genome.fa.s9.2.7.7.80.10.50.1000.19.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

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

This is table  19  of  20  ( 2302 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)
8158465--8158493	14	2.1	14	100	0	58	37	6	27	27	1.82
8168117--8168393	149	1.9	149	89	0	428	28	12	21	37	1.89
8173567--8173608	15	2.9	15	82	13	52	4	2	7	85	0.80
8181368--8181807	221	2.0	220	97	0	828	36	16	16	30	1.91
8196916--8196966	26	2.0	26	92	0	84	23	13	19	43	1.87
8201565--8201600	2	18.0	2	100	0	72	50	0	0	50	1.00
8206530--8206603	31	2.6	29	82	16	91	44	4	20	31	1.70
8207076--8207115	19	2.1	19	95	0	71	37	22	17	22	1.94
8207897--8207950	24	2.2	24	93	0	99	20	33	20	25	1.97
8217055--8217254	40	5.0	39	76	5	202	22	2	17	58	1.49
8221531--8221575	21	2.2	20	84	4	54	62	8	0	28	1.25
8227148--8227196	21	2.2	22	85	7	64	32	0	4	63	1.13
8227146--8227200	21	2.7	20	81	13	58	34	0	3	61	1.13
8246222--8246258	2	18.5	2	100	0	74	51	0	0	48	1.00
8246384--8246427	23	1.9	22	82	17	54	63	0	2	34	1.07
8246445--8246488	14	3.2	13	81	9	52	38	0	0	61	0.96
8275096--8275134	3	13.0	3	88	0	60	2	2	64	30	1.21
8285603--8285677	39	1.9	39	91	0	123	30	18	22	28	1.97
8286506--8286533	12	2.3	12	100	0	56	39	0	53	7	1.28
8286596--8286748	69	2.2	69	97	2	292	41	5	36	16	1.71
8286842--8286904	31	2.0	31	85	11	85	38	1	3	57	1.24
8287915--8288209	118	2.5	118	80	4	333	44	11	7	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8304399--8304447	15	3.3	15	79	0	62	59	0	34	6	1.22
8315172--8315209	20	2.0	18	90	10	58	44	0	0	55	0.99
8315514--8315552	19	2.1	18	85	4	51	38	0	0	61	0.96
8316848--8316946	45	2.2	45	94	0	171	13	45	19	22	1.84
8318225--8318282	23	2.4	24	77	11	64	41	3	0	55	1.17
8319062--8319094	13	2.5	13	85	14	50	84	3	12	0	0.72
8331008--8331060	21	2.5	20	76	11	52	35	0	5	58	1.22
8331700--8331749	16	2.9	17	76	8	57	34	4	0	62	1.14
8331700--8331756	16	3.7	15	77	9	53	36	3	0	59	1.14
8345677--8345707	16	1.9	16	100	0	62	32	0	25	41	1.56
8352551--8352626	38	2.0	38	84	0	98	21	15	15	47	1.82
8352566--8352750	98	1.9	98	86	4	266	25	11	12	49	1.75
8353043--8353257	107	2.0	107	85	3	290	43	13	18	24	1.86
8354008--8354243	116	2.0	118	91	4	388	28	15	17	38	1.90
8354033--8354271	116	2.1	117	81	7	272	33	13	17	34	1.90
8357800--8357837	2	19.0	2	88	0	58	44	0	55	0	0.99
8364934--8365015	24	3.4	23	74	12	76	20	20	31	26	1.98
8364934--8365029	48	2.0	48	91	0	156	20	18	32	28	1.97
8365415--8365513	48	2.1	48	82	1	119	31	10	9	49	1.68
8367153--8367204	21	2.6	19	77	22	54	21	3	3	71	1.18
8367018--8367240	118	1.9	119	83	8	292	40	5	13	40	1.68
8368866--8369181	106	3.0	106	89	2	483	32	14	23	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8369246--8369310	32	2.0	32	90	0	103	43	6	16	33	1.73
8379567--8379596	8	3.8	8	100	0	60	90	10	0	0	0.47
8380194--8380222	2	14.5	2	100	0	58	48	0	0	51	1.00
8392073--8392271	102	2.0	102	92	2	337	37	20	14	28	1.91
8392962--8392986	3	8.3	3	100	0	50	0	32	68	0	0.90
8393461--8393486	2	13.0	2	100	0	52	50	0	0	50	1.00
8404605--8404957	193	1.8	189	88	3	537	31	24	19	24	1.98
8407176--8407593	194	2.2	194	91	1	660	31	25	20	22	1.98
8408046--8408133	41	2.1	41	89	2	131	32	14	7	44	1.75
8408328--8408379	25	2.1	25	96	0	95	51	3	0	44	1.19
8408333--8408388	25	2.2	25	87	3	76	53	3	1	41	1.29
8409713--8409762	16	3.1	17	75	24	63	0	40	0	60	0.97
8409701--8409766	30	2.2	31	81	10	75	1	39	0	59	1.07
8409714--8409771	12	4.6	13	79	12	59	0	36	0	63	0.94
