genome.fa.s22.2.7.7.80.10.50.1000.7.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: Scaffold22
Parameters: 2 7 7 80 10 50 1000
Length:  1926927

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

This is table  7  of  11  ( 1216 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)
1255560--1255663	44	2.4	44	96	0	190	25	27	14	32	1.94
1256446--1256473	8	3.5	8	100	0	56	78	10	0	10	0.96
1256446--1256505	18	3.3	17	73	26	52	71	10	1	16	1.21
1257006--1257178	95	1.8	95	89	0	274	46	16	24	12	1.81
1272827--1272900	21	3.6	21	78	7	89	43	12	16	28	1.83
1277026--1277056	15	2.1	15	93	0	53	48	16	22	12	1.80
1279135--1279173	13	3.0	13	96	0	69	30	17	15	35	1.91
1281014--1281109	48	2.0	48	100	0	192	37	8	29	25	1.85
1281661--1281733	20	3.6	20	77	3	92	35	13	17	32	1.89
1281678--1281754	21	3.7	21	77	6	86	42	11	15	29	1.82
1281661--1281754	41	2.3	41	94	3	163	39	12	17	30	1.87
1281793--1281818	13	2.0	13	100	0	52	38	15	15	30	1.88
1287613--1287682	22	3.2	21	84	11	88	85	10	1	2	0.76
1287613--1287682	21	3.2	20	86	11	86	85	10	1	2	0.76
1287615--1287682	32	2.2	31	87	12	95	85	10	1	2	0.77
1287613--1287673	1	61.0	1	73	0	50	86	8	1	3	0.73
1288697--1288777	37	2.2	37	97	0	153	27	14	13	44	1.83
1289139--1289586	29	15.7	29	75	7	143	33	30	16	20	1.94
1289145--1289586	87	5.1	87	84	3	483	33	30	16	19	1.94
1289145--1289604	28	16.1	27	75	13	327	33	30	16	19	1.94
1289258--1289633	87	4.4	83	81	7	280	32	29	17	20	1.95
1289658--1290014	101	3.5	101	90	0	552	24	26	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1290033--1290326	49	5.9	50	80	6	265	24	25	15	33	1.95
1290032--1290299	101	2.7	100	78	6	290	24	26	14	33	1.94
1289708--1290383	321	2.1	320	87	2	973	23	26	15	34	1.94
1292470--1292997	79	6.8	79	80	5	526	31	14	25	28	1.95
1292470--1292946	78	6.2	77	81	4	466	31	14	25	27	1.95
1292470--1292997	154	3.4	153	84	5	643	31	14	25	28	1.95
1292931--1293099	51	3.3	50	83	1	185	31	13	27	27	1.94
1295398--1295439	20	2.0	21	95	4	77	30	11	23	33	1.91
1295449--1295474	13	2.0	13	100	0	52	38	15	15	30	1.88
1295463--1295502	21	1.9	21	100	0	80	22	20	10	47	1.79
1295519--1295587	32	2.2	32	86	5	104	34	14	14	36	1.87
1296432--1296775	55	5.8	59	86	7	429	25	20	27	25	1.99
1296424--1296802	172	2.2	173	84	8	520	26	20	27	25	1.99
1303654--1303764	51	2.2	51	93	0	186	31	17	24	27	1.97
1303747--1303820	28	2.6	29	91	6	125	24	20	32	22	1.98
1303696--1304011	107	3.0	107	86	4	415	30	14	28	26	1.95
1303854--1303924	25	2.6	27	86	10	101	25	18	32	23	1.97
1303858--1303924	29	2.5	25	88	9	89	26	17	29	25	1.98
1303881--1304286	76	5.2	76	80	5	404	31	13	27	27	1.94
1303882--1304286	155	2.6	154	83	2	533	31	13	27	27	1.94
1304222--1304342	51	2.4	51	88	2	181	31	12	25	30	1.92
1304222--1304365	51	2.8	50	79	8	155	33	11	25	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306683--1306724	20	2.0	20	86	4	57	30	11	23	33	1.91
1306767--1306808	21	2.0	21	95	0	75	26	19	9	45	1.80
1306832--1306893	19	3.2	19	76	13	63	30	14	14	40	1.86
1309517--1309649	69	1.9	70	90	1	214	38	8	21	31	1.83
1312630--1312655	13	2.0	13	100	0	52	30	15	15	38	1.88
1312610--1312673	33	2.0	32	87	9	94	28	14	17	40	1.88
1317168--1317193	13	2.0	13	100	0	52	30	15	15	38	1.88
1319266--1319308	20	2.1	20	82	4	50	11	30	41	16	1.83
1319749--1319787	13	3.0	13	96	0	69	35	15	17	30	1.91
1319773--1319851	20	3.7	20	76	15	77	44	15	13	26	1.84
1321857--1321887	15	2.1	15	93	0	53	12	22	16	48	1.80
1325939--1325964	13	2.0	13	100	0	52	30	15	15	38	1.88
1331325--1331420	19	5.8	17	71	28	82	33	13	17	35	1.89
1331326--1331422	32	3.0	32	96	0	176	34	13	17	35	1.89
