Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 324 of 335
Found at i:95166954 original size:31 final size:31
Alignment explanation
Indices: 95166905--95166980 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
95166895 ATTTTATCAA
95166905 TTAAATAATTT-A-AA--TAAATAAATTTTT
1 TTAAATAATTTAATAATTTAAATAAATTTTT
* *
95166932 TTAAATAGTTTAATAATTTAAATACATTTTT
1 TTAAATAATTTAATAATTTAAATAAATTTTT
95166963 TTAAATAATTTAATAATT
1 TTAAATAATTTAATAATT
95166981 ATTTTTCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 10 0.24
28 1 0.02
29 2 0.05
31 29 0.69
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (31 bp):
TTAAATAATTTAATAATTTAAATAAATTTTT
Found at i:95166977 original size:22 final size:23
Alignment explanation
Indices: 95166943--95166986 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
95166933 TAAATAGTTT
95166943 AATAATTTAAATACATT-TTTTTA
1 AATAATTTAAATA-ATTATTTTTA
95166966 AATAATTT-AATAATTATTTTT
1 AATAATTTAAATAATTATTTTT
95166987 CAATTAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.15
22 9 0.45
23 8 0.40
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
AATAATTTAAATAATTATTTTTA
Found at i:95168482 original size:30 final size:29
Alignment explanation
Indices: 95168442--95168500 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
95168432 TATTTTATTA
*
95168442 TTAATTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTGTTATCATTTTAAAGGCATTTG
* *
95168471 TTAATTTTGTTATCATTTTAGAGGTATTTG
1 TTAA-TTTGTTATCATTTTAAAGGCATTTG
95168501 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.56
Consensus pattern (29 bp):
TTAATTTGTTATCATTTTAAAGGCATTTG
Found at i:95168582 original size:25 final size:24
Alignment explanation
Indices: 95168550--95168596 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
95168540 CATAATTTTT
95168550 AAAAATTTATTTTCAATTTTTTGG
1 AAAAATTTATTTTCAATTTTTTGG
* **
95168574 AAAATATTTTTTTTTGATTTTTT
1 AAAA-ATTTATTTTCAATTTTTT
95168597 AGTATTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
AAAAATTTATTTTCAATTTTTTGG
Found at i:95172414 original size:9 final size:9
Alignment explanation
Indices: 95172392--95172654 Score: 291
Period size: 9 Copynumber: 29.3 Consensus size: 9
95172382 CATAATTAAA
95172392 TTACA-AAC
1 TTACATAAC
*
95172400 TTACATAAT
1 TTACATAAC
*
95172409 TTACATAAT
1 TTACATAAC
95172418 TTACATAAC
1 TTACATAAC
*
95172427 ATACATAAC
1 TTACATAAC
*
95172436 TTA-ACAAC
1 TTACATAAC
95172444 TTACATAAC
1 TTACATAAC
*
95172453 TCACATAAC
1 TTACATAAC
* *
95172462 TTATATAAT
1 TTACATAAC
95172471 TTACATAAC
1 TTACATAAC
*
95172480 TCACATAAC
1 TTACATAAC
*
95172489 ATACATAAC
1 TTACATAAC
*
95172498 TTA-ACAAC
1 TTACATAAC
*
95172506 TTATATAAC
1 TTACATAAC
*
95172515 TCACATAAC
1 TTACATAAC
*
95172524 TTACATAAT
1 TTACATAAC
95172533 TTACATAAC
1 TTACATAAC
*
95172542 TCACATAAC
1 TTACATAAC
*
95172551 ATACATAAC
1 TTACATAAC
*
95172560 TTA-ACAAC
1 TTACATAAC
95172568 TTACATAAC
1 TTACATAAC
95172577 TTACATAAC
1 TTACATAAC
*
95172586 TTACATAAT
1 TTACATAAC
95172595 TTACATAAC
1 TTACATAAC
*
95172604 TCACATAAC
1 TTACATAAC
*
95172613 ATACATAACAAC
1 TTACAT---AAC
95172625 TTACATAAC
1 TTACATAAC
*
95172634 TCACATAAC
1 TTACATAAC
95172643 TTACATAAC
1 TTACATAAC
95172652 TTA
1 TTA
95172655 ACTAATACAT
Statistics
Matches: 211, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
8 26 0.12
9 177 0.84
12 8 0.04
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:95172470 original size:62 final size:62
Alignment explanation
Indices: 95172397--95172650 Score: 428
Period size: 62 Copynumber: 4.2 Consensus size: 62
95172387 TTAAATTACA
* *
95172397 AACTTACATAATTTACATAATTTACATAACATACATAACTTAACAACTTACATAACTCACAT
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTCACAT
* *
95172459 AACTTATATAATTTACATAACTCACATAACATACATAACTTAACAACTTATATAACTCACAT
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTCACAT
*
95172521 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTTACAT
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTCACAT
95172583 AACTTACATAATTTACATAACTCACATAACATAC---A--TAACAACTTACATAACTCACAT
1 AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTCACAT
95172640 AACTTACATAA
1 AACTTACATAA
95172651 CTTAACTAAT
Statistics
Matches: 184, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
57 32 0.17
59 1 0.01
62 151 0.82
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (62 bp):
AACTTACATAATTTACATAACTCACATAACATACATAACTTAACAACTTACATAACTCACAT
Found at i:95174591 original size:13 final size:14
Alignment explanation
Indices: 95174573--95174601 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
95174563 ATATAAATAT
95174573 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
95174586 TTATAATGGTTTAA
1 TTATAATGGTTTAA
95174600 TT
1 TT
95174602 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:95175540 original size:69 final size:69
Alignment explanation
Indices: 95175424--95175552 Score: 181
Period size: 69 Copynumber: 1.9 Consensus size: 69
95175414 ATTTGTAGAA
* * *
95175424 AAAGCACCGCTAAAGGTCATCACTTTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAAGTTTTAT
1 AAAGCACCGCTAAAAGTCATCACTTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTTTTAT
95175489 GGAT
66 GGAT
* *
95175493 AAAGCACCGCTAAAAGTCGTGA-TCTTTAGCGGCGTTT-TCAGAAAAAGCGCCGCTAAAAGT
1 AAAGCACCGCTAAAAGTCATCACT-TTTAGCGGCGTTTGT-AGAAAAAGCGCCGCTAAAAGT
95175553 CATGATGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
68 2 0.04
69 51 0.96
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (69 bp):
AAAGCACCGCTAAAAGTCATCACTTTTAGCGGCGTTTGTAGAAAAAGCGCCGCTAAAAGTTTTAT
GGAT
Found at i:95179131 original size:2 final size:2
Alignment explanation
Indices: 95179124--95179151 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95179114 ATGTACTAAA
95179124 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
95179152 TAAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95181967 original size:19 final size:19
Alignment explanation
Indices: 95181935--95182013 Score: 52
Period size: 19 Copynumber: 3.9 Consensus size: 19
95181925 GCAACATTTG
* * *
95181935 TTTTTCTCTCTCCCCAAGA
1 TTTTTCCCTTTCCCCAAAA
*
95181954 TTTTTCCCTTTCCCTGGCATATA
1 TTTTTCCCTTTCCC---CA-AAA
*
95181977 TTTCTTTCCTTT-CCCAAAA
1 TTT-TTCCCTTTCCCCAAAA
95181996 GTTTTTCCCTTTCCCCAA
1 -TTTTTCCCTTTCCCCAA
95182014 CTCCCCAACC
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 21 0.45
20 10 0.21
22 2 0.04
23 7 0.15
24 7 0.15
ACGTcount: A:0.15, C:0.34, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTTTCCCTTTCCCCAAAA
Found at i:95184012 original size:23 final size:24
Alignment explanation
Indices: 95183986--95184031 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
95183976 ACCTGCAAAC
*
95183986 AAGCAAAGAAGAGT-ACAAAAAGG
1 AAGCAAAGAACAGTAACAAAAAGG
95184009 AAGCAAAGAACAGTAACAAAAAG
1 AAGCAAAGAACAGTAACAAAAAG
95184032 AAAAAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.63, C:0.11, G:0.22, T:0.04
Consensus pattern (24 bp):
AAGCAAAGAACAGTAACAAAAAGG
Found at i:95185251 original size:2 final size:2
Alignment explanation
Indices: 95185244--95185275 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
95185234 ATTTCACTGC
*
95185244 AT AT AT AT AT AT AA 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
95185276 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:95185691 original size:16 final size:15
Alignment explanation
Indices: 95185672--95185710 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
95185662 TTATATTTTA
95185672 TATTTTATGTATTATT
1 TATTTTAT-TATTATT
*
95185688 TATTTTTATTTTTATT
1 TA-TTTTATTATTATT
95185704 TATTTTA
1 TATTTTA
95185711 CGATCTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 10 0.48
17 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TATTTTATTATTATT
Found at i:95185700 original size:23 final size:25
Alignment explanation
Indices: 95185661--95185707 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
95185651 TATGTTAAAC
95185661 TTTATATTTTATATTTTATGTATTA
1 TTTATATTTTATATTTTATGTATTA
*
95185686 TTTAT-TTTTAT-TTTTATTTATT
1 TTTATATTTTATATTTTATGTATT
95185708 TTACGATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 6 0.29
25 5 0.24
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTATATTTTATATTTTATGTATTA
Found at i:95186995 original size:3 final size:3
Alignment explanation
Indices: 95186987--95187054 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
95186977 AAATGATTAC
95186987 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95187035 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
95187055 CAACCCCTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:95188799 original size:26 final size:26
Alignment explanation
Indices: 95188749--95188797 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
95188739 AAAATATAAT
*
95188749 TAAATTACTATTTTATAACTATTTTA
1 TAAATAACTATTTTATAACTATTTTA
95188775 TAAATAACTATTTTA-AA-TATTTT
1 TAAATAACTATTTTATAACTATTTT
95188798 TTTATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 2 0.09
