Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 62
Found at i:4975434 original size:29 final size:30
Alignment explanation
Indices: 4975372--4975431 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
4975362 ACTTATATTC
*
4975372 ATTTGTTAAAATTAATTTTATAAATATATA
1 ATTTGTTAAAATTAATTTTAAAAATATATA
4975402 ATTTGTTAAAATT-ATTTTAAAAGATATATA
1 ATTTGTTAAAATTAATTTTAAAA-ATATATA
4975432 TTTTTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (30 bp):
ATTTGTTAAAATTAATTTTAAAAATATATA
Found at i:4989773 original size:17 final size:17
Alignment explanation
Indices: 4989751--4989801 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
4989741 ACAATGGTAG
* *
4989751 TGTAGAAAATAGAGTAA
1 TGTAGAAAACAGAATAA
4989768 TGTAGAAAACAGAATAA
1 TGTAGAAAACAGAATAA
* *
4989785 TGTAAAAAACAAAATAA
1 TGTAGAAAACAGAATAA
4989802 GTCTCTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.61, C:0.04, G:0.16, T:0.20
Consensus pattern (17 bp):
TGTAGAAAACAGAATAA
Found at i:4990795 original size:22 final size:23
Alignment explanation
Indices: 4990764--4990810 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4990754 TAATTGCGAG
4990764 TTTAGAAGATACGA-TTCTGGGC
1 TTTAGAAGATACGATTTCTGGGC
* *
4990786 TTTAGCAGATACGATTTTTGGGC
1 TTTAGAAGATACGATTTCTGGGC
4990809 TT
1 TT
4990811 ATTTAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (23 bp):
TTTAGAAGATACGATTTCTGGGC
Found at i:4998105 original size:17 final size:18
Alignment explanation
Indices: 4998071--4998106 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
4998061 TGGGACTTGC
4998071 CTGTTATATTCATTGCATG
1 CTGTTATATT-ATTGCATG
4998090 CTGTTATATT-TTGCATG
1 CTGTTATATTATTGCATG
4998107 AAAAGCTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (18 bp):
CTGTTATATTATTGCATG
Found at i:4999000 original size:10 final size:10
Alignment explanation
Indices: 4998985--4999021 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
4998975 TGTTCGTTAA
4998985 TTTATGTTCG
1 TTTATGTTCG
*
4998995 TTTATGTTTG
1 TTTATGTTCG
4999005 TTTATGTTCG
1 TTTATGTTCG
4999015 TTTATGT
1 TTTATGT
4999022 GCATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.11, C:0.05, G:0.19, T:0.65
Consensus pattern (10 bp):
TTTATGTTCG
Found at i:4999216 original size:10 final size:10
Alignment explanation
Indices: 4999194--4999237 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
4999184 AAGAAAAAAA
*
4999194 TTATTTTCAT
1 TTATGTTCAT
*
4999204 TTATGTTCGT
1 TTATGTTCAT
*
4999214 TTACGTTCAT
1 TTATGTTCAT
4999224 TTATGTTCAT
1 TTATGTTCAT
4999234 TTAT
1 TTAT
4999238 TGTGTTCGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.61
Consensus pattern (10 bp):
TTATGTTCAT
Found at i:5004613 original size:24 final size:24
Alignment explanation
Indices: 5004560--5004617 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
5004550 CACCACTGCT
* *
5004560 CATATAATTTGCACCGAAGTGCCG
1 CATAGAATTTGCACCGAAGTGCCA
*
5004584 CGTAGAATTTGCACCGAAGTGCCA
1 CATAGAATTTGCACCGAAGTGCCA
5004608 CATAG-ATTTG
1 CATAGAATTTG
5004618 TCTCGAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
CATAGAATTTGCACCGAAGTGCCA
Found at i:5004683 original size:48 final size:47
Alignment explanation
Indices: 5004581--5004685 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
5004571 CACCGAAGTG
* *
5004581 CCGCGTAGAATTTGCACCGAAGTGCCACATAGATTTGTCTCGAAAGA
1 CCGCGTAGAATTTGCACCGAAGTGCCACATAGAATTGTCCCGAAAGA
* ** *
5004628 CCGCGTAGAATTTGTCTCCGAAG-GACCATGTAGAATTGTCCCGAAGGA
1 CCGCGTAGAATTTG-CACCGAAGTG-CCACATAGAATTGTCCCGAAAGA
*
5004676 CCTCGTAGAA
1 CCGCGTAGAA
5004686 CCCTCGACTC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
47 15 0.31
48 34 0.69
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (47 bp):
CCGCGTAGAATTTGCACCGAAGTGCCACATAGAATTGTCCCGAAAGA
Found at i:5004685 original size:23 final size:23
Alignment explanation
Indices: 5004610--5004685 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
5004600 AAGTGCCACA
* * * *
5004610 TAGATTTGTCTCGAAAGACCGCG
1 TAGAATTGTCCCGAAGGACCTCG
5004633 TAGAATTTGTCTCCGAAGGACCAT-G
1 TAGAA-TTGTC-CCGAAGGACC-TCG
5004658 TAGAATTGTCCCGAAGGACCTCG
1 TAGAATTGTCCCGAAGGACCTCG
5004681 TAGAA
1 TAGAA
5004686 CCCTCGACTC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 1 0.02
23 20 0.44
24 10 0.22
25 14 0.31
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCTCG
Found at i:5005512 original size:20 final size:21
Alignment explanation
Indices: 5005480--5005527 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
5005470 TAAATATATT
*
5005480 CGATACTCTTCCTGTA-GTAC
1 CGATACTCTTCCTCTAGGTAC
5005500 CGATACT-TCTCCTCTATGGTAC
1 CGATACTCT-TCCTCTA-GGTAC
5005522 CGATAC
1 CGATAC
5005528 CCACTTCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 13 0.54
22 10 0.42
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (21 bp):
CGATACTCTTCCTCTAGGTAC
Found at i:5010784 original size:23 final size:23
Alignment explanation
Indices: 5010758--5010862 Score: 97
Period size: 24 Copynumber: 4.5 Consensus size: 23
5010748 CTGCGTATAA
* *
5010758 TTGTACCGAAGTGCCACATAGAT
1 TTGTCCCGAAGAGCCACATAGAT
* *
5010781 TTGTCCCAAAGAACCACGTATA-AT
1 TTGTCCCGAAGAGCCAC--ATAGAT
* *
5010805 TTGTCCCGAATGA-CCACGTAGAA
1 TTGTCCCGAA-GAGCCACATAGAT
*
5010828 TTGTCCCGAAGAACCCACATAGAT
1 TTGTCCCGAAG-AGCCACATAGAT
5010852 TTGTCCCGAAG
1 TTGTCCCGAAG
5010863 GACCTTGTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
22 3 0.04
23 25 0.37
24 34 0.51
25 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
TTGTCCCGAAGAGCCACATAGAT
Found at i:5010832 original size:47 final size:48
Alignment explanation
Indices: 5010751--5010866 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 48
5010741 TGAAGTGCTG
* *
5010751 CGTATAA-TTGTACCGAAGTG-CCACATAGATTTGTCCCAAAGAA-CCA
1 CGTATAATTTGTCCCGAA-TGACCACATAGAATTGTCCCAAAGAACCCA
* *
5010797 CGTATAATTTGTCCCGAATGACCACGTAGAATTGTCCCGAAGAACCCA
1 CGTATAATTTGTCCCGAATGACCACATAGAATTGTCCCAAAGAACCCA
*
5010845 C--ATAGATTTGTCCCGAAGGACC
1 CGTATA-ATTTGTCCCGAATGACC
5010867 TTGTAGAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
46 12 0.20
47 45 0.74
48 4 0.07
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (48 bp):
CGTATAATTTGTCCCGAATGACCACATAGAATTGTCCCAAAGAACCCA
Found at i:5010859 original size:24 final size:23
Alignment explanation
Indices: 5010771--5010862 Score: 107
Period size: 24 Copynumber: 3.9 Consensus size: 23
5010761 TACCGAAGTG
*
5010771 CCACATAGATTTGTCCCAAAGAA
1 CCACATAGATTTGTCCCGAAGAA
5010794 CCACGTATA-ATTTGTCCCGAATG-A
1 CCAC--ATAGATTTGTCCCGAA-GAA
* *
5010818 CCACGTAGAATTGTCCCGAAGAA
1 CCACATAGATTTGTCCCGAAGAA
5010841 CCCACATAGATTTGTCCCGAAG
1 -CCACATAGATTTGTCCCGAAG
5010863 GACCTTGTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.05
23 16 0.28
24 35 0.60
25 4 0.07
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (23 bp):
CCACATAGATTTGTCCCGAAGAA
Found at i:5011676 original size:21 final size:20
Alignment explanation
Indices: 5011631--5011680 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
5011621 CTTACCCTTG
5011631 GTATCGATACCTCTACATCA
1 GTATCGATACCTCTACATCA
* *
5011651 ATATCGATA-CTACTTCAATCA
1 GTATCGATACCT-CTAC-ATCA
5011672 GTATCGATA
1 GTATCGATA
5011681 TTGTCATCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 11 0.44
21 12 0.48
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (20 bp):
GTATCGATACCTCTACATCA
Found at i:5013320 original size:22 final size:21
Alignment explanation
Indices: 5013294--5013368 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
5013284 AAATAGAAAC
5013294 AATAAATACATTAAGAAAAATA
1 AATAAATACATTAA-AAAAATA
*
5013316 AATAAAAACATTAAATAAAATTA
1 AATAAATACATTAAA-AAAA-TA
* *
5013339 CA-AAATA-AATAATAAAAATA
1 AATAAATACATTAA-AAAAATA
*
5013359 AGTAAATACA
1 AATAAATACA
5013369 AACATTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 2 0.05
21 14 0.33
22 23 0.55
23 3 0.07
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAATACATTAAAAAAATA
Found at i:5013377 original size:13 final size:13
Alignment explanation
