Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 231 of 318
Found at i:72720522 original size:16 final size:17
Alignment explanation
Indices: 72720412--72720522 Score: 53
Period size: 19 Copynumber: 6.1 Consensus size: 17
72720402 TAAAAATTAT
*
72720412 TATTTTAGAAATTTTTA
1 TATTTTTGAAATTTTTA
* * *
72720429 AATTTTTTAACTTTATATA
1 TATTTTTGAAATTT-T-TA
*
72720448 TATATTCTTTAGAATTTTTA
1 TAT-TT-TTGA-AATTTTTA
* *
72720468 TTTTGTTTTAGAATTTTTA
1 TATT-TTTGA-AATTTTTA
* * *
72720487 TAATTTTTTAAATATATA
1 T-ATTTTTGAAATTTTTA
72720505 TA-TTTTGAAATTTTTA
1 TATTTTTGAAATTTTTA
72720521 TA
1 TA
72720523 AATATTTTGA
Statistics
Matches: 74, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
16 13 0.18
17 11 0.15
18 8 0.11
19 24 0.32
20 9 0.12
21 5 0.07
22 4 0.05
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (17 bp):
TATTTTTGAAATTTTTA
Found at i:72720535 original size:53 final size:55
Alignment explanation
Indices: 72720412--72720543 Score: 139
Period size: 59 Copynumber: 2.4 Consensus size: 55
72720402 TAAAAATTAT
* **
72720412 TATTTTAGAAATTTTTAAATTTTTTAACTTTATATATATATTCTTTAGAATTTTTATTT
1 TATTTTAG-AATTTTTAAATTTTTTAA---TATATATATATTCTTGAGAATTTTTATAA
*
72720471 TGTTTTAGAATTTTTATAATTTTTTAA-ATATATATATT-TTGA-AATTTTTATAAA
1 TATTTTAGAATTTTTA-AATTTTTTAATATATATATATTCTTGAGAATTTTTAT-AA
72720525 TATTTT-GAA-TTTTAAATTT
1 TATTTTAGAATTTTTAAATTT
72720544 ATTTTTATTT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
51 5 0.08
52 5 0.08
53 12 0.18
54 8 0.12
55 11 0.17
58 8 0.12
59 17 0.26
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (55 bp):
TATTTTAGAATTTTTAAATTTTTTAATATATATATATTCTTGAGAATTTTTATAA
Found at i:72720538 original size:18 final size:20
Alignment explanation
Indices: 72720499--72720537 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
72720489 ATTTTTTAAA
*
72720499 TATATATATTTTGAAATTTT
1 TATAAATATTTTGAAATTTT
72720519 TATAAATATTTTG-AATTTT
1 TATAAATATTTTGAAATTTT
72720538 AAATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TATAAATATTTTGAAATTTT
Found at i:72720573 original size:18 final size:18
Alignment explanation
Indices: 72720409--72720574 Score: 92
Period size: 18 Copynumber: 8.9 Consensus size: 18
72720399 TCCTAAAAAT
72720409 TATTATTTTAGAAATTTTTA
1 TATTATTTT--AAATTTTTA
* * *
72720429 AATT-TTTTAACTTTATA
1 TATTATTTTAAATTTTTA
72720446 TATATATTCTTTAGAATTTTTA
1 TAT-TA-T-TTTA-AATTTTTA
* *
72720468 TTTTGTTTTAGAATTTTTA
1 TATTATTTTA-AATTTTTA
*
72720487 TAATT-TTTTAAA--TATA
1 T-ATTATTTTAAATTTTTA
72720503 TA-TATTTTGAAATTTTTA
1 TATTATTTT-AAATTTTTA
* *
72720521 TAAATATTTTGAA-TTTTA
1 T-ATTATTTTAAATTTTTA
* * *
72720539 AATTTATTTTTATTTTTTA
1 TA-TTATTTTAAATTTTTA
72720558 TATTATTTTAAATTTTT
1 TATTATTTTAAATTTTT
72720575 TTGTAAAGAG
Statistics
Matches: 113, Mismatches: 19, Indels: 30
0.70 0.12 0.19
Matches are distributed among these distances:
14 1 0.01
15 5 0.04
16 7 0.06
17 10 0.09
18 32 0.28
19 32 0.28
20 13 0.12
21 5 0.04
22 8 0.07
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTATTTTAAATTTTTA
Found at i:72720575 original size:19 final size:19
Alignment explanation
Indices: 72720499--72720575 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 19
72720489 ATTTTTTAAA
72720499 TATATATATTTTGAAA-TTTT
1 TATAT-TATTTT-AAATTTTT
* * *
72720519 TATAAATATTTTGAATTTTA
1 TAT-ATTATTTTAAATTTTT
* *
72720539 AAT-TTATTTT-TATTTTT
1 TATATTATTTTAAATTTTT
72720556 TATATTATTTTAAATTTTT
1 TATATTATTTTAAATTTTT
72720575 T
1 T
72720576 TGTAAAGAGA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
17 7 0.16
18 13 0.30
19 9 0.20
20 14 0.32
21 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TATATTATTTTAAATTTTT
Found at i:72723872 original size:2 final size:2
Alignment explanation
Indices: 72723865--72723912 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
72723855 AAAACCCAAC
72723865 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
72723907 AT AT AT
1 AT AT AT
72723913 CAAGTACTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72724600 original size:19 final size:18
Alignment explanation
Indices: 72724578--72724616 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
72724568 ATTTAGAATC
72724578 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
* *
72724597 AAAATTAAATTAAATATA
1 AAAACTAAAATAAATATA
72724615 AA
1 AA
72724617 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:72728870 original size:154 final size:154
Alignment explanation
Indices: 72728590--72728897 Score: 562
Period size: 154 Copynumber: 2.0 Consensus size: 154
72728580 TAATCATCCC
*
72728590 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAAGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAAAATGCTATCAAAAGTATCAATG
** *
72728655 TCTGCTACCATATAAAATGACAGTTGATGAAGGGAGCAAATTTTTTCTTTGAAGAACGTAAAATT
66 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
72728720 CAAGCCTAAAATCAGTGAAATCAA
131 CAAGCCTAAAATCAGTGAAATCAA
* *
72728744 CATTCTGCAGAATATAAGATAAAATAAAAACTATACACCACAAAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAAAATGCTATCAAAAGTATCAATG
72728809 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
66 TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
72728874 CAAGCCTAAAATCAGTGAAATCAA
131 CAAGCCTAAAATCAGTGAAATCAA
72728898 TCTATCTTAC
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 148 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (154 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAAAATGCTATCAAAAGTATCAATG
TCTGCTACCATATAAAATGACAGTTGATGAAGAAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
CAAGCCTAAAATCAGTGAAATCAA
Found at i:72729825 original size:23 final size:24
Alignment explanation
Indices: 72729797--72729846 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
72729787 TATTGTTTAA
* * *
72729797 TTTT-AATTTTTTTTTTTAACATT
1 TTTTAAATTTTTTCTTTCAAAATT
72729820 TTTTAAATTTTTTCTTTCAAAATT
1 TTTTAAATTTTTTCTTTCAAAATT
72729844 TTT
1 TTT
72729847 GTGCTGAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTAAATTTTTTCTTTCAAAATT
Found at i:72729942 original size:8 final size:8
Alignment explanation
Indices: 72729931--72730004 Score: 60
Period size: 8 Copynumber: 8.9 Consensus size: 8
72729921 ATATTAAATA
72729931 TTAAATTT
1 TTAAATTT
*
72729939 TTAAGTTT
1 TTAAATTT
72729947 TT-AATTT
1 TTAAATTT
*
72729954 TTTAATTT
1 TTAAATTT
*
72729962 TTAATTTT
1 TTAAATTT
*
72729970 TTAATTTTT
1 TTAA-ATTT
72729979 TTAAAGATTT
1 TT-AA-ATTT
*
72729989 TCATAATTT
1 TTA-AATTT
72729998 TTAAATT
1 TTAAATT
72730005 AACATATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
7 6 0.11
8 28 0.52
9 13 0.24
10 7 0.13
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:72729942 original size:15 final size:15
Alignment explanation
Indices: 72729931--72729978 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
72729921 ATATTAAATA
72729931 TTAAATTTTTAAGTTT
1 TTAAATTTTTAA-TTT
*
72729947 TTAATTTTTTAATTT
1 TTAAATTTTTAATTT
*
72729962 TTAATTTTTTAATTT
1 TTAAATTTTTAATTT
72729977 TT
1 TT
72729979 TTAAAGATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:72729962 original size:6 final size:7
Alignment explanation
Indices: 72729934--72729978 Score: 63
Period size: 8 Copynumber: 6.0 Consensus size: 7
72729924 TTAAATATTA
72729934 AATTTTT
1 AATTTTT
72729941 AAGTTTTT
1 AA-TTTTT
72729949 AATTTTTT
1 AA-TTTTT
72729957 AATTTTT
1 AATTTTT
72729964 AATTTTTT
1 AA-TTTTT
72729972 AATTTTT
1 AATTTTT
72729979 TTAAAGATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (7 bp):
AATTTTT
Found at i:72729974 original size:23 final size:23
Alignment explanation
Indices: 72729934--72729979 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
72729924 TTAAATATTA
72729934 AATTTTTAAGTTTTTAATTTTTT
1 AATTTTTAAGTTTTTAATTTTTT
*
72729957 AATTTTTAATTTTTTAATTTTTT
1 AATTTTTAAGTTTTTAATTTTTT
72729980 TAAAGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
AATTTTTAAGTTTTTAATTTTTT
Found at i:72730210 original size:28 final size:28
Alignment explanation
Indices: 72730153--72730220 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
72730143 ATTTTTAGAT
* * *
72730153 TTTAGGGTTTATGATTTATGGGTTATAG
1 TTTAGGGTTTAGGATTTATGGATTACAG
*
72730181 TTTAGGGTTTGGGATTTAT-GATCTACAG
1 TTTAGGGTTTAGGATTTATGGAT-TACAG
72730209 TTTATGGGTTTA
1 TTTA-GGGTTTA
72730221 AAAGTTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTAGGATTTATGGATTACAG
Found at i:72731095 original size:27 final size:28
Alignment explanation
Indices: 72731059--72731113 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
72731049 CGTTTTTAAA
72731059 AAAGCACCGCTAATGCTC-GATCTTTAG
1 AAAGCACCGCTAATGCTCAGATCTTTAG
* *
72731086 AAAGCGCCGCTAGTGCTCAGATCTTTAG
1 AAAGCACCGCTAATGCTCAGATCTTTAG
72731114 CGACGCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (28 bp):
AAAGCACCGCTAATGCTCAGATCTTTAG
Found at i:72731162 original size:41 final size:41
Alignment explanation
Indices: 72731090--72731185 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
72731080 CTTTAGAAAG
* * *
72731090 CGCCGCTAGTGCTCAGATCTTTAGCGACGCTTTCTTAAAAA
1 CGCCACTAATGCTCAAATCTTTAGCGACGCTTTCTTAAAAA
*
72731131 TGCCACTAATGCTCAAATCTTTAGC-AGCGCTTTCTTAAAAA
1 CGCCACTAATGCTCAAATCTTTAGCGA-CGCTTTCTTAAAAA
*
72731172 CGCCGCTAATGCTC
1 CGCCACTAATGCTC
