Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002959.1 Hibiscus syriacus cultivar Beakdansim tig00006115_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 74240
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:7368 original size:17 final size:19
Alignment explanation
Indices: 7332--7369 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
7322 TACTTGTAAA
*
7332 AAAACAATTTTCGTACAAG
1 AAAACAATTTCCGTACAAG
7351 AAAACAA-TTCCG-ACAAG
1 AAAACAATTTCCGTACAAG
7368 AA
1 AA
7370 GTAGCAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAACAATTTCCGTACAAG
Found at i:13915 original size:36 final size:36
Alignment explanation
Indices: 13868--13937 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
13858 TCAGACACCA
13868 ATATGAATCACTAACCAAAATGCAGAAAACACTTAC
1 ATATGAATCACTAACCAAAATGCAGAAAACACTTAC
13904 ATATGAATCACTAACCAAAATGCAGAAAACACTT
1 ATATGAATCACTAACCAAAATGCAGAAAACACTT
13938 GGAAATGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.21, G:0.09, T:0.20
Consensus pattern (36 bp):
ATATGAATCACTAACCAAAATGCAGAAAACACTTAC
Found at i:13946 original size:36 final size:36
Alignment explanation
Indices: 13870--13946 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
13860 AGACACCAAT
*
13870 ATGAATCACTAACCAAAATGCAGAAAACACTTACAT
1 ATGAATCACTAACCAAAATGCAGAAAACACTTACAA
**
13906 ATGAATCACTAACCAAAATGCAGAAAACACTTGGAA
1 ATGAATCACTAACCAAAATGCAGAAAACACTTACAA
13942 ATGAA
1 ATGAA
13947 GAGAGAAGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.51, C:0.19, G:0.12, T:0.18
Consensus pattern (36 bp):
ATGAATCACTAACCAAAATGCAGAAAACACTTACAA
Found at i:15760 original size:23 final size:23
Alignment explanation
Indices: 15734--15813 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
15724 TGAATATATT
15734 AATATTTTAAATAATTAAAATAA
1 AATATTTTAAATAATTAAAATAA
*
15757 AATATTTTTAATAATT-AAATAA
1 AATATTTTAAATAATTAAAATAA
** *
15779 TGTATTTT-AATATTATAAAGATAA
1 AATATTTTAAATAAT-TAAA-ATAA
15803 AA-ATCTTTAAA
1 AATAT-TTTAAA
15814 ATCTTAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.11
22 13 0.28
23 19 0.41
24 7 0.15
25 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (23 bp):
AATATTTTAAATAATTAAAATAA
Found at i:15797 original size:22 final size:22
Alignment explanation
Indices: 15734--15797 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
15724 TGAATATATT
15734 AATATTTTAAATAATTA-AAATAA
1 AATATTTT-AAT-ATTATAAATAA
*
15757 AATATTTTTAATAAT-TAAATAA
1 AATA-TTTTAATATTATAAATAA
**
15779 TGTATTTTAATATTATAAA
1 AATATTTTAATATTATAAA
15798 GATAAAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 9 0.26
22 14 0.41
23 7 0.21
24 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
AATATTTTAATATTATAAATAA
Found at i:16105 original size:44 final size:43
Alignment explanation
Indices: 16016--16131 Score: 157
Period size: 42 Copynumber: 2.7 Consensus size: 43
16006 AAATATATCG
* *
16016 ATATTTGAAATAATTAAAATAATATA-TTTATAATTATTTATT
1 ATATTTTAAATAATTAAAATAATATATTTTATAATTATTTACT
*
16058 ATATTTTAAATTATTAAAAATAATATATTTTAT-ATTAATTTACT
1 ATATTTTAAATAATT-AAAATAATATATTTTATAATT-ATTTACT
*
16102 ATATTTTTAATAATT-AAATAATATATTTTA
1 ATATTTTAAATAATTAAAATAATATATTTTA
16132 ACACTATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
42 28 0.42
43 14 0.21
44 24 0.36
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (43 bp):
ATATTTTAAATAATTAAAATAATATATTTTATAATTATTTACT
Found at i:17407 original size:74 final size:74
Alignment explanation
Indices: 17286--17436 Score: 248
Period size: 74 Copynumber: 2.0 Consensus size: 74
17276 AATACTTTAC
* * * *
17286 ATGTGATTACACAGAGAAAATCGAGATTCAGCCAGATTTGTTATATGAAGATAAACCATCAAATA
1 ATGTGATTACACAGAGAAAATCGAGATTCAACCAGATTTGTTATATGAAGAGAAACCAGCAAAGA