26 14 0.64
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAATAACTATTTTATAACTATTTTA
Found at i:95190938 original size:31 final size:31
Alignment explanation
Indices: 95190893--95190952 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
95190883 ATAACTTAAA
*
95190893 TAAATAAAATTTTTTAAATAATTTAATGATT
1 TAAATAAAATTTTTTAAATAATTCAATGATT
95190924 TAAATGAAAA-TTTTTAAATAATTCAATGA
1 TAAAT-AAAATTTTTTAAATAATTCAATGA
95190953 ATATTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (31 bp):
TAAATAAAATTTTTTAAATAATTCAATGATT
Found at i:95190951 original size:22 final size:22
Alignment explanation
Indices: 95190926--95190968 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95190916 TAATGATTTA
95190926 AATGAAAATTTTT-AAATAATTC
1 AATGAAAATTTTTCAAA-AATTC
*
95190948 AATGAATATTTTTCAAAAATT
1 AATGAAAATTTTTCAAAAATT
95190969 AAAAAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (22 bp):
AATGAAAATTTTTCAAAAATTC
Found at i:95197170 original size:26 final size:27
Alignment explanation
Indices: 95197108--95197171 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
95197098 CTCAAAAGAT
* *
95197108 AATTTTTTAATATGAGAAAATATTAAC
1 AATTTTTAAAAATGAGAAAATATTAAC
** * *
95197135 AAAATATAAAAAT-AGAAATTATTAAC
1 AATTTTTAAAAATGAGAAAATATTAAC
95197161 AATTTTTAAAA
1 AATTTTTAAAA
95197172 TATATATATG
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (27 bp):
AATTTTTAAAAATGAGAAAATATTAAC
Found at i:95201491 original size:48 final size:48
Alignment explanation
Indices: 95201434--95201561 Score: 148
Period size: 48 Copynumber: 2.7 Consensus size: 48
95201424 GATGTCAATG
* * * **
95201434 CCATATCCCAGATATGGTCTTATACGAGATCGTACGTTGATACCGACA
1 CCATGTCCCAGACATGGTCTTATACGAGATCGTACATCAATACCGACA
* * * * *
95201482 CCATGTCCCAAACATGGTCTTACACGAGATCGTATATCAATGCCGACG
1 CCATGTCCCAGACATGGTCTTATACGAGATCGTACATCAATACCGACA
* *
95201530 CCATGTCTCAGACATGGTCTTATACGGGATCG
1 CCATGTCCCAGACATGGTCTTATACGAGATCG
95201562 CTATTCGATA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTATACGAGATCGTACATCAATACCGACA
Found at i:95204946 original size:6 final size:6
Alignment explanation
Indices: 95204935--95204973 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
95204925 ATAATGAAGT
95204935 TTTTCA TTTTCA TTTTCA TTTTC- TTTAT-A TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTT-TCA TTTTCA TTTT
95204974 AGTATTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:95204986 original size:24 final size:23
Alignment explanation
Indices: 95204940--95204988 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
95204930 GAAGTTTTTC
95204940 ATTTTCATTTTCATTTTCTTTAT
1 ATTTTCATTTTCATTTTCTTTAT
95204963 ATTTTCATTTT-AGTATTTCTTTAT
1 ATTTTCATTTTCA-T-TTTCTTTAT
95204987 AT
1 AT
95204989 ATTAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 1 0.04
23 12 0.50
24 11 0.46
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTCATTTTCATTTTCTTTAT
Found at i:95205383 original size:21 final size:23
Alignment explanation
Indices: 95205358--95205403 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
95205348 ATAATGATTT
95205358 TTTTCATTTT-T-TTTCTTTATA
1 TTTTCATTTTATATTTCTTTATA
95205379 TTTTCATTTTAGTATTTCTTTATA
1 TTTTCATTTTA-TATTTCTTTATA
95205403 T
1 T
95205404 ATTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
23 1 0.05
24 11 0.50
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTTCATTTTATATTTCTTTATA
Found at i:95208741 original size:10 final size:11
Alignment explanation
Indices: 95208726--95208789 Score: 61
Period size: 10 Copynumber: 6.3 Consensus size: 11
95208716 ATAGAAGATA
95208726 TTAT-TTTA-T
1 TTATATTTATT
95208735 TT-TATTTAGTT
1 TTATATTTA-TT
95208746 TTATTATTTATT
1 TTA-TATTTATT
95208758 TT-TATTTATT
1 TTATATTTATT
95208768 TT-TATTTATT
1 TTATATTTATT
95208778 TT-TA-TTATT
1 TTATATTTATT
95208787 TTA
1 TTA
95208790 GGATTAAGCT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.02
9 13 0.27
10 22 0.45
11 3 0.06
12 4 0.08
13 6 0.12
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (11 bp):
TTATATTTATT
Found at i:95208753 original size:23 final size:23
Alignment explanation
Indices: 95208724--95208787 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
95208714 AAATAGAAGA
95208724 TATTATTTTATTTTATTTAGTTT
1 TATTATTTTATTTTATTTAGTTT
*
95208747 TATTA-TTTATTTTTATTTATTTT
1 TATTATTTTA-TTTTATTTAGTTT
*
95208770 TATTTATTTT-TATTATTT
1 TA-TTATTTTATTTTATTT
95208788 TAGGATTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.11
23 26 0.72
24 3 0.08
25 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.77
Consensus pattern (23 bp):
TATTATTTTATTTTATTTAGTTT
Found at i:95210512 original size:25 final size:25
Alignment explanation
Indices: 95210483--95210530 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
95210473 TTATAATATG
* *
95210483 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
95210508 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
95210531 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:95210581 original size:9 final size:9
Alignment explanation
Indices: 95210569--95210625 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
95210559 TTTGATAAAC
95210569 ATGATATGT
1 ATGATATGT
*
95210578 ATGATATGCAC
1 ATGATATG--T
*
95210589 ATGACATGT
1 ATGATATGT
*
95210598 ATGATATGCAC
1 ATGATATG--T
95210609 ATGATATGT
1 ATGATATGT
95210618 ATGATATG
1 ATGATATG
95210626 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:95210592 original size:20 final size:20
Alignment explanation
Indices: 95210567--95210637 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
95210557 ATTTTGATAA
95210567 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95210587 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
95210607 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
95210627 ACATGAGATGT
1 ACATGATATGT
95210638 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:95210614 original size:11 final size:11
Alignment explanation
Indices: 95210578--95210632 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
95210568 CATGATATGT
95210578 ATGATATGCAC
1 ATGATATGCAC
* *
95210589 ATGACATG--T
1 ATGATATGCAC
95210598 ATGATATGCAC
1 ATGATATGCAC
*
95210609 ATGATATG--T
1 ATGATATGCAC
95210618 ATGATATGCAC
1 ATGATATGCAC
95210629 ATGA
1 ATGA
95210633 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:95210714 original size:23 final size:23
Alignment explanation
Indices: 95210684--95210849 Score: 251
Period size: 23 Copynumber: 7.1 Consensus size: 23
95210674 AGGAAGTGCA
95210684 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95210707 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
95210730 AAAGGGCTTACGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
95210754 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
95210777 AAAGGGCTTATGCCCCAGTGATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
95210801 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
95210824 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
95210847 AAA
1 AAA
95210850 AGAGGCAAGG
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 88 0.69
24 40 0.31
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:95210775 original size:47 final size:47
Alignment explanation
Indices: 95210684--95210851 Score: 266
Period size: 47 Copynumber: 3.6 Consensus size: 47
95210674 AGGAAGTGCA
*
95210684 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
95210730 AAAGGGCTTACGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
95210777 AAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
95210824 AAAGGGCTTTTGCCCCAGTTATTAAAAG
1 AAAGGGCTTATGCCCCAGTTATCAAAAG
95210852 AGGCAAGGCC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 21 0.19
47 90 0.81
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:95210795 original size:70 final size:71
Alignment explanation
Indices: 95210682--95210849 Score: 277
Period size: 70 Copynumber: 2.4 Consensus size: 71
95210672 GGAGGAAGTG
* *
95210682 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
95210746 AGTTAT
66 AGTTAT
*
95210752 CAAAAGGGCTTATGCCCTAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
95210817 AGTTAT
66 AGTTAT
* *
95210823 -TAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
95210850 AGAGGCAAGG
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 69 0.76
71 22 0.24
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTGATCAAAAGGGCTTACGCCCC
AGTTAT
Found at i:95211054 original size:42 final size:42
Alignment explanation
Indices: 95210991--95211082 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
95210981 TAGTCTCCCC
* **
95210991 AAATGGGTTTGCATACATTCATTGGTATT-TCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTAT-ATGTGATATTG
* *
95211033 AAATGGGCTTGCATTCTTTCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
95211075 AAATGGGC
1 AAATGGGC
95211083 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTATATGTGATATTG
Found at i:95215007 original size:24 final size:24
