genome.fa.s8.2.7.7.80.10.50.1000.19.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: NW_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  19  of  19  ( 2280 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)
8635525--8635561	13	2.9	13	84	15	51	78	2	18	0	0.87
8639333--8639376	2	22.0	2	90	0	70	47	2	50	0	1.13
8649075--8649103	10	2.9	10	100	0	58	10	0	10	79	0.94
8651728--8651803	39	2.0	39	82	10	95	31	5	3	59	1.38
8653799--8653887	46	1.9	46	95	0	160	30	11	14	43	1.80
8660323--8660379	25	2.2	26	75	12	64	45	0	1	52	1.11
8663363--8663411	24	2.0	24	100	0	98	14	36	24	24	1.93
8672529--8672572	23	1.9	23	85	0	61	47	4	2	45	1.35
8685354--8685399	21	2.3	22	85	14	64	32	2	0	65	1.05
8700497--8700531	17	1.9	18	88	11	54	34	2	2	60	1.26
8700526--8700569	22	2.0	21	82	4	52	45	2	0	52	1.13
8701158--8701186	14	2.1	14	100	0	58	27	0	6	65	1.18
8703899--8703937	20	2.0	20	85	9	55	61	7	5	25	1.44
8726531--8727456	396	2.3	396	88	1	1331	39	21	14	23	1.90
8729304--8729344	21	1.9	22	85	14	59	48	2	0	48	1.14
8737221--8737305	43	2.0	43	95	0	152	31	22	9	36	1.86
8758021--8758077	29	2.0	29	82	3	71	29	5	0	64	1.15
8768082--8768145	30	2.1	30	88	5	94	53	12	4	29	1.59
8769301--8769328	2	14.0	2	100	0	56	50	0	0	50	1.00
8772699--8772755	19	3.3	17	79	11	62	52	0	0	47	1.00
8772725--8772762	19	2.0	19	89	0	58	57	2	0	39	1.12
8772753--8772786	15	2.3	15	90	10	52	52	5	2	38	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8777954--8778031	31	2.6	29	74	7	84	32	15	12	39	1.85
8778081--8778301	119	1.9	118	81	0	271	30	17	15	36	1.91
8778184--8778535	45	7.8	45	80	2	303	31	18	15	34	1.92
8778184--8778497	90	3.5	89	79	4	344	31	18	14	34	1.92
8778190--8778535	135	2.6	133	79	2	379	31	18	15	35	1.92
8778676--8778737	32	1.9	32	86	0	88	48	9	4	37	1.57
8779399--8779438	19	2.0	19	85	9	53	70	0	5	25	1.08
8779869--8779909	11	3.8	11	87	3	57	58	2	0	39	1.11
8779879--8780323	214	2.1	212	82	8	535	47	4	6	42	1.48
8780451--8780489	21	1.9	20	84	5	51	48	2	2	46	1.29
8780520--8780544	4	6.2	4	100	0	50	76	0	0	24	0.80
8784605--8784641	12	3.1	12	92	0	56	13	32	24	29	1.93
8786587--8786631	23	2.0	24	86	8	67	44	26	8	20	1.80
8788563--8788589	2	13.5	2	100	0	54	48	0	0	51	1.00
8788969--8789033	28	2.3	27	74	7	67	60	3	4	32	1.33
8792634--8792739	42	2.5	42	86	6	135	13	26	12	48	1.77
8792663--8792732	23	3.2	23	64	22	60	14	24	14	47	1.81
8792660--8792742	42	2.0	42	97	0	157	14	24	12	49	1.77
8809504--8809567	25	2.6	24	79	18	62	48	1	4	45	1.32
8817170--8817214	15	2.8	17	74	19	51	42	0	0	57	0.98
8820510--8820553	22	2.0	23	90	4	72	25	9	18	47	1.77
8822989--8823053	32	2.0	32	100	0	130	32	12	12	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8825650--8825852	108	1.9	109	84	3	275	46	5	13	34	1.67
8826902--8826952	22	2.4	22	83	6	70	50	0	0	49	1.00
8826920--8827021	45	2.2	45	84	8	127	50	0	3	46	1.20
8827044--8827176	46	3.0	44	80	2	149	45	2	3	48	1.32
8827098--8827172	22	3.4	21	76	9	69	52	1	4	42	1.28
8827456--8827511	27	2.0	28	86	3	78	35	3	0	60	1.14
8844434--8844464	2	15.5	2	100	0	62	0	48	0	51	1.00
8848272--8848325	25	2.1	26	86	3	74	62	3	0	33	1.12
8848272--8848326	22	2.3	23	84	9	67	61	3	0	34	1.13
8848296--8848336	17	2.3	19	83	12	59	63	0	0	36	0.95
8851711--8851742	17	1.9	17	93	6	57	15	12	0	71	1.14
8856775--8856807	1	33.0	1	93	0	57	0	0	96	3	0.20
8863617--8863667	19	2.6	20	72	12	52	47	5	0	47	1.26
8865607--8865672	21	3.3	20	75	20	68	59	0	1	39	1.07
8865607--8865679	32	2.3	33	81	13	91	58	0	1	39	1.06
