Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002891.1 Hibiscus syriacus cultivar Beakdansim tig00005975_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: 80330
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:3286 original size:22 final size:22
Alignment explanation
Indices: 3252--3329 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
3242 TCCCCAACAA
*
3252 TGCTAAGGTACTTTAGTATCAG
1 TGCTAAGGCACTTTAGTATCAG
* **
3274 TGCTAATGCACTTCCGTATCAG
1 TGCTAAGGCACTTTAGTATCAG
* *
3296 TGCTGAGGCACTTTAGGA-CAG
1 TGCTAAGGCACTTTAGTATCAG
3317 TGCTAAGGCACTT
1 TGCTAAGGCACTT
3330 CCATTAACCG
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
21 15 0.33
22 31 0.67
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (22 bp):
TGCTAAGGCACTTTAGTATCAG
Found at i:24002 original size:24 final size:24
Alignment explanation
Indices: 23944--24015 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
23934 AAATGGAGAT
*
23944 ATCAGAAATCAAAACATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
23968 ATCATATATCATAACAGAA-TCTAG
1 ATCAGAAATCAAAACAGAATTC-AG
* *
23992 ATCAGAAATCAGAGCAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
24016 GTCTGGTATC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.05
24 34 0.89
25 2 0.05
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:28458 original size:24 final size:24
Alignment explanation
Indices: 28431--28537 Score: 90
Period size: 24 Copynumber: 4.5 Consensus size: 24
28421 ACGGAGATAC
* *
28431 CAGAAATCAAAACATAATTCAGAT
1 CAGAAATCAGAACAGAATTCAGAT
* * *
28455 CAGATATCAGAACAAAATCCAGAGT
1 CAGAAATCAGAACAGAATTCAGA-T
* * *
28480 -AGAAATCAGAGCAGAATGCAGGT
1 CAGAAATCAGAACAGAATTCAGAT
** * *
28503 CAGGTATCATAACAGAATTCAAAT
1 CAGAAATCAGAACAGAATTCAGAT
28527 CAGAAATCAGA
1 CAGAAATCAGA
28538 TAAAACAATC
Statistics
Matches: 62, Mismatches: 19, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 1 0.02
24 60 0.97
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.18
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAT
Found at i:29712 original size:26 final size:28
Alignment explanation
Indices: 29672--29731 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
29662 GTCTTAGTGA
*
29672 TATTCTTGATTCA-TTTACATTTC-AGAGG
1 TATT-TTGATTCATTTTACATATCTAGA-G
29700 TATTTTGA-TCATTTTACATATCTAGAG
1 TATTTTGATTCATTTTACATATCTAGAG
29727 TATTT
1 TATTT
29732 CAACCCTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 19 0.66
28 7 0.24
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (28 bp):
TATTTTGATTCATTTTACATATCTAGAG
Found at i:34302 original size:20 final size:20
Alignment explanation
Indices: 34277--34314 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34267 CCCTCAGGTG
*
34277 TTATTATCTAATTATGTTAA
1 TTATTACCTAATTATGTTAA
*
34297 TTATTACCTAATTTTGTT
1 TTATTACCTAATTATGTT
34315 GCAAGTGCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (20 bp):
TTATTACCTAATTATGTTAA
Found at i:46647 original size:21 final size:21
Alignment explanation
Indices: 46613--46661 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
46603 TGAATGTTGA
* *
46613 GAAGAAGGTACAGTGGATTGG
1 GAAGATGGTACAGTGGACTGG
* *
46634 GAAGATGGTGCAGTGGGCTGG
1 GAAGATGGTACAGTGGACTGG
46655 GAAGATG
1 GAAGATG
46662 CAGCATGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.47, T:0.18
Consensus pattern (21 bp):
GAAGATGGTACAGTGGACTGG
Found at i:48796 original size:22 final size:22
Alignment explanation
Indices: 48750--48794 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
48740 CATTAACATG
48750 TTAAATAACAACAATACTTTAT
1 TTAAATAACAACAATACTTTAT
*
48772 TTAAATAACAACACTAC-TTAT
1 TTAAATAACAACAATACTTTAT
48793 TT
1 TT
48795 TAGTCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATAACAACAATACTTTAT
Found at i:49985 original size:367 final size:364
Alignment explanation
Indices: 49315--50050 Score: 1276
Period size: 367 Copynumber: 2.0 Consensus size: 364
49305 CTAGTCCGGT
* * * * * *
49315 TCAATCTACACCGGTTGAACTGTTACTAGTGAACCGGCCGGAACTACTGAACCGTTCGAACCGGA
1 TCAATCTACACCGATTGAACCGCTACTAGTGAACCAGCCGGAACCACTGAACCGTTCAAACCGGA
* * *
49380 CCGGCTGAAAACTGAAAAAAACCACCAATTTTGTTTTTTTTTTTAAATTAAACCAAACGACGTCG
66 CCGACTGAAAACTGAAAAAAACCACCAATTTTATTTTTTTTTTAAAATTAAACCAAACGACGTCG
* *
49445 TTTGTTAAACGAGCCAAGTCGAACTCGAGTATTGCTGAGCTCGACTCGAACTTGAAAACTTTAAA
131 TTTGTTAAACGAGCCAAGTCGAACTCGAGTATGGCTGAGCTCGAATCGAACTTGAAAACTTTAAA
*
49510 AGTAAGCTCAACTTGACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTCGAACTCGAAATA
196 AGTAAGCTCAACTTAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTCGAACTCGAAATA
49575 TAATATTGAAACTTGAACTCGAAAAGGCCTGAACTCAAAAAAAAAATTAAAAGCTCGATTGAAGC
261 TAATATTGAAACTTGAACTCGAAAAGGCCTGAACTCAAAAAAAAAATTAAAAGCTCGATTGAAGC
49640 CTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTCAC
326 CTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTCAC
49679 TCAATCTACACCGATTGAACCGCTACTAGTGAACCAGCCGGAACCACTGAACCGTTCAAACCGGA
1 TCAATCTACACCGATTGAACCGCTACTAGTGAACCAGCCGGAACCACTGAACCGTTCAAACCGGA
* *
49744 CCGACTGAAAA-TCGGAAAAAACCGCCAATTTTATTTTATTTTTTAAAAAATTAAACCAAACGAC
66 CCGACTGAAAACT-GAAAAAAACCACCAATTTTATTTT-TTTTTT--AAAATTAAACCAAACGAC
*
49808 GTCGTTTGTTAAGCGAGCCAAGTCGAACTCGAGTATGGCTGAGCTCGAATCGAACTTGAAAACTT
127 GTCGTTTGTTAAACGAGCCAAGTCGAACTCGAGTATGGCTGAGCTCGAATCGAACTTGAAAACTT
*
49873 TAAAAGTAAGCTCAACTTAACTCAAACTCACGAGCTAAAAATTATTAAGTTCAACTCGAACTCGA
192 TAAAAGTAAGCTCAACTTAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTCGAACTCGA
*