Alignment explanation
Indices: 95214975--95215024 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
95214965 GGTAGAAGAA
95214975 GAAAATTTGGTACGAGTCCTTAGG
1 GAAAATTTGGTACGAGTCCTTAGG
95214999 GAAAATTTGGTACGAGTCCTTAGG
1 GAAAATTTGGTACGAGTCCTTAGG
95215023 GA
1 GA
95215025 CTATAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (24 bp):
GAAAATTTGGTACGAGTCCTTAGG
Found at i:95221496 original size:13 final size:12
Alignment explanation
Indices: 95221470--95221521 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 12
95221460 ATAGAAGATA
95221470 TTATTTTATTTTAT
1 TTATTTTA--TTAT
95221484 TTAGTTTTATTAT
1 TTA-TTTTATTAT
95221497 TTA-TTT-TTAT
1 TTATTTTATTAT
95221507 TTATTTTTATTAT
1 TTA-TTTTATTAT
95221520 TT
1 TT
95221522 TAGGATTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 7 0.21
11 3 0.09
12 3 0.09
13 13 0.38
14 3 0.09
15 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:95221497 original size:23 final size:24
Alignment explanation
Indices: 95221468--95221523 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
95221458 AAATAGAAGA
95221468 TATTATTTTA-TTTTATTTAGTTT
1 TATTATTTTATTTTTATTTAGTTT
*
95221491 TATTA-TTTATTTTTATTTATTTT
1 TATTATTTTATTTTTATTTAGTTT
95221514 TATTATTTTA
1 TATTATTTTA
95221524 GGATTAAGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.13
23 22 0.73
24 4 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (24 bp):
TATTATTTTATTTTTATTTAGTTT
Found at i:95224454 original size:12 final size:12
Alignment explanation
Indices: 95224424--95224457 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
95224414 GCCCGTGCCA
*
95224424 CCACCCACCCTC
1 CCACCCTCCCTC
95224436 CCACCCTCCCTC
1 CCACCCTCCCTC
*
95224448 CCTCCCTCCC
1 CCACCCTCCC
95224458 CAATTGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.76, G:0.00, T:0.15
Consensus pattern (12 bp):
CCACCCTCCCTC
Found at i:95224999 original size:15 final size:16
Alignment explanation
Indices: 95224972--95225003 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
95224962 GTTATTTTTT
95224972 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
95224988 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
95225003 T
1 T
95225004 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:95230850 original size:6 final size:6
Alignment explanation
Indices: 95230839--95230864 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
95230829 GGTTCTTTTA
95230839 TTTCTT TTTCTT TTTCTT TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TT
95230865 CATGTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:95237219 original size:48 final size:49
Alignment explanation
Indices: 95237162--95237275 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 49
95237152 TGTTCCAGAG
*
95237162 ATGGTCTTATACGGGATCTCCT-C-TCGATGTCGATGCCATATCCCAAAC
1 ATGGTCTTATACGAGATCT-CTACATCGATGTCGATGCCATATCCCAAAC
* *
95237210 TTGGTCTTATACGAGAT-TGTACATCGATGTCGATGCCATATCCCAAAC
1 ATGGTCTTATACGAGATCTCTACATCGATGTCGATGCCATATCCCAAAC
*
95237258 ATGGTCTTACACGAGATC
1 ATGGTCTTATACGAGATC
95237276 GTATATCAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
46 1 0.02
47 2 0.03
48 55 0.95
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGGTCTTATACGAGATCTCTACATCGATGTCGATGCCATATCCCAAAC
Found at i:95237288 original size:48 final size:48
Alignment explanation
Indices: 95237188--95237295 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
95237178 TCTCCTCTCG
* * * *
95237188 ATGTCGATGCCATATCCCAAACTTGGTCTTATACGAGATTGTACATCG
1 ATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTACATCA
*
95237236 ATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATATCA
1 ATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTACATCA
*
95237284 ATGTCGACGCCA
1 ATGTCGATGCCA
95237296 GGTTCCAGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
ATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTACATCA
Found at i:95237308 original size:48 final size:48
Alignment explanation
Indices: 95237188--95237310 Score: 138
Period size: 48 Copynumber: 2.6 Consensus size: 48
95237178 TCTCCTCTCG
* * * * * *
95237188 ATGTCGATGCCATATCCCAAACTTGGTCTTATACGAGATTGTACATCG
1 ATGTCGACGCCAGATCCCAAACATGGTCTTACACGAGATCGTACATCA
* * *
95237236 ATGTCGATGCCATATCCCAAACATGGTCTTACACGAGATCGTATATCA
1 ATGTCGACGCCAGATCCCAAACATGGTCTTACACGAGATCGTACATCA
* * *
95237284 ATGTCGACGCCAGGTTCCAGACATGGT
1 ATGTCGACGCCAGATCCCAAACATGGT
95237311 TTTATACGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGTCGACGCCAGATCCCAAACATGGTCTTACACGAGATCGTACATCA
Found at i:95241082 original size:19 final size:19
Alignment explanation
Indices: 95241057--95241182 Score: 174
Period size: 19 Copynumber: 6.9 Consensus size: 19
95241047 ATAATCTTCA
95241057 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95241076 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95241095 GTGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95241112 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
95241130 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95241147 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95241165 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
95241183 AGATATGATT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 30 0.31
18 31 0.32
19 35 0.36
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:95241128 original size:35 final size:35
Alignment explanation
Indices: 95241065--95241182 Score: 182
Period size: 35 Copynumber: 3.3 Consensus size: 35
95241055 CAATGATATG
* *
95241065 CAATCTTAGATGTGATATGCAATCTTAGATGTGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
95241101 CAATCTTAGATATGATTGCAATATTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
95241136 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
95241173 CAATCTTAGA
1 CAATCTTAGA
95241183 AGATATGATT
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
35 48 0.63
36 15 0.20
37 13 0.17
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:95246905 original size:12 final size:11
Alignment explanation
Indices: 95246888--95246945 Score: 62
Period size: 12 Copynumber: 4.9 Consensus size: 11
95246878 TTCTATTTCA
95246888 AAAAAAAAGAAG
1 AAAAAAAA-AAG
95246900 AAAAAAGAAAAG
1 AAAAAA-AAAAG
95246912 AAAAAGAAAAAG
1 AAAAA-AAAAAG
* *
95246924 AGAAAAAAGAG
1 AAAAAAAAAAG
95246935 AAAAAAGAAAA
1 AAAAAA-AAAA
95246946 AAGAAAATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 10 0.26
12 26 0.67
13 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:95246909 original size:7 final size:7
Alignment explanation
Indices: 95246887--95246952 Score: 68
Period size: 7 Copynumber: 9.6 Consensus size: 7
95246877 CTTCTATTTC
95246887 AAAAAA-
1 AAAAAAG
*
95246893 AAAGAAG
1 AAAAAAG
95246900 AAAAAAG
1 AAAAAAG
95246907 --AAAAG
1 AAAAAAG
95246912 -AAAAAG
1 AAAAAAG
95246918 AAAAAGAG
1 AAAAA-AG
95246926 AAAAAAGAG
1 -AAAAA-AG
95246935 AAAAAAG
1 AAAAAAG
95246942 AAAAAAG
1 AAAAAAG
95246949 AAAA
1 AAAA
95246953 TGGAGAGGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
5 5 0.09
6 10 0.19
7 23 0.43
8 7 0.13
9 8 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:95246921 original size:17 final size:17
Alignment explanation
Indices: 95246889--95246947 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
95246879 TCTATTTCAA
95246889 AAAAAAAGAAGAAAAAAG
1 AAAAAAA-AAGAAAAAAG
95246907 AAAAGAAAAAG-AAAAAG
1 AAAA-AAAAAGAAAAAAG
*
95246924 AGAAAAAAGAGAAAAAAG
1 A-AAAAAAAAGAAAAAAG
95246942 AAAAAA
1 AAAAAA
95246948 GAAAATGGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 17 0.46
18 17 0.46
19 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAAG
Found at i:95246932 original size:9 final size:9
Alignment explanation
Indices: 95246890--95246947 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
95246880 CTATTTCAAA
95246890 AAAAAAGAAG
1 AAAAAAG-AG
95246900 AAAAAAGA-
1 AAAAAAGAG
*
95246908 AAAGAAAAAG
1 AAA-AAAGAG
95246918 -AAAAAGAG
1 AAAAAAGAG
95246926 AAAAAAGAG
1 AAAAAAGAG
95246935 AAAAAAGA-
1 AAAAAAGAG
95246943 AAAAA
1 AAAAA
95246948 GAAAATGGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 13 0.30
9 23 0.53
10 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:95248153 original size:87 final size:83
Alignment explanation
Indices: 95247899--95248268 Score: 462
Period size: 87 Copynumber: 4.4 Consensus size: 83
95247889 CAAAATTCAG
* * *
95247899 CGCCTTAATCCCCTAAGCAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTCCCTAAGTAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAAC-AGGTAAAATTGCAGATCTTATCTCCCTAAGCAATA
*
95247964 GTGGAGCAGATCGAAGACT
65 GCGGAGCAGATCGAAGACT
* *
95247983 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT----TCGCAGATCTTATCTCCCTAAGCAGTAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTGCAGATCTTATCTCCCTAAGCAATAG
95248044 CGGAGCAGATCGACGAAGACT
66 CGGAGCAGAT---CGAAGACT
* * * *
95248065 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATATTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTGCAGATCTTATCTCCCTAAGCAATA