8409712--8409768	30	1.9	30	92	7	98	0	36	0	63	0.95
8423757--8423794	20	1.9	20	88	0	58	2	26	2	68	1.16
8423752--8423801	20	2.5	20	76	3	55	2	30	2	66	1.14
8423888--8423912	2	12.5	2	100	0	50	48	0	0	52	1.00
8430610--8430655	23	2.0	23	82	0	56	65	4	10	19	1.41
8430729--8430763	12	3.0	12	87	8	54	37	0	0	62	0.95
8430730--8430763	11	2.9	12	86	8	52	38	0	0	61	0.96
8442998--8443043	24	2.0	23	88	12	69	45	26	10	17	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8445405--8445438	17	1.9	18	88	5	52	61	20	0	17	1.34
8446245--8446288	22	2.1	20	83	8	52	40	0	4	54	1.21
8449854--8449879	12	2.2	12	100	0	52	7	15	26	50	1.71
8458980--8459004	2	12.5	2	100	0	50	48	0	0	52	1.00
8462582--8462622	22	1.9	21	85	5	55	14	4	24	56	1.58
8477283--8477314	2	16.0	2	100	0	64	50	0	0	50	1.00
8484628--8484672	22	2.0	22	83	8	56	8	2	31	57	1.41
8493129--8493220	46	2.0	46	97	0	175	25	8	29	36	1.86
8499331--8499369	13	3.0	13	96	0	69	30	23	12	33	1.92
8515235--8515264	1	30.0	1	100	0	60	0	100	0	0	0.00
8542274--8542309	9	4.0	9	85	0	54	83	0	0	16	0.65
8568392--8568421	12	2.5	12	94	0	51	26	36	0	36	1.57
8569149--8569370	73	3.0	73	88	0	354	47	22	9	20	1.79
8570251--8570310	26	2.4	24	91	8	93	46	0	3	50	1.18
8575096--8575272	57	3.1	57	79	8	189	42	11	7	38	1.70
8575118--8575272	58	2.7	57	84	1	193	45	9	7	38	1.63
8582816--8582895	30	2.7	30	90	0	124	25	10	40	25	1.86
8587700--8587740	2	20.5	2	89	0	64	53	0	0	46	1.00
8590017--8590056	21	1.9	21	90	10	64	57	0	12	30	1.36
8594303--8594341	14	2.8	13	85	11	51	20	0	0	79	0.73
8594725--8594803	29	2.8	29	81	11	83	63	3	0	32	1.12
8594725--8594796	28	2.6	28	80	8	76	63	4	0	31	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8594886--8594944	23	2.7	22	74	7	66	52	0	0	47	1.00
8595133--8595161	3	9.7	3	100	0	58	65	0	0	34	0.93
8598090--8598460	146	2.5	147	83	7	471	32	19	20	27	1.97
8619654--8619751	48	2.0	48	94	0	169	32	29	11	26	1.91
8629295--8629322	4	7.0	4	100	0	56	0	25	0	75	0.81
8635654--8635705	22	2.3	22	83	12	61	46	0	3	50	1.20
8648626--8648657	16	2.0	16	93	0	55	25	15	18	40	1.90
8656461--8656489	15	1.9	15	100	0	58	41	10	27	20	1.85
8670869--8670906	12	3.2	12	92	0	58	60	0	34	5	1.19
8674189--8674238	12	4.2	12	85	7	57	66	0	30	4	1.10
8682688--8682730	22	2.0	22	95	0	77	32	25	9	32	1.88
8690874--8690911	4	9.5	4	100	0	76	26	0	23	50	1.50
8695020--8695086	30	2.2	31	94	2	118	46	5	4	43	1.48
8718241--8718285	18	2.5	18	85	0	63	42	6	11	40	1.67
8720184--8720304	59	2.1	59	93	0	206	23	30	18	28	1.97
8724625--8725895	586	2.2	587	79	11	1464	36	14	14	35	1.86
8732326--8732373	2	24.0	2	100	0	96	50	0	0	50	1.00
8745464--8745509	18	2.6	17	78	21	51	71	6	6	15	1.27
8745517--8745548	2	16.0	2	100	0	64	50	0	0	50	1.00
8763948--8763993	2	24.5	2	87	12	71	52	0	47	0	1.00
8765031--8765085	17	3.1	17	78	19	58	76	3	1	18	1.02
8778436--8778470	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8784856--8784902	24	2.0	24	83	8	60	44	6	8	40	1.60
8816336--8816361	6	4.3	6	100	0	52	46	53	0	0	1.00
8824225--8824268	2	22.0	2	90	0	61	43	6	0	50	1.29
8825205--8825257	9	5.6	9	75	20	54	50	11	7	30	1.65
8832523--8832558	18	2.1	18	89	5	56	5	44	50	0	1.25
8832607--8832650	18	2.6	17	86	10	63	0	56	43	0	0.99
8832607--8832687	36	2.4	34	78	15	87	1	55	41	1	1.15
8835340--8835373	17	2.1	16	94	5	59	64	0	0	35	0.94
8849774--8849809	18	2.0	18	89	10	56	69	0	25	5	1.10
8852044--8852241	98	2.0	98	95	1	353	42	17	16	23	1.88

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