17351 TTTTAGTGT
66 TTTTAGTGT
* *
17360 ATGTGATTACACAGAGAAAATCGAGATTCAATCATATTTGTTATATGAAGAGAAACCAGCAAAGA
1 ATGTGATTACACAGAGAAAATCGAGATTCAACCAGATTTGTTATATGAAGAGAAACCAGCAAAGA
17425 TTTTAGTGT
66 TTTTAGTGT
17434 ATG
1 ATG
17437 GAGACAAAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (74 bp):
ATGTGATTACACAGAGAAAATCGAGATTCAACCAGATTTGTTATATGAAGAGAAACCAGCAAAGA
TTTTAGTGT
Found at i:21509 original size:451 final size:450
Alignment explanation
Indices: 20668--21516 Score: 1297
Period size: 451 Copynumber: 1.9 Consensus size: 450
20658 AAACTCACAT
* * * *
20668 ATTGTTGGGTTATGGGATCCATCAATCACCTTTAGGGATTCTATCGTGTATGGGTGCGATATCAG
1 ATTGTTGGGTTATGGGATCCAGCAATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAA
* * ** * * *
20733 GTGCTTTACATCCCAATTTGACGAGGCCCACGTGTGCCTTGCGAAGTCCATAGGCCAACCCGCAT
66 GTGCTTAACAACCCAACCTAACGAGGCCCACGTGTGCCTTGCGAAGCCCATAGGCCAACCCGCAA
* * ** *
20798 CACGCTATAGATGCGAGGCTCTGCAATGTCGTGGTGAACTATGGGGGTGTTCTACAAGAATCCAC
131 CACGCTATAGATGCGAGGCTCTGCAATGTCGTGCTGAACTAGGGGGGTGCCCCACAAGAATCCAC
* * **
20863 CTTGGCTTGAGGGAAACCAGTGATCACCAACTACAAAGATATGATGTTAAAATGACTTACCTACT
196 ATTAGCTTGAGGGAAACCAGTGATCACCAACTACAAAGATATGATGTTAAAATGACCCACCTACT
* * *
20928 AATCACCAATTGGTTTTAAGAAGGAATGGTGATCATTCGCTTCAGAATTCTGTAGTTAAGCGTGC
261 AATCACCAATTGATTTTAAGAAGGAATGGTGACCATTCGCTTCAGAACTCTGTAGTTAAGCGTGC
* * *
20993 TTGAACCAGAGTAATCGAAGGATGGGTGACCCATTGAGAAGTTGTTCGAAAAATGAATGACTCGA
326 TTGAACCAGAGTAATCCAAGGATGGGTGACCCATAGAGAAGTTGTTCGAAAAATAAATGACTCGA
21058 TCCTATCAAGTAGTATCAGAGCAGGTTACAGATTCGAATCCCCAGGTATCGCTGGGGGTG
391 TCCTATCAAGTAGTATCAGAGCAGGTTACAGATTCGAATCCCCAGGTATCGCTGGGGGTG
* *
21118 ATTGTTGGGTTATGGGGTCCAGCGATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAA
1 ATTGTTGGGTTATGGGATCCAGCAATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAA
* *
21183 GTGCTTAACAACCCAACCTAACGAGGCCCACGTGTGCCTTGCGAAGCCCCTAGGCCAGCCCGCAA
66 GTGCTTAACAACCCAACCTAACGAGGCCCACGTGTGCCTTGCGAAGCCCATAGGCCAACCCGCAA
* * *
21248 CACGCTATAGATGCGGGGCTCTGTAATGTCGTGCTGAACTACGGGGGGTGCCCCACAATAATCCA
131 CACGCTATAGATGCGAGGCTCTGCAATGTCGTGCTGAACTA-GGGGGGTGCCCCACAAGAATCCA
* **
21313 CATTAGCTTGGGGGAAACCAGTGATCACCCGCTACAAAGATATGA-GTTTAAAATGACCCACCTA
195 CATTAGCTTGAGGGAAACCAGTGATCACCAACTACAAAGATATGATG-TTAAAATGACCCACCTA
* * *
21377 CTTATTACCAATTGATTTTAAGAAGGAATGGTGACCATTCGCTTTAGAACTCTGTAGTTAAGCGT
259 CTAATCACCAATTGATTTTAAGAAGGAATGGTGACCATTCGCTTCAGAACTCTGTAGTTAAGCGT
*
21442 GCTTGAACCAGAGTAATCCAAGGATGGGTGACCCACTAG-GAAGTTGTTTGAAAAATAAATGACT
324 GCTTGAACCAGAGTAATCCAAGGATGGGTGACCCA-TAGAGAAGTTGTTCGAAAAATAAATGACT
21506 CGATCCTATCA
388 CGATCCTATCA
21517 CATACATTAT
Statistics
Matches: 356, Mismatches: 40, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
450 154 0.43
451 200 0.56
452 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (450 bp):
ATTGTTGGGTTATGGGATCCAGCAATCACCCTTAGGGATTCTATCGTGTATGGGCGCGATATCAA
GTGCTTAACAACCCAACCTAACGAGGCCCACGTGTGCCTTGCGAAGCCCATAGGCCAACCCGCAA
CACGCTATAGATGCGAGGCTCTGCAATGTCGTGCTGAACTAGGGGGGTGCCCCACAAGAATCCAC
ATTAGCTTGAGGGAAACCAGTGATCACCAACTACAAAGATATGATGTTAAAATGACCCACCTACT
AATCACCAATTGATTTTAAGAAGGAATGGTGACCATTCGCTTCAGAACTCTGTAGTTAAGCGTGC
TTGAACCAGAGTAATCCAAGGATGGGTGACCCATAGAGAAGTTGTTCGAAAAATAAATGACTCGA
TCCTATCAAGTAGTATCAGAGCAGGTTACAGATTCGAATCCCCAGGTATCGCTGGGGGTG
Found at i:23970 original size:28 final size:28
Alignment explanation
Indices: 23930--23996 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
23920 GTAGTCATGA
23930 TTCTGATGCTGTAAAAGCATTGACAAAT
1 TTCTGATGCTGTAAAAGCATTGACAAAT
23958 TTCTGATGCTGTAAAAGCATTGACAAAT
1 TTCTGATGCTGTAAAAGCATTGACAAAT
23986 TTCTGATGCTG
1 TTCTGATGCTG
23997 CTATGTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (28 bp):
