Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006682.1 Hibiscus syriacus cultivar Beakdansim tig00016577_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: 123809
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:10502 original size:16 final size:17
Alignment explanation
Indices: 10481--10515 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
10471 TTGTCGGTTG
10481 TTCACCAAA-TTTAATT
1 TTCACCAAATTTTAATT
10497 TTCACCAAATTTTAATT
1 TTCACCAAATTTTAATT
10514 TT
1 TT
10516 GTAAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
TTCACCAAATTTTAATT
Found at i:12593 original size:34 final size:34
Alignment explanation
Indices: 12550--12636 Score: 165
Period size: 34 Copynumber: 2.6 Consensus size: 34
12540 AACCGTTTTC
*
12550 ATAAAATATTATATATATAATTAATATAAAATAT
1 ATAAAATATTATATATATAATTAATATAAAAAAT
12584 ATAAAATATTATATATATAATTAATATAAAAAAT
1 ATAAAATATTATATATATAATTAATATAAAAAAT
12618 ATAAAATATTATATATATA
1 ATAAAATATTATATATATA
12637 TATATAATCG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
ATAAAATATTATATATATAATTAATATAAAAAAT
Found at i:13068 original size:12 final size:12
Alignment explanation
Indices: 13053--13090 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
13043 GTTATTTAAA
13053 CGGGTATTGGGC
1 CGGGTATTGGGC
*
13065 CGGGTATTGGGT
1 CGGGTATTGGGC
13077 CGGGTATTGGGC
1 CGGGTATTGGGC
13089 CG
1 CG
13091 AGAATCGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.08, C:0.16, G:0.50, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:13080 original size:24 final size:24
Alignment explanation
Indices: 13053--13107 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
13043 GTTATTTAAA
* * *
13053 CGGGTATTGGGCCGGGTATTGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
13077 CGGGTATTGGGCCGAGAATCGGGT
1 CGGGTATTGGGCCGAGAATCGGGT
13101 CGGGTAT
1 CGGGTAT
13108 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCGAGAATCGGGT
Found at i:13266 original size:13 final size:13
Alignment explanation
Indices: 13222--13253 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
13212 CGGGTCGAGT
13222 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
13235 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
13248 ATCGGG
1 ATCGGG
13254 TAATCGGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.53, T:0.16
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:13328 original size:6 final size:6
Alignment explanation
Indices: 13317--13341 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13307 AAATGGGTTT
13317 TCCCCG TCCCCG TCCCCG TCCCCG T
1 TCCCCG TCCCCG TCCCCG TCCCCG T
13342 TTATCATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.64, G:0.16, T:0.20
Consensus pattern (6 bp):
TCCCCG
Found at i:20519 original size:18 final size:18
Alignment explanation
Indices: 20496--20530 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
20486 TACGATGAAC
*
20496 ATTAAATAATTATAAAAT
1 ATTAAAAAATTATAAAAT
20514 ATTAAAAAATTATAAAA
1 ATTAAAAAATTATAAAA
20531 ATATATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAAAATTATAAAAT
Found at i:20533 original size:30 final size:30
Alignment explanation
Indices: 20499--20566 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
20489 GATGAACATT
*
20499 AAATA-ATTATAAAATATTAAAAAATTATAA
1 AAATATATT-TAAAATATTAAAAAAATATAA
* *
20529 AAATATATTTAAATTATTAAAAAAATGTAA
1 AAATATATTTAAAATATTAAAAAAATATAA
20559 AAACTATA
1 AAA-TATA
20567 AAAATAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (30 bp):
AAATATATTTAAAATATTAAAAAAATATAA
Found at i:20535 original size:8 final size:9
Alignment explanation
Indices: 20498--20571 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
20488 CGATGAACAT
20498 TAAATAATTA
1 TAAA-AATTA
20508 TAAAATATTA
1 TAAAA-ATTA
20518 -AAAAATTA
1 TAAAAATTA
20526 TAAAAATATA
1 TAAAAAT-TA
**
20536 TTTAAATTA
1 TAAAAATTA
* *
20545 TTAAAAAAATG
1 -T-AAAAATTA
*
20556 TAAAAACTA
1 TAAAAATTA
20565 TAAAAAT
1 TAAAAAT
20572 AAAACTTATA
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
8 4 0.08
9 25 0.50
10 17 0.34
11 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:30067 original size:17 final size:17
Alignment explanation
Indices: 30041--30080 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
30031 AAAATTAATT
* * *
30041 TTATTCTTATTATTAAG
1 TTATTTTTATAATTAAA
30058 TTATTTTTATAATTAAA
1 TTATTTTTATAATTAAA
30075 TTATTT
1 TTATTT
30081 AATTAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATTTTTATAATTAAA
Found at i:30403 original size:60 final size:58
Alignment explanation
Indices: 30317--30439 Score: 131
Period size: 60 Copynumber: 2.1 Consensus size: 58
30307 TATTTAAATG
* * * * * *
30317 TAAAATATAAAAATGATCTCCGATTATATAGTGTTGTTTTATTATA-TCATTCGAGTAT
1 TAAAATAAAAAAATGATCTCCGATTATAGAATGTTGCTTTATTA-AGTCACTCGACTAT
* * *
30375 TAAAAGTAAAAAAATGGTCATCTGATTATAGAATGTTGCTTTGTTAAGTCACTCGACTAT
1 TAAAA-TAAAAAAATGATC-TCCGATTATAGAATGTTGCTTTATTAAGTCACTCGACTAT