Indices: 5013361--5013407 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
5013351 TAAAAATAAG
5013361 TAAATACAAACAT
1 TAAATACAAACAT
*
5013374 TAAATACAAACGT
1 TAAATACAAACAT
*
5013387 TACAATTCAAACAAT
1 TA-AATACAAAC-AT
5013402 TAAATA
1 TAAATA
5013408 ATAAAAACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 14 0.50
14 11 0.39
15 3 0.11
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (13 bp):
TAAATACAAACAT
Found at i:5013964 original size:21 final size:21
Alignment explanation
Indices: 5013894--5013969 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
5013884 CTGATACGGC
* * *
5013894 TGTGGTGGCTTCTAAAACAGT
1 TGTGGTGCCATCTAAAATAGT
*
5013915 TGTGGTGCCGTCTAAAATAGT
1 TGTGGTGCCATCTAAAATAGT
* * *
5013936 TGCGGTGCTATCTAAAATGGT
1 TGTGGTGCCATCTAAAATAGT
5013957 TGTGGTGCCATCT
1 TGTGGTGCCATCT
5013970 GAACTGGCGG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (21 bp):
TGTGGTGCCATCTAAAATAGT
Found at i:5014818 original size:37 final size:37
Alignment explanation
Indices: 5014771--5014842 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
5014761 AAATTCCTCA
5014771 AAAAATAACGGGAAGACCAATGGGTTTTTCACGACTC
1 AAAAATAACGGGAAGACCAATGGGTTTTTCACGACTC
5014808 AAAAATAACGGGAAGACCAATGGGTTTTTCACGAC
1 AAAAATAACGGGAAGACCAATGGGTTTTTCACGAC
5014843 CGAACATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (37 bp):
AAAAATAACGGGAAGACCAATGGGTTTTTCACGACTC
Found at i:5016005 original size:27 final size:22
Alignment explanation
Indices: 5015938--5016021 Score: 132
Period size: 22 Copynumber: 3.8 Consensus size: 22
5015928 AGACAAGCTG
* *
5015938 TTAATATCAAGAGTTATATGAT
1 TTAATTTCAGGAGTTATATGAT
5015960 TTAATTTCAGGAGTTATATGAT
1 TTAATTTCAGGAGTTATATGAT
*
5015982 TTAATTTCAGGAGTTACATGAT
1 TTAATTTCAGGAGTTATATGAT
*
5016004 ATAATTTCAGGAGTTATA
1 TTAATTTCAGGAGTTATA
5016022 ACAGCTGAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (22 bp):
TTAATTTCAGGAGTTATATGAT
Found at i:5018065 original size:21 final size:21
Alignment explanation
Indices: 5018026--5018065 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5018016 TATTAACTTA
* * *
5018026 ATTTAATAATATTTTATTTTC
1 ATTTAAAAATATATAATTTTC
5018047 ATTTAAAAATATATAATTT
1 ATTTAAAAATATATAATTT
5018066 ATTTTAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAAAATATATAATTTTC
Found at i:5018070 original size:25 final size:24
Alignment explanation
Indices: 5018030--5018076 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
5018020 AACTTAATTT
* *
5018030 AATAATATTTTATTTTCATTTAAA
1 AATAATAATTTATTTTAATTTAAA
5018054 AATATATAATTTATTTTAATTTA
1 AATA-ATAATTTATTTTAATTTA
5018077 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AATAATAATTTATTTTAATTTAAA
Found at i:5024915 original size:137 final size:138
Alignment explanation
Indices: 5024668--5024944 Score: 547
Period size: 137 Copynumber: 2.0 Consensus size: 138
5024658 TAATATTGAG
5024668 GTCGTGAGATCGAGCCTCATGAAGGGCATTTCATAATTTGGAGGTCTCCTACGGAAGCTGCTTTC
1 GTCGTGAGATCGAGCCTCATGAAGGGCATTTCATAATTTGGAGGTCTCCTACGGAAGCTGCTTTC
5024733 AGCCTAGTGTTGGGGGCAGCCTACTATCTTACCTTCCCTTACTCCATTACATATAGGAACAACCA
66 AGCCTAGTGTTGGGGGCAGCCTACTATCTTACCTTCCCTTACTCCATTACATATAGGAACAACCA
5024798 TTTTTTTT
131 TTTTTTTT
5024806 GTCGTGAGATCGAGCCTCATGAAGGGCATTTCATAA-TTGGAGGTCTCCTACGGAAGCTGCTTTC
1 GTCGTGAGATCGAGCCTCATGAAGGGCATTTCATAATTTGGAGGTCTCCTACGGAAGCTGCTTTC
5024870 AGCCTAGTGTTGGGGGCAGCCTACTATCTTACCTTCCCTTACTCCATTACATATAGGAACAACCA
66 AGCCTAGTGTTGGGGGCAGCCTACTATCTTACCTTCCCTTACTCCATTACATATAGGAACAACCA
5024935 TTTTTTTT
131 TTTTTTTT
5024943 GT
1 GT
5024945 TGCAAAAACA
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 103 0.74
138 36 0.26
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (138 bp):
GTCGTGAGATCGAGCCTCATGAAGGGCATTTCATAATTTGGAGGTCTCCTACGGAAGCTGCTTTC
AGCCTAGTGTTGGGGGCAGCCTACTATCTTACCTTCCCTTACTCCATTACATATAGGAACAACCA
TTTTTTTT
Found at i:5026146 original size:14 final size:15
Alignment explanation
Indices: 5026111--5026149 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
5026101 CTACTTATTC
5026111 TATTTATAATACTAAA
1 TATTTA-AATACTAAA
5026127 -ATTTAAAT-CTAAA
1 TATTTAAATACTAAA
5026140 TATTTAAATA
1 TATTTAAATA
5026150 GTATTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTTAAATACTAAA
Found at i:5026306 original size:2 final size:2
Alignment explanation
Indices: 5026299--5026377 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
5026289 AAAGATAAAG
5026299 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
5026341 AT AT -T 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
5026378 GAGAAGAGGA
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5028581 original size:36 final size:36
Alignment explanation
Indices: 5028541--5028612 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
5028531 GCATCAAAAA
5028541 ATACAACCAGTGTCTTACATAATTCTTCATTCACTT
1 ATACAACCAGTGTCTTACATAATTCTTCATTCACTT
5028577 ATACAACCAGTGTCTTACATAATTCTTCATTCACTT
1 ATACAACCAGTGTCTTACATAATTCTTCATTCACTT
5028613 CTTCCCAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (36 bp):
ATACAACCAGTGTCTTACATAATTCTTCATTCACTT
Found at i:5030831 original size:7 final size:7
Alignment explanation
Indices: 5030817--5030904 Score: 63
Period size: 7 Copynumber: 12.4 Consensus size: 7
5030807 TAATATACCC
5030817 TATATTA
1 TATATTA
*
5030824 TATGTTA
1 TATATTA
5030831 TATATTA
1 TATATTA
5030838 T-T-TTA
1 TATATTA
*
5030843 TATAATA
1 TATATTA
5030850 TATATTA
1 TATATTA
* **
5030857 TTGTATGG
1 -TATATTA
5030865 TATATTA
1 TATATTA
**
5030872 TATAACA
1 TATATTA
5030879 TATATTA
1 TATATTA
5030886 TAGTATTTA
1 TA-TA-TTA
*
5030895 TATAGTA
1 TATATTA
5030902 TAT
1 TAT
5030905 GTAATACCCA
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
5 4 0.07
6 2 0.03
7 42 0.69
8 8 0.13
9 5 0.08
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (7 bp):
TATATTA
Found at i:5031435 original size:45 final size:45
Alignment explanation
Indices: 5031369--5031635 Score: 288
Period size: 45 Copynumber: 6.0 Consensus size: 45
5031359 ATGGATTTTA
* *
5031369 AACTATAACATA-TTTTCTGTTGATAATGCACCCATATGCATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
** * * *
5031413 AACTATAATATACTTTTATGTTGATAATGTACTCATATACATCTT-
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACAT-TTC
* * *
5031458 AACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* *
5031503 AATTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * * *
5031548 AACTCTAGTATATTTTTCTGTTGATAATGCACCCATATGCGTTTC
1 AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * * * *
5031593 AACTCTGGCAT-CCTTTCATGCTAATAATGCACCCATATGCATT
1 AACTATAGCATACTTTTC-TGTTGATAATGCACCCATATACATT
5031636 ATTCCTTTAT
Statistics
Matches: 193, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
44 17 0.09
45 174 0.90
46 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
AACTATAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
Found at i:5031627 original size:135 final size:134
Alignment explanation
Indices: 5031377--5031635 Score: 317
Period size: 135 Copynumber: 1.9 Consensus size: 134
5031367 TAAACTATAA
*
5031377 CATATTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAATATACTTTTATGTTGATAATG
1 CATATTTTCTGTTGATAATGCACCCATATACATTTCAACTATAATATACTTTTATGTTGATAATG
* * * * * * *
5031442 TACTCATATACATCTTAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAATT
66 CACCCATATACATCTTAACCATAGCATACCTTTCTGCTAATAATGCACCCATATACATTTCAATT
5031507 CTAG
131 CTAG
* * * *
5031511 CATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGTATATTTTTCTGTTGATAAT
1 CATA-TTTTCTGTTGATAATGCACCCATATACATTTCAACTATAATATACTTTTATGTTGATAAT
* * * *
5031576 GCACCCATATGCGT-TTCAACTC-TGGCAT-CCTTTCATGCTAATAATGCACCCATATGCATT
65 GCACCCATATACATCTT-AAC-CATAGCATACCTTTC-TGCTAATAATGCACCCATATACATT
5031636 ATTCCTTTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
134 11 0.10
135 93 0.89
136 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (134 bp):
CATATTTTCTGTTGATAATGCACCCATATACATTTCAACTATAATATACTTTTATGTTGATAATG