** *
95248130 GCGGAATAGATCAATGACGACT
65 GCGGAGCAGATC---GAAGACT
* *
95248152 CGCCTTAATCCCCTAAGCAATAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAATA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT-AAAATTGCAGATCTTATCTCCCTAAGCAATA
*
95248217 GTGGAGCAGATCGAAGA-T
65 GCGGAGCAGATCGAAGACT
*
95248235 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
95248269 TAAAGCATAG
Statistics
Matches: 249, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
79 34 0.14
82 39 0.16
83 5 0.02
84 65 0.26
86 1 0.00
87 105 0.42
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (83 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTGCAGATCTTATCTCCCTAAGCAATAG
CGGAGCAGATCGAAGACT
Found at i:95248629 original size:207 final size:207
Alignment explanation
Indices: 95248274--95249067 Score: 1239
Period size: 207 Copynumber: 3.8 Consensus size: 207
95248264 CAGGTTAAAG
* *
95248274 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGCCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* *
95248339 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* *
95248404 TAATATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCGATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
95248469 GGAGGGCAGACA
196 GGAGGGCAGACA
95248481 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * *
95248546 GCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGTTTTCACGTGTTTACGTTGAAGGAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
*
95248611 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
95248676 GGAGGGCAGACA
196 GGAGGGCAGACA
* *
95248688 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGGTGGTTTGGCATCCTAGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * *
95248753 GCTTACGAGGAACAAATCGAAGACATAGCTAATTTGGCTTTCATGTGTTTACGTTGAAGCAAGTC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* * * *
95248818 TAAGATGATTTGCCATCTCTATATTGTCAAAGAACAAATTGAAGTTTGGCGTCTCCATATTCGAC
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
*
95248883 GGAGGACAGACA
196 GGAGGGCAGACA
* * ** * * * *
95248895 TATAGCCGATCTAACCTTCAGATGATTAGACTGAAGC-AGATCCAAGCTGGTTTGGTATCCTTGT
1 CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
* * * ** *
95248959 GCTTACAATGAGCAAATCGAATACATAGCTGATTTGGCTTTTGCGTGTTTACGCTGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
* *
95249024 TAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATTGAAG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
95249068 AAGCAGATTT
Statistics
Matches: 539, Mismatches: 48, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
206 119 0.22
207 420 0.78
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (207 bp):
CATAGCAGATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGAC
GGAGGGCAGACA
Found at i:95249458 original size:19 final size:19
Alignment explanation
Indices: 95249433--95249558 Score: 156
Period size: 19 Copynumber: 6.9 Consensus size: 19
95249423 ATAATCTTCA
95249433 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
95249452 GTGATATGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
95249471 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
95249488 ATGA-CTGAAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95249506 AT-A-ATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
95249523 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
95249541 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
95249559 AGATATGATT
Statistics
Matches: 91, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
17 28 0.31
18 30 0.33
19 33 0.36
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:95249501 original size:18 final size:18
Alignment explanation
Indices: 95249442--95249558 Score: 100
Period size: 18 Copynumber: 6.5 Consensus size: 18
95249432 AATGATATGC
* *
95249442 AATCTTAGATGTGATATGC
1 AATCTTAGATATGA-ATGA
*
95249461 AATTTTAGATATG-AT-A
1 AATCTTAGATATGAATGA
*
95249477 CAATCTTAGATATGACTGA
1 -AATCTTAGATATGAATGA
95249496 AATCTTAGATAT-AAT-A
1 AATCTTAGATATGAATGA
* *
95249512 CAATCTTAGATATGATTGC
1 -AATCTTAGATATGAATGA
95249531 AATCTTAGATATGATAT-A
1 AATCTTAGATATGA-ATGA
95249549 CAATCTTAGA
1 -AATCTTAGA
95249559 AGATATGATT
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
16 1 0.01
17 28 0.35
18 29 0.36
19 22 0.28
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGAATGA
Found at i:95249513 original size:35 final size:35
Alignment explanation
Indices: 95249441--95249558 Score: 155
Period size: 35 Copynumber: 3.3 Consensus size: 35
95249431 CAATGATATG
* * *
95249441 CAATCTTAGATGTGATATGCAATTTTAGATATGATA
1 CAATCTTAGATATGA-ATGCAATCTTAGATATAATA
* *
95249477 CAATCTTAGATATGACTGAAATCTTAGATATAATA
1 CAATCTTAGATATGAATGCAATCTTAGATATAATA
*
95249512 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGAATGCAATCTTAGATAT-A-ATA
95249549 CAATCTTAGA
1 CAATCTTAGA
95249559 AGATATGATT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 45 0.62
36 15 0.21
37 13 0.18
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGAATGCAATCTTAGATATAATA
Found at i:95251437 original size:24 final size:23
Alignment explanation
Indices: 95251392--95251439 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 23
95251382 ATAATGAAGC
95251392 TTTTCATTTTCATTTTCTTTATA
1 TTTTCATTTTCATTTTCTTTATA
95251415 TTTTCATTTT-AGTATTTCTTTATA
1 TTTTCATTTTCA-T-TTTCTTTATA
95251439 T
1 T
95251440 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 1 0.04
23 11 0.48
24 11 0.48
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTCATTTTCATTTTCTTTATA
Found at i:95256216 original size:10 final size:11
Alignment explanation
Indices: 95256191--95256222 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
95256181 TTTTTTTGTT
95256191 ATTATTTATAA
1 ATTATTTATAA
95256202 ATTATTTAT-A
1 ATTATTTATAA
95256212 ATTATTT-TAA
1 ATTATTTATAA
95256222 A
1 A
95256223 ATTAAATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.05
10 10 0.50
11 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTATTTATAA
Found at i:95256280 original size:60 final size:60
Alignment explanation
Indices: 95256210--95256328 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
95256200 AAATTATTTA
* * *
95256210 TAATTATTTTAAAATTAAATTGTTAGTAATTTAGGACTATATTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATTAAATTATTAGTAAGTTAGGACTATATTATAAATTGTTGTGTTTG
* * *
95256270 TAATTATTTTAAAATTAATTTATTAGTAAGTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAAATTATTAGTAAGTTAGGACTATATTATAAATTGTTGTGTTT
95256329 AGTTTAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATTATTTTAAAATTAAATTATTAGTAAGTTAGGACTATATTATAAATTGTTGTGTTTG
Found at i:95256524 original size:16 final size:18
Alignment explanation
Indices: 95256488--95256524 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
95256478 TAGTGTTTTG
*
95256488 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
95256506 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
95256522 TAT
1 TAT
95256525 GAGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:95256625 original size:108 final size:105
Alignment explanation
Indices: 95256505--95256724 Score: 311
Period size: 108 Copynumber: 2.1 Consensus size: 105
95256495 TTATAGTTAT
*
95256505 TTATTTTGTTAATAATTTATGAGATTAGG-T-TACAAAT-TGTTAGTGTTTAGTGGTTTAGGGTA
1 TTATTTTCTTAATAATTTAT--GATTAGGTTATACAAATCT-TTAGTGTTTAGTGGTTTAGGGTA
* *
95256567 TTACGGTTTTTTAGTAATGTATTTTTTAAAAAAAATAAATTTATAG
63 TTACGATTTTTTAGAAATGTA-TTTTTAAAAAAAA-AAA-TTATAG
* *
95256613 TTATTTTCTTAATAATTTATGATTAGGTTATATAAATCTTTAGTGTTTAGTGGTTTAGTGTATTA
1 TTATTTTCTTAATAATTTATGATTAGGTTATACAAATCTTTAGTGTTTAGTGGTTTAGGGTATTA
*
95256678 TGATTTTTTAGAAATGTATTTTTAAAAAAAAAAATTATAG
66 CGATTTTTTAGAAATGTATTTTTAAAAAAAAAAATTATAG
95256718 TTATTTT
1 TTATTTT
95256725 GTGTTAGTGT
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
105 13 0.13
106 10 0.10
107 14 0.14
108 65 0.63
109 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (105 bp):
TTATTTTCTTAATAATTTATGATTAGGTTATACAAATCTTTAGTGTTTAGTGGTTTAGGGTATTA
CGATTTTTTAGAAATGTATTTTTAAAAAAAAAAATTATAG
Found at i:95256789 original size:14 final size:16
Alignment explanation
Indices: 95256754--95256786 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95256744 AGTGTTTTGT
*
95256754 TATTTTTTTAATGTAA
1 TATTTTTATAATGTAA
95256770 TATTTTTATAATGTAA
1 TATTTTTATAATGTAA
95256786 T
1 T
95256787 TTTATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTTTTATAATGTAA
Found at i:95256821 original size:22 final size:21
Alignment explanation
Indices: 95256769--95256830 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
95256759 TTTTAATGTA
* *
95256769 ATATTTTTATA-ATGTAATTTT
1 ATATTTTTATATAT-TTATTTG
*
95256790 ATATTATTATATATTTATTTG
1 ATATTTTTATATATTTATTTG
95256811 ATAATTTTTAT-TGATTTATT
1 AT-ATTTTTATAT-ATTTATT
95256831 AAAATGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
ATATTTTTATATATTTATTTG
Found at i:95258278 original size:13 final size:13
Alignment explanation