49938 AATATAATATTGAAACTTGAACTCGAAAAGGCTTGAACTCAAAAAAAAAATTAAAAGCTCGATTG
257 AATATAATATTGAAACTTGAACTCGAAAAGGCCTGAACTCAAAAAAAAAATTAAAAGCTCGATTG
50003 AAGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTCAC
322 AAGCCTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTCAC
50046 TCAAT
1 TCAAT
50051 GTTCACCAAA
Statistics
Matches: 351, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
363 1 0.00
364 90 0.26
365 6 0.02
367 254 0.72
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (364 bp):
TCAATCTACACCGATTGAACCGCTACTAGTGAACCAGCCGGAACCACTGAACCGTTCAAACCGGA
CCGACTGAAAACTGAAAAAAACCACCAATTTTATTTTTTTTTTAAAATTAAACCAAACGACGTCG
TTTGTTAAACGAGCCAAGTCGAACTCGAGTATGGCTGAGCTCGAATCGAACTTGAAAACTTTAAA
AGTAAGCTCAACTTAACTCAAACTCACGAGCTAAAAATTATCAAGTTCAACTCGAACTCGAAATA
TAATATTGAAACTTGAACTCGAAAAGGCCTGAACTCAAAAAAAAAATTAAAAGCTCGATTGAAGC
CTAAAATTCGAGCTTGATTGAAGTGAAAGAATAGTTCAC
Found at i:50674 original size:15 final size:15
Alignment explanation
Indices: 50654--50685 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50644 TGTCAAAACT
50654 AAAGCATCATATTCC
1 AAAGCATCATATTCC
*
50669 AAAGCATTATATTCC
1 AAAGCATCATATTCC
50684 AA
1 AA
50686 CGTGAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAGCATCATATTCC
Found at i:51384 original size:14 final size:14
Alignment explanation
Indices: 51311--51384 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
51301 GTGAAATTCT
*
51311 AATTA-TTAAATACA
1 AATTATTTATATA-A
51325 AATTATTTATATAA
1 AATTATTTATATAA
* * *
51339 AA--ATTCATCTAT
1 AATTATTTATATAA
*
51351 AATATATTTAAATAAA
1 AAT-TATTTATAT-AA
51367 AATTATTTATATAA
1 AATTATTTATATAA
51381 AATT
1 AATT
51385 CATCGATAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
12 9 0.20
14 14 0.30
15 19 0.41
16 4 0.09
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTTATATAA
Found at i:51395 original size:41 final size:42
Alignment explanation
Indices: 51316--51399 Score: 143
Period size: 41 Copynumber: 2.0 Consensus size: 42
51306 ATTCTAATTA
* *
51316 TTAAATACAAATTATTTATATAAAAATTCATCTATAATATAT
1 TTAAATAAAAATTATTTATATAAAAATTCATCGATAATATAT
51358 TTAAATAAAAATTATTTATAT-AAAATTCATCGATAATATAT
1 TTAAATAAAAATTATTTATATAAAAATTCATCGATAATATAT
51399 T
1 T
51400 ATTTTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 20 0.50
42 20 0.50
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (42 bp):
TTAAATAAAAATTATTTATATAAAAATTCATCGATAATATAT
Found at i:51434 original size:21 final size:21
Alignment explanation
Indices: 51392--51431 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
51382 ATTCATCGAT
*
51392 AATATATTATTTTATTATTTA
1 AATATATTATTGTATTATTTA
51413 AATATATTA-TGTATTATTT
1 AATATATTATTGTATTATTT
51432 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
AATATATTATTGTATTATTTA
Found at i:51447 original size:28 final size:28
Alignment explanation
Indices: 51396--51449 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
51386 ATCGATAATA
*
51396 TATTATTTTATTATTTAAATATATTATG
1 TATTATTTTAATATTTAAATATATTATG
*
51424 TATTATTTTAAT-TTTAATTAATATTA
1 TATTATTTTAATATTTAAAT-ATATTA
51450 AATTTTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TATTATTTTAATATTTAAATATATTATG
Found at i:55179 original size:4 final size:4
Alignment explanation
Indices: 55165--55313 Score: 85
Period size: 4 Copynumber: 37.8 Consensus size: 4
55155 GTTAGACAAA
* *
55165 AAAT GAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAG AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
** * * * * * * * * *
55212 AAAT -GTT AAAT CAAG AGAG AGAG AAA- ATAT AAAT AAAT ATAT AAAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
55258 AAAT AAA- AAAT GAAAAT AAAT CAAA- AATT AAAT AAA- AATT AAAT AAATT
1 AAAT AAAT AAAT --AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAA-T
55307 AAAT AAA
1 AAAT AAA
55314 GAAAAAAAAT
Statistics
Matches: 112, Mismatches: 23, Indels: 20
0.72 0.15 0.13
Matches are distributed among these distances:
3 12 0.11
4 89 0.79
5 7 0.06
6 4 0.04
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:55255 original size:12 final size:12
Alignment explanation
Indices: 55171--55305 Score: 63
Period size: 11 Copynumber: 11.8 Consensus size: 12
55161 CAAAAAATGA
*
55171 ATAAATAAATAA
1 ATAAATAAATAT
*
55183 ATAAATAAATAA
1 ATAAATAAATAT
55195 ATAAATAAGA-A-
1 ATAAATAA-ATAT
*
55206 ATAAATAAATGT
1 ATAAATAAATAT
* * *
55218 -TAAATCAAGAG
1 ATAAATAAATAT
* * *
55229 AGAGAGAAA-AT
1 ATAAATAAATAT
55240 ATAAATAAATAT
1 ATAAATAAATAT
*
55252 ATAAAAAAATA-
1 ATAAATAAATAT
* *
55263 AAAAATGAA-A-
1 ATAAATAAATAT
*
55273 ATAAATCAAAAAT
1 ATAAAT-AAATAT
*
55286 -TAAATAAAAAT
1 ATAAATAAATAT
55297 -TAAATAAAT
1 ATAAATAAAT
55306 TAAATAAAGA
Statistics
Matches: 95, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
10 7 0.07
11 44 0.46
12 43 0.45
13 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (12 bp):
ATAAATAAATAT
Found at i:55290 original size:45 final size:46
Alignment explanation
Indices: 55235--55323 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 46
55225 AGAGAGAGAG
* *
55235 AAAATATAAATAAATATATAAA-AAAATAAA-AAATGAAAATAAATCA
1 AAAATATAAATAAAAAT-TAAATAAAATAAATAAA-GAAAAAAAATCA
*
55281 AAAAT-TAAATAAAAATTAAATAAATTAAATAAAGAAAAAAAAT
1 AAAATATAAATAAAAATTAAATAAAATAAATAAAGAAAAAAAAT
55324 AAGAAAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
44 4 0.11
45 26 0.68
46 8 0.21
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.22
Consensus pattern (46 bp):
AAAATATAAATAAAAATTAAATAAAATAAATAAAGAAAAAAAATCA