72731186 GATCTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 1 0.02
41 47 0.98
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (41 bp):
CGCCACTAATGCTCAAATCTTTAGCGACGCTTTCTTAAAAA
Found at i:72731197 original size:25 final size:25
Alignment explanation
Indices: 72731163--72731215 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
72731153 AGCAGCGCTT
* *
72731163 TCTTAAAAACGCCGCTAATGCTCGA
1 TCTTAAAAACGCCGCTAATACTCAA
72731188 TCTTAAAAACGCCGCTAATACTCAA
1 TCTTAAAAACGCCGCTAATACTCAA
72731213 TCT
1 TCT
72731216 ATTCGACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (25 bp):
TCTTAAAAACGCCGCTAATACTCAA
Found at i:72733329 original size:27 final size:27
Alignment explanation
Indices: 72733289--72733483 Score: 225
Period size: 27 Copynumber: 7.2 Consensus size: 27
72733279 AGGAAGCGTC
72733289 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTATGCCACAAATATCTGAT
* *
72733316 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAAATATCTGAT
*
72733342 CTTGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTATGCCACAAATATCTGAT
* * *
72733370 TTGGTGGCTTTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACAAATATCTGAT
*
72733396 CATGGTGGCTATGCCACAATTATCTGAT
1 C-TGGTGGCTATGCCACAAATATCTGAT
* * * *
72733424 TTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGAT
* *
72733451 CTGGTGGCTCTGTCACAAA-ATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTG-AT
72733478 CTGGTG
1 CTGGTG
72733484 ACTTCGTCAC
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
26 8 0.06
27 131 0.93
28 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGAT
Found at i:72733375 original size:54 final size:54
Alignment explanation
Indices: 72733290--72733468 Score: 288
Period size: 54 Copynumber: 3.3 Consensus size: 54
72733280 GGAAGCGTCC
* *
72733290 TGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTCT
1 TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCT
* *
72733344 TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTTTGCCACATATATCTGTCA
1 TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCT
72733398 TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGT-T
1 TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCT
* *
72733451 CTGGTGGCTCTGTCACAA
1 -TGGTGGCTATGCCACAA
72733469 AATCTGTATC
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCT
Found at i:72733492 original size:27 final size:26
Alignment explanation
Indices: 72733417--72733501 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
72733407 TGCCACAATT
* * *
72733417 ATCTGATT-TGGTGGCTCTGCCACATAT
1 ATCTG-TTCTGGTGACTCTGTCACA-AA
*
72733444 ATCTGTTCTGGTGGCTCTGTCACAAA
1 ATCTGTTCTGGTGACTCTGTCACAAA
*
72733470 ATCTGTATCTGGTGACT-TCGTCACAAT
1 ATCTGT-TCTGGTGACTCT-GTCACAAA
72733497 ATCTG
1 ATCTG
72733502 GCAGCCTCAC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (26 bp):
ATCTGTTCTGGTGACTCTGTCACAAA
Found at i:72736300 original size:21 final size:20
Alignment explanation
Indices: 72736275--72736322 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
72736265 GTATGTTTGT
*
72736275 ATTTATTTTATATTTTTATTG
1 ATTTATTTT-TATTTTTAATG
*
72736296 ATTTATAATTTATTTTTAATG
1 ATTTAT-TTTTATTTTTAATG
72736317 -TTTATT
1 ATTTATT
72736323 GAAGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTATTTTTATTTTTAATG
Found at i:72736578 original size:31 final size:31
Alignment explanation
Indices: 72736537--72736596 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
72736527 ATTATGAGTT
72736537 AAAAAATTATA-CAACTTTTAAAATAACATA
1 AAAAAATTATACCAACTTTTAAAATAACATA
*
72736567 AAAAAATTTATACCGACTTTTAAAATAACA
1 AAAAAA-TTATACCAACTTTTAAAATAACA
72736597 ATACATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.22
31 5 0.19
32 16 0.59
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (31 bp):
AAAAAATTATACCAACTTTTAAAATAACATA
Found at i:72737093 original size:3 final size:3
Alignment explanation
Indices: 72737087--72737118 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
72737077 CCCGCCGCCC
72737087 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
72737119 CATCACAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:72742925 original size:13 final size:13
Alignment explanation
Indices: 72742904--72742934 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
72742894 GGAATTTGGA
*
72742904 AAAAATTTGAAGG
1 AAAATTTTGAAGG
72742917 AAAATTTTGAAGG
1 AAAATTTTGAAGG
72742930 AAAAT
1 AAAAT
72742935 ATAGTATTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (13 bp):
AAAATTTTGAAGG
Found at i:72745210 original size:29 final size:29
Alignment explanation
Indices: 72745177--72745308 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
72745167 GTGACGAGAT
72745177 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
72745206 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
72745235 TGGCACTAAATGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
72745264 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
72745293 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
72745309 GGCTTAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 87 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:72747757 original size:89 final size:89
Alignment explanation
Indices: 72747647--72747913 Score: 516
Period size: 89 Copynumber: 3.0 Consensus size: 89
72747637 TACTTCGCAG
72747647 AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
1 AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
72747712 TCACATGTTCATTTTCATATTTCA
66 TCACATGTTCATTTTCATATTTCA
* *
72747736 AAAACTGAGTCTTACATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
1 AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
72747801 TCACATGTTCATTTTCATATTTCA
66 TCACATGTTCATTTTCATATTTCA
72747825 AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
1 AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
72747890 TCACATGTTCATTTTCATATTTCA
66 TCACATGTTCATTTTCATATTTCA
72747914 TACTTTGTCA
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 174 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (89 bp):
AAAACAGAGTCTTTCATATTCAGAAATTAAGTACGATACAAACATACCTGTATAGATTACACATT
TCACATGTTCATTTTCATATTTCA
Found at i:72748034 original size:42 final size:43
Alignment explanation
Indices: 72747975--72748093 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 43
72747965 TAATGCCAAC
* * *
72747975 GTCCCAGACGTGGTCTTACATGT-AA-TCAGATACGATGC-TGAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCTTG-T
72748017 GTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCTTGT
1 GTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCTTGT
*
72748061 GTCCCAGACACGGTCTTACACG-ATAATTCAAAT
1 GTCCCAGACATGGTCTTACACGTA-AATTCAAAT
72748094 TAGTACCAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
42 21 0.31
43 10 0.15
44 30 0.44
45 7 0.10
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCTTGT
Found at i:72750632 original size:40 final size:40
Alignment explanation
Indices: 72750587--72750716 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
72750577 GACTAGCTCA
*
72750587 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
72750627 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
72750667 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
72750706 AACGCCTTCGG
1 AATGCCTTCGG
72750717 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:72758680 original size:40 final size:40
Alignment explanation
Indices: 72758634--72758763 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
72758624 GACTAGCTCA
*
72758634 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
72758674 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
72758714 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
72758753 AACGCCTTCGG
1 AATGCCTTCGG
72758764 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:72764346 original size:40 final size:39
Alignment explanation
Indices: 72764159--72764339 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
72764149 ATGATGTCCC
* * *
72764159 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACCG
* * *
72764199 GACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACCG
* *
72764239 AGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CCG
*
72764278 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCG
*
72764318 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
72764340 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 33 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCG
Found at i:72764361 original size:79 final size:79
Alignment explanation
Indices: 72764211--72764362 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
72764201 CTAAGATCCA
* **
72764211 AAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
72764276 CGGGTTAAGTCCCG
66 CGGGTTAAGTCCCG
* * * *
72764290 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAA
72764353 ATCC-GGTTAA
63 ATCCGGGTTAA
72764363 ATTCCCAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAATC
CGGGTTAAGTCCCG
Found at i:72769303 original size:42 final size:44
Alignment explanation
Indices: 72769244--72769361 Score: 129
Period size: 44 Copynumber: 2.7 Consensus size: 44
72769234 TATAATGCCA
* * *