30435 TAAAA
1 TAAAA
30440 ATTACAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 5 0.09
59 12 0.23
60 36 0.68
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (58 bp):
TAAAATAAAAAAATGATCTCCGATTATAGAATGTTGCTTTATTAAGTCACTCGACTAT
Found at i:30748 original size:60 final size:60
Alignment explanation
Indices: 30675--30790 Score: 214
Period size: 60 Copynumber: 1.9 Consensus size: 60
30665 GTCGGGTGAC
* *
30675 CATTTTGTAACTTTTACTAATTGATAGACTCAATAAAATAACACTCTATAATCGAATGAA
1 CATTTTGTAACTTTTAATAACTGATAGACTCAATAAAATAACACTCTATAATCGAATGAA
30735 CATTTTGTAACTTTTAATAACTGATAGACTCAATAAAATAACACTCTATAATCGAA
1 CATTTTGTAACTTTTAATAACTGATAGACTCAATAAAATAACACTCTATAATCGAA
30791 CTTAATAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAACTGATAGACTCAATAAAATAACACTCTATAATCGAATGAA
Found at i:34023 original size:28 final size:28
Alignment explanation
Indices: 33991--34063 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
33981 TTATTAGAAT
33991 TATTTTTAATGTTTTATCATATTTATGA
1 TATTTTTAATGTTTTATCATATTTATGA
34019 TATTTTTAATGTTTTATCATATTTATGA
1 TATTTTTAATGTTTTATCATATTTATGA
34047 TATTTTT-ATGTTTTATC
1 TATTTTTAATGTTTTATC
34064 TCACCTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 10 0.22
28 35 0.78
ACGTcount: A:0.26, C:0.04, G:0.07, T:0.63
Consensus pattern (28 bp):
TATTTTTAATGTTTTATCATATTTATGA
Found at i:36317 original size:13 final size:14
Alignment explanation
Indices: 36296--36350 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
36286 ACTCATTAAG
36296 TTAAATATA-ATAT
1 TTAAATATATATAT
*
36309 TTAATTATATATAT
1 TTAAATATATATAT
* *
36323 ATATATATATATAT
1 TTAAATATATATAT
* *
36337 ATATATATATATAT
1 TTAAATATATATAT
36351 ATATATGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
13 8 0.22
14 29 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAAATATATATAT
Found at i:36321 original size:2 final size:2
Alignment explanation
Indices: 36314--36356 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
36304 AATATTTAAT
36314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36356 T
1 T
36357 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42829 original size:39 final size:38
Alignment explanation
Indices: 42757--42842 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
42747 TTTTACATTT
* *
42757 AATATTAA--ATTAATATTTTAATATCATTTTAATAAA
1 AATATTAATTATTAAAATTTTAATATCATTATAATAAA
*
42793 AATATTAATTATTAAAATATTTAATATACA-TATAATATA
1 AATATTAATTATTAAAAT-TTTAATAT-CATTATAATAAA
42832 AAT-TTAATTAT
1 AATATTAATTAT
42843 ATTATATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
36 8 0.19
38 15 0.35
39 18 0.42
40 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (38 bp):
AATATTAATTATTAAAATTTTAATATCATTATAATAAA
Found at i:42855 original size:39 final size:39
Alignment explanation
Indices: 42757--42858 Score: 97
Period size: 39 Copynumber: 2.7 Consensus size: 39
42747 TTTTACATTT
* *
42757 AATATTAA--ATTAATA-TTTTAATATCATTTTAATAAA
1 AATATTAATTATTAAAATTTTTAATATCATTATAATAAA
* *
42793 AATATTAATTATTAAAATATTTAATATACA-TATAATATA
1 AATATTAATTATTAAAATTTTTAATAT-CATTATAATAAA
* *
42832 AAT-TTAATTATATTATATTTTTAATAT
1 AATATTAATTAT-TAAAATTTTTAATAT
42859 TAAATTAATA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
36 8 0.15
38 14 0.26
39 30 0.56
40 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (39 bp):
AATATTAATTATTAAAATTTTTAATATCATTATAATAAA
Found at i:42868 original size:39 final size:38
Alignment explanation
Indices: 42785--42870 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 38
42775 TAATATCATT
* *
42785 TTAATAAAAATATTAATTATTAAAATATTTAATATACA
1 TTAATATAAATATTAATTATTAAAATATTTAATATAAA
* * *
42823 TATAATATAAAT-TTAATTATATTATATTTTTAATATTAAA
1 T-TAATATAAATATTAATTAT-TAAAATATTTAATA-TAAA
42863 TTAATATA
1 TTAATATA
42871 TACATAGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
38 9 0.22
39 27 0.68
40 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (38 bp):
TTAATATAAATATTAATTATTAAAATATTTAATATAAA
Found at i:43045 original size:19 final size:19
Alignment explanation
Indices: 42991--43036 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
42981 TAATAATGAG
*
42991 TAATATTAAT-TTATACATT
1 TAATATTAATATAATA-ATT
43010 TAATATTAATATAATAATT
1 TAATATTAATATAATAATT
43029 TAATATTA
1 TAATATTA
43037 TGTTAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTAATATAATAATT
Found at i:46491 original size:38 final size:39
Alignment explanation
Indices: 46448--46527 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
46438 CTACGATTGT
* * *
46448 TTTCCTGTCTAATTTTTGCTTCATCTTCAATTGTTGA-C
1 TTTCCTCTCTAATTTCTACTTCATCTTCAATTGTTGATC
*
46486 TTTCCTCTCTAATTTCTACTTCATCTTCGATTGTTGATC
1 TTTCCTCTCTAATTTCTACTTCATCTTCAATTGTTGATC
46525 TTT
1 TTT
46528 GTGCCTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 33 0.89
39 4 0.11
ACGTcount: A:0.15, C:0.23, G:0.09, T:0.54
Consensus pattern (39 bp):
TTTCCTCTCTAATTTCTACTTCATCTTCAATTGTTGATC