Found at i:55294 original size:11 final size:11
Alignment explanation
Indices: 55265--55313 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
55255 AAAAAATAAA
*
55265 AAATGAAAA-T
1 AAATAAAAATT
55275 AAATCAAAAATT
1 AAAT-AAAAATT
55287 AAATAAAAATT
1 AAATAAAAATT
55298 AAAT--AAATT
1 AAATAAAAATT
55307 AAATAAA
1 AAATAAA
55314 GAAAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 9 0.26
10 4 0.12
11 16 0.47
12 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
AAATAAAAATT
Found at i:56311 original size:45 final size:45
Alignment explanation
Indices: 56221--56311 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 45
56211 TTGAAAAAGC
* * *
56221 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATCGTATTGT-CATCGATGCATAAAATGCA
*
56267 CTGAGTGCATTGATGCATCGTATCTGT-ATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATCGTAT-TGTCATCGATGCATAAAATGCA
56312 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 17 0.43
46 20 0.50
47 3 0.08
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (45 bp):
CTGAGTGCATCGATGCATCGTATTGTCATCGATGCATAAAATGCA
Found at i:58497 original size:13 final size:13
Alignment explanation
Indices: 58469--58507 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
58459 TGGGCAAGGT
*
58469 TTTGAAAA-ACTA
1 TTTGAAAATAATA
58481 TTTGAAAATAATA
1 TTTGAAAATAATA
*
58494 TTTGTAAATAATA
1 TTTGAAAATAATA
58507 T
1 T
58508 GTATAGTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:64531 original size:20 final size:20
Alignment explanation
Indices: 64503--64541 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64493 CAAGAAATTA
64503 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
64523 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
64542 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:66069 original size:37 final size:39
Alignment explanation
Indices: 65996--66100 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 39
65986 TAAACTATGT
* *
65996 TATATATATATATATATA-TATTTCAAAATGA-TTTTTAAAC
1 TATATAT-TATATATA-AGT-TTTCAAAATAAGTTTTAAAAC
66036 TATATATTATATATAAGTTTTCAAAA-AAGTTTTAAAAAC
1 TATATATTATATATAAGTTTTCAAAATAAGTTTT-AAAAC
* *
66075 TATACAATATATA-AATGTTTTCAAAA
1 TATATATTATATATAA-GTTTTCAAAA
66101 CCATGTAATA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.02
38 15 0.26
39 34 0.60
40 7 0.12
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (39 bp):
TATATATTATATATAAGTTTTCAAAATAAGTTTTAAAAC
Found at i:66094 original size:27 final size:25
Alignment explanation
Indices: 66064--66126 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 25
66054 TTTCAAAAAA
*
66064 GTTTTAAAAACTATACAATATATAAAT
1 GTTTTAAAAACCATACAATATAT--AT
* **
66091 GTTTTCAAAACCATGTAATATATAT
1 GTTTTAAAAACCATACAATATATAT
66116 GTTTTCAAAAA
1 GTTTT-AAAAA
66127 TGTTTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 7 0.23
26 4 0.13
27 19 0.63
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (25 bp):
GTTTTAAAAACCATACAATATATAT
Found at i:66131 original size:12 final size:12
Alignment explanation
Indices: 66114--66138 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66104 TGTAATATAT
66114 ATGTTTTCAAAA
1 ATGTTTTCAAAA
66126 ATGTTTTCAAAA
1 ATGTTTTCAAAA
66138 A
1 A
66139 CTTATAGTAT
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:66186 original size:73 final size:71
Alignment explanation
Indices: 66087--66362 Score: 289
Period size: 73 Copynumber: 3.8 Consensus size: 71
66077 TACAATATAT
* * * *
66087 AAATGTTTTC-AAAACCATGTAATATATATGTTTTCAAAAATGTTTTCAAAAACTTATAGTATAC
1 AAATGTTTCCAAAAACTATATAATATATAT-TTTTCTAAAATGTTTT-AAAAACTTATA-TATAC
66151 ATATTTT-A
63 ATATTTTAA
* * *
66159 AAATGTTTCCAAAAACTATATATTATATATATTTT-TAAAATGTTTTCAAAA-TTATATAATATA
1 AAATGTTTCCAAAAACTATATAATATATAT-TTTTCTAAAATGTTTTAAAAACTTATAT-ATACA
*
66222 TGTTTTCAAA
64 TATTTT--AA
* *
66232 AAATGTTTTCAAAAAACTATATATTATATA-TTTTCTAAAATGTTTTAAAAAC-TATATATTACA
1 AAATG-TTTCCAAAAACTATATAATATATATTTTTCTAAAATGTTTTAAAAACTTATATA-TACA
66295 TAATTTTCAA
64 T-ATTTT-AA
*
66305 AAATGTTT-TAAAAACTATATAATATATATTTTTTCTAAAATGTTTTAAAAAC-TATATA
1 AAATGTTTCCAAAAACTATATAATATATA-TTTTTCTAAAATGTTTTAAAAACTTATATA
66363 CTATATACGT
Statistics
Matches: 176, Mismatches: 16, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
69 1 0.01
70 14 0.08
71 22 0.12
72 27 0.15
73 85 0.48
74 27 0.15
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (71 bp):
AAATGTTTCCAAAAACTATATAATATATATTTTTCTAAAATGTTTTAAAAACTTATATATACATA
TTTTAA
Found at i:66215 original size:36 final size:37
Alignment explanation
Indices: 66087--66450 Score: 291
Period size: 37 Copynumber: 9.8 Consensus size: 37
66077 TACAATATAT
* * * * *
66087 AAATGTTTTCAAAACCATGTAATATATATGTTTTCAA
1 AAATGTTTTCAAAACTATATATTATATATATTTTCTA
* *
66124 AAATGTTTTCAAAAACT-TATAGTATACATA-TTT-TA
1 AAATGTTTTC-AAAACTATATATTATATATATTTTCTA
*
66159 AAATGTTTCCAAAAACTATATATTATATATATTTT-TA
1 AAATGTTTTC-AAAACTATATATTATATATATTTTCTA
* * *
66196 AAATGTTTTCAAAA-T-TATATAATATATGTTTTCAAA
1 AAATGTTTTCAAAACTATATATTATATATATTTTC-TA
66232 AAATGTTTTCAAAAAACTATATA-T-TATATATTTTCTA
1 AAATGTTTTC--AAAACTATATATTATATATATTTTCTA
* * *
66269 AAATGTTTTAAAAACTATATATTACATA-ATTTTCAA
1 AAATGTTTTCAAAACTATATATTATATATATTTTCTA
* * *
66305 AAATGTTTTAAAAACTATATAATATATATTTTTTCTA
1 AAATGTTTTCAAAACTATATATTATATATATTTTCTA
* * **
66342 AAATGTTTTAAAAACTATATACTATATACGTATTTTAGA
1 AAATGTTTTCAAAACTATATATTATATA--TATTTTCTA
* * * **
66381 AAACTATTTGC-AAACTATATACTATATACGTATTTTAGA