72769244 ATGTCCCAGACGTGGTCTTACATGT-AA-TCAGATACGATGC-TG
1 ATGTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATGCTTG
72769286 ATGTCCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCTTG
1 ATGTCCCAGACATGGTCTTACACGTAAA-TTCAAATCGATGCTTG
* *
72769331 -TGTCTCAGACACGGTCTTACACG-ATAATTCA
1 ATGTCCCAGACATGGTCTTACACGTA-AATTCA
72769362 GATTAGTACC
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
42 23 0.35
43 7 0.11
44 29 0.44
45 7 0.11
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ATGTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCTTG
Found at i:72770949 original size:6 final size:6
Alignment explanation
Indices: 72770923--72770988 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
72770913 TAATTTAGCC
* *
72770923 ATTTTT A-TTTT A-TTTT A-TTTT ATTTTT ATATTTT -TGTTTT AATTTA
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT AT-TTTT ATTTTT
72770969 ATTTTT ATATTTT AATTTTT
1 ATTTTT AT-TTTT -ATTTTT
72770989 CTTCTGTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
5 15 0.30
6 21 0.42
7 12 0.24
8 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:72770949 original size:11 final size:11
Alignment explanation
Indices: 72770923--72770976 Score: 56
Period size: 10 Copynumber: 4.7 Consensus size: 11
72770913 TAATTTAGCC
72770923 ATTTTTATTTT
1 ATTTTTATTTT
72770934 A-TTTTATTTT
1 ATTTTTATTTT
72770944 ATTTTTATATTT
1 ATTTTTAT-TTT
* *
72770956 TTGTTTTAATTTA
1 AT-TTTT-ATTTT
72770969 ATTTTTAT
1 ATTTTTAT
72770977 ATTTTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 10 0.28
11 9 0.25
12 8 0.22
13 7 0.19
14 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:72770967 original size:25 final size:24
Alignment explanation
Indices: 72770930--72770987 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
72770920 GCCATTTTTA
*
72770930 TTTTATTTTATTTTATTTTTATAT
1 TTTTATTTTATTTAATTTTTATAT
*
72770954 TTTTGTTTTAATTTAATTTTTATAT
1 TTTTATTTT-ATTTAATTTTTATAT
*
72770979 TTTAATTTT
1 TTTTATTTT
72770988 TCTTCTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 8 0.28
25 21 0.72
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTTATTTAATTTTTATAT
Found at i:72770984 original size:14 final size:13
Alignment explanation
Indices: 72770938--72770988 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
72770928 TATTTTATTT
72770938 TATTTTATTTTTA
1 TATTTTATTTTTA
72770951 TATTTT-TGTTTTA
1 TATTTTAT-TTTTA
*
72770964 -ATTTAATTTTTA
1 TATTTTATTTTTA
72770976 TATTTTAATTTTT
1 TATTTT-ATTTTT
72770989 CTTCTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 10 0.31
13 16 0.50
14 6 0.19
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:72776583 original size:10 final size:11
Alignment explanation
Indices: 72776568--72776606 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
72776558 TGTATATATA
*
72776568 TTTTTTTCACT
1 TTTTTTTCACC
72776579 TTTTTTTCACC
1 TTTTTTTCACC
72776590 TTTTTTT-ACC
1 TTTTTTTCACC
72776600 TTTTTTT
1 TTTTTTT
72776607 TATAACAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTTTCACC
Found at i:72777532 original size:31 final size:31
Alignment explanation
Indices: 72777497--72777560 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
72777487 AATAATAAAG
72777497 AAAATTAAGGGGTTATAACTCGATTAGAAAC
1 AAAATTAAGGGGTTATAACTCGATTAGAAAC
72777528 AAAATTAAGGGGTTATAACTCGATTAGAAAC
1 AAAATTAAGGGGTTATAACTCGATTAGAAAC
72777559 AA
1 AA
72777561 TCATAAATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAATTAAGGGGTTATAACTCGATTAGAAAC
Found at i:72777756 original size:20 final size:22
Alignment explanation
Indices: 72777724--72777770 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
72777714 AAAAATAAAT
72777724 AAAAAATACGAAAGAA-AAAAG
1 AAAAAATACGAAAGAACAAAAG
* *
72777745 AAAAAATA-GAAATAACAAAAT
1 AAAAAATACGAAAGAACAAAAG
72777766 AAAAA
1 AAAAA
72777771 TAATAAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.79, C:0.04, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAATACGAAAGAACAAAAG
Found at i:72781112 original size:5 final size:6
Alignment explanation
Indices: 72781081--72781111 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
72781071 AAAAATTAGT
*
72781081 AATTAA AAATAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA AATTAA A
72781112 TACAATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:72784206 original size:3 final size:3
Alignment explanation
Indices: 72784193--72784241 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
72784183 GAAATAGCAA
72784193 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
72784240 AA
1 AA
72784242 AGTATATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72784264 original size:17 final size:17
Alignment explanation
Indices: 72784239--72784282 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
72784229 ATAATAATAA
*
72784239 TAAAGTATATAAAAAAT
1 TAAAATATATAAAAAAT
72784256 TAAAATATA-AAAAAAT
1 TAAAATATATAAAAAAT
72784272 TAAAA-ATATAA
1 TAAAATATATAA
72784283 GTATAAGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.56
17 8 0.32
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:72784345 original size:16 final size:16
Alignment explanation
Indices: 72784317--72784358 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
72784307 TTAATTAGTA
72784317 AAATAAAAA-T-AAAT
1 AAATAAAAATTAAAAT
72784331 AATATAAAAATTAAAAT
1 AA-ATAAAAATTAAAAT
*
72784348 AAATTAAAATT
1 AAATAAAAATT
72784359 GGGTGTTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 7 0.29
16 9 0.38
17 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAAAATTAAAAT
Found at i:72786468 original size:9 final size:10
Alignment explanation
Indices: 72786439--72786465 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
72786429 AAAACACTAG
72786439 CGGCTTTTGT
1 CGGCTTTTGT
72786449 CGGCTTTTGT
1 CGGCTTTTGT
72786459 CGGCTTT
1 CGGCTTT
72786466 GTCCTCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.22, G:0.30, T:0.48
Consensus pattern (10 bp):
CGGCTTTTGT
Found at i:72789245 original size:37 final size:37
Alignment explanation
Indices: 72789195--72789317 Score: 228
Period size: 37 Copynumber: 3.3 Consensus size: 37
72789185 TTATTATGAA
72789195 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72789232 GTCTTTCCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
72789269 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
72789306 GTCTCACCCGGA
1 GTCTTACCCGGA
72789318 ATATATTTCC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:72789433 original size:48 final size:48
Alignment explanation
Indices: 72789362--72789937 Score: 936
Period size: 48 Copynumber: 12.0 Consensus size: 48
72789352 TGTTACAACA
*
72789362 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
72789410 TTCACATTAGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
72789458 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
72789506 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * * *
72789554 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATACAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
72789602 TTCACATTAGCCATTCGGCTTTACCACATTTACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
72789650 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTTATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
72789698 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
72789746 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
72789794 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * * *
72789842 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
72789890 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
72789938 ATATTTATCT
Statistics
Matches: 488, Mismatches: 40, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 488 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:72794024 original size:118 final size:119
Alignment explanation
Indices: 72793808--72794061 Score: 420
Period size: 118 Copynumber: 2.1 Consensus size: 119
72793798 GCGATCATCA
* * * * *
72793808 ATCTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACTATCGAATAAT
1 ATCTATGAAAAGGGATAGCTCCGGCTATCAATTATGAAAAGGGATAGTGACGACCATCAAACAAT
* * *
72793873 GAAAAGGGATGGTGATGACCATCAAATTATGAAAAGGGATAGCTTTGGCTATCG
66 GAAAAGAGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCG
72793927 ATCTATG-AAAGGGATAGCTCCGGCTATCAATTATGAAAAGGGATAGTGACGACCATCAAACAAT
1 ATCTATGAAAAGGGATAGCTCCGGCTATCAATTATGAAAAGGGATAGTGACGACCATCAAACAAT
72793991 GAAAAGAGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCG
66 GAAAAGAGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCG
*
72794045 AACTATGAAAAGGGATA
1 ATCTATGAAAAGGGATA
72794062 ATTTCGATTA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 109 0.87
119 16 0.13
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (119 bp):
ATCTATGAAAAGGGATAGCTCCGGCTATCAATTATGAAAAGGGATAGTGACGACCATCAAACAAT
GAAAAGAGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCG
Found at i:72794052 original size:30 final size:31
Alignment explanation
Indices: 72793804--72794061 Score: 173
Period size: 30 Copynumber: 8.7 Consensus size: 31
72793794 AATGGCGATC
* *
72793804 ATCAATCTATGAAAAGGGATAGCT-TCGGCT
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* * *
72793834 ATC-AATTATGAAAAGGGAT-GGTGACGACT