8865623--8865680	15	3.7	15	75	20	57	60	0	1	37	1.07
8866809--8867010	101	2.0	101	92	4	334	38	6	8	46	1.61
8873616--8873716	34	3.1	34	71	16	106	38	4	17	38	1.72
8873600--8873708	28	3.7	28	74	13	101	42	5	15	36	1.70
8873709--8873764	25	2.1	25	87	9	76	41	3	8	46	1.52
8880270--8880317	24	2.0	24	83	0	60	8	52	0	39	1.32
8890231--8890261	6	5.2	6	100	0	62	35	32	32	0	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8891088--8891151	28	2.3	28	86	2	85	42	1	9	46	1.45
8891141--8891383	27	8.9	27	78	7	145	35	7	13	43	1.73
8891170--8891500	55	5.9	54	75	11	236	37	7	12	42	1.70
8891205--8891384	82	2.2	83	80	5	204	36	8	13	42	1.74
8891369--8891401	16	2.1	16	100	0	66	33	0	18	48	1.48
8891403--8891527	28	4.6	27	76	11	92	38	6	11	44	1.66
8891462--8891518	28	2.0	28	93	0	96	40	7	10	42	1.66
8891180--8891609	230	1.9	229	82	2	549	36	7	13	43	1.71
8891483--8891585	27	3.8	28	78	7	86	36	5	14	42	1.70
8891529--8891729	111	1.8	111	80	4	244	35	7	12	44	1.70
8891710--8891769	28	2.2	27	85	8	77	43	8	10	38	1.68
8910439--8910472	17	2.1	16	88	5	50	2	29	0	67	1.05
8910743--8910784	21	2.0	21	81	13	50	2	19	9	69	1.28
8926274--8926324	23	2.1	26	82	13	65	33	9	9	47	1.70
8931882--8931954	30	2.5	30	78	12	80	39	0	0	60	0.97
8931860--8931937	21	3.5	22	79	12	79	39	0	0	60	0.97
8932209--8932283	30	2.5	30	88	0	114	54	1	2	41	1.23
8932468--8932510	21	2.0	21	95	0	77	60	6	0	32	1.23
8940954--8940991	2	19.0	2	88	0	58	50	5	0	44	1.24
8947319--8947345	2	13.5	2	100	0	54	51	0	0	48	1.00
8951293--8951335	23	1.9	22	85	4	59	39	2	0	58	1.11
8963649--8963683	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8971041--8971071	2	15.5	2	100	0	62	48	0	0	51	1.00
8983591--8983621	2	15.5	2	100	0	62	51	0	0	48	1.00
9004405--9004429	11	2.3	11	100	0	50	56	0	0	44	0.99
9005887--9005956	23	3.2	22	72	13	63	48	1	1	48	1.19
9026644--9026741	51	1.9	51	97	0	187	30	16	22	30	1.96
9030753--9030779	2	13.5	2	100	0	54	51	0	0	48	1.00
9030779--9030804	2	13.0	2	100	0	52	50	0	50	0	1.00
9041809--9041847	21	1.9	20	89	5	60	71	7	0	20	1.10
9044418--9044501	27	3.1	27	92	1	132	41	3	25	29	1.72
9050292--9050331	18	2.2	19	86	4	55	20	0	2	77	0.88
9050530--9050739	108	1.9	108	88	0	312	46	3	12	37	1.60
9055158--9055424	143	1.9	142	80	2	320	28	15	14	41	1.86
9070938--9070988	26	2.0	26	88	0	75	31	15	9	43	1.80
9072934--9073127	75	2.6	75	92	0	307	28	35	19	15	1.93
9079355--9079389	7	4.9	7	86	6	52	11	2	0	85	0.69
9079354--9079389	15	2.4	15	95	0	63	11	2	0	86	0.68
9094801--9094846	24	1.9	24	82	8	58	17	2	54	26	1.54
9094803--9094850	21	2.3	21	82	7	62	16	2	54	27	1.54
9094863--9094905	18	2.4	18	88	3	61	2	13	30	53	1.53
9094864--9094905	9	4.8	9	82	2	50	2	14	30	52	1.54
9094888--9094921	12	2.6	13	90	9	52	0	17	29	52	1.45
9096321--9096520	83	2.4	83	83	1	240	39	12	11	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9097691--9097716	7	3.7	7	100	0	52	0	73	0	26	0.84
9099233--9099277	23	2.0	22	86	4	63	42	2	13	42	1.56
9102392--9102429	20	2.0	20	89	5	60	57	0	13	28	1.36
9107991--9108111	51	2.4	51	91	0	188	15	9	26	47	1.77
9111813--9111915	31	3.4	30	80	6	120	52	13	7	26	1.67
9111863--9112056	96	2.0	96	91	0	316	53	11	12	22	1.70
9114949--9114983	11	3.2	11	87	0	52	62	2	0	34	1.10
9118826--9118874	2	25.0	2	91	4	82	48	0	0	51	1.00
9132061--9132121	30	2.0	30	83	6	77	60	1	6	31	1.32
9132503--9132539	7	5.3	7	87	12	58	70	0	0	29	0.88

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

The End!