Found at i:52004 original size:2 final size:2
Alignment explanation
Indices: 51997--52038 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
51987 ACCAACTTCA
51997 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52039 TGTTCTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:66561 original size:23 final size:23
Alignment explanation
Indices: 66512--66561 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
66502 ATGTTGTTCG
**
66512 AAAAAAAGAGAAAAAAAGACATG
1 AAAAAAAGAGAAAAAAAGACAAC
*
66535 AAAAAAATAGAAAACAAA-ACAAC
1 AAAAAAAGAGAAAA-AAAGACAAC
66558 AAAA
1 AAAA
66562 GTGTGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAGAAAAAAAGACAAC
Found at i:68245 original size:18 final size:17
Alignment explanation
Indices: 68208--68254 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
68198 TATCTTCTTA
68208 TTTTTACTTTAATCGCTT
1 TTTTTA-TTTAATCGCTT
*
68226 TTATTTATTTAATC-TTT
1 TT-TTTATTTAATCGCTT
68243 TTTTCTATTTAA
1 TTTT-TATTTAA
68255 ATATCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 9 0.35
19 4 0.15
ACGTcount: A:0.21, C:0.11, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTATTTAATCGCTT
Found at i:70311 original size:30 final size:30
Alignment explanation
Indices: 70271--70331 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
70261 TTTCTACCGG
* *
70271 CATGCGACACACCACCGTCGTCGTCGCCGC
1 CATGCAACACACCACCGTCGTCATCGCCGC
* *
70301 CATGCAACACACTACCGTCGTCATCGTCGC
1 CATGCAACACACCACCGTCGTCATCGCCGC
70331 C
1 C
70332 CAGCTCGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.16
Consensus pattern (30 bp):
CATGCAACACACCACCGTCGTCATCGCCGC
Found at i:71220 original size:23 final size:22
Alignment explanation
Indices: 71194--71236 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
71184 ATATAAAAAT
71194 TATTTTTTATTAAATATTTTTGG
1 TATTTTTTATTAAAT-TTTTTGG
*
71217 TATTTTTTATTTAATTTTTT
1 TATTTTTTATTAAATTTTTT
71237 AAATAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTTTATTAAATTTTTTGG
Found at i:74497 original size:52 final size:50
Alignment explanation
Indices: 74376--74514 Score: 194
Period size: 52 Copynumber: 2.8 Consensus size: 50
74366 ATGGCTTAAT
74376 TTAATTTAATTTATTTCATTATTTTTAATTTAA-TTT-TATATTTTAGATG
1 TTAA-TTAATTTATTTCATTATTTTTAATTTAATTTTATATATTTTAGATG
*
74425 TTAATGAATTTATTTCATTATTTTTAATTTAATTTTATATTATTTTTAGATG
1 TTAATTAATTTATTTCATTATTTTTAATTTAATTTTATA-TA-TTTTAGATG
* *
74477 TTGATTAATTTAATTT-ATTATTTTTAATTTCATTTTAT
1 TTAATTAATTT-ATTTCATTATTTTTAATTTAATTTTAT
74515 CATTTTATTA
Statistics
Matches: 81, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
48 27 0.33
49 7 0.09
50 2 0.02
51 2 0.02
52 39 0.48
53 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (50 bp):
TTAATTAATTTATTTCATTATTTTTAATTTAATTTTATATATTTTAGATG
Found at i:74519 original size:20 final size:19
Alignment explanation
Indices: 74481--74520 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
74471 TAGATGTTGA
*
74481 TTAATTTAATTTATTATTT
1 TTAATTTAATTTATCATTT
*
74500 TTAATTTCATTTTATCATTT
1 TTAATTT-AATTTATCATTT
74520 T
1 T
74521 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTAATTTAATTTATCATTT
Found at i:75544 original size:20 final size:20
Alignment explanation
Indices: 75519--75692 Score: 199
Period size: 20 Copynumber: 8.7 Consensus size: 20
75509 CGATTCTTGA
* *
75519 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
75539 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
75559 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
75579 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
75599 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
75619 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTATCCGT
* * *
75639 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
75659 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
75680 AAATCGCAACGCG
1 AAATCGCAACGCG
75693 ATATTTAAAG
Statistics
Matches: 128, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 109 0.85
21 17 0.13
22 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:75603 original size:60 final size:60
Alignment explanation
Indices: 75519--75692 Score: 224
Period size: 60 Copynumber: 2.9 Consensus size: 60
75509 CGATTCTTGA
** * *
75519 AAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
* *** * *
75579 AAATCGCAACGCGT-ATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCGGT
1 AAATCGCAACG-ATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
*
75639 AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCG
1 AAATCGCAACGATAATACAT-AAATCGCAATGCGTATCCGTAAATCGCAACGCG
75693 ATATTTAAAG
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 64 0.67
61 31 0.32
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGATAATACATAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGT
Found at i:76115 original size:33 final size:33
Alignment explanation
Indices: 76076--76146 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