1 AAA-TGTTTTCAAAACTATATATTATATA--TATTTTCTA
* * *
66420 AAACTATTTGC-AAACTATATAATATATATAT
1 AAA-TGTTTTCAAAACTATATATTATATATAT
66451 ATAGACATAT
Statistics
Matches: 281, Mismatches: 31, Indels: 30
0.82 0.09 0.09
Matches are distributed among these distances:
34 15 0.05
35 29 0.10
36 63 0.22
37 82 0.29
38 19 0.07
39 65 0.23
40 8 0.03
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.43
Consensus pattern (37 bp):
AAATGTTTTCAAAACTATATATTATATATATTTTCTA
Found at i:66239 original size:13 final size:13
Alignment explanation
Indices: 66221--66247 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
66211 TATATAATAT
66221 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
66234 ATGTTTTCAAAAA
1 ATGTTTTCAAAAA
66247 A
1 A
66248 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
ATGTTTTCAAAAA
Found at i:66357 original size:37 final size:37
Alignment explanation
Indices: 66087--66369 Score: 296
Period size: 37 Copynumber: 7.8 Consensus size: 37
66077 TACAATATAT
* * * * *
66087 AAATGTTTTCAAAACCATGTAATATATATGTTTTCAA
1 AAATGTTTTAAAAACTATATAATATATATATTTTCTA
* *
66124 AAATGTTTTCAAAAACT-TATAGTATACATA-TTT-TA
1 AAATGTTTT-AAAAACTATATAATATATATATTTTCTA
* *
66159 AAATGTTTCCAAAAACTATATATTATATATATTTT-TA
1 AAATGTTT-TAAAAACTATATAATATATATATTTTCTA
* * * *
66196 AAATGTTTTCAAAATTATAT-A-ATATATGTTTTCAAA
1 AAATGTTTTAAAAACTATATAATATATATATTTTC-TA
66232 AAATGTTTTCAAAAAACTATAT-AT-TATATATTTTCTA
1 AAATGTTTT--AAAAACTATATAATATATATATTTTCTA
* * *
66269 AAATGTTTTAAAAACTATATATTACATA-ATTTTCAA
1 AAATGTTTTAAAAACTATATAATATATATATTTTCTA
*
66305 AAATGTTTTAAAAACTATATAATATATATTTTTTCTA
1 AAATGTTTTAAAAACTATATAATATATATATTTTCTA
*
66342 AAATGTTTTAAAAACTATATACTATATA
1 AAATGTTTTAAAAACTATATAATATATA
66370 CGTATTTTAG
Statistics
Matches: 206, Mismatches: 28, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
34 10 0.05
35 27 0.13
36 67 0.33
37 77 0.37
38 25 0.12
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (37 bp):
AAATGTTTTAAAAACTATATAATATATATATTTTCTA
Found at i:66396 original size:39 final size:39
Alignment explanation
Indices: 66353--66447 Score: 181
Period size: 39 Copynumber: 2.4 Consensus size: 39
66343 AATGTTTTAA
66353 AAACTATATACTATATACGTATTTTAGAAAACTATTTGC
1 AAACTATATACTATATACGTATTTTAGAAAACTATTTGC
66392 AAACTATATACTATATACGTATTTTAGAAAACTATTTGC
1 AAACTATATACTATATACGTATTTTAGAAAACTATTTGC
*
66431 AAACTATATAATATATA
1 AAACTATATACTATATA
66448 TATATAGACA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (39 bp):
AAACTATATACTATATACGTATTTTAGAAAACTATTTGC
Found at i:67457 original size:168 final size:168
Alignment explanation
Indices: 66988--68277 Score: 1716
Period size: 168 Copynumber: 7.7 Consensus size: 168
66978 TTATTGACAT
* * * * * * * * * *
66988 ATAGCCCTTATTGCCTTGAGCTATACTGTAAATGATATTCCTTGGAGCTGAGTGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
67053 GAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATATGCCATTAA
66 GAAGGTC-TTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTT-G
* *
67118 AAGATGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAG
129 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* * * * * * * * * *
67154 ATAACCCTTCTAGCCTTGAGCTATATCT-CAAATGATGTGCCATTGAGTTGAGTGTAATTGAACT
1 ATAGCCCTTCTCGACTTAAGCTAT-GCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACT
* * *
67218 CAAAGATCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTAA
65 CGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGA
67283 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* * *
67322 ATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCATAATCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * * * *
67387 GAAGGCCTTTGGTTGGAAGATAACCCTTCTATCCTTGAGTTATGCTGCAAATGATATG-CCTTGG
66 GAAGGTCTTT-GTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGA
* * * *
67451 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTAGGCAG
130 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* *
67490 ATAGCCCTTATCGACTTAAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * * * **
67555 GAAGGTCTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTTTGTTACAAATGATGTGCCCCCGAA
66 GAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAA
67620 GCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
131 GCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* * *
67658 ATAGCCCTTCTTGACTTAAGCTATACTACAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
67723 GAAGGTTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCCTAAA
66 GAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAA
* *
67788 GCTGAGTGTAATCGAACTCAAAGGTCATTGGTTGGCAG
131 GCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
** * * * * *
67826 ATAGCTTTTCTCGACTTAAGTTATGCTACAAATAATGTGCCTTTGAGCTGAGCGTAGTCAAAATC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
67891 GAAGGTCTTTGTTGGCAGATAACCCTTATAG-CTCTGAGTTATGATGCAAATGATGTGCCCTCGA
66 GAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCT-TGAGTTATGCTGCAAATGATGTGCCCTTGA
67955 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
130 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* * *
67994 ATAACCCTTCTCGACTTAAGCTATGTTGTAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACGT
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAAC-T
* * *
68059 -GAAGGTTTTTGTTGGCAGATAACCCTTCTAGGCTTGAGTTATGCTGCAAATGATGTGCCCTCGA
65 CGAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGA
* ** * *
68123 AGCTGAGTGTAATCAAACTTAAAGGTCTTTGGTTGGTAA