TTCTGATGCTGTAAAAGCATTGACAAAT
Found at i:39461 original size:70 final size:70
Alignment explanation
Indices: 39348--39488 Score: 273
Period size: 70 Copynumber: 2.0 Consensus size: 70
39338 GAGATTGACT
39348 CGATCAAATATCGATAAATATTCGACTCGCATGTACTCGACTCAAGTTCTTAACGAGCCGAAACG
1 CGATCAAATATCGATAAATATTCGACTCGCATGTACTCGACTCAAGTTCTTAACGAGCCGAAACG
39413 AGCTA
66 AGCTA
*
39418 CGATCAAATATCGATAAATATTCGACTCGCATGTACTCGACTCAAGTTCTTAACGAGCCGAAATG
1 CGATCAAATATCGATAAATATTCGACTCGCATGTACTCGACTCAAGTTCTTAACGAGCCGAAACG
39483 AGCTA
66 AGCTA
39488 C
1 C
39489 TTGATACTCG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (70 bp):
CGATCAAATATCGATAAATATTCGACTCGCATGTACTCGACTCAAGTTCTTAACGAGCCGAAACG
AGCTA
Found at i:41573 original size:21 final size:21
Alignment explanation
Indices: 41547--41588 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
41537 ATATTGCATT
41547 GGCATTGATGAATGTTGATGG
1 GGCATTGATGAATGTTGATGG
41568 GGCATTGATGAATGTTGATGG
1 GGCATTGATGAATGTTGATGG
41589 ACCATTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.38, T:0.33
Consensus pattern (21 bp):
GGCATTGATGAATGTTGATGG
Found at i:41594 original size:21 final size:21
Alignment explanation
Indices: 41549--41596 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
41539 ATTGCATTGG
**
41549 CATTGATGAATGTTGATGGGG
1 CATTGATGAATGTTGATGGAC
41570 CATTGATGAATGTTGATGGAC
1 CATTGATGAATGTTGATGGAC
41591 CATTGA
1 CATTGA
41597 CTAACATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.33
Consensus pattern (21 bp):
CATTGATGAATGTTGATGGAC
Found at i:45955 original size:2 final size:2
Alignment explanation
Indices: 45948--45976 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
45938 ATAAATAAAT
45948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45977 TGAATTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52339 original size:40 final size:39
Alignment explanation
Indices: 52151--52412 Score: 135
Period size: 35 Copynumber: 7.2 Consensus size: 39
52141 TTTTGAAAAC
* ** *
52151 TATAATATATAGTTTT--CAAATTATTTTTTG-AAA-TA
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTA
* ** * *
52186 TATATTATATAGTTTT-TTAAAACGTTTTT-AAAAACTTA
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAA-TTA
*
52224 TATACAATATATAAGTTTT---AAAACA-TTTT-GAAAAGTA
1 TAT--AATATAT-AGTTTTAAAAAAACATTTTTGGAAAATTA
* * *
52261 TATAGTATATAGTTTT--GAAATCA-TTTT-G-AAA--A
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTA
52293 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTTA
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAA-TTA
* *
52333 TATAATATATAGTTGTAAAAAAACA-TTTTGGAACACTTA
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAA-AATTA
* *
52372 TAT-AT-TAT--TTTT--AAAATCATTTTT-GAAAACTA
1 TATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTA
52404 TATAATATA
1 TATAATATA
52413 GTTTTGAAAA
Statistics
Matches: 186, Mismatches: 21, Indels: 41
0.75 0.08 0.17
Matches are distributed among these distances:
32 22 0.12
33 11 0.06
34 20 0.11
35 38 0.20
36 12 0.06
37 11 0.06
38 15 0.08
39 19 0.10
40 32 0.17
41 6 0.03
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (39 bp):
TATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTA
Found at i:52356 original size:109 final size:107
Alignment explanation
Indices: 52141--52432 Score: 287
Period size: 107 Copynumber: 2.7 Consensus size: 107
52131 TTGAAAATAT
* * * **
52141 TTTTGAAAACTATA-ATATATAGTTTTCAAATTATTTTTTGAAATATATATTATATAGTTTTTTA
1 TTTTGAAAACTATATATATATAGTTTTAAAATCA-TTTTTGAAA-ATATAATATATAGTTTTAAA
* *
52205 AAACGTTTTTAAAAACTTATATACAATATATAAGTTTTAAAACA
64 AAACATTTTTAAAAACTTATATACAATATATAAGTTTAAAAACA
* *
52249 TTTTGAAAAGTATATAGTATATAGTTTTGAAATCA-TTTTGAAAATATAATATATAGTTTTAAAA