CACCCATATACATCTTAACCATAGCATACCTTTCTGCTAATAATGCACCCATATACATTTCAATT
CTAG
Found at i:5031661 original size:34 final size:35
Alignment explanation
Indices: 5031603--5031669 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5031593 AACTCTGGCA
* *
5031603 TCCTTTCATGCTAATAATGCACCCATATGCATTAT
1 TCCTTTCATGCTAACAATGCACCCATATACATTAT
* *
5031638 TCCTTT-ATGCTGACAATGTACCCATATACATT
1 TCCTTTCATGCTAACAATGCACCCATATACATT
5031670 TCAGCTATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 22 0.79
35 6 0.21
ACGTcount: A:0.28, C:0.25, G:0.09, T:0.37
Consensus pattern (35 bp):
TCCTTTCATGCTAACAATGCACCCATATACATTAT
Found at i:5032031 original size:21 final size:22
Alignment explanation
Indices: 5031993--5032033 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5031983 ATTGTCATAG
*
5031993 GGGAACCGATTCCCCTGCTATA
1 GGGAACCGATTACCCTGCTATA
5032015 GGGAACCGA-TACCCTGCTA
1 GGGAACCGATTACCCTGCTA
5032034 CAGTACTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTACCCTGCTATA
Found at i:5032044 original size:11 final size:11
Alignment explanation
Indices: 5032028--5032062 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5032018 AACCGATACC
5032028 CTGCTACAGTA
1 CTGCTACAGTA
*
5032039 CTGCTACAGTG
1 CTGCTACAGTA
*
5032050 CTACTACAGTA
1 CTGCTACAGTA
5032061 CT
1 CT
5032063 TCCGTAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (11 bp):
CTGCTACAGTA
Found at i:5032729 original size:20 final size:21
Alignment explanation
Indices: 5032678--5032758 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
5032668 ATGAAATTTG
*
5032678 TCCCGAAGGACCACTGTATTG
1 TCCCGAAGGACCACTGTATTA
5032699 TCCCGAAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTA
5032720 TCCC-AAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTA
5032740 TCCCGAAGGACCACTGTAT
1 TCCCGAAGGACCACTGTAT
5032759 AACCCTCGAC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
20 20 0.34
21 38 0.66
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (21 bp):
TCCCGAAGGACCACTGTATTA
Found at i:5032744 original size:41 final size:42
Alignment explanation
Indices: 5032678--5032758 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 42
5032668 ATGAAATTTG
*
5032678 TCCCGAAGGACCACTGTATTGTCCCGAAGGACCACTGTATTA
1 TCCCGAAGGACCACTGTATTATCCCGAAGGACCACTGTATTA
5032720 TCCC-AAGGACCACTGTATTATCCCGAAGGACCACTGTAT
1 TCCCGAAGGACCACTGTATTATCCCGAAGGACCACTGTAT
5032759 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (42 bp):
TCCCGAAGGACCACTGTATTATCCCGAAGGACCACTGTATTA
Found at i:5035605 original size:2 final size:2
Alignment explanation
Indices: 5035600--5035624 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5035590 TATTTCTCTA
5035600 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
5035625 CCATGATAAA
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:5038443 original size:24 final size:24
Alignment explanation
Indices: 5038411--5038467 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
5038401 CGGAAATCAG
*
5038411 ATCAGAAATCAGAACATAATTAAA
1 ATCAGAAATCAGAACAAAATTAAA
* *
5038435 ATCAGAAATCAGAATAAAATTCAA
1 ATCAGAAATCAGAACAAAATTAAA
5038459 ATCAGAAAT
1 ATCAGAAAT
5038468 TAGATAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.58, C:0.12, G:0.09, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACAAAATTAAA
Found at i:5045917 original size:153 final size:152
Alignment explanation
Indices: 5045644--5045924 Score: 444
Period size: 153 Copynumber: 1.8 Consensus size: 152
5045634 ATCCCTTCCA
*
5045644 CGAACACAACATGATGTGTAGGTTCCCAGAACCATACAAACCCGACACAACAGTTAGGCCCTGAG
1 CGAACACAACATAATGTGTAGGTTCCCAGAACCATACAAACCCGACACAACAGTTAGGCCCTGAG
* *
5045709 CATAAGCCGAGGAGCCTGCATATATTCTTCCTCCAACAATACCCCCAAATAAAACATTTATCAAA
66 CACAAGCCGAGGAGCCTGAATATATTCTTCCTCCAACAATACCCCCAAATAAAACATTTATCAAA
5045774 AACCATAGTAAATTCCCCAAAT
131 AACCATAGTAAATTCCCCAAAT
*
5045796 CGAACACAACATAATGTGTAGGTTCCCCA-ATACCATACAACCCCGACACAACAGTTAGGCCCTG
1 CGAACACAACATAATGTGTAGGTT-CCCAGA-ACCATACAAACCCGACACAACAGTTAGGCCCTG
*
5045860 AGCACAAGCCGAGGA-CCTGTAAT-TATTTTTCCTCCAACAATAAACCCCCAAAT-AAACATTTA
64 AGCACAAGCCGAGGAGCCTG-AATATATTCTTCCTCCAACAAT--ACCCCCAAATAAAACATTTA
5045922 TCA
126 TCA
5045925 GTCAGTAAAC
Statistics
Matches: 119, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
152 45 0.38
153 64 0.54
154 10 0.08
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (152 bp):
CGAACACAACATAATGTGTAGGTTCCCAGAACCATACAAACCCGACACAACAGTTAGGCCCTGAG
CACAAGCCGAGGAGCCTGAATATATTCTTCCTCCAACAATACCCCCAAATAAAACATTTATCAAA
AACCATAGTAAATTCCCCAAAT
Found at i:5046051 original size:48 final size:47
Alignment explanation
Indices: 5045948--5046065 Score: 121
Period size: 48 Copynumber: 2.5 Consensus size: 47
5045938 TATCATAAAT
* * * *
5045948 CAAAATATCAGATTAGATATCAGAATAAATCCAGATCAGAAATCAGAA
1 CAAAAT-TCAAATTAGAAATCAGAACAAATCCAAATCAGAAATCAGAA
** * * *
5045996 CCGAATTCATATTAGAAATCAGAACATAATTCAAATCGGAAATCAGAA
1 CAAAATTCAAATTAGAAATCAGAACA-AATCCAAATCAGAAATCAGAA
*
5046044 CAAAATTCAAATCAG-AATCAGA
1 CAAAATTCAAATTAGAAATCAGA
5046066 TAAAACATTC
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
47 24 0.42
48 33 0.58
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (47 bp):
CAAAATTCAAATTAGAAATCAGAACAAATCCAAATCAGAAATCAGAA
Found at i:5046076 original size:24 final size:24
Alignment explanation
Indices: 5045982--5046065 Score: 107
Period size: 24 Copynumber: 3.5 Consensus size: 24
5045972 ATAAATCCAG
** *
5045982 ATCAGAAATCAGAACCGAATTCAT
1 ATCAGAAATCAGAACAAAATTCAA
* *
5046006 ATTAGAAATCAGAACATAATTCAA
1 ATCAGAAATCAGAACAAAATTCAA
*
5046030 ATCGGAAATCAGAACAAAATTCAA
1 ATCAGAAATCAGAACAAAATTCAA
5046054 ATCAG-AATCAGA
1 ATCAGAAATCAGA
5046066 TAAAACATTC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 7 0.13
24 45 0.87
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAGAACAAAATTCAA
Found at i:5050840 original size:90 final size:90
Alignment explanation
Indices: 5050728--5051034 Score: 434
Period size: 90 Copynumber: 3.4 Consensus size: 90
5050718 ACTATAACAT
* * *
5050728 CTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
5050793 CCATATACATCTCAACCATAGTAAA
66 CCATATACATCTCAACCATAGTAAA
* * * * * *
5050818 CTTTTCTTTTGATAATGTACCCACATACATCTCAACCATAGTAAACTTTTCTGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
*
5050883 CCACATACATCTCAACCATAGTAAA
66 CCATATACATCTCAACCATAGTAAA
* * * *
5050908 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCATACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
* * * * *
5050973 CCATATGCATTTTAACTATAGTATA
66 CCATATACATCTCAACCATAGTAAA
*
5050998 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACT
1 CTTTTCTGTTGATAATGCACCCATATACATTTCAACT
5051035 CTGTCATCCT
Statistics
Matches: 191, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 191 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.38
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATACATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
CCATATACATCTCAACCATAGTAAA
Found at i:5051033 original size:135 final size:135
Alignment explanation
Indices: 5050706--5051033 Score: 435
Period size: 135 Copynumber: 2.4 Consensus size: 135
5050696 AATACATCAT
** * *
5050706 TATGCATTTTAAACTATAACAT-CTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGT
1 TATGCATTTT-AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACCATAGT
* * *
5050770 ATACTTTTATGTTGATAATGTACCCATATACATCTCAACCATAGTAAACTTTTCTTTTGATAATG
65 AAACTTTTATGTTGATAATGTACCCATATACATCTCAACCATAGCAAACTTTTCTGTTGATAATG
*
5050835 TACCCA
130 CACCCA
* * * * * * * * * *
5050841 CATACATCTCAACCATAGTAAACTTTTCTGTTGATAATGTACCCACATACATCTCAACCATAGTA
1 TATGCATTTTAACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACCATAGTA
* * *
5050906 AACTTTTCTGTTGATAATGTACCCATATACATTTCAACTC-TAGCATACTTTTCTGTTGATAATG
66 AACTTTTATGTTGATAATGTACCCATATACATCTCAAC-CATAGCAAACTTTTCTGTTGATAATG
5050970 CACCCA
130 CACCCA
5050976 TATGCATTTTAACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAAC
1 TATGCATTTTAACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAAC