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* * *
72793863 ATCGAA-TAATGAAAAGGGAT-GGTGAT-GACC
1 ATCAAACT-ATGAAAAGGGATAGCTG-TCGACT
* * *
72793893 ATCAAATTATGAAAAGGGATAGCT-TTGGCT
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* * * *
72793923 ATCGATCTATG-AAAGGGATAGCT-CCGGCT
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* * *
72793952 ATC-AATTATGAAAAGGGATAG-TGACGACC
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* * * * *
72793981 ATCAAACAATGAAAAGAGAT-GGTGACGACC
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
* *
72794011 ATCAAATTATGAAAAGGGATAGCT-TCGGCT
1 ATCAAACTATGAAAAGGGATAGCTGTCGACT
*
72794041 ATCGAACTATGAAAAGGGATA
1 ATCAAACTATGAAAAGGGATA
72794062 ATTTCGATTA
Statistics
Matches: 183, Mismatches: 33, Indels: 24
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.04
29 59 0.32
30 111 0.61
31 5 0.03
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (31 bp):
ATCAAACTATGAAAAGGGATAGCTGTCGACT
Found at i:72794078 original size:60 final size:60
Alignment explanation
Indices: 72793810--72794090 Score: 198
Period size: 60 Copynumber: 4.7 Consensus size: 60
72793800 GATCATCAAT
* * * * *
72793810 CTATGAAAAGGGATAGCTT-CGGCTA-TCAATTATGAAAAGGGAT-GGTGACGACTATCGAA
1 CTATGAAAAGGGATAG-TTACGACTATTAAATTATGAAAAGGGATAGCT-TCGGCTATCGAA
* * * * * * *
72793869 -TAATGAAAAGGGATGGTGATGACCATCAAATTATGAAAAGGGATAGCTTTGGCTATCGAT
1 CT-ATGAAAAGGGATAGTTACGACTATTAAATTATGAAAAGGGATAGCTTCGGCTATCGAA
* * * * * * * *
72793929 CTATG-AAAGGGATAGCTCCGGCTA-TCAATTATGAAAAGGGATAG-TGACGACCATCAAA
1 CTATGAAAAGGGATAGTTACGACTATTAAATTATGAAAAGGGATAGCT-TCGGCTATCGAA
* * * * * *
72793987 CAATGAAAAGAGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCGAA
1 CTATGAAAAGGGATAGTTACGACTATTAAATTATGAAAAGGGATAGCTTCGGCTATCGAA
* * * * *
72794047 CTATGAAAAGGGATAATTTCGATTATTAAATTACGAAAAAGGAT
1 CTATGAAAAGGGATAGTTACGACTATTAAATTATGAAAAGGGAT
72794091 GGGTCAGCCA
Statistics
Matches: 161, Mismatches: 52, Indels: 17
0.70 0.23 0.07
Matches are distributed among these distances:
57 1 0.01
58 30 0.19
59 40 0.25
60 86 0.53
61 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (60 bp):
CTATGAAAAGGGATAGTTACGACTATTAAATTATGAAAAGGGATAGCTTCGGCTATCGAA
Found at i:72797531 original size:28 final size:28
Alignment explanation
Indices: 72797491--72797559 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
72797481 GCAATCAAAT
*
72797491 ATGACACTCAGTGTACGAA-ATATTGAGA
1 ATGACACTTAGTGTAC-AACATATTGAGA
* *
72797519 ATGGCACTTAGTGTGCAACATATTGAGA
1 ATGACACTTAGTGTACAACATATTGAGA
*
72797547 ATGAAACTTAGTG
1 ATGACACTTAGTG
72797560 AAATATTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 2 0.06
28 33 0.94
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
ATGACACTTAGTGTACAACATATTGAGA
Found at i:72798006 original size:21 final size:22
Alignment explanation
Indices: 72797975--72798015 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
72797965 GAATGTATTG
*
72797975 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
72797997 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
72798016 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:72802598 original size:2 final size:2
Alignment explanation
Indices: 72802591--72802615 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
72802581 GAGACTAGTC
72802591 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
72802616 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72804650 original size:30 final size:29
Alignment explanation
Indices: 72804616--72804675 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
72804606 TCCTTAACTC
72804616 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGG-AAAATTACAATTTTGCCCCT
* * * *
72804646 AAACTTTTGCATATTACACTTTTGCCCCT
1 AAACTTTGGAAAATTACAATTTTGCCCCT
72804675 A
1 A
72804676 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (29 bp):
AAACTTTGGAAAATTACAATTTTGCCCCT
Found at i:72806417 original size:13 final size:13
Alignment explanation
Indices: 72806399--72806424 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72806389 AGCAATTTAT
72806399 TAAGTTCAAGTGG
1 TAAGTTCAAGTGG
72806412 TAAGTTCAAGTGG
1 TAAGTTCAAGTGG
72806425 GTTTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TAAGTTCAAGTGG
Found at i:72807770 original size:28 final size:27
Alignment explanation
Indices: 72807720--72807801 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
72807710 GCAATCAAAT
* *
72807720 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGC-AAATATTGAGA
*
72807748 ATGGCACTTAGTGTGCAAGATATTGATA
1 ATGGCACTTAGTGTGCAA-ATATTGAGA
* **
72807776 ACGAAACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTGC-AAATATTGA
72807802 ATGATTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.04
28 42 0.91
29 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (27 bp):
ATGGCACTTAGTGTGCAAATATTGAGA
Found at i:72809452 original size:18 final size:17
Alignment explanation
Indices: 72809429--72809465 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
72809419 ATATATAATG
*
72809429 GAATATGATTTTAATTAT
1 GAATATGACTTTAA-TAT
72809447 GAATATGACTTTAATAT
1 GAATATGACTTTAATAT
72809464 GA
1 GA
72809466 TGGATATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (17 bp):
GAATATGACTTTAATAT
Found at i:72820974 original size:22 final size:20
Alignment explanation
Indices: 72820948--72820993 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
72820938 TTTCTAACAC
72820948 CATTGCATCAAGATTTCTTCAA
1 CATTGCATCAAG-TTT-TTCAA
**
72820970 CATTGTTTCAAGTTTTTCAA
1 CATTGCATCAAGTTTTTCAA
72820990 CATT
1 CATT
72820994 TCAACATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 10 0.45
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (20 bp):
CATTGCATCAAGTTTTTCAA
Found at i:72823182 original size:21 final size:21
Alignment explanation
Indices: 72823156--72823217 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
72823146 TGTCCCTGGT
72823156 ACACACAGGCGTGTGCCTCGG
1 ACACACAGGCGTGTGCCTCGG
* **
72823177 ACACAC-GGTCGTATGCCTCTCTT
1 ACACACAGG-CGTGTG-C-CTCGG
72823200 A-ACACAGGCGTGTGCCTC
1 ACACACAGGCGTGTGCCTC
72823218 AGTACTGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
20 5 0.15
21 12 0.36
22 10 0.30
23 6 0.18
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
ACACACAGGCGTGTGCCTCGG
Found at i:72823807 original size:38 final size:39
Alignment explanation
Indices: 72823756--72823852 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 39
72823746 ACCATCTCCG
* *
72823756 TCCAACCCAACACACCATCTA-GGAATAAAATCGACCCA
1 TCCAACCCTACACACCATATAGGGAATAAAATCGACCCA
* * *
72823794 TCCATCCCTACACACCATATATGGGGATATAATCGACCCA
1 TCCAACCCTACACACCATATA-GGGAATAAAATCGACCCA
72823834 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
72823853 AAGTACCGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 18 0.35
40 33 0.65
ACGTcount: A:0.37, C:0.37, G:0.08, T:0.18
Consensus pattern (39 bp):
TCCAACCCTACACACCATATAGGGAATAAAATCGACCCA
Found at i:72832047 original size:17 final size:17
Alignment explanation
Indices: 72832012--72832068 Score: 55
Period size: 17 Copynumber: 3.3 Consensus size: 17
72832002 AACTAATCGA
72832012 AAAAGAAAAA-AATGAAAG
1 AAAAGAAAAAGAA-G-AAG
72832030 AAAAGAAAATAG-AGAAG
1 AAAAGAAAA-AGAAGAAG
**
72832047 AAGGGAAAAAGAAGAAG
1 AAAAGAAAAAGAAGAAG
72832064 AAAAG
1 AAAAG
72832069 TTTGGCAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
16 2 0.06
17 18 0.56
18 10 0.31
19 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (17 bp):
AAAAGAAAAAGAAGAAG
Found at i:72844038 original size:23 final size:25
Alignment explanation
Indices: 72843994--72844039 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
72843984 GTTTACCGTA
72843994 TATTTTTATTTAATTTTTTAAATTT
1 TATTTTTATTTAATTTTTTAAATTT
72844019 TATTTTT-TTTAA-TTTTTAAAT
1 TATTTTTATTTAATTTTTTAAAT
72844040 GATGACAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (25 bp):
TATTTTTATTTAATTTTTTAAATTT
Found at i:72846367 original size:18 final size:19
Alignment explanation
Indices: 72846346--72846392 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
72846336 AAAAATTTAT
72846346 AAATAATAAATTTT-AGAA
1 AAATAATAAATTTTAAGAA
* *
72846364 AAATTATTAAATTTTAATAA
1 AAA-TAATAAATTTTAAGAA
72846384 AAAT-ATAAA
1 AAATAATAAA
72846393 AAATTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATAATAAATTTTAAGAA
Found at i:72846394 original size:29 final size:29
Alignment explanation
Indices: 72846362--72846427 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
72846352 TAAATTTTAG
*
72846362 AAAAATTATTAAATTTTAATAAAAAT-ATA
1 AAAAATTATAAAATTTT-ATAAAAATCATA
72846391 AAAAATTATAAAATTTTATAAAAATCATA
1 AAAAATTATAAAATTTTATAAAAATCATA
72846420 AAAAATTA
1 AAAAATTA
72846428 ACGACCCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAAATTATAAAATTTTATAAAAATCATA
Found at i:72846423 original size:10 final size:10
Alignment explanation
Indices: 72846372--72846427 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
72846362 AAAAATTATT
*
72846372 AAATTTTAATA
1 AAATTATAA-A
*
72846383 AAAATATAAA
1 AAATTATAAA
72846393 AAATTATAAA
1 AAATTATAAA
**
72846403 ATTTTAT-AA
1 AAATTATAAA
*
72846412 AAATCATAAA
1 AAATTATAAA
72846422 AAATTA
1 AAATTA