1 TTTTGAAAACTATATA-TATATAGTTTTAAAATCATTTTTGAAAATATAATATATAGTTTT-AAA
* *
52313 AAACATTTTTGGAAAA-TT-TATATAATATAT-AGTTGTAAAAAAACA
64 AAACATTTTT-AAAAACTTATATACAATATATAAGTT-T--AAAAACA
* * *
52358 TTTTGGAACACT-TATATAT-TATTTTTAAAATCATTTTTGAAAACTAT-ATAATATAGTTTT-G
1 TTTT-GAAAACTATATATATATAGTTTTAAAATCATTTTTGAAAA-TATAAT-ATATAGTTTTAA
*
52419 AAAACGTTTTTAAA
63 AAAACATTTTTAAA
52433 TATAATATAT
Statistics
Matches: 156, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
106 6 0.04
107 50 0.32
108 47 0.30
109 32 0.21
110 21 0.13
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (107 bp):
TTTTGAAAACTATATATATATAGTTTTAAAATCATTTTTGAAAATATAATATATAGTTTTAAAAA
ACATTTTTAAAAACTTATATACAATATATAAGTTTAAAAACA
Found at i:52364 original size:39 final size:40
Alignment explanation
Indices: 52292--52412 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
52282 CATTTTGAAA
* *
52292 ATATAATATATAGTTTTAAAAAAACATTTTTGGAAAATTT
1 ATATAATATATAGTTGTAAAAAAACATTTTTGGAAAACTT
*
52332 ATATAATATATAGTTGTAAAAAAACA-TTTTGGAACACTT
1 ATATAATATATAGTTGTAAAAAAACATTTTTGGAAAACTT
* *
52371 ATAT-AT-TAT--TT-T-TAAAATCATTTTT-GAAAAC-T
1 ATATAATATATAGTTGTAAAAAAACATTTTTGGAAAACTT
52403 ATATAATATA
1 ATATAATATA
52413 GTTTTGAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
32 5 0.07
33 13 0.18
34 7 0.10
35 2 0.03
37 3 0.04
38 2 0.03
39 15 0.21
40 25 0.35
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (40 bp):
ATATAATATATAGTTGTAAAAAAACATTTTTGGAAAACTT
Found at i:52491 original size:17 final size:16
Alignment explanation
Indices: 52471--52502 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
52461 TTAAAACATA
52471 TATATTATTATATAATC
1 TATATTATTAT-TAATC
52488 TATATTATTATTAAT
1 TATATTATTATTAAT
52503 ATTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TATATTATTATTAATC
Found at i:53749 original size:19 final size:18
Alignment explanation
Indices: 53727--53777 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
53717 TTCCTTTATT
53727 TTTTTATTT-TTTATTT-
1 TTTTTATTTATTTATTTA
*
53743 TCATTTTATTTCTTTGATTTA
1 T--TTTTATTTATTT-ATTTA
53764 TTTTTATTTATTTA
1 TTTTTATTTATTTA
53778 CTGATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.03
18 9 0.31
19 14 0.48
20 4 0.14
21 1 0.03
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTTATTTATTTATTTA
Found at i:53785 original size:57 final size:55
Alignment explanation
Indices: 53692--53823 Score: 133
Period size: 57 Copynumber: 2.4 Consensus size: 55
53682 TTCAAAATAA
* ** * * * *
53692 TATTTTTTTGATTTATTTAAATTTTTTCCTTTATTTTTTTATTTTTTATTTTCATTT
1 TATTTCTTTGATTTATTTTTATTTTTTACTTGATTTTTTTAGTCTTTA-TTTC-TTT
53749 TATTTCTTTGATTTATTTTTATTTATTTAC-TGATTTTTTTAGTCTTTATTTCTTT
1 TATTTCTTTGATTTATTTTTATTT-TTTACTTGATTTTTTTAGTCTTTATTTCTTT
* *
53804 T-TTTACCTTGATTCATTTTT
1 TATTT-CTTTGATTTATTTTT
53824 TACTATATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
54 3 0.05
55 17 0.27
56 4 0.06
57 36 0.56
58 4 0.06
ACGTcount: A:0.17, C:0.08, G:0.04, T:0.72
Consensus pattern (55 bp):
TATTTCTTTGATTTATTTTTATTTTTTACTTGATTTTTTTAGTCTTTATTTCTTT
Found at i:57995 original size:64 final size:64
Alignment explanation
Indices: 57923--58091 Score: 207
Period size: 64 Copynumber: 2.6 Consensus size: 64
57913 CGATACATTG
** **
57923 GTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGTAATTTGTGCATCGATGCATA
1 GTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGTAATCGGTGCATCGATGCATA
57986 A
64 A
* * *
57987 GTAGTGCATCTATGCATCCCATTAATAGTGAAACATCGAATGTAATCGGTGCATCGATGCATAA
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGTAATCGGTGCATCGATGCATAA
* * **
58051 GGAGTGCATCGATGCATCCCAGTAATAATACTACATCGAAT
1 GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT
58092 ACCTTTTATG