5051034 TCTGTCATCC
Statistics
Matches: 160, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
134 7 0.04
135 152 0.95
136 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (135 bp):
TATGCATTTTAACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACCATAGTA
AACTTTTATGTTGATAATGTACCCATATACATCTCAACCATAGCAAACTTTTCTGTTGATAATGC
ACCCA
Found at i:5051058 original size:45 final size:46
Alignment explanation
Indices: 5050728--5051073 Score: 336
Period size: 45 Copynumber: 7.7 Consensus size: 46
5050718 ACTATAACAT
* *
5050728 CTTTTCTGTTGATAATGCACCCATATGCATTTAAACTATAGT-ATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCATA
* * * * *
5050773 CTTTTATGTTGATAATGTACCCATATACATCTCAAC-CATAGT-AAA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTCATA
* * * * * *
5050818 CTTTTCTTTTGATAATGTACCCACATACATCTCAAC-CATAGT-AAA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTCATA
* * * * *
5050863 CTTTTCTGTTGATAATGTACCCACATACATCTCAAC-CATAGT-AAA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGTCATA
* *
5050908 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAG-CATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCATA
* *
5050953 CTTTTCTGTTGATAATGCACCCATATGCATTTTAACTATAGT-ATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCATA
5050998 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCT-GTCAT-
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCATA
* *** *
5051042 CCTTTCATGCCAATAATGCATCCATATGCATT
1 CTTTTC-TGTTGATAATGCACCCATATGCATT
5051074 ATTCCTTTAT
Statistics
Matches: 270, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
44 7 0.03
45 262 0.97
46 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (46 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTCATA
Found at i:5051112 original size:79 final size:79
Alignment explanation
Indices: 5051011--5051162 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 79
5051001 TTCTGTTGAT
* * * * *
5051011 AATGCACCCATATGCATTTCAACTCT-GTCATCCTTTCATGCCAATAATGCATCCATATGCATTA
1 AATGCACCCATATACATTTCAACTATAG-CATCATTTCAAGCCAATAATGCACCCATATGCATTA
5051075 TTCCTTTATGCTGGC
65 TTCCTTTATGCTGGC
* *
5051090 AATGTACCCATATACATTTCAACTATAGCATTATTTCAAGCCAATAATGCACCCATATGCATTAT
1 AATGCACCCATATACATTTCAACTATAGCATCATTTCAAGCCAATAATGCACCCATATGCATTAT
*
5051155 TCTTTTAT
66 TCCTTTAT
5051163 ATTCGTTTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
79 63 0.98
80 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (79 bp):
AATGCACCCATATACATTTCAACTATAGCATCATTTCAAGCCAATAATGCACCCATATGCATTAT
TCCTTTATGCTGGC
Found at i:5051780 original size:20 final size:20
Alignment explanation
Indices: 5051755--5051798 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
5051745 GATGTTTACC
5051755 GGTATCGATACCCTTACCAT
1 GGTATCGATACCCTTACCAT
5051775 GGTATCGATACCCTTACCAT
1 GGTATCGATACCCTTACCAT
5051795 GGTA
1 GGTA
5051799 ACTATACCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (20 bp):
GGTATCGATACCCTTACCAT
Found at i:5051805 original size:20 final size:20
Alignment explanation
Indices: 5051755--5051806 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
5051745 GATGTTTACC
*
5051755 GGTATCGATACCCTTACCAT
1 GGTAACGATACCCTTACCAT
*
5051775 GGTATCGATACCCTTACCAT
1 GGTAACGATACCCTTACCAT
*
5051795 GGTAACTATACC
1 GGTAACGATACC
5051807 ACATCGCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (20 bp):
GGTAACGATACCCTTACCAT
Found at i:5052669 original size:7 final size:7
Alignment explanation
Indices: 5052659--5052856 Score: 119
Period size: 7 Copynumber: 27.4 Consensus size: 7
5052649 TGTTATATGG
5052659 TATTATA
1 TATTATA
5052666 TA-T-TA
1 TATTATA
5052671 TATTATA
1 TATTATA
5052678 T-TATATTA
1 TAT-TA-TA
5052686 TATTATA
1 TATTATA
5052693 T-TATATTA
1 TAT-TA-TA
5052701 TATTATTA
1 TATTA-TA
5052709 TATTATA
1 TATTATA
5052716 T-TATATTA
1 TAT-TA-TA
5052724 TATTATA
1 TATTATA
5052731 T-TATATTA
1 TAT-TA-TA
5052739 TATTATA
1 TATTATA
5052746 T-TATATTA
1 TAT-TA-TA
*
5052754 TAGTATA
1 TATTATA
5052761 TATTATA
1 TATTATA
*
5052768 CATTATA
1 TATTATA
*
5052775 CATTATA
1 TATTATA
*
5052782 CATTATA
1 TATTATA
*
5052789 CATTATA
1 TATTATA
*
5052796 TATTACA
1 TATTATA
5052803 TA-T-TA
1 TATTATA
5052808 TATTATA
1 TATTATA
5052815 GTA-TATA
1 -TATTATA
5052822 TATTATA
1 TATTATA
5052829 TATCTATA
1 TAT-TATA
5052837 TTACATTATA
1 -T--ATTATA
*
5052847 TAGTATA
1 TATTATA
5052854 TAT
1 TAT
5052857 AGCATGTTTA
Statistics
Matches: 158, Mismatches: 8, Indels: 50
0.73 0.04 0.23
Matches are distributed among these distances:
5 7 0.04
6 11 0.07
7 89 0.56
8 39 0.25
9 6 0.04
10 4 0.03
11 2 0.01
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (7 bp):
TATTATA
Found at i:5052674 original size:5 final size:5
Alignment explanation
Indices: 5052664--5052928 Score: 199
Period size: 5 Copynumber: 51.6 Consensus size: 5
5052654 TATGGTATTA
5052664 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA- T-TAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
5052712 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAGT ATATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T -TATAT
*
5052764 TATACAT TATACAT TATACAT TATACAT TATA- TAT-T ACATAT TATAT
1 TAT--AT TAT--AT TAT--AT TAT--AT TATAT TATAT -TATAT TATAT
* * * *
5052811 TATAG TATA- TATAT TATA- TAT-C TATAT TACAT TATA- TAGTAT ATATAG
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT -TATAT
* * * * *
5052859 CATGTT TATAG TATA- TATAT TATAA TATACT ATATAT TGTAT TATAT
1 TAT-AT TATAT TATAT TATAT TATAT TATA-T -TATAT TATAT TATAT
* *
5052906 TAGAT TTTAT TAATAT TAT-T TAT
1 TATAT TATAT T-ATAT TATAT TAT
5052929 TTGTTTTTAA
Statistics
Matches: 219, Mismatches: 21, Indels: 41
0.78 0.07 0.15
Matches are distributed among these distances:
3 2 0.01
4 25 0.11
5 144 0.66
6 12 0.05
7 36 0.16
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (5 bp):
TATAT
Found at i:5058111 original size:28 final size:27
Alignment explanation
Indices: 5058058--5058121 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
5058048 AAATGAAAAC
5058058 ATAACT-AAACTTTCATCATAACAAAT
1 ATAACTAAAACTTTCATCATAACAAAT
* *
5058084 ATCAAGTAAAACTTTCATCAATGA-AAAT
1 AT-AACTAAAACTTTCATC-ATAACAAAT
5058112 ATAACTAAAA
1 ATAACTAAAA
5058122 TATAATAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.06
27 10 0.31
28 17 0.53
29 3 0.09
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (27 bp):
ATAACTAAAACTTTCATCATAACAAAT
Found at i:5082510 original size:24 final size:24
Alignment explanation
Indices: 5082457--5082504 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
5082447 AGAAAGAAAG
* *
5082457 GAATTTATGGGAGAAGCTTTGGAA
1 GAATTGATGGGAGAAGCATTGGAA
5082481 GAATTGATGGGAGAAGCATTGGAA
1 GAATTGATGGGAGAAGCATTGGAA
5082505 TGATTGTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.25
Consensus pattern (24 bp):
GAATTGATGGGAGAAGCATTGGAA
Found at i:5087331 original size:139 final size:139
Alignment explanation
Indices: 5087052--5089621 Score: 3281
Period size: 139 Copynumber: 18.6 Consensus size: 139
5087042 TAATAAACCA
* * * * * *
5087052 ATCAACATTTCCAATGAAAGGGTTTATAATGAGAAGAACTCATCCGATAAGGAAGAAGAAGTTCA
1 ATCAACATTTCCAGTG-GAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
*
5087117 TAATGAGAAGAACTTGTTGAACCTTAGCTCGATTCATCGCATATGGAGTTGAAT-AGGTGACACC
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCA-GTGACACC
*
5087181 TCACTTGAGGG
129 TCACTCGAGGG
* * * * *
5087192 ATCAACATTTCCAATGTAGAGTTCATAATGATAAGAACTCGTACGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* *
5087257 AATGAGAAGAACCTGTTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
* *
5087322 ATTCTAGGG
131 ACTCGAGGG
* * *
5087331 ATCAACATTTCCAGTTGAGAGTTCATAATGAGAAAAACTCATTCGATGAGGGAGAA-AAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* *
5087395 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTGAGTTGAATCAGTGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
**
5087460 ACTCGAGAA
131 ACTCGAGGG
* * * * * *