130 AGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
* *
68162 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTC
1 ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
* * *
68227 AAAGGTCTTTGTCT-TCAGATAACTCTTCTAGCCTTGAGTTATGCTGCAAAT
66 GAAGGTCTTTGT-TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
68278 AAATAAAGAA
Statistics
Matches: 997, Mismatches: 114, Indels: 24
0.88 0.10 0.02
Matches are distributed among these distances:
164 27 0.03
165 53 0.05
166 56 0.06
167 48 0.05
168 765 0.77
169 48 0.05
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (168 bp):
ATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGAACTC
GAAGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTTGAA
GCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGCAG
Found at i:72235 original size:4 final size:4
Alignment explanation
Indices: 72228--72486 Score: 62
Period size: 4 Copynumber: 64.5 Consensus size: 4
72218 AAAAAAATGG
* * * * * *
72228 ATAA ATAA ATAG AT-A A-AA ATAA ATAA ATAA AT-G TTAA ATCA AGAG
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * *
72273 AGAA A-AA TATAA A-AT ATAT ATAA AAAA ATGAAA ATAA ATCAA A-AA
1 ATAA ATAA -ATAA ATAA ATAA ATAA ATAA AT-A-A ATAA AT-AA ATAA
* * *
72318 ATAAA ATAAA ATAA ATAA AT-A ATTA ATTA ATAA ATAA AGAA A-AA ATAA
1 AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * **
72366 GA-AA ATAAA AGAA AGAA A-AA GTCAA AGGA A-AA ATATA ATAA AT-A
1 -ATAA AT-AA ATAA ATAA ATAA AT-AA ATAA ATAA ATA-A ATAA ATAA
* * * *
72410 A-AA ATATA ATAA A-AA AGAA ATCAA AGAAA ATGAA AAAA GAAAA ATAAA
1 ATAA ATA-A ATAA ATAA ATAA AT-AA A-TAA AT-AA ATAA -ATAA AT-AA
*
72458 ATAA ATAA ATAA A-AA ATAA TTAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
72487 TTTAAAAAAC
Statistics
Matches: 195, Mismatches: 30, Indels: 60
0.68 0.11 0.21
Matches are distributed among these distances:
3 32 0.16
4 113 0.58
5 47 0.24
6 3 0.02
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:72249 original size:14 final size:14
Alignment explanation
Indices: 72230--72485 Score: 67
Period size: 15 Copynumber: 18.1 Consensus size: 14
72220 AAAAATGGAT
*
72230 AAATAAATAGATAA
1 AAATAAATAAATAA
72244 AAATAAATAAAT--
1 AAATAAATAAATAA
** *
72256 AAAT-GTTAAATCA
1 AAATAAATAAATAA
* *
72269 AGAGAGAA-AAATATA
1 AAATA-AATAAATA-A
*
72284 AAATATATATAA-AA
1 AAATAAATA-AATAA
*
72298 AAATGAAAATAAAT-C
1 AAAT--AAATAAATAA
72313 AAA-AAATAAA-ATA
1 AAATAAATAAATA-A
72326 AAATAAATAAATAA
1 AAATAAATAAATAA
* *
72340 TTAATTAATAAATAA
1 -AAATAAATAAATAA
* *
72355 AGAAAAAAT-AA-GA
1 A-AATAAATAAATAA
*
72368 AAATAAA-AGAA-AG
1 AAATAAATA-AATAA
* *
72381 AAA-AAGTCAAAGGAA
1 AAATAAAT-AAA-TAA
72396 AAATATAATAAATAA
1 AAATA-AATAAATAA
*
72411 AAATATAATAAAAAA
1 AAATA-AATAAATAA
*
72426 GAAATCAAAGAAAATGAA
1 -AAAT-AAA-TAAAT-AA
72444 AAA-AGAA-AAAT-A
1 AAATA-AATAAATAA
72456 AAATAAATAAATAAA
1 AAATAAATAAAT-AA
*
72471 AAATAATTAAATAA
1 AAATAAATAAATAA
72485 A
1 A
72486 TTTTAAAAAA
Statistics
Matches: 178, Mismatches: 31, Indels: 66
0.65 0.11 0.24
Matches are distributed among these distances:
11 5 0.03
12 24 0.13
13 19 0.11
14 39 0.22
15 62 0.35
16 18 0.10
17 9 0.05
18 2 0.01
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:72328 original size:10 final size:9
Alignment explanation
Indices: 72281--72339 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
72271 AGAGAAAAAT
72281 ATAAAATATA
1 ATAAAATA-A
72291 TATAAAA-AA
1 -ATAAAATAA
72300 ATGAAAATAA
1 AT-AAAATAA
*
72310 ATCAAA-AA
1 ATAAAATAA
72318 ATAAAATAA
1 ATAAAATAA
72327 A-ATAAATAA
1 ATA-AAATAA
72336 ATAA
1 ATAA
72340 TTAATTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 10 0.24
9 19 0.46
10 6 0.15
11 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
ATAAAATAA
Found at i:72329 original size:18 final size:17
Alignment explanation
Indices: 72275--72471 Score: 72
Period size: 16 Copynumber: 11.6 Consensus size: 17
72265 ATCAAGAGAG
*
72275 AAAAATATAAAATATATAT
1 AAAAA-ATAAAATA-AAAT
72294 AAAAAAATGAAAAT-AAAT
1 -AAAAAAT-AAAATAAAAT
72312 CAAAAAATAAAATAAAAT
1 -AAAAAATAAAATAAAAT
* *
72330 AAATAAAT--AATTAATT
1 AAA-AAATAAAATAAAAT
* *
72346 AATAAAT-AAA-GAAA-
1 AAAAAATAAAATAAAAT
* * *
72360 AAATAAGAAAATAAAAG
1 AAAAAATAAAATAAAAT
* * * *
72377 AAAGAA-AAAGTCAAAG
1 AAAAAATAAAATAAAAT
* *
72393 GAAAAATATAAT-AAAT
1 AAAAAATAAAATAAAAT
*
72409 -AAAAATATAATAAAA-
1 AAAAAATAAAATAAAAT
* * *
72424 AAGAAATCAAAGAAAAT
1 AAAAAATAAAATAAAAT
*
72441 GAAAAAAGAAAAATAAAAT
1 -AAAAAA-TAAAATAAAAT
72460 AAATAAATAAAA
1 AAA-AAATAAAA
72472 AATAATTAAA
Statistics
Matches: 135, Mismatches: 28, Indels: 30
0.70 0.15 0.16
Matches are distributed among these distances:
14 4 0.03
15 20 0.15
16 42 0.31
17 16 0.12
18 30 0.22
19 13 0.10
20 10 0.07
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAAATAAAATAAAAT
Found at i:72463 original size:23 final size:23
Alignment explanation
Indices: 72405--72466 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
72395 AAAATATAAT
72405 AAATAAAAATATAATAAAAAAG--
1 AAATAAAAATA-AATAAAAAAGAA
*
72427 AAATCAAAGA-AAATGAAAAAAGAA
1 AAAT-AAAAATAAAT-AAAAAAGAA
72451 AAAT-AAAATAAATAAA
1 AAATAAAAATAAATAAA
72467 TAAAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
21 3 0.09
22 18 0.55
23 8 0.24
24 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (23 bp):
AAATAAAAATAAATAAAAAAGAA
Found at i:72476 original size:55 final size:55
Alignment explanation
Indices: 72346--72476 Score: 147
Period size: 55 Copynumber: 2.3 Consensus size: 55