Indices: 95258260--95258288 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
95258250 ACTCTGTAGG
95258260 ACCTAGGTGGTAT
1 ACCTAGGTGGTAT
95258273 ACCTAGGTGGTAT
1 ACCTAGGTGGTAT
95258286 ACC
1 ACC
95258289 ATGTCGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (13 bp):
ACCTAGGTGGTAT
Found at i:95268518 original size:2 final size:2
Alignment explanation
Indices: 95268511--95268535 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95268501 CATGATTTTG
95268511 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
95268536 ATTTGAATTC
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:95273467 original size:3 final size:3
Alignment explanation
Indices: 95273461--95273514 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
95273451 TGGTTATGAG
95273461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95273507 AT- ATA ATA
1 ATA ATA ATA
95273515 TAAAACACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.12
3 42 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:95275188 original size:47 final size:46
Alignment explanation
Indices: 95275132--95275275 Score: 225
Period size: 46 Copynumber: 3.1 Consensus size: 46
95275122 TAGGATGGTT
* * *
95275132 GAACATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGT
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
*
95275178 GAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 G-AACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* *
95275225 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
95275271 GAACG
1 GAACG
95275276 CTTGAGTCCG
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
46 48 0.53
47 42 0.47
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
GAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:95278168 original size:12 final size:12
Alignment explanation
Indices: 95278153--95278184 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
95278143 CTTCTTCTTC
95278153 TTCTTCTCGCAA
1 TTCTTCTCGCAA
95278165 TTCTTCTCGCAA
1 TTCTTCTCGCAA
95278177 TTCTTCTC
1 TTCTTCTC
95278185 AATTTTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.34, G:0.06, T:0.47
Consensus pattern (12 bp):
TTCTTCTCGCAA
Found at i:95278171 original size:3 final size:3
Alignment explanation
Indices: 95278094--95278159 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
95278084 CTTTGTTTTC
95278094 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
95278142 TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT
95278160 CGCAATTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:95279340 original size:13 final size:13
Alignment explanation
Indices: 95279322--95279346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95279312 CAGCCAAGCG
95279322 GAAAAAAGAAAAC
1 GAAAAAAGAAAAC
95279335 GAAAAAAGAAAA
1 GAAAAAAGAAAA
95279347 ATCAATAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAC
Found at i:95281025 original size:21 final size:22
Alignment explanation
Indices: 95281001--95281056 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
95280991 TAGTTGCACT
*
95281001 TAAATTTAAAATTCTAAAAA-G
1 TAAATTTAAAATTCTAAAAATA
** *
95281022 TAAAGATAAAATTTTAAAAATA
1 TAAATTTAAAATTCTAAAAATA
*
95281044 TAAATTTTAAATT
1 TAAATTTAAAATT
95281057 TGTAAAGAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAATTTAAAATTCTAAAAATA
Found at i:95281440 original size:20 final size:20
Alignment explanation
Indices: 95281415--95281452 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95281405 AAGACATTAT
95281415 AAATACA-TAATTGTGAATAC
1 AAATACATTAATTG-GAATAC
95281435 AAATACATTAATTGGAAT
1 AAATACATTAATTGGAAT
95281453 CGATTTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (20 bp):
AAATACATTAATTGGAATAC
Found at i:95282576 original size:20 final size:20
Alignment explanation
Indices: 95282555--95282591 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95282545 ATAAAGAATA
*
95282555 AAAATTT-AAATTTAAATTT
1 AAAATTTGAAATATAAATTT
95282574 AAAATTTGAAATATAAAT
1 AAAATTTGAAATATAAAT
95282592 AATAGTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATTTGAAATATAAATTT
Found at i:95282745 original size:2 final size:2
Alignment explanation
Indices: 95282738--95282765 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95282728 CACCAAATTG
95282738 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
95282766 TACAATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95284131 original size:30 final size:31
Alignment explanation
Indices: 95284081--95284141 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
95284071 ATACATCATA
95284081 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
1 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
*
95284112 GCAAGAATGAATG-AAAGCTTTCACCCCTAT
1 GCAAGAATGAATGAAAAGCTTCCACCCCTAT
95284142 TTATAGAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.55
31 13 0.45
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (31 bp):
GCAAGAATGAATGAAAAGCTTCCACCCCTAT
Found at i:95286242 original size:18 final size:17
Alignment explanation
Indices: 95286215--95286261 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
95286205 TTAGCATAAA
*
95286215 AATAACAATAATATTCAC
1 AATAAAAATAATATTC-C
* *
95286233 AATAAAAATAATGTTCT
1 AATAAAAATAATATTCC
95286250 AAT-AAAATAATA
1 AATAAAAATAATA
95286262 AAAGGAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
18 14 0.56
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAAAAATAATATTCC
Found at i:95286616 original size:15 final size:15
Alignment explanation
Indices: 95286582--95286620 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
95286572 GAAAAGCTAT
* *
95286582 AATAATAATAGTAAT
1 AATAATAAAAGTAAA
*
95286597 TATAATAAAAGTAAA
1 AATAATAAAAGTAAA
95286612 AATAATAAA
1 AATAATAAA
95286621 TATAGCAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATAAAAGTAAA
Found at i:95286976 original size:21 final size:22
Alignment explanation
Indices: 95286952--95286999 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
95286942 TAATAGTAAT
*
95286952 AATATTAAAATACAA-AAAAAG
1 AATAATAAAATACAATAAAAAG
* *
95286973 AATAATAAAATATAATAAAAAT
1 AATAATAAAATACAATAAAAAG
95286995 AATAA
1 AATAA
95287000 AGTAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
AATAATAAAATACAATAAAAAG
Found at i:95287081 original size:3 final size:3
Alignment explanation
Indices: 95287073--95287111 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
95287063 ACACGACTAT
* *
95287073 ATA ATA ATA ATA ACA ATA ATA ATA ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
95287112 TTGAAATACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:95287315 original size:130 final size:132
Alignment explanation
Indices: 95287088--95287361 Score: 344
Period size: 130 Copynumber: 2.1 Consensus size: 132
95287078 AATAATAACA
* * * *
95287088 ATAATAATAATATTAATAATAATATTGAAATACTAAAAAACAAATACAATAAAAATATTGAAATA
1 ATAATAATAATAATAATAATAATATTAAAATACTAAAAAACAAATACAATAAAAATATTAAAACA
* * * *
95287153 AAGTAATAAAAAATAAGACTATGTACAAATATAT-ATATACATATATAATAAAACGTATAGACTA
66 AAGTAATAAAAAATAAGACTATATACAAATATATAATATACATACATAA-AAAA-ATATACACTA
*
95287217 TTAT
129 ATAT
* ** *
95287221 ATAATAATAATAATAATAATAATATTAAAATAC-AAAAAGCACGTATAAT-AAAATATTAAAACA
1 ATAATAATAATAATAATAATAATATTAAAATACTAAAAAACAAATACAATAAAAATATTAAAACA
*
95287284 AAGTAAT-AAAAATAAGGCTATATA-AATATATATACATATACATACATAAAAAAATATACACTA
66 AAGTAATAAAAAATAAGACTATATACAA-ATATATA-ATATACATACATAAAAAAATATACACTA
95287347 ATAT
129 ATAT
95287351 AT-ATAATAATA
1 ATAATAATAATA
95287362 TTGCAATGCA
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
129 11 0.09
130 34 0.27
131 23 0.19
132 25 0.20
133 31 0.25
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (132 bp):
ATAATAATAATAATAATAATAATATTAAAATACTAAAAAACAAATACAATAAAAATATTAAAACA
AAGTAATAAAAAATAAGACTATATACAAATATATAATATACATACATAAAAAAATATACACTAAT
AT
Found at i:95287497 original size:113 final size:112
Alignment explanation
Indices: 95287218--95287555 Score: 455
Period size: 113 Copynumber: 2.9 Consensus size: 112
95287208 TATAGACTAT
* ** * **
95287218 TATATAATAATAATAATAATAATAATATTAAAATAC-AAAAAGCACGTATAATAAAATATTAAAA
1 TATATACTAAT-AT-AT-ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAA
* *
95287282 CAAAGTAATAAAAATA-AGGCTATATAAATATATATACATATACATACATAAAAAAA
63 TAAAGTAATAAAAA-ACA--C--TAT--ATATATATACATATACATATATAAAAAAA
*
95287338 TATACACTAATATATATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAA
1 TATATACTAATATATATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAA
*
95287403 AGTAATAAAAAACACTATATATATATACATATACGTATATAAAAAAAA
66 AGTAATAAAAAACACTATATATATATACATATACATATAT-AAAAAAA
95287451 TATATACTAATATATATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAA
1 TATATACTAATATATATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAA
*
95287516 AGTAATAAAAAACACTACTATATATATATATATACATATA
66 AGTAATAAAAAACACTA-TATATATATACATATACATATA
95287556 CGTATATAAC
Statistics
Matches: 201, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
112 20 0.10
113 88 0.44
114 23 0.11