5087469 ATCAACATTTCCTGTGGAGAGTTCATAATGAGAATAACTCATCTGAT-AAGGAGGAGAAGTTTAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* ** *
5087533 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATTGAGTTGAATCAACGACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
5087598 ACTCGAGGG
131 ACTCGAGGG
* * *
5087607 ATCAATATTTCCAGTGGAGAGTTCATAAT---TAGAACTCATCCGATGAGGGAGAAGAATTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
5087669 AATGATAATAACTTGTTCAACCTTAGCTCGATTCATTGCATATGGAGTTGAATCAGTGACAACTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
*
5087734 ACTCGAAGG
131 ACTCGAGGG
** * *
5087743 ATCAACATTTATAGTGGAGAATTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * * *
5087808 AATGAGAAGAACTTGTTCAACCTTATCTTGATTCATCGCATATGTAGTTGAACCAGCGATACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
* *
5087873 ATTCGAGCG
131 ACTCGAGGG
* * *
5087882 ATCAACATTTTCAATGGAGAGTTCATAATGAGAATG-ACTCATCCGATGAGGGAGGAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAA-GAACTCATCCGATGAGGGAGAAGAAGTTCA
* * * * *** *
5087946 TAATAAGAAGAACTTGTTCAACCATAGCTCGATTCATCGCATTTAGAGTTGAATCAACAACATCT
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCT
5088011 CACTCGAGGG
130 CACTCGAGGG
* * * *
5088021 ATCAACATTTCCAGTGTAGAGTTCATAATGAGAAGAACTCACCCGATGAGAGAGAATAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * *
5088086 AATGAGAAGAACTTGTTTAACCTTAGCTCGATTAATCGCATATGGACTTGAATCAGCGACTCCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
5088151 ACTCGAGGG
131 ACTCGAGGG
*
5088160 ATCAACATTTCCA-TTGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * *
5088224 AATGAGAAAAACTTGTTCAACCTTAGCTAGATTCATTGCATATGGAGGTAAATCAGTGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
* *
5088289 ATTCAAGGG
131 ACTCGAGGG
* * ** * **
5088298 ATCAATATTTCCAATCAAGAGTTTATAATGAGAA-AACTCATCCGATGAGGGATTAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * *
5088362 AATGAGAAGAACTTGTTCAGCCTTAGCTCGATTCATCACATATGGAGTTGAATTAGCGACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
5088427 ACTCGAGGG
131 ACTCGAGGG
* * * ** *
5088436 ATCAACATTT-CAGTAGAGAGTTCATAAT--TAA-AACTTATTAGATGAGGGAGAAGAATTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* ** * * ** *
5088497 AATGAGAAGAACTTGTTC-ACTCTTAGCTCAATTCATTACATATGGATTTAAATCAGCAACATCT
66 AATGAGAAGAACTTGTTCAAC-CTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCT
*
5088561 CACTTGAGGG
130 CACTCGAGGG
* * * ** *
5088571 ATCAATATTTCTAGTGGAGAGTTCATAATAAGAAGAACTCATTTGATGAGGGAAAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * * *
5088636 AATGGGAAGAACTTGTTCAACCTTAGCTAGATTCATCACATATGGAGTTAAATTAGCGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
* *
5088701 ATTTGAGGG
131 ACTCGAGGG
* *
5088710 ATCAACATTTCTAGTGGAGAGTTTATAATGAGAAGAACTCATCCGATGAGGGA-AGAGAAGTTCA
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGA-AGAAGTTCA
* * * *
5088774 TAATGAGAAGAACTTGTTCAATCTTAGCTCGATTCATTGTATTTGGAGTTGAATCAGTGACACCT
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCT
* *
5088839 CATTCGAGGA
130 CACTCGAGGG
* * *
5088849 ATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGAGATAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* *
5088914 AATGAGAAGAACTTGTTTAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTT
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
* *
5088979 ACTCAATGG
131 ACTCGAGGG
* * * *
5088988 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCTGATAAGGGAGGAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * * ** * *
5089053 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCACATATGGAGGTAAATCAGCAATATCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
*
5089118 AATCGAGGG
131 ACTCGAGGG
* * * * *
5089127 ATCAATATTTCTAGTGTAGAGTTCCTAATGAGAAGAACTCATCCGATGAGGGAGGAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* *
5089192 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATAGAGTTGAATCAGTGACACTTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
5089257 ACTCGA-GG
131 ACTCGAGGG
* * * * * *
5089265 AGTCAACATTTCTAGTAGAGAGTTCATAAT---TAGAACTTATCCGATGAGGCAGAAGAATTTCA
1 A-TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCA
* * ** * * ** *
5089327 TAATGAAAAGAACTTGTTCAATCTTATATTGATTCATTGCATATTTAGTTGAATCAGGGACACCT
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCT
5089392 CACTCGAGGG
130 CACTCGAGGG
* * *
5089402 ATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCAT-CGATGAGGGATAATAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
* * * *
5089466 AATAAGAAAAACTTATTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
*
5089531 ATTCGAGGG
131 ACTCGAGGG
* * *
5089540 ATCAACATTTCTAGTGGAGAGTTCATAATCAGAAGAACTCATCCGATGAGGGAGGAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
*
5089605 AATGAGAAAAACTTGTT
66 AATGAGAAGAACTTGTT
5089622 ATGAACCCAA
Statistics
Matches: 2099, Mismatches: 308, Indels: 47
0.86 0.13 0.02
Matches are distributed among these distances:
134 1 0.00
135 109 0.05
136 233 0.11
137 23 0.01
138 563 0.27
139 1149 0.55
140 21 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (139 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTC
ACTCGAGGG
Found at i:5089083 original size:967 final size:966
Alignment explanation
Indices: 5087052--5089621 Score: 3389
Period size: 967 Copynumber: 2.7 Consensus size: 966
5087042 TAATAAACCA
* * * *
5087052 ATCAACATTTCCAATGAAAGGGTTTATAATGAGAAGAACTCATCCGATAAGGAAGAAGAAGTTCA
1 ATCAACATTTCCAGTG-AAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCA
* * * *
5087117 TAATGAGAAGAACTTGTTGAACCTTAGCTCGATTCATCGCATATGGAGTTGAAT-AGGTGACACC
65 TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCGCATATGGAGTTGAATCA-GCGACTCC
* * * *
5087181 TCACTTGAGGGATCAACATTTCCAATGTAGAGTTCATAATGATAAGAACTCGTACGATGAGGGAG
129 TCACTCGAGGGATCAACATTTCCAATGTAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAG
* *
5087246 AAGAAGTTCATAATGAGAAGAACCTGTTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAATC
194 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTAGATTCATCGCATATGGAGTTGAATC
* * *
5087311 AGTGACACCTCATTCTAGGGATCAACATTTCCAGTTGAGAGTTCATAATGAGAAAAACTCATTCG
259 AGTGACACCTCATTCAAGGGATCAACATTTCCAG-TAAGAGTTCATAATGAG-AAAACTCATCCG
5087376 ATGAGGGAGAA-AAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTG
322 ATGAGGGA-AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTG
* ** * *
5087440 AGTTGAATCAGTGACACCTCACTCGAGAAATCAACATTTCCTGTGGAGAGTTCATAATGAGAATA
386 AGTTGAATCAGCGACACCTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAAT-AGAAGA
* *
5087505 ACTCATCTGAT-AAGGAGGAGAAGTTT-ATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCA
450 ACTCAT-TGATGAGGGAGAAGAA-TTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCA
* * * *
5087568 TCGCATATTGAGTTGAATCAACGACACTTCACTCGAGGGATCAATATTTCCAGTGGAGAGTTCAT
513 TCGCATATGGAGTTGAATCAGCGACAC-TCACTTGAGGGATCAATATTTCTAGTGGAGAGTTCAT
* * * *
5087633 AAT--TAGAACTCATCCGATGAGGGAGAAGAATTTCATAATGATAATAACTTGTTCAACCTTAGC
577 AATAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTAGC
* ** * *
5087696 TCGATTCATTGCATATGGAGTTGAATCAGTGACAACTCACTCGAAGGATCAACATTTATAGTGGA
642 TAGATTCATCACATATGGAGTTAAATCAGCGACAACTCACTCGAAGGATCAACATTTATAGTGGA
*
5087761 GAATTCATAATGAGAAGAACTCATCTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
707 GAATTCATAATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
5087826 AACCTTATCTTGATTCATCGCATATGTAGTTGAACCAGCGATACCTCATTCGAGCGATCAACATT
772 AACCTTAGCTCGATTCATCGCATATGGAGTTGAACCAGCGACACCTCATTCGAGCGATCAACATT
* *
5087891 TTCAATGGAGAGTTCATAATGAGAATGACTCATCCGATGAGGGAGGAGAAGTTCATAATAAGAAG
837 TTCAATGGAGAGTTCATAATGAGAATGACTCATCCGATGAGAGAGAAGAAGTTCATAATAAGAAG
* * *
5087956 AACTTGTTCAACCATAGCTCGATTCATCGCATTTAGAGTTGAATCAACAACATCTCACTCGAGGG
902 AACTTGTTCAACCATAGCTCGATTCATCGCATATAGAGTTGAATCAACAACACCTCACTCAAGGG
* * * * *
5088021 ATCAACATTTCCAGTGTAGAGTTCATAATGAGAAGAACTCACCCGATGAGAGAGAATAAGTTCAT
1 ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
* *
5088086 AATGAGAAGAACTTGTTTAACCTTAGCTCGATTAATCGCATATGGACTTGAATCAGCGACTCCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCGCATATGGAGTTGAATCAGCGACTCCTC