1331346--1331401	13	3.8	13	75	24	58	35	14	17	32	1.90
1331464--1331488	13	1.9	13	100	0	50	32	16	16	36	1.90
1334695--1334720	13	2.0	13	100	0	52	30	15	15	38	1.88
1334675--1334738	33	2.0	32	90	3	101	26	14	20	39	1.90
1334780--1334830	21	2.5	21	81	9	61	27	15	17	39	1.90
1334841--1334879	20	2.0	19	95	5	69	30	10	23	35	1.88
1340766--1340810	23	1.9	23	86	4	63	40	11	8	40	1.72
1341630--1341682	20	2.5	20	87	6	70	41	11	15	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349076--1351800	42	64.5	42	69	11	666	19	27	16	36	1.93
1349091--1351699	127	20.6	126	71	7	836	19	27	17	36	1.94
1349342--1351589	296	7.6	295	73	8	1026	19	27	16	36	1.94
1350765--1351150	169	2.3	170	80	2	402	19	26	16	36	1.94
1349091--1351783	85	31.9	85	73	7	1000	19	27	17	36	1.94
1352613--1352655	14	3.1	14	80	12	52	18	23	6	51	1.70
1352646--1352670	13	1.9	13	100	0	50	16	28	16	40	1.89
1355804--1355864	28	2.2	28	96	0	113	37	13	4	44	1.65
1357387--1357415	13	2.1	14	93	6	51	10	6	13	68	1.37
1361911--1362038	52	2.5	52	96	0	238	26	18	19	35	1.95
1362101--1362196	19	5.7	18	71	28	86	35	17	12	34	1.88
1362096--1362196	32	3.1	32	97	1	184	35	17	11	34	1.87
1362120--1362176	13	3.9	13	76	24	60	33	17	14	35	1.90
1364419--1364512	20	4.7	20	77	5	100	36	15	10	37	1.83
1371012--1371116	52	2.0	52	90	3	167	33	18	12	36	1.88
1373172--1373230	21	2.8	21	86	0	73	61	0	23	15	1.34
1373886--1373950	32	2.0	33	84	3	87	26	18	15	40	1.90
1374002--1374054	20	2.7	19	88	11	72	37	13	18	30	1.89
1374289--1374328	18	2.2	19	86	4	55	30	17	15	37	1.90
1378514--1378558	14	3.1	14	90	6	63	42	6	17	33	1.76
1379306--1379330	13	1.9	13	100	0	50	32	16	16	36	1.90
1379430--1379455	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379442--1379496	20	2.8	20	97	0	101	40	20	10	29	1.86
1379412--1379475	33	2.0	32	90	3	101	39	20	14	26	1.90
1384946--1384983	13	2.9	13	88	0	58	36	15	13	34	1.87
1388538--1388575	19	2.0	20	94	5	69	84	2	7	5	0.86
1388546--1388598	11	4.6	11	79	9	52	83	7	7	1	0.89
1388537--1388583	10	4.8	10	80	19	55	82	2	10	4	0.88
1388546--1388599	24	2.3	23	84	6	65	81	7	9	1	0.94
1389910--1389997	33	2.7	33	89	0	140	20	21	13	44	1.86
1389997--1390346	53	6.6	53	83	5	325	26	34	13	25	1.93
1390001--1390346	79	4.3	78	81	6	347	27	34	13	25	1.93
1390073--1390332	132	2.0	133	88	3	391	28	34	12	25	1.92
1390010--1390346	26	12.7	26	78	7	311	26	34	13	25	1.93
1390315--1390412	33	3.0	33	85	5	135	18	30	11	39	1.86
1390348--1390485	60	2.3	60	77	9	147	21	28	13	36	1.91
1390301--1390472	93	1.8	92	83	9	224	20	29	13	36	1.91
1390612--1390839	52	4.5	52	76	7	159	24	22	19	33	1.97
1390714--1390985	143	1.9	143	83	1	357	25	22	17	34	1.95
1390765--1390933	91	1.9	91	83	2	223	26	23	17	32	1.96
1390847--1391097	52	4.8	52	77	5	231	25	24	14	35	1.94
1390859--1391089	103	2.2	104	84	5	290	24	24	15	35	1.94
1391043--1391196	61	2.5	61	72	10	143	26	25	12	35	1.91
1391890--1391964	20	3.7	20	82	7	96	38	13	12	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391893--1391978	42	2.0	43	88	2	129	38	13	11	36	1.82
1391913--1391978	22	3.0	22	76	10	73	36	15	12	36	1.84
1395416--1395591	68	2.6	67	86	2	219	35	21	11	31	1.89
1395717--1395814	31	3.1	31	74	14	83	31	29	16	22	1.96
1396144--1396255	52	2.2	52	88	3	163	23	22	15	39	1.91
1400347--1401107	52	14.8	53	74	10	262	36	15	23	23	1.94
1400555--1401096	156	3.5	155	81	3	591	37	16	22	23	1.94
1400649--1401147	52	9.6	52	76	4	380	37	16	22	23	1.94
1400347--1401108	104	7.4	103	77	6	607	36	15	23	23	1.94
1401156--1401468	32	9.7	33	74	10	166	18	17	31	31	1.95

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