116 1 0.00
117 16 0.08
118 42 0.21
119 2 0.01
120 9 0.04
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.29
Consensus pattern (112 bp):
TATATACTAATATATATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAA
AGTAATAAAAAACACTATATATATATACATATACATATATAAAAAAA
Found at i:95287586 original size:113 final size:115
Alignment explanation
Indices: 95287236--95287593 Score: 440
Period size: 113 Copynumber: 3.1 Consensus size: 115
95287226 AATAATAATA
** * ** *
95287236 ATAATAATATTAAAATAC-AAAAAGCACGTATAATAAAATATTAAAACAAAGTAATAAAAATA-A
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAA-ACA
** *
95287299 -GGCTATATAAATATATATACATATACATACATAAAAAAATATACACTAATATAT
65 CTACTATATATATATATATACATATAC-TA-AT-AAAAAATATACAC-AATATAT
95287353 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
* * *
95287418 TA-TATATATATACATATACGTATA-TAA-AAAAAATATATACTAATATAT
66 TACTATATATATATATATACATATACTAATAAAAAATATACAC-AATATAT
95287466 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
1 ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
* * * *
95287531 TACTATATATATATATATACATATACGTATATAACAAATAAAAACTAACATAT
66 TACTATATATATATATATACATATAC-TA-ATAAAAAATATACAC-AATATAT
95287584 AATAATAATA
1 -ATAATAATA
95287594 ACAATACGTT
Statistics
Matches: 214, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
113 87 0.41
114 20 0.09
115 1 0.00
116 4 0.02
117 17 0.08
118 76 0.36
119 9 0.04
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.28
Consensus pattern (115 bp):
ATAATAATATTGCAATGCAAAAAAGCAAATATAATAAAATATTAAAATAAAGTAATAAAAAACAC
TACTATATATATATATATACATATACTAATAAAAAATATACACAATATAT
Found at i:95289249 original size:16 final size:17
Alignment explanation
Indices: 95289230--95289263 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
95289220 TATATTTTTA
*
95289230 TAATTATTTTA-ATATT
1 TAATAATTTTATATATT
95289246 TAATAATTTTATATATT
1 TAATAATTTTATATATT
95289263 T
1 T
95289264 TTTATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATAATTTTATATATT
Found at i:95289273 original size:28 final size:26
Alignment explanation
Indices: 95289225--95289287 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
95289215 AAAAATATAT
95289225 TTTTATA-ATTATTTTAATATTTAATAA
1 TTTTATATATTATTTTAATA-TTAA-AA
*
95289252 TTTTATATATT-TTTTATTTATTAAAA
1 TTTTATATATTATTTTA-ATATTAAAA
95289278 TTTTATATAT
1 TTTTATATAT
95289288 GGTTATCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 12 0.36
27 16 0.48
28 5 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTATATATTATTTTAATATTAAAA
Found at i:95292022 original size:27 final size:27
Alignment explanation
Indices: 95291984--95292035 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
95291974 CTTTTAGAAA
95291984 TTATAAAATTATAAGGTTATAATAACC
1 TTATAAAATTATAAGGTTATAATAACC
*
95292011 TTATAAAATTATAAGGTTATTATAA
1 TTATAAAATTATAAGGTTATAATAA
95292036 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (27 bp):
TTATAAAATTATAAGGTTATAATAACC
Found at i:95300232 original size:3 final size:3
Alignment explanation
Indices: 95300224--95300257 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
95300214 TCCAGTACTA
95300224 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
95300258 GAAAAAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:95309573 original size:12 final size:11
Alignment explanation
Indices: 95309560--95309595 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
95309550 ATTATAGTTT
95309560 TTTTAT-ATTA
1 TTTTATAATTA
95309570 TTTTATAATTA
1 TTTTATAATTA
*
95309581 TTTTATAATTG
1 TTTTATAATTA
95309592 TTTT
1 TTTT
95309596 GCTGTCAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTATAATTA
Found at i:95314427 original size:39 final size:39
Alignment explanation
Indices: 95314349--95314478 Score: 138
Period size: 39 Copynumber: 3.3 Consensus size: 39
95314339 ATGGAATACC
* * * *
95314349 GATTATACTAAATGTTTGCTCAAACA-AGCATTATTCATT
1 GATTATACTGAATGCTGGCTCAAA-ATAGCATTATCCATT
* *
95314388 GATTATACTGAATGCTGGCT-AAAATGAGTATTGTCCATT
1 GATTATACTGAATGCTGGCTCAAAAT-AGCATTATCCATT
* * * *
95314427 GGTTATGCTGAATGCTTGCTCAAACTAGCATTATCCATT
1 GATTATACTGAATGCTGGCTCAAAATAGCATTATCCATT
95314466 GATTATACTGAAT
1 GATTATACTGAAT
95314479 AAGATTTTAT
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 3 0.04
39 66 0.89
40 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (39 bp):
GATTATACTGAATGCTGGCTCAAAATAGCATTATCCATT
Found at i:95315646 original size:23 final size:22
Alignment explanation
Indices: 95315607--95315664 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
95315597 TAATGCAAAT
*
95315607 TTATTTTAGCAGTTACAAACCA
1 TTATTTTAACAGTTACAAACCA
*
95315629 TTATTTTCAACAGTTACAAACCG
1 TTATTTT-AACAGTTACAAACCA
95315652 TT-TTTT-ACAGTTA
1 TTATTTTAACAGTTA
95315665 TAAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.21
22 11 0.33
23 15 0.45
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (22 bp):
TTATTTTAACAGTTACAAACCA
Found at i:95316201 original size:14 final size:14
Alignment explanation
Indices: 95316182--95316209 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95316172 TTTTGTAATA
95316182 GTATATTTTCCAAC
1 GTATATTTTCCAAC
95316196 GTATATTTTCCAAC
1 GTATATTTTCCAAC
95316210 ACCACTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
GTATATTTTCCAAC
Found at i:95322668 original size:22 final size:22
Alignment explanation
Indices: 95322643--95322692 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
95322633 CTTGCCACTA
95322643 ACTCCAACAACCCCACTAAACC
1 ACTCCAACAACCCCACTAAACC
*
95322665 ACTCCAACCACCCCACTAAACC
1 ACTCCAACAACCCCACTAAACC
95322687 ACTCCA
1 ACTCCA
95322693 CTAAACAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.52, G:0.00, T:0.10
Consensus pattern (22 bp):
ACTCCAACAACCCCACTAAACC
Found at i:95322688 original size:13 final size:13
Alignment explanation
Indices: 95322670--95322731 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
95322660 AAACCACTCC
95322670 AACCACCCCACTA
1 AACCACCCCACTA
*
95322683 AACCACTCCACTA
1 AACCACCCCACTA
*
95322696 AA-CAACCC-C--
1 AACCACCCCACTA
95322705 AACCACCCCACTA
1 AACCACCCCACTA
*
95322718 AACTACCCCACTA
1 AACCACCCCACTA
95322731 A
1 A
95322732 CTTCATCACC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 2 0.05
12 4 0.10
13 27 0.68
ACGTcount: A:0.40, C:0.50, G:0.00, T:0.10
Consensus pattern (13 bp):
AACCACCCCACTA
Found at i:95322707 original size:35 final size:35
Alignment explanation
Indices: 95322652--95322731 Score: 124
Period size: 35 Copynumber: 2.3 Consensus size: 35
95322642 AACTCCAACA
* *
95322652 ACCCCACTAAACCACTCCAACCACCCCACTAAACC
1 ACCCCACTAAACAACCCCAACCACCCCACTAAACC
* *
95322687 ACTCCACTAAACAACCCCAACCACCCCACTAAACT
1 ACCCCACTAAACAACCCCAACCACCCCACTAAACC
95322722 ACCCCACTAA
1 ACCCCACTAA
95322732 CTTCATCACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.39, C:0.51, G:0.00, T:0.10
Consensus pattern (35 bp):
ACCCCACTAAACAACCCCAACCACCCCACTAAACC
Found at i:95322708 original size:22 final size:22
Alignment explanation
Indices: 95322683--95322727 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
95322673 CACCCCACTA
*
95322683 AACCACTCCACTAAACAACCCC
1 AACCACCCCACTAAACAACCCC
*
95322705 AACCACCCCACTAAACTACCCC
1 AACCACCCCACTAAACAACCCC
95322727 A
1 A
95322728 CTAACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.51, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCACTAAACAACCCC
Found at i:95323148 original size:3 final size:3
Alignment explanation
Indices: 95323126--95323170 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
95323116 TTATTTTGAA
* *
95323126 TAT TGT TAT TAT TTT CTAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
95323171 CTAATACCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:95323203 original size:9 final size:9
Alignment explanation
Indices: 95323145--95323204 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
95323135 TATTTTCTAT
*
95323145 TATTATTAT
1 TATTATTAC
*
95323154 TATTATTAT
1 TATTATTAC
95323163 TATTATTAC
1 TATTATTAC
* **
95323172 TAATACCAC
1 TATTATTAC
*
95323181 TATTATCA-
1 TATTATTAC
95323189 TCATTATTAC
1 T-ATTATTAC
95323199 TATTAT
1 TATTAT
95323205 ATTATAATAC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 1 0.02
9 40 0.95
10 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (9 bp):
TATTATTAC
Found at i:95323228 original size:33 final size:39
Alignment explanation
Indices: 95323141--95323235 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 39
95323131 TTATTATTTT
* *
95323141 CTATTATTATTATTATTATTATTATTATTACTAATACCA
1 CTATTATCATTATTATTACTATTATTATTACTAATACCA
*
95323180 CTATTATCATCATTATTACTATTA-TATTA-TAATA-CA
1 CTATTATCATTATTATTACTATTATTATTACTAATACCA
*
95323216 -T-TT-TCATTATTATTGCTATT
1 CTATTATCATTATTATTACTATT
95323236 GTGTTTTTAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 15 0.29
34 2 0.04
35 1 0.02
36 2 0.04
37 5 0.10
38 5 0.10
39 21 0.41
ACGTcount: A:0.34, C:0.12, G:0.01, T:0.54
Consensus pattern (39 bp):
CTATTATCATTATTATTACTATTATTATTACTAATACCA