*
5088151 ACTCGAGGGATCAACATTTCCATTG-AGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAA
131 ACTCGAGGGATCAACATTTCCAATGTAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAA
* * * *
5088215 GAAGTTCATAATGAGAAAAACTTGTTCAACCTTAGCTAGATTCATTGCATATGGAGGTAAATCAG
196 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTAGATTCATCGCATATGGAGTTGAATCAG
* * *
5088280 TGACACCTCATTCAAGGGATCAATATTTCCAATCAAGAGTTTATAATGAGAAAACTCATCCGATG
261 TGACACCTCATTCAAGGGATCAACATTTCCAGT-AAGAGTTCATAATGAGAAAACTCATCCGATG
* * *
5088345 AGGGATTAGAAGTTCATAATGAGAAGAACTTGTTCAGCCTTAGCTCGATTCATCACATATGGAGT
325 AGGGA-AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTGAGT
* * * * *
5088410 TGAATTAGCGACACTTCACTCGAGGGATCAACATTT-CAGTAGAGAGTTCATAAT-TAA-AACTT
389 TGAATCAGCGACACCTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATAGAAGAACTC
* **
5088472 ATTAGATGAGGGAGAAGAATTTCATAATGAGAAGAACTTGTTC-ACTCTTAGCTCAATTCATTAC
454 ATT-GATGAGGGAGAAGAATTTCATAATGAGAAGAACTTGTTCAAC-CTTAGCTCGATTCATCGC
* * *
5088536 ATATGGATTTAAATCAGCAACATCTCACTTGAGGGATCAATATTTCTAGTGGAGAGTTCATAATA
517 ATATGGAGTTGAATCAGCGACA-CTCACTTGAGGGATCAATATTTCTAGTGGAGAGTTCATAAT-
** * * *
5088601 AGAAGAACTCATTTGATGAGGGAAAAGAAGTTCATAATGGGAAGAACTTGTTCAACCTTAGCTAG
580 AGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTAGCTAG
* * * * * * *
5088666 ATTCATCACATATGGAGTTAAATTAGCGACACCTCATTTGAGGGATCAACATTTCTAGTGGAGAG
645 ATTCATCACATATGGAGTTAAATCAGCGACAACTCACTCGAAGGATCAACATTTATAGTGGAGAA
*
5088731 TTTATAATGAGAAGAACTCATCCGATGAGGGA-AGAGAAGTTCATAATGAGAAGAACTTGTTCAA
710 TTCATAATGAGAAGAACTCATCCGATGAGGGAGA-AGAAGTTCATAATGAGAAGAACTTGTTCAA
* * * * * *
5088795 TCTTAGCTCGATTCATTGTATTTGGAGTTGAATCAGTGACACCTCATTCGAG-GAATCAACA-TT
774 CCTTAGCTCGATTCATCGCATATGGAGTTGAACCAGCGACACCTCATTCGAGCG-ATCAACATTT
* * *
5088858 TCTAGTGGAGAGTTCATAATGAGAA-GAACTCATCCGATGAGAGATAAGAAGTTCATAATGAGAA
838 TC-AATGGAGAGTTCATAATGAGAATG-ACTCATCCGATGAGAGAGAAGAAGTTCATAATAAGAA
* * * *** * *
5088922 GAACTTGTTTAACCTTAGCTCGATTCATCGCATATGGAGTTGAATCAGTGACACCTTACTCAATG
901 GAACTTGTTCAACCATAGCTCGATTCATCGCATATAGAGTTGAATCAACAACACCTCACTCAAGG
5088987 G
966 G
* * * *
5088988 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAATAACTCATCTGATAAGGGAGGAGAAGTTCAT
1 ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
* * * * *
5089053 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCACATATGGAGGTAAATCAGC-AATATCT
66 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCGCATATGGAGTTGAATCAGCGACT-CCT
* * * * * *
5089117 CAATCGAGGGATCAATATTTCTAGTGTAGAGTTCCTAATGAGAAGAACTCATCCGATGAGGGAGG
130 CACTCGAGGGATCAACATTTCCAATGTAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGA
* *
5089182 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATATAGAGTTGAATCA
195 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTAGATTCATCGCATATGGAGTTGAATCA
* * * * * *
5089247 GTGACACTTCACTCGA-GGAGTCAACATTTCTAGTAGAGAGTTCATAATTAG--AACTTATCCGA
260 GTGACACCTCATTCAAGGGA-TCAACATTTCCAGTA-AGAGTTCATAATGAGAAAACTCATCCGA
* * * * ** * ** *
5089309 TGAGGCAGAAGAATTTCATAATGAAAAGAACTTGTTCAATCTTATATTGATTCATTGCATATTTA
323 TGAGGGA-AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTGA
* *
5089374 GTTGAATCAGGGACACCTCACTCGAGGGATCAATATTTCCAGTGGAGAGTTCATAATGAGAAGAA
387 GTTGAATCAGCGACACCTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAAT-AGAAGAA
* * * * * * * *
5089439 CTCATCGATGAGGGATAATAAGTTCATAATAAGAAAAACTTATTCAACCTTAGCTTGATTCATCG
451 CTCATTGATGAGGGAGAAGAATTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCG
* *
5089504 CATATGGAGTTGAATCAGTGACACCTCA-TTCGAGGGATCAACATTTCTAGTGGAGAGTTCATAA
516 CATATGGAGTTGAATCAGCGACA-CTCACTT-GAGGGATCAATATTTCTAGTGGAGAGTTCATAA
*
5089568 TCAGAAGAACTCATCCGATGAGGGAGGAGAAGTTCATAATGAGAAAAACTTGTT
579 T-AGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTT
5089622 ATGAACCCAA
Statistics
Matches: 1391, Mismatches: 185, Indels: 50
0.86 0.11 0.03
Matches are distributed among these distances:
962 1 0.00
963 14 0.01
964 101 0.07
965 1 0.00
966 141 0.10
967 703 0.51
968 256 0.18
969 166 0.12
970 8 0.01
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (966 bp):
ATCAACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCGATAAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTCGATTAATCGCATATGGAGTTGAATCAGCGACTCCTC
ACTCGAGGGATCAACATTTCCAATGTAGAGTTCATAATGAGAAGAACTCATCCGATGAGGGAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTAGATTCATCGCATATGGAGTTGAATCAG
TGACACCTCATTCAAGGGATCAACATTTCCAGTAAGAGTTCATAATGAGAAAACTCATCCGATGA
GGGAAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATTGAGTTG
AATCAGCGACACCTCACTCGAGGGATCAACATTTCCAGTGGAGAGTTCATAATAGAAGAACTCAT
TGATGAGGGAGAAGAATTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCGCATAT
GGAGTTGAATCAGCGACACTCACTTGAGGGATCAATATTTCTAGTGGAGAGTTCATAATAGAAGA
ACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAAAACTTGTTCAACCTTAGCTAGATTCAT
CACATATGGAGTTAAATCAGCGACAACTCACTCGAAGGATCAACATTTATAGTGGAGAATTCATA
ATGAGAAGAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGC
TCGATTCATCGCATATGGAGTTGAACCAGCGACACCTCATTCGAGCGATCAACATTTTCAATGGA
GAGTTCATAATGAGAATGACTCATCCGATGAGAGAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACCATAGCTCGATTCATCGCATATAGAGTTGAATCAACAACACCTCACTCAAGGG
Found at i:5094982 original size:17 final size:17
Alignment explanation
Indices: 5094962--5094994 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5094952 GAGGAGCATG
*
5094962 GATCTGGCTGGAGCCTA
1 GATCTGGCTGAAGCCTA
5094979 GATCTGGCTGAAGCCT
1 GATCTGGCTGAAGCCT
5094995 GGATGGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.24
Consensus pattern (17 bp):
GATCTGGCTGAAGCCTA
Found at i:5095198 original size:24 final size:23
Alignment explanation
Indices: 5095169--5095232 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
5095159 TTGTTTACTC
*
5095169 TAATTTAATATATAATATTATTAA
1 TAATTTAATATATAATAATA-TAA
*
5095193 TAATTTAATACATAATAATATAA
1 TAATTTAATATATAATAATATAA
*
5095216 TATTATTTTATATATAA
1 TA--ATTTAATATATAA
5095233 AAATCCCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.15
24 18 0.53
25 11 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTAATATATAATAATATAA
Found at i:5103061 original size:2 final size:2
Alignment explanation
Indices: 5103054--5103110 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
5103044 TAACACTTTC
5103054 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
5103096 AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT
5103111 TTGGTTCTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5108225 original size:2 final size:2
Alignment explanation
Indices: 5108218--5108951 Score: 343
Period size: 2 Copynumber: 409.5 Consensus size: 2
5108208 TCGAGTTCTT
* *
5108218 TA TA TA TA TA TA -A TA TA CA CTA TA T- TA TA TG T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
5108257 TT TA TA TA -A TA TA TA TA GTA TGA TA T- TG TA TA -A AA TA T- TA
1 TA TA TA TA TA TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA
* *
5108297 GTA T- TA TA TGG TA TA TGA TA TA GTA TA TGG TA TA TA TA TA GTA
1 -TA TA TA TA T-A TA TA T-A TA TA -TA TA T-A TA TA TA TA TA -TA
*
5108340 T- TA TA T- TA TA TA T- TG TA T- TA TA TA TA TA GTA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
*
5108378 TA T- TA TA TA T- TA TA T- TA TA TA TA GTA TA TA T- TA TA CA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
5108416 TA TA CA T- TA TA TA T- TA CA TA T- TA TA T- TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
5108455 T- TA TA T- TA TA T- TA T- TA T- TA GTA TA TA T- TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
5108490 TA TA TC TA TA TA CA TA T- TA TA TA TA TA T- TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5108530 TA T- TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5108570 TA T- TA TA TA TA TA TA TA TA TA TA TA -A TA TA T- TA TA TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