76066 TTCACTTAGA
76076 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
76109 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
76142 TTTCA
1 TTTCA
76147 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:76270 original size:20 final size:20
Alignment explanation
Indices: 76226--76333 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 20
76216 TGCAGAAGAG
*
76226 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
76247 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
76267 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
76286 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
76300 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
76319 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
76334 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 4 0.06
19 24 0.34
20 18 0.26
21 11 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:76303 original size:14 final size:14
Alignment explanation
Indices: 76284--76340 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
76274 GCGAAATGAA
76284 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76298 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
76317 AATCGCAACGAGAG
1 AATCGCAACGAGAG
76331 AATCGCAACG
1 AATCGCAACG
76341 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:76309 original size:33 final size:33
Alignment explanation
Indices: 76238--76356 Score: 166
Period size: 33 Copynumber: 3.4 Consensus size: 33
76228 GCAACGAGAT
76238 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
76277 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
76310 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
76343 AAACCAAAATCGCA
1 AAATGAAAATCGCA
76357 TTGCGATTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 55 0.71
36 1 0.01
38 1 0.01
39 21 0.27
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:76393 original size:14 final size:14
Alignment explanation
Indices: 76374--76463 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
76364 TTTTATTTCG
76374 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
76388 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
76407 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
76421 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
76440 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
76454 CGTTGCGATT
1 CGTTGCGATT
76464 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:76399 original size:33 final size:33
Alignment explanation
Indices: 76357--76471 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
76347 CAAAATCGCA
*
76357 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
76390 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
76423 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
76456 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
76472 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:76412 original size:19 final size:19
Alignment explanation
Indices: 76352--76449 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
76342 GAAACCAAAA
* *
76352 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
76371 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
76385 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
76404 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
76418 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
76437 TCGCGTTGCGATT
1 TCGCGTTGCGATT
76450 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78324 original size:93 final size:93
Alignment explanation
Indices: 78165--78633 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
78155 TAGATTGCTT
*
78165 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78230 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78258 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78323 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78351 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78416 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78444 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78509 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
78537 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTTTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
78602 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
78629 AGTAA
1 AGTAA
78634 TGCAATCCAT
Statistics
Matches: 374, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 368 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:78721 original size:19 final size:19
Alignment explanation
Indices: 78681--78809 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
78671 TAGTTTACTT
* *
78681 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
78701 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
78720 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
78739 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