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 84 0.94
65 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (64 bp):
GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGTAATCGGTGCATCGATGCATAA
Found at i:58456 original size:12 final size:12
Alignment explanation
Indices: 58438--58473 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
58428 TATATGTGTT
58438 CATGTGATATGA
1 CATGTGATATGA
*
58450 TATGTGATATGA
1 CATGTGATATGA
*
58462 CCTGTGATATGA
1 CATGTGATATGA
58474 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:58565 original size:28 final size:29
Alignment explanation
Indices: 58493--58590 Score: 155
Period size: 28 Copynumber: 3.4 Consensus size: 29
58483 ATGAAGTGAT
* *
58493 ATGAGATACATGATCCCAAGAGAAATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
*
58522 ATTAGCTACATGATCACAAGAGAAATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
58551 A-GAGCTACATGATCACAAGAGAAATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
58579 ATGAG-TACATGA
1 ATGAGCTACATGA
58591 ACATATGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 34 0.53
29 30 0.47
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.18
Consensus pattern (29 bp):
ATGAGCTACATGATCACAAGAGAAATGAC
Found at i:64895 original size:64 final size:64
Alignment explanation
Indices: 64826--64980 Score: 190
Period size: 64 Copynumber: 2.4 Consensus size: 64
64816 GAATGTGAAC
* ** **
64826 CGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAGACATCGAATGCAATTTGTGCA
1 CGATGCATAGGTAGTGCATCGATGCATC-CCATTAACAATAAA-ACATCGAATGCAATCGGTGCA
64889 T
64 T
* * *
64890 CGATGCATAAGTAGTGCATCGATGCATCCCATTAACAGTGAAACATCGAATGCAATCGGTGCAT
1 CGATGCATAGGTAGTGCATCGATGCATCCCATTAACAATAAAACATCGAATGCAATCGGTGCAT
64954 CGATGCATAAGG-AGTGCATCGATGCAT
1 CGATGCAT-AGGTAGTGCATCGATGCAT
64981 AAGGAGTGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 72 0.91
65 7 0.09
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (64 bp):
CGATGCATAGGTAGTGCATCGATGCATCCCATTAACAATAAAACATCGAATGCAATCGGTGCAT
Found at i:64972 original size:19 final size:19
Alignment explanation
Indices: 64948--64999 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
64938 AATGCAATCG
64948 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
64967 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
64986 GTGCATCGATGCAT
1 GTGCATCGATGCAT
65000 CCCAACAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (19 bp):
GTGCATCGATGCATAAGGA
Found at i:65391 original size:12 final size:12
Alignment explanation
Indices: 65373--65408 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
65363 TATATGTGTT
65373 CATGTGATATGA
1 CATGTGATATGA
*
65385 TATGTGATATGA
1 CATGTGATATGA
*
65397 CCTGTGATATGA
1 CATGTGATATGA
65409 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:65450 original size:17 final size:17
Alignment explanation
Indices: 65430--65508 Score: 52
Period size: 17 Copynumber: 5.2 Consensus size: 17
65420 GAAGTGATAT
65430 GAGATACATGATCACAA
1 GAGATACATGATCACAA
*
65447 GAGA-A-ATG---ACAT
1 GAGATACATGATCACAA
*
65459 GAGCTACATGATCACAA
1 GAGATACATGATCACAA
*
65476 GAGA-A-ATG---ACAT
1 GAGATACATGATCACAA
*
65488 GAGCTACATGATCACAA
1 GAGATACATGATCACAA
65505 GAGA
1 GAGA
65509 ATGACATGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 20
0.61 0.11 0.28
Matches are distributed among these distances:
12 12 0.27
13 2 0.05
14 6 0.14
15 6 0.14
16 2 0.05
17 16 0.36
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (17 bp):
GAGATACATGATCACAA
Found at i:65470 original size:29 final size:29
Alignment explanation
Indices: 65428--65525 Score: 173
Period size: 29 Copynumber: 3.4 Consensus size: 29
65418 ATGAAGTGAT
*