72336 ATAATTAATT
* * ** * *
72346 AATAAATAAAGAAAAAATAAGAAAATAAAAGAAAGAAAAAGTCAAAGGAAAAATAT
1 AATAAATAAA-AAAAAATAAGAAAAGAAAACAAAGAAAAAGAAAAAAGAAAAATAA
* * *
72402 AATAAATAAAAATATAATAA-AAAAGAAATCAAAGAAAATGAAAAAAGAAAAATAA
1 AATAAATAAAAA-AAAATAAGAAAAGAAAACAAAGAAAAAGAAAAAAGAAAAATAA
72457 AATAAATAAATAAAAAATAA
1 AATAAATAAA-AAAAAATAA
72477 TTAAATAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
55 45 0.71
56 18 0.29
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.15
Consensus pattern (55 bp):
AATAAATAAAAAAAAATAAGAAAAGAAAACAAAGAAAAAGAAAAAAGAAAAATAA
Found at i:72482 original size:15 final size:15
Alignment explanation
Indices: 72277--72485 Score: 76
Period size: 15 Copynumber: 13.5 Consensus size: 15
72267 CAAGAGAGAA
* *
72277 AAATATAAAATATAT
1 AAATAAAAAATAAAT
*
72292 ATA-AAAAAATGAAAAT
1 AAATAAAAAAT--AAAT
72308 AAATCAAAAAATAAA-
1 AAAT-AAAAAATAAAT
*
72323 ATAA-AATAAATAAAT
1 A-AATAAAAAATAAAT
* **
72338 AATTAATTAATAAAT
1 AAATAAAAAATAAAT
*
72353 AAAGAAAAAATAAGA-
1 AAATAAAAAATAA-AT
72368 AAATAAAAGAA-AGAA-
1 AAATAAAA-AATA-AAT
*
72383 AAAGTCAAAGGAA-AAAT
1 AAA-T-AAA-AAATAAAT
*
72400 ATAATAAATAA-AAAT
1 A-AATAAAAAATAAAT
*
72415 ATAATAAAAAAGAAAT
1 A-AATAAAAAATAAAT
* * *
72431 CAAAGAAAATGAAAAAAG
1 -AAATAAAA--AATAAAT
72449 AAA-AATAAAATAAAT
1 AAATAA-AAAATAAAT
*
72464 AAATAAAAAATAATT
1 AAATAAAAAATAAAT
72479 AAATAAA
1 AAATAAA
72486 TTTTAAAAAA
Statistics
Matches: 152, Mismatches: 21, Indels: 42
0.71 0.10 0.20
Matches are distributed among these distances:
14 16 0.11
15 74 0.49
16 34 0.22
17 14 0.09
18 14 0.09
ACGTcount: A:0.74, C:0.01, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATAAAAAATAAAT
Found at i:72514 original size:59 final size:60
Alignment explanation
Indices: 72395--72512 Score: 143
Period size: 59 Copynumber: 2.0 Consensus size: 60
72385 AGTCAAAGGA
*
72395 AAAATATAATAAATAAAAATATAATAAAAAAGAAATCAAAGAAAATGAAAAAAGAAAAAT
1 AAAATATAATAAATAAAAATATAATAAAAAAGAAATCAAAAAAAATGAAAAAAGAAAAAT
* ** *
72455 AAAATA-AATAAATAAAAA-ATAATTAAATAA-ATTTTAAAAAACAATGAAATAAAGAAAA
1 AAAATATAATAAATAAAAATATAA-TAAAAAAGAAATCAAAAAA-AATGAAA-AAAGAAAA
72513 TATGAAAGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 11 0.22
59 25 0.50
60 14 0.28
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (60 bp):
AAAATATAATAAATAAAAATATAATAAAAAAGAAATCAAAAAAAATGAAAAAAGAAAAAT
Found at i:72519 original size:16 final size:15
Alignment explanation
Indices: 72489--72539 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
72479 AAATAAATTT
72489 TAAAAAACA-ATGAAA
1 TAAAAAA-ATATGAAA
72504 TAAAGAAAATATGAAA
1 TAAA-AAAATATGAAA
* * *
72520 GAAAAAAATTTCAAA
1 TAAAAAAATATGAAA
72535 TAAAA
1 TAAAA
72540 TAAAATAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.71, C:0.04, G:0.08, T:0.18
Consensus pattern (15 bp):
TAAAAAAATATGAAA
Found at i:72547 original size:41 final size:39
Alignment explanation
Indices: 72451--72543 Score: 96
Period size: 41 Copynumber: 2.3 Consensus size: 39
72441 GAAAAAAGAA
* ** * *
72451 AAATAAAATAAATAAATAAAAAATAATTAAATAAATTTT
1 AAATAAAATAAATAAAGAAAAAATAAAGAAAAAAATTTC
* *
72490 AAAAAACAATGAAATAAAGAAAATATGAAAGAAAAAAATTTC
1 AAATAA-AAT-AAATAAAGAAAAAAT-AAAGAAAAAAATTTC
72532 AAATAAAATAAA
1 AAATAAAATAAA
72544 ATAACAACTT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
39 5 0.12
40 6 0.14
41 16 0.37
42 16 0.37
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (39 bp):
AAATAAAATAAATAAAGAAAAAATAAAGAAAAAAATTTC
Found at i:73411 original size:3 final size:3
Alignment explanation
Indices: 73405--73456 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
73395 AAAAAAAAAT
73405 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
73452 ATA AT
1 ATA AT
73457 GTAACTATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 46 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:73585 original size:23 final size:24
Alignment explanation
Indices: 73532--73589 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
73522 TTTCAAAAAG
*
73532 GTTTTAAAAACAATATAATATAAAT
1 GTTTTCAAAACAATATAATAT-AAT
* *
73557 GTTTTCAAAACCATGTAATAT-AT
1 GTTTTCAAAACAATATAATATAAT
73580 GTTTTCAAAA
1 GTTTTCAAAA
73590 ATGTTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 12 0.40
25 18 0.60
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (24 bp):
GTTTTCAAAACAATATAATATAAT
Found at i:73595 original size:12 final size:12
Alignment explanation
Indices: 73578--73602 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
73568 CATGTAATAT
73578 ATGTTTTCAAAA
1 ATGTTTTCAAAA
73590 ATGTTTTCAAAA
1 ATGTTTTCAAAA
73602 A
1 A
73603 CTTATATTAT
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:73655 original size:34 final size:32
Alignment explanation
Indices: 73553--73819 Score: 229
Period size: 35 Copynumber: 7.8 Consensus size: 32
73543 AATATAATAT
* * *
73553 AAATGTTTTCAAAACCATGTAATATATGTTTTCAA
1 AAATGTTTTCAAAACTATAT-ATATATATTTT--A
73588 AAATGTTTTCAAAAACT-TATATTATATATTTTTAA
1 AAATGTTTTC-AAAACTATATA-TATATA-TTTT-A
73623 AAATGTTTTCAAAAACTATATATATATATTTTA
1 AAATGTTTTC-AAAACTATATATATATATTTTA
* *
73656 AAAT-TTTTCAAAATTATATAATATATGTTTTTAAA
1 AAATGTTTTCAAAACTATAT-ATATAT-ATTTT--A
73691 AAATGTTTTCAAAAAACTATATAT-TATATTTTCTA
1 AAATGTTTTC--AAAACTATATATATATA-TTT-TA
* * * *
73726 AATTTTTTTAAAAACTATATATTACATAATTTTCA
1 AAATGTTTTCAAAACTATATA-TATAT-ATTTT-A
73761 AAATGTTTT-AAAACTATATAATATATATTTTA
1 AAATGTTTTCAAAACTATAT-ATATATATTTTA
73793 AAATGTTTT-AAAACTATATACTATATA
1 AAATGTTTTCAAAACTATATA-TATATA