78753 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
78772 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
78786 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
78805 TCGCA
1 TCGCA
78810 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:78760 original size:33 final size:32
Alignment explanation
Indices: 78717--78809 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
78707 CGCGAAACCA
**
78717 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
78749 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
78782 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
78810 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:78807 original size:52 final size:52
Alignment explanation
Indices: 78681--78809 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
78671 TAGTTTACTT
**
78681 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
78733 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
78786 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
78810 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:78827 original size:19 final size:19
Alignment explanation
Indices: 78805--78938 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
78795 GAAACCAAAA
*
78805 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
78824 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
78840 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
78857 TCGCGTTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
78873 T--CGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
**
78889 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
78908 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
78928 TCGTGTTGCGA
1 TCGCGTTGCGA
78939 AAGTAAACTA
Statistics
Matches: 96, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.17
15 3 0.03
16 10 0.10
17 9 0.09
18 8 0.08
19 38 0.40
20 12 0.12
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:78846 original size:14 final size:14
Alignment explanation
Indices: 78827--78883 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
78817 TTTCATTTCG
78827 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
78841 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
78858 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
78874 CGTTGCGATT
1 CGTTGCGATT
78884 TCATTTCGCG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.09, C:0.21, G:0.25, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:78891 original size:32 final size:33
Alignment explanation
Indices: 78810--78901 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
78800 CAAAATCGCA
*
78810 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
78843 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
78876 TTGCGA-TTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
78902 TTGGTTTCGC
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 20 0.34
33 38 0.66
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:78901 original size:51 final size:47
Alignment explanation
Indices: 78827--78920 Score: 134
Period size: 51 Copynumber: 1.9 Consensus size: 47
78817 TTTCATTTCG
78827 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCGTTGCGATTCTGT
1 CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCGTTGCGATTCTGT
**
78874 CGTTGCGATTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATT
1 CGTTGCGA-TTC-TTT--CGTTGCGATTTTCATTTCGCGTTGCGATT
78921 TTAAGTTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 8 0.20
48 3 0.07
49 3 0.07
51 27 0.66
ACGTcount: A:0.09, C:0.20, G:0.26, T:0.46
Consensus pattern (47 bp):
CGTTGCGATTCTTTCGTTGCGATTTTCATTTCGCGTTGCGATTCTGT
Found at i:80879 original size:14 final size:14
Alignment explanation
Indices: 80860--80895 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
80850 ATTGTTTAAT
80860 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
80874 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
80888 TGATTTGT
1 TGATTTGT
80896 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:81018 original size:19 final size:20
Alignment explanation
Indices: 81002--81051 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
80992 AAAAATGACT
81002 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGAAA
81021 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCGAAAATGAAA
81041 ATCGCAATGCG
1 ATCGCAATGCG
81052 TTTATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGAAA
Found at i:81104 original size:19 final size:19
Alignment explanation
Indices: 81080--81443 Score: 490
Period size: 19 Copynumber: 20.4 Consensus size: 19
81070 GATTCTCTCG
81080 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81099 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
81118 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
81132 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81151 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81170 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