5108610 TA T- TA TA T- TA TA TA TA T- TA TA T- TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5108645 TA TA TA T- TA TA T- TA TA T- TA TA TA TA T- TA CA T- TA CA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * * *
5108681 TA CA T- TA CA T- TC T- TA CA T- TA CA T- TA CA T- TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5108717 T- TA CA T- TA CA TT TA TA T- TA T- TA T- TA TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
5108752 TA CA T- TA CA T- TA TA T- TA TA T- TA TA T- TA TT TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5108788 TA T- TA TA T- TA TA TA TA T- TA TA T- TA TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5108824 TA T- TA TA TT TA T- TA T- TA TA T- TA GA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
5108859 TA TA TA CA T- TA CA T- TA TA T- TA TA TA T- TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5108895 TA TA T- TA TA T- TA TA TA T- TA TA TA T- TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5108931 T- TA TA T- TA TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5108952 TACATTACAT
Statistics
Matches: 558, Mismatches: 61, Indels: 226
0.66 0.07 0.27
Matches are distributed among these distances:
1 99 0.18
2 434 0.78
3 25 0.04
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5108348 original size:5 final size:5
Alignment explanation
Indices: 5108338--5109441 Score: 875
Period size: 5 Copynumber: 217.2 Consensus size: 5
5108328 ATATATATAG
* *
5108338 TATTA TATTATA TATTG TATTA TATATA TAGTA TATTA TA-TA T-TATA
1 TATTA TA-T-TA TATTA TATTA TAT-TA TATTA TATTA TATTA TAT-TA
*
5108385 TATTA TATTA TA-TA TAGTATA TATTA TACATTA TACATTA TA-TA T-TACA
1 TATTA TATTA TATTA TA-T-TA TATTA T--ATTA T--ATTA TATTA TAT-TA
*
5108434 TATTA TATTA TAGTA TA-TA TATTA TATTA TATTA TTATTA GTATATA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TAT-TA
* *
5108481 TTATTA TATTA TATCTA TATACA TATTA TATATA TATTA TA-TA TACATA
1 -TATTA TATTA TAT-TA TAT-TA TATTA TAT-TA TATTA TATTA TA-TTA
*
5108530 TATTA TATATA TAATA TATATA TATATA TATATA TATATA TATTA TATATA
1 TATTA TAT-TA TATTA TAT-TA TAT-TA TAT-TA TAT-TA TATTA TAT-TA
*
5108581 TATATA TATATA TAATA TATTA TATCATA TATTA TATTA TA-TA TATTA
1 TAT-TA TAT-TA TATTA TATTA TAT--TA TATTA TATTA TATTA TATTA
*
5108629 TA-T- TATTA TATTA TATTATA TATTA TATTA TATTA TA-TA TATTA CATTA
1 TATTA TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * * * * * *
5108678 CATTA CATTA CA-T- TCTTA CATTA CATTA CATTA CA-TA CATTA CATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * *
5108725 CATTTA TATTA TTATTATA TATTA TATTA CATTA CATTA TATTA TATTA
1 TA-TTA TATTA -TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA
5108774 TATTA T-TTA TATTA TATTA TATTA TA-TA TATTA TATTATA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA
* * *
5108824 TATTA TATTTA TTATTA TATTA GATTA TATTA TATTA TA-TA CATTA CATTA
1 TATTA TA-TTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5108875 TATTATA TATTA TATTA TATTA TATTA TATTA TA-TA TTATATA TTATTA
1 TA-T-TA TATTA TATTA TATTA TATTA TATTA TATTA -TAT-TA -TATTA
* * *
5108924 TATTA TATTA TATTA TATTA TATTA TATTA CATTA CATTA CATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * *
5108974 TA-TA CTTCATTA TATTA TATTA CATTA -ATTA CATTA CATTA CATTA
1 TATTA --T-ATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * * * *
5109020 CATTA CT-TTA CATTA CA-T- TATTA CATTA CATTA CATTA CATTA CATTA
1 TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * * * * * * *
5109068 TACATA CATTA CATTA CT-TTA CATTA CATTA TATTA CATTA CATTA CATTA
1 TA-TTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * *
5109119 CATTA TATTA -CTTA CATTA TATTATA TATTA TATTA TATTA -ATTA T-TTA
1 TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TATTA TATTA TATTA
* * * * * * *
5109168 TA-TA TATTA T-TTA TATTA CAATA CATTA CATTA CATTA CATTA CATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5109216 CTACATTA TATTA TATTA TATTA -ATTA TATTA TATTA TA-TA TATTA
1 -T--ATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
*
5109262 TATTA TATTA TATTA TATTA -CTTA TATTA TA-TA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5109310 TATT- TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
5109358 T-TTA TA-T- TATTA TATTA TATTA TATTA TATTA TATTA TATTTA TATTATA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA-TTA TA-T-TA
5109408 TATTA TATTA TA-T- TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
5109442 TGTTTTTAAT
Statistics
Matches: 959, Mismatches: 54, Indels: 172
0.81 0.05 0.15
Matches are distributed among these distances:
3 7 0.01
4 103 0.11
5 662 0.69
6 116 0.12
7 63 0.07
8 8 0.01
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.53
Consensus pattern (5 bp):
TATTA
Found at i:5108386 original size:19 final size:18
Alignment explanation
Indices: 5108218--5109438 Score: 493
Period size: 19 Copynumber: 68.7 Consensus size: 18
5108208 TCGAGTTCTT
*
5108218 TATATA-TATATAATATA
1 TATATATTATATATTATA
* *
5108235 CACTATATTATATGTTATA
1 TA-TATATTATATATTATA
5108254 TAT-T-TTATATA--ATA
1 TATATATTATATATTATA
* *
5108268 TATATAGTATGATATTGTA
1 TATATATTAT-ATATTATA
* *
5108287 TAAAATATTA-GTATTATA
1 T-ATATATTATATATTATA
* * *
5108305 TGGTATATGATATAGTATA
1 T-ATATATTATATATTATA
*
5108324 TGGTATATATATAGTATTATA
1 T-ATATAT-TATA-TATTATA
*
5108345 TTATATATTGTATTATATATA
1 -TATATATTATA-TAT-TATA
5108366 TAGTATATTATATATTATA
1 TA-TATATTATATATTATA
*
5108385 TATTATATTATATA-TA-G
1 TA-TATATTATATATTATA
*
5108402 TATATATTATACATTATACA
1 TATATATTATATATTAT--A
*
5108422 TTATATATTACATATTATA
1 -TATATATTATATATTATA
5108441 T-TATAGTATATATATTATA
1 TATATA-T-TATATATTATA
*
5108460 T-TATATTAT-TATTA-G
1 TATATATTATATATTATA
5108475 TATATATTATTATATTATA
1 TATATATTA-TATATTATA
* *
5108494 TCTATA-TACATATTATA
1 TATATATTATATATTATA
*
5108511 TATATATTATATA-TACA
1 TATATATTATATATTATA
*
5108528 TATAT-TATATATATAATA
1 TATATAT-TATATATTATA
5108546 TATATATATATATATATATA
1 TATATAT-TATATAT-TATA
5108566 TATATATTATATATATATA
1 TATATATTATATAT-TATA
5108585 TATATATATAATATATTATA
1 TATATAT-T-ATATATTATA
5108605 TCATATATTATAT-TATATA
1 T-ATATATTATATAT-TATA
5108624 TATTATATTATTATATTATA
1 TA-TATATTA-TATATTATA
5108644 T-TATA-TATTATATTATA
1 TATATATTA-TATATTATA
* *
5108661 T-TATATATATTACATTACA
1 TATATAT-TA-TATATTATA
* * * *
5108680 T-TACATTACATTCTTACA
1 TATATATTATA-TATTATA
* * *
5108698 T-TACATTACAT-TACATA
1 TATATATTATATAT-TATA
* * *
5108715 CATTACATTACAT-TTATA
1 TA-TATATTATATATTATA
5108733 T-TATTATTATATATTATA
1 TATA-TATTATATATTATA
* *
5108751 T-TACA-T-TACATTATA
1 TATATATTATATATTATA
5108766 T-TATATTATATTATT-TA
1 TATATATTATA-TATTATA
5108783 TATTATATTATAT-TATATA
1 TA-TATATTATATAT-TATA
5108802 TATTATATTATATATTATA
1 TA-TATATTATATATTATA
5108821 T-TATATTATAT-TTAT-
1 TATATATTATATATTATA
*
5108836 TAT-TA-TATTAGATTATA
1 TATATATTA-TATATTATA
*
5108853 T-TATATTATATACATTACA
1 TATATATTATAT--ATTATA
5108872 T-TATATTATATATTATA
1 TATATATTATATATTATA
5108889 T-TATA-T-TATATTATA
1 TATATATTATATATTATA
5108904 TTATATATTATATATTAT-
1 -TATATATTATATATTATA
5108922 TATAT-TATATTATATTATA
1 TATATAT-TA-TATATTATA
*
5108941 T-TATA-T-TATATTACA
1 TATATATTATATATTATA
* *
5108956 T-TACA-T-TACATTATA
1 TATATATTATATATTATA
5108971 TTATATACTTCATTATATTATA
1 -TATATA-TT-A-TATATTATA
* * *
5108993 T-TACATTAATTACATTACA
1 TATATATT-A-TATATTATA
* *
5109012 T-TACATTACATTACTT-TA
1 TATATATTATA-TA-TTATA
* * * *
5109030 CATTACATTATTACATTACA
1 TA-TATATTA-TATATTATA
* * *
5109050 T-TACA-T-TACATTACA
1 TATATATTATATATTATA
* * *
5109065 T-TATA-CATACATTACA
1 TATATATTATATATTATA
* * *
5109081 T-TA-CTT-TACATTACA
1 TATATATTATATATTATA
* *
5109096 T-TATATTACATTACATTACA
1 TATATATT--A-TATATTATA
* *
5109116 T-TACATTATATTACTTACA
1 TATATATTATA-TA-TTATA
5109135 T-TATATTATATATTATA
1 TATATATTATATATTATA
5109152 T-TATATTA-ATTATT-TA
1 TATATATTATA-TATTATA
*
5109168 TATATATTATTTATATTACA
1 TATATATTA--TATATTATA
* * *
5109188 -ATACATTACATTACATTACA
1 TATATATT--A-TATATTATA
* *
5109208 T-TACATTACTACATTATA
1 TATATATTA-TATATTATA