Found at i:95323428 original size:68 final size:68
Alignment explanation
Indices: 95323351--95323490 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
95323341 TATTTTATTT
*
95323351 ACATATCATTACTCTTATTATTATTATTTCATTATCTATTCTATTTATAATTTTTTAAATAATTT
1 ACATATCATTACTCTTATTATTATTATTTCATCATCTATTCTATTTATAATTTTTTAAATAATTT
95323416 CAA
66 CAA
95323419 ACATATCATTACTCTTATTATTATTATTTCATCATCTATTCTATTTATAATTTTTTAAATAATTT
1 ACATATCATTACTCTTATTATTATTATTTCATCATCTATTCTATTTATAATTTTTTAAATAATTT
95323484 CAA
66 CAA
95323487 ACAT
1 ACAT
95323491 TTAGCTTATT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (68 bp):
ACATATCATTACTCTTATTATTATTATTTCATCATCTATTCTATTTATAATTTTTTAAATAATTT
CAA
Found at i:95324627 original size:16 final size:15
Alignment explanation
Indices: 95324606--95324646 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
95324596 CCAAGTGTTT
*
95324606 TAATTTTAAAACATAC
1 TAATTTTAAAA-AAAC
95324622 TAATTTTAAAAAAAC
1 TAATTTTAAAAAAAC
95324637 T-ATTTTAAAA
1 TAATTTTAAAA
95324647 TTGAAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 11 0.46
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATTTTAAAAAAAC
Found at i:95324673 original size:17 final size:17
Alignment explanation
Indices: 95324651--95324698 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
95324641 TTAAAATTGA
* *
95324651 AATATTTAAAGAATAAT
1 AATATTTAAAGAAAAAC
*
95324668 AATATTTTAAGAAAAAC
1 AATATTTAAAGAAAAAC
*
95324685 ATTATTTAAA-AAAA
1 AATATTTAAAGAAAA
95324699 TATTTATGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (17 bp):
AATATTTAAAGAAAAAC
Found at i:95325194 original size:17 final size:16
Alignment explanation
Indices: 95325163--95325205 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
95325153 CATTATAAAT
*
95325163 TTTAAGAAAATTTTTATG
1 TTTAA-AAAA-TTTTATA
95325181 TTATAAAAAATTTTATA
1 TT-TAAAAAATTTTATA
95325198 TTTAAAAA
1 TTTAAAAA
95325206 CAGTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 6 0.26
19 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (16 bp):
TTTAAAAAATTTTATA
Found at i:95330264 original size:2 final size:2
Alignment explanation
Indices: 95330257--95330282 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95330247 GAATATGAAA
95330257 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
95330283 GTGTGTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95330287 original size:2 final size:2
Alignment explanation
Indices: 95330282--95330323 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
95330272 TATATATATA
95330282 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
95330324 ATGCTAATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:95331649 original size:315 final size:316
Alignment explanation
Indices: 95331048--95331678 Score: 1009
Period size: 315 Copynumber: 2.0 Consensus size: 316
95331038 GTCAGTGTAA
* *
95331048 CAGCCCAATTTTGGGCCTAGTCGGAACAATGGTTTCGGGACCACTATTTCGAGGCCAAAGAAAAT
1 CAGCCCAATTTTAGGCCTAGTCGGAACAATGGTTTCAGGACCACTATTTCGAGGCCAAAGAAAAT
* *
95331113 TATTTTAATATTATTTTATGTGTTATAATGCGATTTTATAAGTACATGTAAATTTTGGTAAGTTA
66 TATTTTAATATTATTTTATGTGTTATAATACAATTTTATAAGTACATGTAAATTTTGGTAAGTTA
*
95331178 ATTTTAGCAATTTCTAGTCCAATTTCGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTGTT
131 ATTTTAGCAATTTCTAGTCCAATTTCGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTATT
* * * *
95331243 TTAATACCTAAATGTGTTAAATTGCCTTGTATCTTAAATTTGGGGTCTTTAAAGTGAAATTAGGC
196 TTAATACCTAAAAGTATTAAATTGCCTTGTATCTTAAATTGGGGGTATTTAAAGTGAAATTAGGC
* *
95331308 CATTCAAAGTGTGATGGCAGGGCCATGGGAGAC-AGAATTGTTGAAAAGTCAAAAT
261 CATTCAAAGTGTGATGGCACGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
* * *
95331363 CAGCCCGATTTTAGGCCTAGTCGGAACAGTGGTTTCAGGACCACTA-TTCTGAGGCCAGAGAAAA
1 CAGCCCAATTTTAGGCCTAGTCGGAACAATGGTTTCAGGACCACTATTTC-GAGGCCAAAGAAAA
* *
95331427 TTATTTTAGTATTATTTTATGTGTTATAATATAATTTTATAAGTACATGTAAATTTTGGTAAGTT
65 TTATTTTAATATTATTTTATGTGTTATAATACAATTTTATAAGTACATGTAAATTTTGGTAAGTT
*
95331492 AATTTTAGCGATTTCTAGTCCAATTTCGAAAAATGG-CTAAATCGCGTAAAAGGTAAAAGTTGTA
130 AATTTTAGCAATTTCTAGTCCAATTTCGAAAAA-GGACTAAATCGCGTAAAAGGTAAAAGTTGTA
* * * *
95331556 TTTTGATGCCTAAAAGTATTAAATTGCTTTGTGTCTTAAATTGGGAGGTATTTAAAGTGAAATTA
194 TTTTAATACCTAAAAGTATTAAATTGCCTTGTATCTTAAATTGGG-GGTATTTAAAGTGAAATTA
*
95331621 GGCCATTGAAAGTGTGATGGC-CGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
258 GGCCATTCAAAGTGTGATGGCACGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
95331679 TAGGTGAAGT
Statistics
Matches: 290, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
314 3 0.01
315 226 0.78
316 61 0.21
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (316 bp):
CAGCCCAATTTTAGGCCTAGTCGGAACAATGGTTTCAGGACCACTATTTCGAGGCCAAAGAAAAT
TATTTTAATATTATTTTATGTGTTATAATACAATTTTATAAGTACATGTAAATTTTGGTAAGTTA
ATTTTAGCAATTTCTAGTCCAATTTCGAAAAAGGACTAAATCGCGTAAAAGGTAAAAGTTGTATT
TTAATACCTAAAAGTATTAAATTGCCTTGTATCTTAAATTGGGGGTATTTAAAGTGAAATTAGGC
CATTCAAAGTGTGATGGCACGGCCATGGGAGACAAAAATTGTTGAAAAGTCAAAAT
Found at i:95333942 original size:50 final size:50
Alignment explanation
Indices: 95333888--95333988 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
95333878 AATGTGAGTC
95333888 TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGTAGTAT
1 TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGTAGTAT
95333938 TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGTAGTAT
1 TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGTAGTAT
95333988 T
1 T
95333989 AGTCATGTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (50 bp):
TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGTAGTAT
Found at i:95336181 original size:20 final size:20
Alignment explanation
Indices: 95336144--95336181 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95336134 TGATGGGGAG
*
95336144 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
95336164 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
95336182 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:95338138 original size:46 final size:46
Alignment explanation
Indices: 95338084--95338403 Score: 473
Period size: 46 Copynumber: 7.0 Consensus size: 46
95338074 GCTCTCTGAA
95338084 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
95338130 -TAGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATAAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
95338176 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
95338222 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
95338268 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
95338314 ATGAAATGAACAAGACCATGGTTAAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
95338360 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
95338404 TCAAAGATAA
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 249 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:95339111 original size:46 final size:45
Alignment explanation
Indices: 95339051--95339173 Score: 158
Period size: 46 Copynumber: 2.7 Consensus size: 45
95339041 GACAAGGGCT
*
95339051 AGTGTAAGACATGTCTGGGACATGCATTAGCC-ATAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTA-AG-ATGAGAGCC
* * **
95339097 CGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-AAGATGAGAGCC
*
95339143 AGTGTAAGACATGTCTGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
95339174 ACGGTTACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 64 0.96
47 2 0.03
48 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTAAGATGAGAGCC
Found at i:95346869 original size:46 final size:45
Alignment explanation
Indices: 95346768--95346986 Score: 214
Period size: 46 Copynumber: 4.8 Consensus size: 45
95346758 ATGTAACCGT
95346768 GCCGATGCATGTCCCAGACATGTCTTACACTAGG--ACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTACATCTCG-AG
* * * *
95346812 GCTGACGCATGTTCCAGACATGTCTGACACTGGCTAACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ACATCTCGAG
* *
95346858 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-ACAT-CTCGAG
* * * * *
95346904 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTACATCTCGAG
*
95346950 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT
95346987 CATAAATCTC
Statistics
Matches: 145, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.01
44 27 0.19
45 3 0.02
46 83 0.57
47 18 0.12
48 12 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTACATCTCGAG
Found at i:95346989 original size:92 final size:91
Alignment explanation
Indices: 95346768--95346990 Score: 263
Period size: 92 Copynumber: 2.4 Consensus size: 91
95346758 ATGTAACCGT
* *
95346768 GCCGATGCATGTCCCAGACATGTCTTACACTAGG-ACAT-CTCGTAGCTGACGCATGTTCCAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTCATACTCGTAGCTGACGCATGTCCCAGAC
* * *
95346831 ATGTCTGACACTGGCTAACATCTCGAG
65 ATGTCTGACACTAGCCAACATCTCAAG
* *
95346858 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG--CTCATACTCGTAGCTGACGCATGTCCCAGA
* ** * *
95346922 CATGTCTTACACTAGCCCTCGTCTCAAT
64 CATGTCTGACACTAGCCAACATCTCAAG