65428 ATGAGATACATGATCACAAGAGAAATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
65457 ATGAGCTACATGATCACAAGAGAAATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
65486 ATGAGCTACATGATCACAAGAG-AATGAC
1 ATGAGCTACATGATCACAAGAGAAATGAC
65514 ATGAG-TACATGA
1 ATGAGCTACATGA
65526 ACATATGAAT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
27 7 0.10
28 11 0.16
29 50 0.74
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.18
Consensus pattern (29 bp):
ATGAGCTACATGATCACAAGAGAAATGAC
Found at i:68848 original size:327 final size:326
Alignment explanation
Indices: 68252--69158 Score: 1272
Period size: 327 Copynumber: 2.8 Consensus size: 326
68242 TCAAAGCTAG
* * * * *
68252 TGCCAA-CAAAGACCTTCGAGTTCGACTA-GTTCAGCTCCAAGGCATATCATTTGCAACATAGCT
1 TGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC-AGATAACT
* * * * * *
68315 CAAGGCAAGAAGGGATATTTTCAACAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACAC
65 TAAGTCGAGAAGGGCTATCTTC--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGG--GC
*
68380 ATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCGACTA
126 ATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTA
* * *** *
68445 CGCTCAGCTCCAAGGCACATCATTTG-TAGTATAGCTTAAGTCGAGAAGGGTTATCTATTAACGA
191 CGCTCAGCTCTAAGGCACATCATTTGAT-GTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA
* *
68509 CTCTCGAGTTCGATTACACTCAGCTTCAAGAGCACATCATTAGTAGCATAACTTAAGTTGAGAAG
255 CTCTCGAGTTCGATTACACTCAGCTTCAAGAGCACATCATTAGCAGCATAACTTAAGTCGAGAAG
*
68574 GGTTATC
320 GGTTATA
*
68581 TGCCAACCAAAGACCTTTGAGTTCGACTACGGTCAGCTCCAAGGCACATCATTTGCAGTATAACT
1 TGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG-ATAACT
* *
68646 TAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGTATCA
65 TAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATCA
* * * *
68711 TTTACAGCATAACTCAAGGCTAGAAGAGTTATTTGTCACCAAAGACCTTCGAGTTTGACTACGCT
130 TTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCT
* * *
68776 CAGCTCTAAGACACATTATTTGATGTATAGCTTAAGTCGATAAGGGCTATCTGCCAAAGACTCTC
195 CAGCTCTAAGGCACATCATTTGATGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCTC
* * *
68841 GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTA
260 GAGTTCGATTACACTCAGCTTCAAGAGCACATCATTAGCAGCATAACTTAAGTCGAGAAGGGTTA
68906 TA
325 TA
* *
68908 TGCCAACCAAAGACCTTTGAGCTT-GATTACGCTCAGCTCCAAGGCACATCATTTGTAG-TAACT
1 TGCCAACCAAAGACCTTTGAG-TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGATAACT
* * *
68971 TAAGTCGATAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACAT
65 TAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGG--CAT
* *
69036 AATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCAACTACG
128 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
*
69101 CTCAGCT-TCAAGGCACATCA-TTGCA-GTATAACTTAAGTCGAGAAGGGCTATCTGCCAA
193 CTCAGCTCT-AAGGCACATCATTTG-ATGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
69159 CTGAAGACCT
Statistics
Matches: 518, Mismatches: 51, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
325 61 0.12
326 35 0.07
327 309 0.60
328 3 0.01
329 42 0.08
330 22 0.04
331 46 0.09
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (326 bp):
TGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGATAACTT
AAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATCAT
TTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCTAAGGCACATCATTTGATGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTCTCG
AGTTCGATTACACTCAGCTTCAAGAGCACATCATTAGCAGCATAACTTAAGTCGAGAAGGGTTAT
A
Found at i:68998 original size:163 final size:162
Alignment explanation
Indices: 68258--69243 Score: 1112
Period size: 165 Copynumber: 6.0 Consensus size: 162
68248 CTAGTGCCAA
* * * * * * *
68258 CAAAGACCTTCGAGTTCGACTA-GTTCAGCTCCAAGGCATATCATTTGCAACATAGCTCAAGGCA