81189 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
81203 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81222 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81241 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81260 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81279 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
81298 TTGCGA--TTC-TGT--CA
1 TTGCGATTTTCATTTCGCA
81312 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81331 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
81350 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
81369 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
81383 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
81403 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
81417 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
81436 TTGCGATT
1 TTGCGATT
81444 GTAATTTCCG
Statistics
Matches: 309, Mismatches: 10, Indels: 52
0.83 0.03 0.14
Matches are distributed among these distances:
14 37 0.12
16 28 0.09
17 25 0.08
18 3 0.01
19 204 0.66
20 12 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:81115 original size:52 final size:55
Alignment explanation
Indices: 81058--81443 Score: 428
Period size: 52 Copynumber: 7.3 Consensus size: 55
81048 TGCGTTTATA
*
81058 ATTTCGCATTGCGA-TTC-TCTCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCATTGCGATTTTC
*
81110 ATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCATTGCGATTTTC
*
81162 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
81214 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
*
81271 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGT--CATTGCGATTTTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
81323 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA-TTTCATTTCG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
* *
81378 -TCTCG--TTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--TTGGGATTTTC
1 ATTTCGCATTGCGA-TTTCATTT-CG-ATTGCGATTTTCATTTCGCATTGCGATTTTC
*
81428 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
81444 GTAATTTCCG
Statistics
Matches: 304, Mismatches: 9, Indels: 42
0.86 0.03 0.12
Matches are distributed among these distances:
48 5 0.02
50 4 0.01
51 5 0.02
52 172 0.57
53 22 0.07
54 19 0.06
55 19 0.06
57 58 0.19
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (55 bp):
ATTTCGCATTGCGATTTCATTTCGATTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:81157 original size:71 final size:71
Alignment explanation
Indices: 81080--81443 Score: 473
Period size: 71 Copynumber: 5.1 Consensus size: 71
81070 GATTCTCTCG
81080 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCAT
81145 TTCGCA
66 TTCGCA
81151 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCAT
81216 TTCGCA
66 TTCGCA
*
81222 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATT
81287 TTCATTTCGCA
61 TTCATTTCGCA
* *
81298 TTGCGA--TTC-TGT--CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATT
81358 TTCATTTCGCA
61 TTCATTTCGCA
* *
81369 TTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGATT-T-TCATGTTGGGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTGTC--GTTGCGATTTT
*
81427 CATTTCGCG
63 CATTTCGCA
81436 TTGCGATT
1 TTGCGATT
81444 GTAATTTCCG
Statistics
Matches: 276, Mismatches: 5, Indels: 26
0.90 0.02 0.08
Matches are distributed among these distances:
67 25 0.09
68 1 0.00
69 1 0.00
70 2 0.01
71 200 0.72
72 10 0.04
73 5 0.02
74 7 0.03
76 25 0.09
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCGTTGCGATTTTCAT
TTCGCA
Found at i:81275 original size:109 final size:109
Alignment explanation
Indices: 81099--81443 Score: 534
Period size: 109 Copynumber: 3.2 Consensus size: 109
81089 TCATTTCGCA
*
81099 TTGCGATTTTCATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
81159 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCG
66 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCG
81203 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
*
81268 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCA
66 TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCG
81312 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
*
81375 TTC-TCTCG--TTGCGATTTTCATTTCCGCATTGCGATT-T-TCATG
66 TTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTGTC--G
* *
81417 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
81444 GTAATTTCCG
Statistics
Matches: 227, Mismatches: 6, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
103 2 0.01
104 41 0.18
105 37 0.16
106 7 0.03
107 7 0.03
109 133 0.59
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (109 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTGTCG
Found at i:83741 original size:12 final size:12
Alignment explanation
Indices: 83724--83748 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
83714 TCTTCGGGGA