73820 CGTATTTTCG
Statistics
Matches: 199, Mismatches: 14, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
31 10 0.05
32 37 0.19
33 25 0.13
34 21 0.11
35 69 0.35
36 25 0.13
37 3 0.02
38 9 0.05
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (32 bp):
AAATGTTTTCAAAACTATATATATATATTTTA
Found at i:73680 original size:36 final size:34
Alignment explanation
Indices: 73587--73862 Score: 157
Period size: 35 Copynumber: 7.9 Consensus size: 34
73577 TATGTTTTCA
73587 AAAATGTTTTCAAAA-ACT-TATAT-TATATATTTTT
1 AAAATGTTTT-AAAATA-TATATATATATATA-TTTT
*
73621 AAAAATGTTTTCAAAA-A-CTATATATATATATTTT
1 -AAAATGTTTT-AAAATATATATATATATATATTTT
*
73655 AAAAT-TTTTCAAAAT-TATATA-ATATATGTTTTT
1 AAAATGTTTT-AAAATATATATATATATAT-ATTTT
*
73688 AAAAAATGTTTTCAAAAAACTATATAT-TATAT-TTTCT
1 --AAAATGTTTT-AAAATA-TATATATATATATATTT-T
* * *
73725 AAATTTTTTTAAAA-ACTATATAT-TACATAATTTT
1 AAAATGTTTTAAAATA-TATATATATATAT-ATTTT
*
73759 CAAAATGTTTTAAAA-CTATATA-ATATATATTTT
1 -AAAATGTTTTAAAATATATATATATATATATTTT
**
73792 AAAATGTTTTAAAACTATATACTATATACGTATTTT
1 AAAATGTTTTAAAA-TATATA-TATATATATATTTT
***
73828 CGAAAACCATTTACAAACTATATATATATATATAT
1 --AAAATGTTTTA-AAA-TATATATATATATATAT
73863 ATATATAGAT
Statistics
Matches: 200, Mismatches: 18, Indels: 43
0.77 0.07 0.16
Matches are distributed among these distances:
32 29 0.14
33 31 0.16
34 28 0.14
35 52 0.26
36 21 0.10
37 1 0.00
38 28 0.14
39 10 0.05
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (34 bp):
AAAATGTTTTAAAATATATATATATATATATTTT
Found at i:74740 original size:31 final size:31
Alignment explanation
Indices: 74705--74767 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
74695 TCGATTATTT
74705 GACAATGAAAATTCATATTTTTATATATGCA
1 GACAATGAAAATTCATATTTTTATATATGCA
74736 GACAATGAAAATTCATATTTTTATATATGCA
1 GACAATGAAAATTCATATTTTTATATATGCA
74767 G
1 G
74768 TGTTCAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (31 bp):
GACAATGAAAATTCATATTTTTATATATGCA
Found at i:75436 original size:67 final size:66
Alignment explanation
Indices: 75344--75672 Score: 291
Period size: 69 Copynumber: 4.9 Consensus size: 66
75334 CAAACATAAT
* *** *
75344 TTTTGAAAGTATATATTATAT-GTTTTGAAAACATATTTTTGAA-AGCGTATATAGTTTTTAAAA
1 TTTTGAAA-TATATAATATATAGTTTTGAAAACATATTTTTGAATATAATATATAGTTTTGAAAA
*
75407 TGGA
65 --CA
*
75411 TTTTGAAATATATAATATATAGTTTTG-AAA-ATATTTTAAAATAAATATAATATATAGTTTTGA
1 TTTTGAAATATATAATATATAGTTTTGAAAACATATTTT----TGAATATAATATATAGTTTTGA
*
75474 GAACA
62 AAACA
** *
75479 TTTTGAAAATATATAATATATAGTTTTGAAAACGGA-TTTTGAAATATAATATATAATTTTGAAA
1 TTTTG-AAATATATAATATATAGTTTTGAAAACATATTTTTG-AATATAATATATAGTTTTGAAA
75543 ACA
64 ACA
* *
75546 TTTTGAAA-ATATATATATATAGTTTTGAAAACA-CTTTTTGAAAATATATAATATATAGCTTTG
1 TTTTGAAATATATA-ATATATAGTTTTGAAAACATATTTTTG---A-ATATAATATATAGTTTTG
75609 AAAACA
61 AAAACA
* ***
75615 TTTTTGAAA-ATATAATATATAGTTTT-AAAACGT-TTTGAAAATATATATATATAGTTTT
1 -TTTTGAAATATATAATATATAGTTTTGAAAACATATTTTTGAATATA-ATATATAGTTTT
75673 TGGAAATCGT
Statistics
Matches: 222, Mismatches: 22, Indels: 38
0.79 0.08 0.13
Matches are distributed among these distances:
64 5 0.02
65 24 0.11
66 41 0.18
67 42 0.19
68 16 0.07
69 59 0.27
70 34 0.15
71 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (66 bp):
TTTTGAAATATATAATATATAGTTTTGAAAACATATTTTTGAATATAATATATAGTTTTGAAAAC
A
Found at i:75447 original size:33 final size:32
Alignment explanation
Indices: 75391--75672 Score: 325
Period size: 33 Copynumber: 8.3 Consensus size: 32
75381 TTTGAAAGCG
* *
75391 TATATAGTTTTTAAAATGGATTTTGAAATATATAA
1 TATATAGTTTTGAAAA--CATTTTGAAA-ATATAA
* *
75426 TATATAGTTTTGAAAATATTTTAAAATAAATATAA
1 TATATAGTTTTGAAAACATTTT--GA-AAATATAA
*
75461 TATATAGTTTTGAGAACATTTTGAAAATATATAA
1 TATATAGTTTTGAAAACATTTTG-AAA-ATATAA
75495 TATATAGTTTTGAAAACGGATTTTG-AAATATAA
1 TATATAGTTTTGAAAAC--ATTTTGAAAATATAA
*
75528 TATATAATTTTGAAAACATTTTGAAAATATATA
1 TATATAGTTTTGAAAACATTTTGAAAATATA-A
75561 TATATAGTTTTGAAAACACTTTTTGAAAATATATAA
1 TATATAGTTTTGAAAACA--TTTTG-AAA-ATATAA
*
75597 TATATAGCTTTGAAAACATTTTTGAAAATATAA
1 TATATAGTTTTGAAAACA-TTTTGAAAATATAA
*
75630 TATATAGTTTT-AAAACGTTTTGAAAATATATA
1 TATATAGTTTTGAAAACATTTTGAAAATATA-A
75662 TATATAGTTTT
1 TATATAGTTTT
75673 TGGAAATCGT
Statistics
Matches: 221, Mismatches: 12, Indels: 31
0.84 0.05 0.12
Matches are distributed among these distances:
31 19 0.09
32 24 0.11
33 63 0.29
34 28 0.13
35 53 0.24
36 29 0.13
37 5 0.02
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.43
Consensus pattern (32 bp):
TATATAGTTTTGAAAACATTTTGAAAATATAA
Found at i:75504 original size:69 final size:67
Alignment explanation
Indices: 75391--75672 Score: 346
Period size: 69 Copynumber: 4.2 Consensus size: 67
75381 TTTGAAAGCG
* * *
75391 TATATAGTTTTTAAAATGGATTTTGAAATATATAATATATAGTTTTGAAAATATTTT-AAAATAA
1 TATATAGTTTTGAAAA--CATTTTGAAATATATAATATATAGTTTTGAAAACATTTTGAAAAT--
75455 ATATAA
62 ATATAA
*
75461 TATATAGTTTTGAGAACATTTTGAAAATATATAATATATAGTTTTGAAAACGGATTTTG--AA-A
1 TATATAGTTTTGAAAACATTTTG-AAATATATAATATATAGTTTTGAAAAC--ATTTTGAAAATA
75523 TATAA
63 TATAA
*
75528 TATATAATTTTGAAAACATTTTGAAA-ATATATATATATAGTTTTGAAAACACTTTTTGAAAATA
1 TATATAGTTTTGAAAACATTTTGAAATATATA-ATATATAGTTTTGAAAACA--TTTTGAAAATA
75592 TATAA
63 TATAA
* *
75597 TATATAGCTTTGAAAACATTTTTGAAA-ATATAATATATAGTTTT-AAAACGTTTTGAAAATATA
1 TATATAGTTTTGAAAACA-TTTTGAAATATATAATATATAGTTTTGAAAACATTTTGAAAATATA
75660 T-A
65 TAA
75662 TATATAGTTTT
1 TATATAGTTTT
75673 TGGAAATCGT
Statistics
Matches: 191, Mismatches: 10, Indels: 27
