1172069--1172114	20	2.4	20	85	7	60	52	0	0	47	1.00
1172069--1172106	18	2.1	18	85	9	51	47	0	0	52	1.00
1172283--1172322	15	2.5	16	88	8	55	57	0	0	42	0.98
1172283--1172325	16	2.6	17	85	10	63	55	0	0	44	0.99
1172707--1172759	23	2.3	23	75	12	63	64	9	5	20	1.44
1173359--1173403	11	4.3	10	83	10	63	2	13	0	84	0.72
1174391--1174445	22	2.4	23	87	6	76	0	16	1	81	0.77
1174393--1174447	4	14.2	4	79	11	53	0	18	1	80	0.81
1176852--1176900	25	2.0	25	84	4	64	34	0	2	63	1.06
1178362--1178726	79	4.7	78	79	5	353	35	12	23	28	1.91
1185587--1185702	52	2.2	52	82	8	139	37	11	23	27	1.89
1185635--1185943	83	3.8	78	76	10	284	33	12	27	25	1.93
1185875--1185994	51	2.3	52	84	4	152	38	8	25	28	1.84
1185796--1186074	132	2.1	130	82	7	334	35	11	25	28	1.90
1185964--1186310	80	4.3	80	75	10	298	34	10	26	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1188800--1188847	20	2.3	20	85	3	60	31	16	10	41	1.82
1188988--1189079	19	5.5	18	71	28	87	35	11	17	34	1.87
1188982--1189076	32	3.0	32	96	0	172	33	11	17	36	1.86
1189003--1189057	13	3.8	13	75	25	56	36	14	16	32	1.89
1194480--1194866	79	4.8	78	73	12	289	34	13	24	27	1.93
1194470--1194757	158	1.8	158	80	3	337	35	13	23	26	1.93
1194806--1194917	51	2.2	51	91	0	179	36	12	20	30	1.90
1194854--1195054	79	2.5	79	84	4	237	38	12	19	29	1.88
1196022--1196053	16	2.0	16	100	0	64	25	6	18	50	1.70
1197441--1197496	20	2.8	20	97	0	103	46	16	12	25	1.81
1198205--1199060	61	14.4	61	84	5	957	29	19	25	25	1.99
1198205--1199060	245	3.6	236	83	7	958	29	19	25	25	1.99
1200157--1200232	1	76.0	1	73	0	62	1	2	9	86	0.71
1200169--1200229	5	12.8	5	85	14	76	1	0	11	86	0.63
1200159--1200232	9	7.8	9	89	7	94	1	2	9	86	0.73
1212140--1212922	79	9.9	78	73	10	552	34	14	24	26	1.94
1212140--1212636	158	3.1	157	85	1	629	34	15	23	26	1.95
1212140--1212636	237	2.1	236	84	3	649	34	15	23	26	1.95
1212645--1212745	51	2.0	52	94	2	177	38	7	20	32	1.82
1212645--1212760	51	2.3	51	89	3	171	35	8	23	32	1.85
1215211--1215260	20	2.5	20	90	0	82	50	16	8	26	1.72
1216539--1216608	27	2.4	30	81	6	83	60	0	2	37	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216569--1216607	15	2.6	15	87	0	60	64	0	5	30	1.15
1217049--1217077	14	2.0	15	93	6	51	68	0	0	31	0.89
1220332--1220397	31	2.1	31	86	5	89	37	15	10	36	1.82
1222996--1223056	6	10.3	6	78	18	58	34	0	1	63	1.04
1223122--1223149	14	2.0	14	100	0	56	35	0	0	64	0.94
1223672--1223710	2	20.0	2	94	5	71	51	0	0	48	1.00
1224657--1224700	18	2.3	20	81	14	58	75	6	15	2	1.12
1225867--1225904	14	2.8	14	80	4	51	31	5	0	63	1.17
1227034--1227059	12	2.2	12	100	0	52	57	19	7	15	1.62
1227729--1227775	24	1.9	24	83	12	60	55	0	2	42	1.12
1230920--1231187	52	5.0	51	72	11	180	26	15	19	38	1.91
1235877--1236205	49	6.6	49	73	10	195	31	17	26	24	1.97
1235946--1236204	49	5.2	48	76	8	223	30	17	26	24	1.97
1235976--1236214	101	2.4	98	82	3	282	30	16	26	25	1.97
1236132--1236388	87	2.9	87	86	0	343	29	19	24	25	1.98
1236219--1236395	48	3.9	48	75	14	176	32	19	22	25	1.97
1236268--1236345	39	2.0	39	89	0	120	26	21	24	26	1.99
1236467--1236988	27	18.0	27	77	14	463	28	13	35	22	1.92
1236487--1237094	27	20.0	35	78	14	165	30	13	35	21	1.91
1236690--1237145	34	14.7	32	75	15	247	31	14	33	21	1.93
1236663--1236960	61	4.9	60	74	16	281	30	13	34	21	1.92
1236630--1237049	88	4.6	88	81	7	491	29	13	35	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236549--1237049	183	2.8	181	86	5	697	28	13	35	21	1.92
1236960--1237145	69	2.9	65	82	10	195	31	15	32	20	1.93
1237030--1237213	30	5.9	30	79	10	165	32	15	29	21	1.95
1237030--1237213	61	2.9	62	83	5	228	32	15	29	21	1.95
1238484--1238533	6	8.7	6	79	12	52	2	0	14	84	0.72
1245516--1245543	13	2.2	13	100	0	56	39	17	14	28	1.89
1245498--1245563	33	2.0	33	85	5	89	40	12	16	30	1.85
1246755--1246802	20	2.3	21	96	3	89	39	12	18	29	1.88
1246861--1246915	20	2.8	20	91	0	92	30	16	10	41	1.83
1249401--1249441	21	2.0	21	90	9	66	41	12	17	29	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25