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC-A-GTAACTTAAGTCG
* * * *
68322 AGAAGGGATATTTTCAACAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTT
64 AGAAGGGCTATCTGC--CAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
*
68387 ACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAC
127 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAC
* *
68423 TAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGTAGTATAGCTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTA-A-CTTAAGTCG
* *** * * * *
68488 AGAAGGGTTATCTATTAACGACTCTCGAGTTCGATTACACTCAGCTTCAAGAGCACATCA-TTAG
64 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA-
* * * *
68552 TAGCATAACTTAA-GTTGAGAAGGGTTATCTGCCAAC
128 CAGCATAACTCAAGGCT-AGAAGGGTTATCTGTC-AC
* *
68588 CAAAGACCTTTGAGTTCGACTACGGTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG--TAACTTAAGTCG
* * *
68653 AGAAGGGCTATCTTCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGG--TATCATTTAC
64 AGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTAC
* *
68716 AGCATAACTCAAGGCTAGAAGAGTTATTTGTCAC
129 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCAC
* * * *
68750 CAAAGACCTTCGAGTTTGACTACGCTCAGCTCTAAGACACATTATTTG-ATGTATAGCTTAAGTC
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA-GTA-A-CTTAAGTC
* * *
68814 GATAAGGGCTATCTGCCAAAGACTCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTG
63 GAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* * * * *
68879 CAGCATAACTTAAGTCGAGAAGGGTTATATGCCAAC
128 CAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AC
* * *
68915 CAAAGACCTTTGAGCTT-GATTACGCTCAGCTCCAAGGCACATCATTTGTAGTAACTTAAGTCGA
1 CAAAGACCTTCGAG-TTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTAACTTAAGTCGA
* * *
68979 TAAGGGCTATCTGCCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATAATTTACA
65 GAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
*
69044 ACATAACTCAAGGCTAGAAGGGTTATCTGTCAC
130 GCATAACTCAAGGCTAGAAGGGTTATCTGTCAC
* *
69077 CAAAGACCTTCGAGTTCAACTACGCTCAGCTTCAAGGCACATCA-TTGCAGTATAACTTAAGTCG
1 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG--TAACTTAAGTCG
* * * *
69141 AGAAGGGCTATCTGCCAACTGAAGA-CCTCCGAGTTCGATTACATTCAAC-TC-AGAGGCAAACC
64 AGAAGGGCTATCTGCC-A---AAGACCCT-CGAGTTCGATTACACTCAGCTTCGAG-GGCACATC
* * *
69203 AAATTTACAACATAGCTCAAGGCAAGAAGGGTTATCTGTCA
123 --ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
69244 ATAAATTTTT
Statistics
Matches: 701, Mismatches: 91, Indels: 55
0.83 0.11 0.06
Matches are distributed among these distances:
160 2 0.00
161 9 0.01
162 142 0.20
163 156 0.22
164 107 0.15
165 171 0.24
166 54 0.08
167 23 0.03
168 37 0.05
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (162 bp):
CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTAACTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTCAC
Found at i:69854 original size:35 final size:33
Alignment explanation
Indices: 69808--70138 Score: 146
Period size: 35 Copynumber: 9.5 Consensus size: 33
69798 ATAATTTTTG
69808 AAATGTTTTTGAAAACTATAATATATAGTTTTCAAA
1 AAAT-TTTTTGAAAA-TATAATATATAGTTTT-AAA
* *
69844 AAATTTTTTGAAATATATATTA-ATAGTTTTTTTAA
1 AAATTTTTTGAAA-ATATAATATATAG--TTTTAAA
** *
69879 AACGTTTTTGAAAACTTATATACAATATATAAGTTTCAAA
1 AAATTTTTTG-AAA---ATAT--AATATAT-AGTTTTAAA
* *
69919 ACA--TTTTAAAAATTATATAGTATATAGTTTTCAAA
1 AAATTTTTTGAAAA-TATA-A-TATATAGTTTT-AAA
* *
69954 TAA--TTTTGAAAATATAATATATAGTTTAAAAAA
1 AAATTTTTTGAAAATATAATATATAGTTT--TAAA
* *
69987 AACATTTTTGGAAAATTTATATAATATAGTTTTAAA
1 AA-ATTTTTTGAAAATATA-AT-ATATAGTTTTAAA
* * * **
70023 AAACATTTTGGAAAACT-TAA-ATA-ATTTTTTTA
1 AAA-TTTTTTGAAAA-TATAATATATAGTTTTAAA
*
70055 AAATCATTTTTGAAAACTATAATA-ATAGTTTTGAA