83724 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83736 CTTTTTCTTCTT
1 CTTTTTCTTCTT
83748 C
1 C
83749 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:83957 original size:24 final size:24
Alignment explanation
Indices: 83923--83969 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
83913 CTGAAACATC
83923 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
83947 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
83970 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:84680 original size:20 final size:20
Alignment explanation
Indices: 84652--84861 Score: 224
Period size: 20 Copynumber: 10.5 Consensus size: 20
84642 AAATTTCAGT
* * *
84652 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
84672 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
84692 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
84712 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
84732 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
**
84752 GTTGCGATTTACGGAAACGC
1 GTTGCGATTTACGGATTCGC
* *
84772 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
84792 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
84812 ATTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
84832 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
84852 GTTGCGATTT
1 GTTGCGATTT
84862 TGGAAAATCG
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
20 165 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:84878 original size:21 final size:20
Alignment explanation
Indices: 84828--84925 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
84818 ATTTATGTGT
* * * *
84828 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
84848 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
84869 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
84889 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
84910 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
84926 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:84920 original size:41 final size:41
Alignment explanation
Indices: 84828--84984 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
84818 ATTTATGTGT
* * *
84828 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
84869 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
84910 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
84950 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
84985 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:88490 original size:17 final size:17
Alignment explanation
Indices: 88468--88501 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
88458 CTTTTTGGAT
88468 CAAAAT-TTTGAAATTAA
1 CAAAATGTTT-AAATTAA
88485 CAAAATGTTTAAATTAA
1 CAAAATGTTTAAATTAA
88502 AAATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
CAAAATGTTTAAATTAA
Found at i:88525 original size:14 final size:15
Alignment explanation
Indices: 88486--88532 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
88476 TGAAATTAAC
*
88486 AAAATGTTTAAATTA
1 AAAATATTTAAATTA
*
88501 AAAATAATTAAATTA
1 AAAATATTTAAATTA
*
88516 AAAAT-TTTAAGTTA
1 AAAATATTTAAATTA
88530 AAA
1 AAA
88533 TTTAAGTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (15 bp):
AAAATATTTAAATTA
Found at i:97306 original size:24 final size:25
Alignment explanation
Indices: 97261--97307 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
97251 TTTAAAAAAA
** *
97261 ATAAAAGTTATTTTAATTTTTAAGT
1 ATAAAAGTTATTCAAATATTTAAGT
97286 ATAAAA-TTATTCAAATATTTAA
1 ATAAAAGTTATTCAAATATTTAA
97308 AAATATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (25 bp):
ATAAAAGTTATTCAAATATTTAAGT
Found at i:97577 original size:25 final size:24
Alignment explanation
Indices: 97522--97581 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
97512 ATTCTTACTA
* *
97522 GATTAATCGAGACTTATAAAATTT
1 GATTAGTCGAGACTTACAAAATTT
*
97546 AATTTAGTCGAGACTTACAAAATTT
1 GA-TTAGTCGAGACTTACAAAATTT
97571 GGATTAGTCGA
1 -GATTAGTCGA
97582 AACAATGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (24 bp):
GATTAGTCGAGACTTACAAAATTT
Found at i:97988 original size:16 final size:18
Alignment explanation
Indices: 97964--98000 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
97954 ATTTTTAGTA
*
97964 TTTGTATATTT-AAT-AT
1 TTTGAATATTTGAATAAT
97980 TTTGAATATTTGAATAAT
1 TTTGAATATTTGAATAAT
97998 TTT
1 TTT
98001 ATATTTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 3 0.17
18 5 0.28
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTGAATATTTGAATAAT
Found at i:97989 original size:24 final size:25
Alignment explanation
Indices: 97953--98006 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
97943 ATTTAATTTT
* * *
97953 TATTTTTAGTATTTGTAT-ATTTAA
1 TATTTTGAATATTTGAATAATTTAA
*
97977 TATTTTGAATATTTGAATAATTTTA
1 TATTTTGAATATTTGAATAATTTAA
98002 TATTT
1 TATTT
98007 CTAATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.61
Consensus pattern (25 bp):