*
95346950 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATA
95346991 AATCTCATGT
Statistics
Matches: 114, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
89 2 0.02
90 31 0.27
92 53 0.46
93 16 0.14
94 12 0.11
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.26
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATACTCGTAGCTGACGCATGTCCCAGACA
TGTCTGACACTAGCCAACATCTCAAG
Found at i:95348460 original size:50 final size:49
Alignment explanation
Indices: 95348401--95348502 Score: 168
Period size: 50 Copynumber: 2.1 Consensus size: 49
95348391 CATGACTAAC
*
95348401 ACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTACAAT
1 ACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATACTAC-AT
* *
95348451 ACTACCTTAATAACAAGTCAATGCCTTTGGCTAAATGATAATACTACAT
1 ACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATACTACAT
95348500 ACT
1 ACT
95348503 CATATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 5 0.10
50 44 0.90
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (49 bp):
ACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATACTACAT
Found at i:95350331 original size:19 final size:19
Alignment explanation
Indices: 95350295--95350332 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
95350285 CTCATAATTT
95350295 CAACTATTTCACACACTTA
1 CAACTATTTCACACACTTA
*
95350314 CAACTCATTTTACA-ACTTA
1 CAACT-ATTTCACACACTTA
95350333 GCAATCTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (19 bp):
CAACTATTTCACACACTTA
Found at i:95352813 original size:456 final size:456
Alignment explanation
Indices: 95351956--95352871 Score: 1825
Period size: 456 Copynumber: 2.0 Consensus size: 456
95351946 ATCAGATTGT
95351956 ATTT-TACTTTTTCTACTCACAAAATGACCAAATTAGTACCTATTTATTAGATCAAAGTGTAAAC
1 ATTTATACTTTTTCTACTCACAAAATGACCAAATTAGTACCTATTTATTAGATCAAAGTGTAAAC
95352020 GAGTTATTCTGTAAGAAAATTCATCCCTTTTTCTTGTAAAAAATAATCCCTGTAGGTTACCATAA
66 GAGTTATTCTGTAAGAAAATTCATCCCTTTTTCTTGTAAAAAATAATCCCTGTAGGTTACCATAA
95352085 AGTACACATGGCAAGGCACATATCAATTACTTATTATTTTGTCAACCACACCAGTTTCAACAACT
131 AGTACACATGGCAAGGCACATATCAATTACTTATTATTTTGTCAACCACACCAGTTTCAACAACT
95352150 ACACAAATAGATGAATATTTTAATAGAAAAAACCGCTTTGCTCCTTCAACTCTATGTACATGAAT
196 ACACAAATAGATGAATATTTTAATAGAAAAAACCGCTTTGCTCCTTCAACTCTATGTACATGAAT
95352215 TAATTTTTTCATTTTTTTAATAGAGGGACAAAATATAATTAAATAAAATATTTATATTAATTAGA
261 TAATTTTTTCATTTTTTTAATAGAGGGACAAAATATAATTAAATAAAATATTTATATTAATTAGA
95352280 TCATGCATGATAAATTGATATAAATTAAAATTCTCTAACTATTTATTTAGCTAAAAACTTTCACC
326 TCATGCATGATAAATTGATATAAATTAAAATTCTCTAACTATTTATTTAGCTAAAAACTTTCACC
95352345 CGTTCAATAAATATTAATATTTATACTTTTTTATATTGATATGATAGACATTAGATCGGTTTGAA
391 CGTTCAATAAATATTAATATTTATACTTTTTTATATTGATATGATAGACATTAGATCGGTTTGAA
95352410 A
456 A
95352411 ATTTATACTTTTTCTACTCACAAAATGACCAAATTAGTACCTATTTATTAGATCAAAGTGTAAAC
1 ATTTATACTTTTTCTACTCACAAAATGACCAAATTAGTACCTATTTATTAGATCAAAGTGTAAAC
95352476 GAGTTATTCTGTAAGAAAATTCATCCCTTTTTCTTGTAAAAAATAATCCCTGTAGGTTACCATAA
66 GAGTTATTCTGTAAGAAAATTCATCCCTTTTTCTTGTAAAAAATAATCCCTGTAGGTTACCATAA
95352541 AGTACACATGGCAAGGCACATATCAATTACTTATTATTTTGTCAACCACACCAGTTTCAACAACT
131 AGTACACATGGCAAGGCACATATCAATTACTTATTATTTTGTCAACCACACCAGTTTCAACAACT
95352606 ACACAAATAGATGAATATTTTAATAGAAAAAACCGCTTTGCTCCTTCAACTCTATGTACATGAAT
196 ACACAAATAGATGAATATTTTAATAGAAAAAACCGCTTTGCTCCTTCAACTCTATGTACATGAAT
95352671 TAATTTTTTCATTTTTTTAATAGAGGGACAAAATATAATTAAATAAAATATTTATATTAATTAGA
261 TAATTTTTTCATTTTTTTAATAGAGGGACAAAATATAATTAAATAAAATATTTATATTAATTAGA
95352736 TCATGCATGATAAATTGATATAAATTAAAATTCTCTAACTATTTATTTAGCTAAAAACTTTCACC
326 TCATGCATGATAAATTGATATAAATTAAAATTCTCTAACTATTTATTTAGCTAAAAACTTTCACC
95352801 CGTTCAATAAATATTAATATTTATACTTTTTTATATTGATATGATAGACATTAGATCGGTTTGAA
391 CGTTCAATAAATATTAATATTTATACTTTTTTATATTGATATGATAGACATTAGATCGGTTTGAA
95352866 A
456 A
95352867 ATTTA
1 ATTTA
95352872 CATGTACAAT
Statistics
Matches: 460, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
455 4 0.01
456 456 0.99
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (456 bp):
ATTTATACTTTTTCTACTCACAAAATGACCAAATTAGTACCTATTTATTAGATCAAAGTGTAAAC
GAGTTATTCTGTAAGAAAATTCATCCCTTTTTCTTGTAAAAAATAATCCCTGTAGGTTACCATAA
AGTACACATGGCAAGGCACATATCAATTACTTATTATTTTGTCAACCACACCAGTTTCAACAACT
ACACAAATAGATGAATATTTTAATAGAAAAAACCGCTTTGCTCCTTCAACTCTATGTACATGAAT
TAATTTTTTCATTTTTTTAATAGAGGGACAAAATATAATTAAATAAAATATTTATATTAATTAGA
TCATGCATGATAAATTGATATAAATTAAAATTCTCTAACTATTTATTTAGCTAAAAACTTTCACC
CGTTCAATAAATATTAATATTTATACTTTTTTATATTGATATGATAGACATTAGATCGGTTTGAA
A
Found at i:95354134 original size:31 final size:31
Alignment explanation
Indices: 95354099--95354158 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
95354089 TTACAAAGTC
* *
95354099 AACATTGAAGCCGAACTCAGGTATCAAATTA
1 AACATTAAAGCCAAACTCAGGTATCAAATTA
* * *
95354130 AACATTAAAGTCAAATTTAGGTATCAAAT
1 AACATTAAAGCCAAACTCAGGTATCAAAT
95354159 AGTATATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.27
Consensus pattern (31 bp):
AACATTAAAGCCAAACTCAGGTATCAAATTA
Found at i:95365788 original size:28 final size:28
Alignment explanation
Indices: 95365732--95365789 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
95365722 ATAATATTTT
* *
95365732 ATAATAATTAATATAATATATAAAGTTA
1 ATAATAAATAATATAATATATAAACTTA
95365760 ATAATAAATAATATCTAAT-TA-AAACTTA
1 ATAATAAATAATA--TAATATATAAACTTA
95365788 AT
1 AT
95365790 TTAATTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 20 0.77
29 2 0.08
30 4 0.15
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (28 bp):
ATAATAAATAATATAATATATAAACTTA
Found at i:95366071 original size:13 final size:13
Alignment explanation
Indices: 95366055--95366093 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
95366045 TTTTAAGATT
*
95366055 AAATAATTTATTA
1 AAATAATTAATTA
95366068 AAATAATTAATTA
1 AAATAATTAATTA
*
95366081 AATTAA-TAATTA
1 AAATAATTAATTA
95366093 A
1 A
95366094 TCATATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATAATTAATTA
Found at i:95368994 original size:10 final size:10
Alignment explanation
Indices: 95368981--95369005 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
95368971 TAATTAAAAA
95368981 ATAAAAAATT
1 ATAAAAAATT
95368991 ATAAAAAATT
1 ATAAAAAATT
95369001 ATAAA
1 ATAAA
95369006 TTACATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:95375829 original size:30 final size:30
Alignment explanation
Indices: 95375795--95375857 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
95375785 ACTTAATAAG
95375795 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
95375825 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
95375855 CAA
1 CAA
95375858 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:95375912 original size:22 final size:22
Alignment explanation
Indices: 95375886--95375935 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
95375876 ATATCCAAAC
95375886 AATAAAAATAAAATAATAGCAA
1 AATAAAAATAAAATAATAGCAA
* * **
95375908 CATAATAATAAAATGGTAGCAA
1 AATAAAAATAAAATAATAGCAA
95375930 AATAAA
1 AATAAA
95375936 GAGAAAACAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.20
Consensus pattern (22 bp):
AATAAAAATAAAATAATAGCAA
Found at i:95388466 original size:21 final size:22
Alignment explanation
Indices: 95388440--95388485 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
95388430 ATCTGCTCAA
* *
95388440 ACTCCACCTGTTTTGGAGT-TC
1 ACTCCACCTGCTGTGGAGTATC
95388461 ACTCCACCTGCTGTGGAGTATC
1 ACTCCACCTGCTGTGGAGTATC
95388483 ACT
1 ACT
95388486 TGTCTGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTATC
Found at i:95393378 original size:3 final size:3
Alignment explanation
Indices: 95393370--95393426 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
95393360 ACTAGGCAAT
* * *
95393370 AGA AGA AGA A-T AGA AGA AGA ATA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
95393412 AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA
95393427 GGAGGAGGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
2 6 0.13
3 39 0.87
ACGTcount: A:0.65, C:0.02, G:0.28, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:95393383 original size:11 final size:11
Alignment explanation
Indices: 95393367--95393392 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
95393357 AGGACTAGGC
95393367 AATAGAAGAAG
1 AATAGAAGAAG
95393378 AATAGAAGAAG
1 AATAGAAGAAG
95393389 AATA
1 AATA
95393393 ATAAGAGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.12
Consensus pattern (11 bp):
AATAGAAGAAG
Found at i:95393389 original size:14 final size:14
Alignment explanation
Indices: 95393370--95393421 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
95393360 ACTAGGCAAT
95393370 AGAAGAAGAATAGA
1 AGAAGAAGAATAGA
*
95393384 AGAAGAATAATA-A
1 AGAAGAAGAATAGA
*
95393397 GAGAAGAA-ACAGAGA
1 -AGAAGAAGA-ATAGA
95393412 AGAAGAAGAA
1 AGAAGAAGAA
95393422 GAAGAGGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 28 0.88
15 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.27, T:0.06
Consensus pattern (14 bp):
AGAAGAAGAATAGA
Done.