1 AAAT--TTTTTGAAAA-TATAATATATAGTTTTAAA
*
70090 AAAGTTTTT--AAATATAATATATAG-TTTAAA
1 AAATTTTTTGAAAATATAATATATAGTTTTAAA
* *
70120 GATTTTTTTGAAACATATA
1 AAATTTTTTGAAA-ATATA
70139 TATTATATTA
Statistics
Matches: 230, Mismatches: 33, Indels: 67
0.70 0.10 0.20
Matches are distributed among these distances:
30 18 0.08
31 7 0.03
32 21 0.09
33 30 0.13
34 20 0.09
35 57 0.25
36 40 0.17
37 6 0.03
38 18 0.08
40 9 0.04
41 2 0.01
42 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (33 bp):
AAATTTTTTGAAAATATAATATATAGTTTTAAA
Found at i:70024 original size:36 final size:35
Alignment explanation
Indices: 69983--70092 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 35
69973 TATAGTTTAA
* *
69983 AAAAAACATTTTTGGAAAATTTATATAATATAGTTTT
1 AAAAAACATTTTTGGAAAACTTAAATAAT-T-GTTTT
70020 AAAAAACA-TTTTGGAAAACTTAAATAATT-TTTT
1 AAAAAACATTTTTGGAAAACTTAAATAATTGTTTT
* * *
70053 TAAAATCATTTTT-GAAAAC-TATAATAATAGTTTT
1 AAAAAACATTTTTGGAAAACTTA-AATAATTGTTTT
*
70087 GAAAAA
1 AAAAAA
70093 GTTTTTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 2 0.03
33 22 0.35
34 12 0.19
35 1 0.02
36 18 0.29
37 8 0.13
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (35 bp):
AAAAAACATTTTTGGAAAACTTAAATAATTGTTTT
Found at i:70024 original size:38 final size:35
Alignment explanation
Indices: 69956--70047 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 35
69946 TTTTCAAATA
*
69956 ATTTT-GAAAATATAAT-ATATAGTTTAAAAAAAAC
1 ATTTTGGAAAATTTAATAATATAGTTT-AAAAAAAC
*
69990 ATTTTTGGAAAATTTATATAATATAGTTTTAAAAAAC
1 A-TTTTGGAAAATTTA-ATAATATAGTTTAAAAAAAC
*
70027 ATTTTGGAAAACTTAAATAAT
1 ATTTTGGAAAA-TTTAATAAT
70048 TTTTTTAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
34 1 0.02
35 4 0.08
36 23 0.46
37 13 0.26
38 9 0.18
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (35 bp):
ATTTTGGAAAATTTAATAATATAGTTTAAAAAAAC
Found at i:70172 original size:10 final size:10
Alignment explanation
Indices: 70157--70201 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
70147 TATTATTATA
70157 TTTATTTCAT
1 TTTATTTCAT
*
70167 TTTATTTTAT
1 TTTATTTCAT
70177 TTTATTTCAT
1 TTTATTTCAT
*
70187 TTCATTTCAT
1 TTTATTTCAT
*
70197 GTTAT
1 TTTAT
70202 AATTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATTTCAT
Found at i:70180 original size:20 final size:21
Alignment explanation
Indices: 70146--70193 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
70136 ATATATTATA
70146 TTATTATTATATTTATTTCATT
1 TTATT-TTATATTTATTTCATT
70168 TTATTTTAT-TTTATTTCATT
1 TTATTTTATATTTATTTCATT
*
70188 TCATTT
1 TTATTT
70194 CATGTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 16 0.64
21 4 0.16
22 5 0.20
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTTATATTTATTTCATT
Found at i:71341 original size:23 final size:23
Alignment explanation
Indices: 71315--71358 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
71305 TTATTTAATT
71315 TTTCCTTTTTT-TATTTCATTTTA
1 TTTCCTTTTTTCTATTT-ATTTTA
*
71338 TTTCTTTTTTTCTATTTATTT
1 TTTCCTTTTTTCTATTTATTT
71359 AAGATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTCCTTTTTTCTATTTATTTTA
Found at i:71367 original size:41 final size:45
Alignment explanation
Indices: 71322--71403 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 45
71312 ATTTTTCCTT
*
71322 TTTTTA-T-TTCATT-TTATTTCTTTTTT-TCTATTTATTTAAGA
1 TTTTTAGTCTTCATTCTTATTTATTTTTTATCTATTTATTTAAGA
* *
71363 TTTTTAGTCTTTATTCTTATTTATTTTTTATTTATTTATTT
1 TTTTTAGTCTTCATTCTTATTTATTTTTTATCTATTTATTT
71404 TTCTATCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 6 0.18
42 1 0.03
43 5 0.15
44 12 0.35
45 10 0.29
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (45 bp):
TTTTTAGTCTTCATTCTTATTTATTTTTTATCTATTTATTTAAGA
Done.