72846428 ACGACCCCTA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
9 6 0.17
10 22 0.63
11 7 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:72847476 original size:10 final size:10
Alignment explanation
Indices: 72847462--72847528 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 10
72847452 AGGAAAAAAT
*
72847462 AAATAAAATA
1 AAATATAATA
*
72847472 TAATA-AATA
1 AAATATAATA
72847481 AAATATAAT-
1 AAATATAATA
*
72847490 AAGTATAATA
1 AAATATAATA
*
72847500 AAATATATTTA
1 AAATATA-ATA
*
72847511 AAATTATTATA
1 AAA-TATAATA
72847522 AAATATA
1 AAATATA
72847529 TATATAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 16 0.36
10 16 0.36
11 10 0.22
12 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATATAATA
Found at i:72847490 original size:19 final size:18
Alignment explanation
Indices: 72847458--72847506 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
72847448 CGGTAGGAAA
*
72847458 AAAT-AAATAAAATATAAT
1 AAATAAAATATAATA-AAT
*
72847476 AAATAAAATATAATAAGT
1 AAATAAAATATAATAAAT
72847494 ATAATAAAATATA
1 A-AATAAAATATA
72847507 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATAAAATATAATAAAT
Found at i:72847496 original size:23 final size:23
Alignment explanation
Indices: 72847457--72847501 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
72847447 ACGGTAGGAA
72847457 AAAATAAATAAAATATAATAAAT
1 AAAATAAATAAAATATAATAAAT
*
72847480 AAAATATAAT-AAGTATAATAAA
1 AAAATA-AATAAAATATAATAAA
72847502 ATATATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAATAAAATATAATAAAT
Found at i:72847499 original size:14 final size:14
Alignment explanation
Indices: 72847459--72847491 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
72847449 GGTAGGAAAA
72847459 AATAAATAAAATAT
1 AATAAATAAAATAT
72847473 AATAAATAAAATAT
1 AATAAATAAAATAT
72847487 AATAA
1 AATAA
72847492 GTATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAAAATAT
Found at i:72847504 original size:14 final size:14
Alignment explanation
Indices: 72847457--72847504 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
72847447 ACGGTAGGAA
72847457 AAAATAAATAAAAT
1 AAAATAAATAAAAT
*
72847471 ATAATAAATAAAAT
1 AAAATAAATAAAAT
* * *
72847485 ATAATAAGTATAAT
1 AAAATAAATAAAAT
72847499 AAAATA
1 AAAATA
72847505 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:72849017 original size:20 final size:20
Alignment explanation
Indices: 72848954--72849021 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
72848944 TTATATATTT
*
72848954 TATAGTTTTTTATGATTTTTA
1 TATA-TTTTTTACGATTTTTA
** *
72848975 TA-AAATTTTACAATTTTTTA
1 TATATTTTTTACGA-TTTTTA
72848995 TATATTTTTTACGATTTTTA
1 TATATTTTTTACGATTTTTA
72849015 TAT-TTTT
1 TATATTTT
72849022 CTAATTTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 10 0.26
20 18 0.47
21 10 0.26
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (20 bp):
TATATTTTTTACGATTTTTA
Found at i:72849019 original size:8 final size:9
Alignment explanation
Indices: 72848940--72849043 Score: 61
Period size: 10 Copynumber: 10.9 Consensus size: 9
72848930 AACATTTAAT
72848940 ATTTTTAT-
1 ATTTTTATA
72848948 ATATTTTATA
1 AT-TTTTATA
* *
72848958 GTTTTTTATG
1 -ATTTTTATA
72848968 ATTTTTATAA
1 ATTTTTAT-A
* *
72848978 AATTTTACA
1 ATTTTTATA
72848987 ATTTTTTATA
1 A-TTTTTATA
72848997 TATTTTT-TA
1 -ATTTTTATA
72849006 CGATTTTTAT-
1 --ATTTTTATA
*
72849016 ATTTTTCTA
1 ATTTTTATA
72849025 ATTTTTAATGA
1 ATTTTT-AT-A
72849036 ATTTTTAT
1 ATTTTTAT
72849044 TAAAATTTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
8 9 0.12
9 23 0.31
10 32 0.43
11 10 0.14
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:72849265 original size:90 final size:90
Alignment explanation
Indices: 72849131--72849328 Score: 245
Period size: 90 Copynumber: 2.2 Consensus size: 90
72849121 TTTTTTTTTT
* * *
72849131 AAAGTTTG-AGGGTCTTTTTGATGCATTTTGAAAGTTTAAATACCCAATTGAGTGCAAAAAAAAA
1 AAAGTTTGAAGGAT-TTTTTGATGCATTTTAAAAGTTTAAATACCCAAATGAGTGCAAAAAAAAA
** * *
72849195 GTAGGGGCTTAATTGTTTTCTTCGAA
65 ACAGAGACTTAATTGTTTTCTTCGAA
* * * *
72849221 AAGGTTTGAAGGATTTTTTTATGCATTTTAAAAGTTTAAGTACCCAAATGAGTGTAAAAAAAAAA
1 AAAGTTTGAAGGATTTTTTGATGCATTTTAAAAGTTTAAATACCCAAATGAGTGCAAAAAAAAAA
* *
72849286 CAGAGACTTAATTGTTTTTTTTGAA
66 CAGAGACTTAATTGTTTTCTTCGAA
* *
72849311 AAAGTTTGATGGCTTTTT
1 AAAGTTTGAAGGATTTTT
72849329 ACTTTCTTAA
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 87 0.96
91 4 0.04
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (90 bp):
AAAGTTTGAAGGATTTTTTGATGCATTTTAAAAGTTTAAATACCCAAATGAGTGCAAAAAAAAAA
CAGAGACTTAATTGTTTTCTTCGAA
Found at i:72851841 original size:3 final size:3
Alignment explanation
Indices: 72851833--72851869 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
72851823 TCGGGTCTCT
72851833 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
72851870 AAGAGTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:72851937 original size:14 final size:14
Alignment explanation
Indices: 72851918--72851947 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
72851908 GTTGTTCTAT
72851918 TTTAATTATTTTAA
1 TTTAATTATTTTAA
72851932 TTTAATTATTTTAA
1 TTTAATTATTTTAA
72851946 TT
1 TT
72851948 AAGATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTAATTATTTTAA
Found at i:72853127 original size:14 final size:13
Alignment explanation
Indices: 72853106--72853136 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
72853096 AATAAAGGAA
72853106 AATAAATAACAAT
1 AATAAATAACAAT
72853119 AATATAATAACAAT
1 AATA-AATAACAAT
72853133 AATA
1 AATA
72853137 GTAAAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAATAACAAT
Found at i:72853128 original size:3 final size:3
Alignment explanation
Indices: 72853110--72853298 Score: 50
Period size: 3 Copynumber: 63.3 Consensus size: 3
72853100 AAGGAAAATA
* * * *
72853110 AAT AAC AAT AAT -AT AAT AAC AAT AAT AGT AA- AAG ATAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * * * *
72853153 CAT AAT AAT -AT AAT AGT AAT AGT AAC AAT -AT GAC GAT AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * *
72853199 AAT -GT AAT AAT AGT GCT AAT AAT AGAT CTAT AAGT TAT AAT GAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AA-T AAT AAT -AAT AAT
* * * * * * *
72853246 AAT GAT AAT GAT GAT AAT TAT AAT AAT AGT AAT AAT GAT AAAT TAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
72853292 AAT AAT A
1 AAT AAT A
72853299 GTGATGAGAA
Statistics
Matches: 130, Mismatches: 43, Indels: 26
0.65 0.22 0.13
Matches are distributed among these distances:
2 12 0.09
3 106 0.82
4 12 0.09
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:72853311 original size:25 final size:25
Alignment explanation
Indices: 72853250--72853300 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
72853240 GAAAATAATG
72853250 ATAATGATGATAATTATAATAATAGTA
1 ATAATGAT-A-AATTATAATAATAGTA
72853277 ATAATGATAAATTATAATAATAGT
1 ATAATGATAAATTATAATAATAGT
72853301 GATGAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 15 0.62
26 1 0.04
27 8 0.33
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (25 bp):
ATAATGATAAATTATAATAATAGTA
Found at i:72853319 original size:16 final size:16
Alignment explanation
Indices: 72853298--72853329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72853288 TTATAATAAT
72853298 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
72853314 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
72853330 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:72853461 original size:16 final size:15
Alignment explanation
Indices: 72853432--72853474 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
72853422 TATACGTATG
*
72853432 AAAAATAATGATAGT
1 AAAAATAATAATAGT
72853447 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
72853463 AATAATAATAAT
1 AAAAATAATAAT
72853475 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:72853577 original size:3 final size:3
Alignment explanation
Indices: 72853569--72853601 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
72853559 ACACTACCAT
72853569 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
72853602 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:72853703 original size:3 final size:3
Alignment explanation
Indices: 72853695--72853735 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
72853685 AAATATACAC
72853695 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72853736 TTAAAATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72854228 original size:30 final size:30
Alignment explanation
Indices: 72854192--72854271 Score: 117
Period size: 30 Copynumber: 2.6 Consensus size: 30
72854182 GATTTTTTGT
72854192 TCTTGAATCTAAAAAAAAAAGAAAAATC-CC
1 TCTTGAATCTAAAAAAAAAA-AAAAATCTCC
*
72854222 TCTTGAATCTCAAAAAAAAAAAAAAATCTCT
1 TCTTGAATCT-AAAAAAAAAAAAAAATCTCC
*
72854253 TCTTGAATCTCAAAAAAAA
1 TCTTGAATCTAAAAAAAAA
72854272 TTCTTCTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (30 bp):
TCTTGAATCTAAAAAAAAAAAAAAATCTCC
Found at i:72854240 original size:31 final size:31
Alignment explanation
Indices: 72854192--72854271 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
72854182 GATTTTTTGT
72854192 TCTTGAATCT-AAAAAAAAAAGAAAAATC-CC
1 TCTTGAATCTCAAAAAAAAAA-AAAAATCTCC
*
72854222 TCTTGAATCTCAAAAAAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAAAAATCTCC
72854253 TCTTGAATCTCAAAAAAAA
1 TCTTGAATCTCAAAAAAAA
72854272 TTCTTCTCTC
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 17 0.36
31 30 0.64
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.24
Consensus pattern (31 bp):
TCTTGAATCTCAAAAAAAAAAAAAAATCTCC
Found at i:72854483 original size:14 final size:14
Alignment explanation
Indices: 72854464--72854497 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
72854454 TGAGATTAGG
*
72854464 TTTTTTTT-CTTTT
1 TTTTTTTTGATTTT
72854477 TTTTTTTTGATTTT
1 TTTTTTTTGATTTT
72854491 TTTTTTT
1 TTTTTTT
72854498 GGGTTGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.91
Consensus pattern (14 bp):
TTTTTTTTGATTTT
Found at i:72854498 original size:13 final size:13
Alignment explanation
Indices: 72854464--72854498 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
72854454 TGAGATTAGG
**
72854464 TTTTTTTTCTTTT
1 TTTTTTTTGATTT
72854477 TTTTTTTTGATTT
1 TTTTTTTTGATTT
72854490 TTTTTTTTG
1 TTTTTTTTG
72854499 GGTTGGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.03, G:0.06, T:0.89
Consensus pattern (13 bp):
TTTTTTTTGATTT
Found at i:72855367 original size:205 final size:204
Alignment explanation
Indices: 72854801--72855385 Score: 895
Period size: 205 Copynumber: 2.9 Consensus size: 204
72854791 AGATTTATTT
* * * * * * * * *
72854801 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
72854866 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
72854930 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAG-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
72854995 AGATGCCAAA
195 AGATGCCAAA
72855005 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
72855070 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
72855135 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAG-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
72855200 ATATGCCAAA
195 AGATGCCAAA
* *
72855210 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCCTCTTAGATTTGCTTCATTGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
72855275 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
72855340 GGATCTGCTTCAG-TGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGT
72855386 GGCCTATTAC
Statistics
Matches: 353, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
203 1 0.00
204 77 0.22
205 275 0.78
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (204 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAA
Found at i:72863424 original size:15 final size:14
Alignment explanation
Indices: 72863382--72863431 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
72863372 ATAACTTTGA
*
72863382 ATGCAAATGATGTG
1 ATGCAAATGATGAG
72863396 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
72863411 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
72863425 ATGCAAA
1 ATGCAAA
72863432 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:72866494 original size:15 final size:14
Alignment explanation
Indices: 72866452--72866501 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
72866442 ATAACTTTGA
*
72866452 ATGCAAATGATGTG
1 ATGCAAATGATGAG
72866466 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
72866481 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
72866495 ATGCAAA
1 ATGCAAA
72866502 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:72870346 original size:22 final size:22
Alignment explanation
Indices: 72870295--72870355 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
72870285 ATAAGTAAAT
* *
72870295 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
72870316 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
72870338 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
72870356 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:72870455 original size:3 final size:3
Alignment explanation
Indices: 72870447--72870578 Score: 83
Period size: 3 Copynumber: 43.7 Consensus size: 3
72870437 AAAGTAGTGC
* * *
72870447 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA T-C TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
72870494 TAA GTTA TAA TGAA -AA TAA TGA TAA TGA TGA T-A TAT TAGA TAA TAA
1 TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * *
72870540 TAG TAA -AA TAA TAA GTAA CAA TGA TAAA TTA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TAA TAA TA
72870579 GTGATGAGAA
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
2 7 0.07
3 83 0.82
4 11 0.11
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72870599 original size:16 final size:16
Alignment explanation
Indices: 72870578--72870609 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72870568 TTATAATAAT
72870578 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
72870594 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
72870610 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:72870742 original size:16 final size:15
Alignment explanation
Indices: 72870713--72870755 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
72870703 TATACGTATG
*
72870713 AAAAATAATGATAGT
1 AAAAATAATAATAGT
72870728 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
72870744 AATAATAATAAT
1 AAAAATAATAAT
72870756 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:72870859 original size:3 final size:3
Alignment explanation
Indices: 72870851--72870883 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
72870841 ACACTACCAT
72870851 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
72870884 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:72870984 original size:3 final size:3
Alignment explanation
Indices: 72870976--72871019 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
72870966 AAATATACAC
72870976 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
72871020 TTAAAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:72872312 original size:20 final size:21
Alignment explanation
Indices: 72872287--72872331 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
72872277 GCAATGTCTA
*
72872287 TGTTGAAACAC-GCAGCCTTG
1 TGTTGAAACACAACAGCCTTG
**
72872307 TGTTGAGCCACAACAGCCTTG
1 TGTTGAAACACAACAGCCTTG
72872328 TGTT
1 TGTT
72872332 AAGCCACATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.29
Consensus pattern (21 bp):
TGTTGAAACACAACAGCCTTG
Found at i:72872325 original size:21 final size:21
Alignment explanation
Indices: 72872299--72872357 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
72872289 TTGAAACACG
*
72872299 CAGCCTTGTGTTGAGCCACAA
1 CAGCCTTGTGTTAAGCCACAA
*
72872320 CAGCCTTGTGTTAAGCCACAT
1 CAGCCTTGTGTTAAGCCACAA
*
72872341 CA-ACTTGTGTTAAGCCA
1 CAGCCTTGTGTTAAGCCA
72872358 TAAAGCTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
CAGCCTTGTGTTAAGCCACAA
Found at i:72873968 original size:30 final size:29
Alignment explanation
Indices: 72873925--72873999 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
72873915 CCTCCGAGCT
** * *
72873925 CGCACACCCAGTGCCGTATTTTTTCCAGCT
1 CGCACACTTAGTGCCGTA-TATTTCCAGCA
* *
72873955 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
72873984 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
72874000 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
29 23 0.62
30 14 0.38
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:72876437 original size:2 final size:2
Alignment explanation
Indices: 72876430--72876459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
72876420 CACTAATTTA
72876430 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
72876460 TTTGTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72890804 original size:19 final size:20
Alignment explanation
Indices: 72890762--72890805 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
72890752 CTATTTTAAC
** *
72890762 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
72890782 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
72890801 ACAGT
1 ACAGT
72890806 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:72894477 original size:95 final size:96
Alignment explanation
Indices: 72894358--72894568 Score: 300
Period size: 95 Copynumber: 2.2 Consensus size: 96
72894348 TCTCATATCG
* *
72894358 ATGCCATGTTCCAGACATAGTCTTACACGA-AATCACATAACGATGCCAAGGCCATATCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACA-GAGAATCACATAACGATGCCAAGGCCATATCCCAGAC
*
72894422 ATGGTCTTACATGGGATCACATATCAATG-CA
65 ATGGTCTTACATAGGATCACATATCAATGTCA
* * * * *
72894453 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATACCGATGCCAATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACAGAGAATCACATAACGATGCCAAGGCCATATCCCAGACA
*
72894518 TGGTCTTACATAGGATCACATATCGATGTCA
66 TGGTCTTACATAGGATCACATATCAATGTCA
* *
72894549 ATACCATGTCCCGGACATGG
1 ATGCCATGTCCCAGACATGG
72894569 CTTTACATGG
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
94 1 0.01
95 82 0.80
96 20 0.19
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACAGAGAATCACATAACGATGCCAAGGCCATATCCCAGACA
TGGTCTTACATAGGATCACATATCAATGTCA
Found at i:72894575 original size:48 final size:48
Alignment explanation
Indices: 72894358--72894581 Score: 283
Period size: 48 Copynumber: 4.7 Consensus size: 48