0.84 0.04 0.12
Matches are distributed among these distances:
64 1 0.01
65 16 0.08
66 40 0.21
67 27 0.14
68 13 0.07
69 60 0.31
70 29 0.15
71 5 0.03
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.43
Consensus pattern (67 bp):
TATATAGTTTTGAAAACATTTTGAAATATATAATATATAGTTTTGAAAACATTTTGAAAATATAT
AA
Found at i:75530 original size:102 final size:102
Alignment explanation
Indices: 75391--75672 Score: 405
Period size: 102 Copynumber: 2.8 Consensus size: 102
75381 TTTGAAAGCG
* * *
75391 TATATAGTTTTTAAAATGGATTTTGAAATATATAATATATAGTTTTGAAAATATTTT-AAAATAA
1 TATATAGTTTTGAAAACGGATTTTGAAA-ATATAATATATAGTTTTGAAAACATTTTGAAAAT--
*
75455 ATATAATATATAGTTTTGAGAACA-TTTTGAAAATATATAA
63 ATAT-ATATATAGTTTTGAAAACACTTTTGAAAATATATAA
*
75495 TATATAGTTTTGAAAACGGATTTTG-AAATATAATATATAATTTTGAAAACATTTTGAAAATATA
1 TATATAGTTTTGAAAACGGATTTTGAAAATATAATATATAGTTTTGAAAACATTTTGAAAATATA
75559 TATATATAGTTTTGAAAACACTTTTTGAAAATATATAA
66 TATATATAGTTTTGAAAACAC-TTTTGAAAATATATAA
* *
75597 TATATAGCTTTGAAAAC--ATTTTTGAAAATATAATATATAGTTTT-AAAACGTTTTGAAAATAT
1 TATATAGTTTTGAAAACGGA-TTTTGAAAATATAATATATAGTTTTGAAAACATTTTGAAAATAT
75659 ATATATATAGTTTT
65 ATATATATAGTTTT
75673 TGGAAATCGT
Statistics
Matches: 165, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
100 19 0.12
101 40 0.24
102 76 0.46
103 7 0.04
104 23 0.14
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.43
Consensus pattern (102 bp):
TATATAGTTTTGAAAACGGATTTTGAAAATATAATATATAGTTTTGAAAACATTTTGAAAATATA
TATATATAGTTTTGAAAACACTTTTGAAAATATATAA
Found at i:75684 original size:35 final size:34
Alignment explanation
Indices: 75391--75691 Score: 316
Period size: 35 Copynumber: 8.8 Consensus size: 34
75381 TTTGAAAGCG
* *
75391 TATATAGTTTTTAAAATGGATTTTG-AAATATATAA
1 TATATAGTTTTGAAAA-CG-TTTTGAAAATATATAA
**
75426 TATATAGTTTTGAAAATATTTT-AAAATAAATATAA
1 TATATAGTTTTGAAAACGTTTTGAAAAT--ATATAA
* *
75461 TATATAGTTTTGAGAACATTTTGAAAATATATAA
1 TATATAGTTTTGAAAACGTTTTGAAAATATATAA
75495 TATATAGTTTTGAAAACGGATTTTG--AA-ATATAA
1 TATATAGTTTTGAAAAC-G-TTTTGAAAATATATAA
* *
75528 TATATAATTTTGAAAACATTTTGAAAATATAT-A
1 TATATAGTTTTGAAAACGTTTTGAAAATATATAA
*
75561 TATATAGTTTTGAAAACACTTTTTGAAAATATATAA
1 TATATAGTTTTG-AAA-ACGTTTTGAAAATATATAA
* *
75597 TATATAGCTTTGAAAACATTTTTG-AAA-ATATAA
1 TATATAGTTTTGAAAAC-GTTTTGAAAATATATAA
75630 TATATAGTTTT-AAAACGTTTTGAAAATATAT-A
1 TATATAGTTTTGAAAACGTTTTGAAAATATATAA
*
75662 TATATAGTTTTTGGAAATCGTTTTTGAAAA
1 TATATAG-TTTT-GAAAACG-TTTTGAAAA
75692 CCTTATATTT
Statistics
Matches: 232, Mismatches: 15, Indels: 37
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.04
32 16 0.07
33 68 0.29
34 36 0.16
35 71 0.31
36 31 0.13
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (34 bp):
TATATAGTTTTGAAAACGTTTTGAAAATATATAA
Found at i:75717 original size:66 final size:66
Alignment explanation
Indices: 75411--75720 Score: 221
Period size: 69 Copynumber: 4.6 Consensus size: 66
75401 TTAAAATGGA
* *
75411 TTTTGAAATATATAATATATAGTTTTGAAAA--TATTTT-AAAATAAATATAATATATAGTTTTG
1 TTTTGAAA-ACAT-ATATATAGTTTT-AAAACGT-TTTTGAAAAT--ATATAATATATAGCTTTG
*
75473 AGAACA-
60 AAAACAT
* * **
75479 TTTTGAAAATATATAATATATAGTTTTGAAAACGGATTTTG--AA-ATATAATATATAATTTTGA
1 TTTTG-AAA-ACAT-ATATATAGTTTT-AAAAC-GTTTTTGAAAATATATAATATATAGCTTTGA
75541 AAACA-
61 AAACAT
* *
75546 TTTTGAAAATATATATATATAGTTTTGAAAACACTTTTTGAAAATATATAATATATAGCTTTGAA
1 TTTTG-AAA-ACATATATATAGTTTT-AAAAC-GTTTTTGAAAATATATAATATATAGCTTTGAA
75611 AACAT
62 AACAT
* *
75616 TTTTGAAAATATAATATATAGTTTTAAAACG-TTTTGAAAATATAT-ATATATAGTTTTTGGAAA
1 TTTTGAAAACAT-ATATATAGTTTTAAAACGTTTTTGAAAATATATAATATATAG-CTTT-GAAA
* *
75679 TCGT
63 ACAT
* * *
75683 TTTTGAAAACCT-TATAT-TTTTTAAAAGGTTTTTTGAAA
1 TTTTGAAAACATATATATAGTTTTAAAACG-TTTTTGAAA
75721 CGTAATATAT
Statistics
Matches: 212, Mismatches: 16, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
64 9 0.04
65 13 0.06
66 48 0.23
67 52 0.25
68 16 0.08
69 63 0.30
70 7 0.03
71 4 0.02
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (66 bp):
TTTTGAAAACATATATATAGTTTTAAAACGTTTTTGAAAATATATAATATATAGCTTTGAAAACA
T
Found at i:75763 original size:4 final size:4
Alignment explanation
Indices: 75743--75783 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
75733 TATTATATAG
*
75743 TTAT ATAT TTCAT TTAT TTAT TTAT TTA- -TAT TTAT TTAT TT
1 TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
75784 TTCTTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:75776 original size:14 final size:14
Alignment explanation
Indices: 75757--75783 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
75747 ATATTTCATT
75757 TATTTATTTATTTA
1 TATTTATTTATTTA
75771 TATTTATTTATTT
1 TATTTATTTATTT
75784 TTCTTTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:76990 original size:23 final size:23
Alignment explanation
Indices: 76964--77013 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
76954 ATTTATTGAT
*
76964 TTTTCAAAA-CTTTTTTTAAATTC
1 TTTTCAAAAGCATTTTTTAAA-TC
* *
76987 TTTTTAAAAGCATTTTTTATATC
1 TTTTCAAAAGCATTTTTTAAATC
77010 TTTT
1 TTTT
77014 AGCATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTCAAAAGCATTTTTTAAATC
Found at i:77019 original size:19 final size:19
Alignment explanation
Indices: 76995--77032 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
76985 TCTTTTTAAA
76995 AGCA-TTTTTTATATCTTTT
1 AGCATTTTTTTATAT-TTTT
77014 AGCATTTTTTTATATTTTT
1 AGCATTTTTTTATATTTTT
77033 CCTTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
AGCATTTTTTTATATTTTT
Done.