TATTTTGAATATTTGAATAATTTAA
Found at i:98004 original size:16 final size:14
Alignment explanation
Indices: 97943--98006 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 14
97933 TTTTTTAATA
97943 ATTTAAT-TTTTAT
1 ATTTAATATTTTAT
* *
97956 TTTTAGTATTTGTAT
1 ATTTAATATTT-TAT
97971 ATTTAATATTTTGAAT
1 ATTTAATATTTT--AT
97987 ATTTGAATAATTTTAT
1 ATTT-AAT-ATTTTAT
98003 ATTT
1 ATTT
98007 CTAATTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 12 0.29
16 12 0.29
17 3 0.07
18 5 0.12
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
ATTTAATATTTTAT
Found at i:98750 original size:21 final size:21
Alignment explanation
Indices: 98724--98771 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
98714 CCGCAATGGC
* *
98724 CGCAATAGCGTCCACGACAGT
1 CGCAATAACGCCCACGACAGT
* *
98745 CGCAATAACGCCCGCGACGGT
1 CGCAATAACGCCCACGACAGT
98766 CGCAAT
1 CGCAAT
98772 CACGATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.12
Consensus pattern (21 bp):
CGCAATAACGCCCACGACAGT
Found at i:111497 original size:10 final size:11
Alignment explanation
Indices: 111472--111496 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
111462 CAATAATTCT
111472 AAAATTAAAAA
1 AAAATTAAAAA
111483 AAAATTAAAAA
1 AAAATTAAAAA
111494 AAA
1 AAA
111497 TAGCACTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATTAAAAA
Found at i:115117 original size:15 final size:15
Alignment explanation
Indices: 115093--115145 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
115083 TTGAGACCTT
115093 ACCCGCCCCGCATCC
1 ACCCGCCCCGCATCC
* *
115108 ACCCGTCCCGTATCC
1 ACCCGCCCCGCATCC
* * *
115123 GCCAGCCCCACATCC
1 ACCCGCCCCGCATCC
*
115138 GCCCGCCC
1 ACCCGCCC
115146 AACTAAATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.13, C:0.62, G:0.15, T:0.09
Consensus pattern (15 bp):
ACCCGCCCCGCATCC
Found at i:119641 original size:14 final size:14
Alignment explanation
Indices: 119622--119664 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
119612 TCTTAACCGA
119622 ACAAACGAATGAAC
1 ACAAACGAATGAAC
119636 ACAAAC---T-AA-
1 ACAAACGAATGAAC
119645 ACAAACGAATGAAC
1 ACAAACGAATGAAC
119659 ACAAAC
1 ACAAAC
119665 TAAACGAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
9 6 0.25
10 2 0.08
11 1 0.04
12 1 0.04
13 2 0.08
14 12 0.50
ACGTcount: A:0.60, C:0.23, G:0.09, T:0.07
Consensus pattern (14 bp):
ACAAACGAATGAAC
Found at i:119651 original size:23 final size:23
Alignment explanation
Indices: 119621--119669 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
119611 ATCTTAACCG
119621 AACAAACGAATGAACACAAACTA
1 AACAAACGAATGAACACAAACTA
119644 AACAAACGAATGAACACAAACTA
1 AACAAACGAATGAACACAAACTA
119667 AAC
1 AAC
119670 GAACCAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.08
Consensus pattern (23 bp):
AACAAACGAATGAACACAAACTA
Found at i:123067 original size:4 final size:4
Alignment explanation
Indices: 123058--123109 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
123048 ATTTTGTTAG
* * *
123058 TATT TATT TAAT TATT TAAT TATT TA-T T-TT TATT TAAT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
*
123104 TTTT TA
1 TATT TA
123110 CAGTTATAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 4 0.11
4 34 0.89
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:123116 original size:18 final size:18
Alignment explanation
Indices: 123058--123106 Score: 80
Period size: 18 Copynumber: 2.6 Consensus size: 18
123048 ATTTTGTTAG
123058 TATTTATTTAATTATTTAAT
1 TATTTATTT--TTATTTAAT
123078 TATTTATTTTTATTTAAT
1 TATTTATTTTTATTTAAT
123096 TATTTATTTTT
1 TATTTATTTTT
123107 TTACAGTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 20 0.69
20 9 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTATTTTTATTTAAT
Found at i:123116 original size:26 final size:26
Alignment explanation
Indices: 123061--123116 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
123051 TTGTTAGTAT
***
123061 TTATTTAATTATTTAATTATTTATTT
1 TTATTTAATTATTTAATTATTTACAG
* *
123087 TTATTTAATTATTTATTTTTTTACAG
1 TTATTTAATTATTTAATTATTTACAG
123113 TTAT
1 TTAT
123117 AAAATAGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (26 bp):
TTATTTAATTATTTAATTATTTACAG
Found at i:123388 original size:20 final size:21
Alignment explanation
Indices: 123355--123398 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
123345 TTTATAATTG
*
123355 TAAAAAAATAAAATAATTAAA
1 TAAAAAAATAAAATAATAAAA
*
123376 TAAAATAAT-AAATAATAAAA
1 TAAAAAAATAAAATAATAAAA
123396 TAA
1 TAA
123399 TTAATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAAAAATAAAATAATAAAA
Found at i:123397 original size:12 final size:13
Alignment explanation
Indices: 123360--123404 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
123350 AATTGTAAAA
123360 AAATAA-AATAATT
1 AAATAATAATAA-T
123373 AAATAA-AATAAT
1 AAATAATAATAAT
123385 AAATAATAA-AAT
1 AAATAATAATAAT
*
123397 AATTAATA
1 AAATAATA
123405 CAAAATATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Done.