72894348 TCTCATATCG
* * * * *
72894358 ATGCCATGTTCCAGACATAGTCTTACA-CGAAATCACATAACGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATAG-GATCACATATCGATGCCA
* * * *
72894406 AGGCCATATCCCAGACATGGTCTTACATGGGATCACATATCAATG-CA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCCA
*
72894453 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATACCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCCA
*
72894501 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCCA
* * *
72894549 ATACCATGTCCCGGACATGG-CTTTACATGGGAT
1 ATGCCATGTCCCAGACATGGTC-TTACATAGGAT
72894582 TACAATGCCA
Statistics
Matches: 155, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
47 43 0.28
48 111 0.72
49 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCCA
Found at i:72897377 original size:10 final size:11
Alignment explanation
Indices: 72897359--72897392 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
72897349 CAGCCACTTG
72897359 TATATCACACA
1 TATATCACACA
72897370 TA-ATCACACA
1 TATATCACACA
72897380 TATATCACA-A
1 TATATCACACA
72897390 TAT
1 TAT
72897393 CTTGAGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (11 bp):
TATATCACACA
Found at i:72899613 original size:13 final size:13
Alignment explanation
Indices: 72899595--72899621 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
72899585 CATGTTTTCA
72899595 CTAAGTGAAAGTT
1 CTAAGTGAAAGTT
72899608 CTAAGTGAAAGTT
1 CTAAGTGAAAGTT
72899621 C
1 C
72899622 AATCGTAAGA
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:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (13 bp):
CTAAGTGAAAGTT
Found at i:72902096 original size:87 final size:87
Alignment explanation
Indices: 72901736--72902287 Score: 491
Period size: 87 Copynumber: 6.3 Consensus size: 87
72901726 TTAACTCATT
* * * *
72901736 TCTCGCAATATGAATTGACTCTTT-AAAAC-TAGACATT-AAAAACAGAAATTGAAAATAGCTCA
1 TCTCGCAATATGAGTTGATTTTTTGAAAACATA-A-ATTGAAAAACAGAAATTGAAAATACCTCA
* * *
72901798 GCACGTGAGCC-AAGGCTCAACTCACT
64 G--CGTG-TCCTGAGGCTCAACTCACC
* ** *
72901824 TCTCGCAATATGAGTTGA-TTTTT-AAAACA-AAATTTG-TAAACAGATTTTGAAAATACCTCGG
1 TCTCGCAATATGAGTTGATTTTTTGAAAACATAAA-TTGAAAAACAGAAATTGAAAATACCTCAG
* * *
72901885 TATGTGACCCGAGGCTCAACTCACC
65 --CGTGTCCTGAGGCTCAACTCACC
* * * *
72901910 TCTCGTAATATGAGTTGA-TTTTTGCAAAGCATAAATTGAAAAAAAAATCAATTGAAAATACCTC
1 TCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATTGAAAAACAGA--AATTGAAAATACCTC
* *
72901974 GGCGTGTGATCTGAGGCTCAACTCACC
63 AGCGTGT--CCTGAGGCTCAACTCACC
*
72902001 TCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAAAAAAAGAAATTGAAAATA-CTCAG
1 TCTCGCAATATGAGTTGATTTTTTGA-AAACATAAATTGAAAAACAGAAATTGAAAATACCTCAG
*
72902065 CGTGTCCTGAGGCTGAACTCACC
65 CGTGTCCTGAGGCTCAACTCACC
* * * *
72902088 TCTCGCAATATGAGTTGATTTTTTGGAAAACA-AATTTGAAAAACAGAATTTGAAAACACCTAAG
1 TCTCGCAATATGAGTTGATTTTTT-GAAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAG
* ** *
72902152 GGTGTGAGTCAAGGCTCAACTCACC
65 CGTGT-CCT-GAGGCTCAACTCACC
* * * * * *
72902177 ACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCA
1 TCTCGCAATATGAGTTGA-TTTTTTGAAA-ACATAAATTGAAAAACAGAAATTGAAAATACCTCA
* *
72902242 GC--GTCTTGAGGTTCAACTCACC
64 GCGTGTCCTGAGGCTCAACTCACC
*
72902264 TCTCGCAATATGAGCTGATTTTTT
1 TCTCGCAATATGAGTTGATTTTTT
72902288 TTTGAAAGAC
Statistics
Matches: 391, Mismatches: 52, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
85 3 0.01
86 90 0.23
87 93 0.24
88 29 0.07
89 55 0.14
90 20 0.05
91 76 0.19
92 25 0.06
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
TCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTGAGGCTCAACTCACC
Found at i:72902130 original size:13 final size:14
Alignment explanation
Indices: 72902109--72902143 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
72902099 GAGTTGATTT
*
72902109 TTTGGAAAACA-AA
1 TTTGAAAAACAGAA
72902122 TTTGAAAAACAGAA
1 TTTGAAAAACAGAA
72902136 TTTGAAAA
1 TTTGAAAA
72902144 CACCTAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (14 bp):
TTTGAAAAACAGAA
Found at i:72902198 original size:176 final size:176
Alignment explanation
Indices: 72901802--72902287 Score: 535
Period size: 176 Copynumber: 2.8 Consensus size: 176
72901792 AGCTCAGCAC
* * *
72901802 GTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTT-AAAACAAAATTTG-TAAA
1 GTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAA-TTGAAAAA
** * * * * *
72901864 CAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-
65 CAGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
72901928 TTTTTGCAAAGCATAAATTGAAAAAAAAATCAATTGAAAATACCTCGGCGT
128 TTTTTGCAAAACATAAATTGAAAAAAAAAT--ATTGAAAACACCTAGGCGT
*
72901979 GTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAAA
1 GTGAGTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACA-AAATTGAAA
* *
72902043 AAAAGAAATTGAAAATA-CTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGAT
63 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
72902107 TTTTTGGAAAACA-AATTTGAAAAACAGAAT-TTGAAAACACCTAAGG-GT
128 TTTTTGCAAAACATAAATTGAAAAA-AAAATATTGAAAACACCT-AGGCGT
* * *
72902155 GTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAG
1 GTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACA-AAATTGAAA
* * * * *
72902220 AACAGAAATGGAAAACACCTCAGC--GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
63 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
72902283 TTTTT
128 TTTTT
72902288 TTTGAAAGAC
Statistics
Matches: 265, Mismatches: 31, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
176 90 0.34
177 72 0.27
178 57 0.22
179 16 0.06
180 12 0.05
181 18 0.07
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (176 bp):
GTGAGTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAATTGAAAAAC
AGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTGCAAAACATAAATTGAAAAAAAAATATTGAAAACACCTAGGCGT
Found at i:72902288 original size:87 final size:86
Alignment explanation
Indices: 72901810--72902309 Score: 390
Period size: 89 Copynumber: 5.7 Consensus size: 86
72901800 ACGTGAGCCA
* * * **
72901810 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTT-AAAACA-AAATTTG-TAAACAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAA-TTGAAAAACAGAAA
* * * **
72901870 TTGAAAATACCTCGGTATGTGACCCG
65 TTGAAAACACCTC---A-GCGTCTTG
* * * * * *
72901896 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGCAAAGCATAAATTGAAAAAAAAATC
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAACAGAAATTGAAAAACAGA--
* * *
72901959 AATTGAAAATACCTCGGCGTGTGATCTG
63 AATTGAAAACACCTCAGC--GT-CT-TG
* * *
72901987 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACATAAATTGAAAAAAAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAACAGAAATTGAAAAACAGAAA
* *
72902051 TTGAAAATA-CTCAGCGTGTCCTG
65 TTGAAAACACCTCAGC--GTCTTG
* * * * *
72902074 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAACA-AATTTGAAAAACAGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAAAACAGAAAT
* * * *
72902138 TGAAAACACCTAAGGGTGTGAGTCA
66 TGAAAACACCTCAGCGTCT---T-G
* *
72902163 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAAAACAGAAA
*
72902228 TGGAAAACACCTCAGCGTCTTG
65 TTGAAAACACCTCAGCGTCTTG
*
72902250 AGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTTTGAAA-ACAGAAATTGAAAA
72902310 TACCTCAACG
Statistics
Matches: 345, Mismatches: 47, Indels: 41
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 57 0.17
87 73 0.21
88 17 0.05
89 81 0.23
90 14 0.04
91 76 0.22
92 25 0.07
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAAAACAGAAAT
TGAAAACACCTCAGCGTCTTG
Found at i:72902363 original size:75 final size:73
Alignment explanation
Indices: 72902214--72902820 Score: 723
Period size: 75 Copynumber: 8.3 Consensus size: 73
72902204 AACACAGAAA
* * * * *
72902214 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
72902277 GCTGATTTTTTT
65 GTTGA---TTTT
*
72902289 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72902354 GTTGA-TTT
65 GTTGATTTT
* * * * *
72902362 TTGACAACAAAAATTGAAAATTACCTC-A-GCGTCTTGAGGTTAAACTCACCTATCGCAATATGA
1 TTGAAAACAAAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72902425 GTTG-TTTT
65 GTTGATTTT
* * *
72902433 TTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGGGGTTCAACTCTCCTCTCGCAATATGAG
1 TTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
72902498 CTGATTTTTT
66 TTGA--TTTT
* *
72902508 TTTAAAGACAGAAATTGAAAATACCT-AACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72902572 GTTGA-TTT
65 GTTGATTTT
* * * *
72902580 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72902645 GTTGATTTTT
65 GTTGA-TTTT
* *
72902655 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
72902720 GTTGA-GTT
65 GTTGATTTT
* * * *
72902728 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CT-TCTCAATATGA
1 TTGA-AAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
72902791 GTTGATTTT
65 GTTGATTTT
* * *
72902800 TTTAGAAACATAAATTAAAAA
1 TTGA-AAACAAAAATTGAAAA
72902821 AACGAAAATT
Statistics
Matches: 465, Mismatches: 49, Indels: 39
0.84 0.09 0.07
Matches are distributed among these distances:
70 6 0.01
71 72 0.15
72 91 0.20
73 102 0.22
74 1 0.00
75 136 0.29
76 20 0.04
77 37 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
TTGAAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:72902434 original size:148 final size:145
Alignment explanation
Indices: 72902214--72902820 Score: 751
Period size: 148 Copynumber: 4.1 Consensus size: 145
72902204 AACACAGAAA
* * *
72902214 TTGAAGAACAGAAATGGAAAACACCTCA-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
1 TTGAA-AACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
72902278 CTGATTTTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCT
65 TTGA----TTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCT
72902342 CTCGCAATATGAGTTGA-TTT
125 CTCGCAATATGAGTTGATTTT
* * * * *
72902362 TTGACAACAAAAATTGAAAATTACCTCA-GCGTCTTGAGGTTAAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAAA-TACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
72902426 TTGTTTTTTGA-AAACAAAAATTGAAAATACCTCAACGTGTCTTGGGGTTCAACTCTCCTCTCGC
65 TTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
*
72902490 AATATGAGCTGATTTTTT
130 AATATGAGTTGA--TTTT
* * *
72902508 TTTAAAGACAGAAATTGAAAATACCTAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAA-ACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
72902573 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGC
65 TTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGC
72902638 AATATGAGTTGATTTTT
130 AATATGAGTTGA-TTTT
* *
72902655 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTC-ACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
72902720 GTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-CT-TCT
64 GTTGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
72902783 CAATATGAGTTGATTTT
129 CAATATGAGTTGATTTT
* * *
72902800 TTTAGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
72902821 AACGAAAATT
Statistics
Matches: 411, Mismatches: 38, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
143 58 0.14
144 10 0.02
145 20 0.05
146 28 0.07
147 96 0.23
148 199 0.48
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (145 bp):
TTGAAAACAGAAATTGAAAATACCTCACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTT
Found at i:72902981 original size:99 final size:97
Alignment explanation
Indices: 72902818--72903171 Score: 405
Period size: 99 Copynumber: 3.7 Consensus size: 97
72902808 CATAAATTAA
* *
72902818 AAAAAC-GAAAATTGGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
72902882 TGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTGAAAA-CAG-ATTTGAAAAGCAAAAATTG
72902917 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
72902982 GATTTTTGAAAAACAGA-TT-AAAAGTAGAAATTG
66 GA--TTTG-AAAACAGATTTGAAAAGCAAAAATTG
* *
72903015 -AAAACAGAAATTAAAAATACCTCAGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
72903078 GA-TT---------TTTGAAAAGCATAAATTG
66 GATTTGAAAACAGATTTGAAAAGCAAAAATTG
* * * * *
72903100 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACACATCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
72903165 TTGATTT
64 TTGATTT
72903172 TTTTGAAAGA
Statistics
Matches: 227, Mismatches: 17, Indels: 31
0.83 0.06 0.11
Matches are distributed among these distances:
84 2 0.01
85 12 0.05
86 24 0.11
88 5 0.02
89 29 0.13
90 2 0.01
93 2 0.01
96 32 0.14
97 31 0.14
98 10 0.04
99 65 0.29
100 2 0.01
101 7 0.03
102 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (97 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTGAAAACAGATTTGAAAAGCAAAAATTG
Found at i:72903171 original size:89 final size:85
Alignment explanation
Indices: 72903009--72903173 Score: 231
Period size: 89 Copynumber: 1.9 Consensus size: 85
72902999 TTAAAAGTAG
* * *
72903009 AAATTGAAAACAGAAATTAAAAATACCTCAGCGTGCCCGAGGCTCAGCTCACCTCTCGCAATATG
1 AAATTGAAAACAGAAATTAAAAATACCTCAGCGTGCCCGAGGCCCAACACACCTCTCGCAATATG
72903074 AGTTGATTTTTGAAAAGCAT
66 AGTTGATTTTTGAAAAGCAT
* * * *
72903094 AAATTGAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACACATCTCTCGCAA
1 AAATTG-AAAACAGAAATTAAAAATACCTCAGC--GTG-CCCGAGGCCCAACACACCTCTCGCAA
72903159 TATGAGTTGATTTTT
62 TATGAGTTGATTTTT
72903174 TTGAAAGATA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 6 0.09
86 24 0.35
88 3 0.04
89 36 0.52
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (85 bp):
AAATTGAAAACAGAAATTAAAAATACCTCAGCGTGCCCGAGGCCCAACACACCTCTCGCAATATG
AGTTGATTTTTGAAAAGCAT
Found at i:72907631 original size:22 final size:22
Alignment explanation
Indices: 72907606--72907648 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
72907596 AAGCTTTTAG
72907606 AAAAGAATTCTATTATATCTAC
1 AAAAGAATTCTATTATATCTAC
72907628 AAAAGAATTCTATTATATCTA
1 AAAAGAATTCTATTATATCTA
72907649 AGGACATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAAGAATTCTATTATATCTAC
Found at i:72911753 original size:16 final size:15
Alignment explanation
Indices: 72911729--72911763 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
72911719 GTGACAGTAT
72911729 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
72911745 TATTTTAATATTTTA
1 TATTCTAATATTTTA
72911760 TATT
1 TATT
72911764 ATTCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:72917023 original size:2 final size:2
Alignment explanation
Indices: 72917006--72917046 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
72916996 ATTATGGGAT
*
72917006 TA TA TC TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72917047 ATAAACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:72921056 original size:28 final size:28
Alignment explanation
Indices: 72920995--72921092 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
72920985 TCACAAATTG
** * *
72920995 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
72921024 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
72921052 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
72921080 GCACTAAGTGTGC
1 GCACTAAGTGTGC
72921093 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:72925174 original size:25 final size:25
Alignment explanation
Indices: 72925141--72925201 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
72925131 GTCATATTCA
72925141 GGAATGCTCATACAAG-CATATAATCG
1 GGAA-GCTCATACAAGCCATATAAT-G
* ***
72925167 GGAAGCTCTTTTGAGCCATATAATG
1 GGAAGCTCATACAAGCCATATAATG
72925192 GGAAGCTCAT
1 GGAAGCTCAT
72925202 GTGAGCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (25 bp):
GGAAGCTCATACAAGCCATATAATG
Found at i:72925206 original size:25 final size:26
Alignment explanation
Indices: 72925157--72925222 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 26
72925147 CTCATACAAG
* *
72925157 CATATAATCGGGAAGCTCTTTTGAGC
1 CATATAATCGGGAAGCTCATGTGAGC
72925183 CATATAAT-GGGAAGCTCATGTGAGC
1 CATATAATCGGGAAGCTCATGTGAGC
*
72925208 CATATAA-CGTGAAGC
1 CATATAATCGGGAAGC
72925223 CTATACGAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (26 bp):
CATATAATCGGGAAGCTCATGTGAGC
Found at i:72927017 original size:27 final size:28
Alignment explanation
Indices: 72926987--72927099 Score: 87
Period size: 27 Copynumber: 4.2 Consensus size: 28
72926977 GCAACCAAAA
72926987 TAGTCTACT-GGGATAGTAAACATGGGT
1 TAGTCTACTCGGGATAGTAAACATGGGT
* * *
72927014 TAGTCT-GTCGGGATATTAAACATGGAT
1 TAGTCTACTCGGGATAGTAAACATGGGT
* *
72927041 TAG-C-CCGTCGAGATAGTAAAC-TCGGGT
1 TAGTCTAC-TCGGGATAGTAAACAT-GGGT
* *
72927068 TAGT-TCACT-GGGACAGTAAACACGGGT
1 TAGTCT-ACTCGGGATAGTAAACATGGGT
72927095 TAGTC
1 TAGTC
72927100 CATCAGGACA
Statistics
Matches: 66, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
26 3 0.05
27 61 0.92
28 1 0.02
29 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (28 bp):
TAGTCTACTCGGGATAGTAAACATGGGT
Found at i:72927108 original size:27 final size:27
Alignment explanation
Indices: 72927055--72927234 Score: 96
Period size: 27 Copynumber: 6.7 Consensus size: 27
72927045 CCGTCGAGAT
* * *
72927055 AGTAAACTCGGGTTAGTTCACTGGGAC
1 AGTAAACACGGGTTAGTCCACTAGGAC
72927082 AGTAAACACGGGTTAGTCCA-TCAGGAC
1 AGTAAACACGGGTTAGTCCACT-AGGAC
* ** * **
72927109 ATTAAACATAGGTTACTCTGCTAGGAC
1 AGTAAACACGGGTTAGTCCACTAGGAC
** * ** *
72927136 AGTAAACACGAATTAG-ACTGTTGAGAC
1 AGTAAACACGGGTTAGTCCACTAG-GAC
* * * * *
72927163 ATTAAACACAGGTTAGTCCATTGGGAT
1 AGTAAACACGGGTTAGTCCACTAGGAC
* *
72927190 AGTAAACACTGGG-TCGTCCACTGGGAC
1 AGTAAACAC-GGGTTAGTCCACTAGGAC
* *
72927217 AGTAAATACGGGGTAGTC
1 AGTAAACACGGGTTAGTC
72927235 AGCCAGGATG
Statistics
Matches: 111, Mismatches: 36, Indels: 12
0.70 0.23 0.08
Matches are distributed among these distances:
26 6 0.05
27 99 0.89
28 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (27 bp):
AGTAAACACGGGTTAGTCCACTAGGAC
Found at i:72927123 original size:54 final size:54
Alignment explanation
Indices: 72927065--72927203 Score: 120
Period size: 54 Copynumber: 2.6 Consensus size: 54
72927055 AGTAAACTCG
* *
72927065 GGTTAGTTCACTGGGACAGTAAACACGGGTTAGTCCATCAG-GACATTAAACATA
1 GGTTAGTTCACTGGGACAGTAAACACGGGTTAGACCAT-AGAGACATTAAACACA
* * * ** ** *
72927119 GGTTA-CTCTGCTAGGACAGTAAACACGAATTAGACTGTTGAGACATTAAACACA
1 GGTTAGTTC-ACTGGGACAGTAAACACGGGTTAGACCATAGAGACATTAAACACA
* * *
72927173 GGTTAGTCCATTGGGATAGTAAACACTGGGT
1 GGTTAGTTCACTGGGACAGTAAACAC-GGGT
72927204 CGTCCACTGG
Statistics
Matches: 63, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
53 3 0.05
54 57 0.90
55 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (54 bp):
GGTTAGTTCACTGGGACAGTAAACACGGGTTAGACCATAGAGACATTAAACACA
Done.