5109226 T-TATA-T-TATATTA-A
1 TATATATTATATATTATA
5109240 T-TATA-T-TATA-T-TA
1 TATATATTATATATTATA
5109253 TATATA-T-TATATTATA
1 TATATATTATATATTATA
5109269 T-TATATTATATTACTTATA
1 TATATATTATA-TA-TTATA
5109288 T-TATATATATTATATTATA
1 TATATAT-TA-TATATTATA
5109307 T-TATATTTATTATATTATA
1 TATATA-TTA-TATATTATA
5109326 T-TATA-T-TATATTATA
1 TATATATTATATATTATA
5109341 T-TATATTATAT-TATATA
1 TATATATTATATAT-TATA
*
5109358 TTTATATTATTATATTATA
1 TATATATTA-TATATTATA
5109377 T-TATA-T-TATATTATA
1 TATATATTATATATTATA
5109392 T-TATATT-TATATTATA
1 TATATATTATATATTATA
5109408 TATTATATTATATTATTATA
1 TA-TATATTATA-TATTATA
5109428 T-TATATTATAT
1 TATATATTATAT
5109439 TATTGTTTTT
Statistics
Matches: 987, Mismatches: 95, Indels: 244
0.74 0.07 0.18
Matches are distributed among these distances:
13 3 0.00
14 28 0.03
15 112 0.11
16 86 0.09
17 159 0.16
18 146 0.15
19 284 0.29
20 104 0.11
21 56 0.06
22 9 0.01
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (18 bp):
TATATATTATATATTATA
Found at i:5108700 original size:23 final size:24
Alignment explanation
Indices: 5108650--5109223 Score: 187
Period size: 24 Copynumber: 23.6 Consensus size: 24
5108640 TATATTATAT
* * * *
5108650 ATTATATTATATTATATATATTAC
1 ATTACATTACATTACATACATTAC
*
5108674 ATTACATTACATTACATTC-TTAC
1 ATTACATTACATTACATACATTAC
5108697 ATTACATTACATTACATACATTAC
1 ATTACATTACATTACATACATTAC
* * * *
5108721 ATTACATTTATATTATTATTATATATTAT
1 ATTACA--T-TA-CATTA-CATACATTAC
* * *
5108750 ATTACATTACATTATATTATATTAT
1 ATTACATTACATTACA-TACATTAC
* * * * *
5108775 ATTA-TTTATATTATATTATATTAT
1 ATTACATTACATTACA-TACATTAC
* * * *
5108799 A-TATATTATATT--ATATATTAT
1 ATTACATTACATTACATACATTAC
* * * * *
5108820 ATTATATTATATTTATTATTATATTAG
1 ATTACATTACA-TTA-CA-TACATTAC
* * *
5108847 ATTATATTATATTATATACATTAC
1 ATTACATTACATTACATACATTAC
* * * * *
5108871 ATTATATTATA-TA-TTATATTAT
1 ATTACATTACATTACATACATTAC
* * * * *
5108893 ATTATATTATATTATATATTATATATT
1 ATTACATTACATTACATA-CAT-TA-C
* * * * *
5108920 ATTATATTATATTATATTATATTAT
1 ATTACATTACATTACA-TACATTAC
* *
5108945 ATTATATTACATTACATTACATTAT
1 ATTACATTACATTACA-TACATTAC
* * *
5108970 ATTATA-TAC-TT-CATTATATTAT
1 ATTACATTACATTACA-TACATTAC
5108992 ATTACATTA-ATTACATTACATTAC
1 ATTACATTACATTACA-TACATTAC
*
5109016 ATTACATTACTTTACATTACATT--
1 ATTACATTACATTACA-TACATTAC
5109039 ATTACATTACATTACATTACATTAC
1 ATTACATTACATTACA-TACATTAC
*
5109064 ATTATACA-TACATTACATTACTTTAC
1 A-T-TACATTACATTACA-TACATTAC
*
5109090 ATTACATTATATTACATTACATTAC
1 ATTACATTACATTACA-TACATTAC
* * *
5109115 ATTACATTATATTACTTACATTAT
1 ATTACATTACATTACATACATTAC
* * *
5109139 ATTATATATTATATTATATTA-ATTA-
1 A-T-TACATTACATTACA-TACATTAC
* * * ** *
5109164 TTTATA-TATATTATTTATATTAC
1 ATTACATTACATTACATACATTAC
*
5109187 AATACATTACATTACATTACATTAC
1 ATTACATTACATTACA-TACATTAC
5109212 ATTAC--TACATTA
1 ATTACATTACATTA
5109224 TATTATATTA
Statistics
Matches: 466, Mismatches: 48, Indels: 73
0.79 0.08 0.12
Matches are distributed among these distances:
21 11 0.02
22 54 0.12
23 72 0.15
24 111 0.24
25 107 0.23
26 45 0.10
27 47 0.10
28 6 0.01
29 13 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (24 bp):
ATTACATTACATTACATACATTAC
Found at i:5111161 original size:25 final size:26
Alignment explanation
Indices: 5111123--5111174 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5111113 TATTAACTTC
5111123 ATTTAAAAAAA-TTTAT-TTATATTTA
1 ATTTAAAAAAATTTTATCTTAT-TTTA
* *
5111148 ATTTAAACATATTTTATCTTATTTTA
1 ATTTAAAAAAATTTTATCTTATTTTA
5111174 A
1 A
5111175 CTATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 10 0.43
27 4 0.17
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTAAAAAAATTTTATCTTATTTTA
Found at i:5111234 original size:25 final size:24
Alignment explanation
Indices: 5111182--5111240 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
5111172 TAACTATTTA
* *
5111182 AAATAGATTTTATTTTAAGTTACT
1 AAATACATTTTATTTTAAATTACT
*
5111206 AAATACATTATTATTTTAAATTATT
1 AAATACATT-TTATTTTAAATTACT
*
5111231 AAATATATTT
1 AAATACATTT
5111241 ATTCTTATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (24 bp):
AAATACATTTTATTTTAAATTACT
Found at i:5111337 original size:31 final size:30
Alignment explanation
Indices: 5111302--5111379 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
5111292 ATCACTTCAT
* * *
5111302 ATTAATTAAAAACGAAAGTAATTATATCTTA
1 ATTAAATAAAAACGAAACT-AGTATATCTTA
*
5111333 ATTAAATAAAAACGAAACTGGTATATCTTA
1 ATTAAATAAAAACGAAACTAGTATATCTTA
5111363 ATTAAATAAAAACGAAA
1 ATTAAATAAAAACGAAA
5111380 TCATATATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 26 0.60
31 17 0.40
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (30 bp):
ATTAAATAAAAACGAAACTAGTATATCTTA
Found at i:5112006 original size:21 final size:22
Alignment explanation
Indices: 5111976--5112016 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5111966 TAACTGAAAA
*
5111976 AATATTAAAACTTAAAATACTT
1 AATATTAAAAATTAAAATACTT
*
5111998 AATA-TAAAAATTTAAATAC
1 AATATTAAAAATTAAAATAC
5112017 CTAGTTTGAC
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:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATTAAAAATTAAAATACTT
Found at i:5112398 original size:119 final size:115
Alignment explanation
Indices: 5112148--5112398 Score: 308
Period size: 116 Copynumber: 2.1 Consensus size: 115
5112138 CAAAGAAGAA
* *
5112148 GTGGATCAACATTTGCAATGAAGAAGTACATAATGAGAAGAACTTTTCACCTTAGCTCGATTCAC
1 GTGGATCAACATTTCCAATGAAGAAGTACATAATGAGAAGAACTTTTCA-CATAGCTCGATTCAC
* ** *
5112213 ATAAGGAGTTGGATCATCATTAACATTCACTTGATTCCATCACAAAAGGAG
65 ATAAGGAGTTGGATCAGCACCAACACTCACTTGATTCCATCACAAAAGGAG
* *
5112264 GTGGATCAACATTTCCAATGAAGAAGTTCATAATGAGAAGAACTTGTTCA-ATACGTTTCGATTC
1 GTGGATCAACATTTCCAATGAAGAAGTACATAATGAGAAGAACTT-TTCACATA-G-CTCGATT-
**
5112328 CACATAAGGAGTTGGATCAGCACCAACACT-ACGTTTGATTCCATCACGTAAGGAG
62 CACATAAGGAGTTGGATCAGCACCAACACTCAC--TTGATTCCATCACAAAAGGAG
* * *
5112383 TTGGGTCAACGTTTCC
1 GTGGATCAACATTTCC
5112399 GAGAAAAGAA
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
115 2 0.02
116 44 0.38
117 12 0.10
118 26 0.22
119 32 0.28
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (115 bp):
GTGGATCAACATTTCCAATGAAGAAGTACATAATGAGAAGAACTTTTCACATAGCTCGATTCACA
TAAGGAGTTGGATCAGCACCAACACTCACTTGATTCCATCACAAAAGGAG
Found at i:5114968 original size:5 final size:5
Alignment explanation
Indices: 5114837--5114960 Score: 218
Period size: 5 Copynumber: 25.4 Consensus size: 5
5114827 TTTTCTATGT
5114837 TAATA T-ATA TAATA TAATA TAATA TAATA TAATA TAAT- TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
5114885 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA GAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
5114935 TAATA T-ATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
5114961 TAATATAAAA
Statistics
Matches: 114, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
4 12 0.11
5 102 0.89
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:5121231 original size:45 final size:44
Alignment explanation
Indices: 5121176--5121339 Score: 144
Period size: 45 Copynumber: 3.8 Consensus size: 44
5121166 CGTTCGTGAA
*
5121176 CGTTCGATTATATGTTCATTTATGTTCGTTTATTTTCATTTATGTT
1 CGTTCGA-T-TATGTTCATTTATGTTCGTTCATTTTCATTTATGTT
* * * ** **
5121222 CGTTC-ATTATGTTCA---A-GTTCTTTCATTTACGTTCGTGAA
1 CGTTCGATTATGTTCATTTATGTTCGTTCATTTTCATTTATGTT
5121261 CGTTCGATATATGTTCATTTATGTTCGTTCATTTGTTCA-TTATGTT
1 CGTTCGAT-TATGTTCATTTATGTTCGTTCA-TT-TTCATTTATGTT
*
5121307 CGTTC-ATTTATGTTCATTTATGTACGTTCATTT
1 CGTTCGA-TTATGTTCATTTATGTTCGTTCATTT
5121340 ATGTTCGAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
39 20 0.22
40 3 0.03
41 8 0.09
43 9 0.10
44 4 0.04
45 31 0.33
46 16 0.17
47 2 0.02
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (44 bp):
CGTTCGATTATGTTCATTTATGTTCGTTCATTTTCATTTATGTT
Found at i:5121247 original size:85 final size:86
Alignment explanation
Indices: 5121152--5121322 Score: 294
Period size: 85 Copynumber: 2.0 Consensus size: 86
5121142 ATAAAGGGCT
*
5121152 AGTTCTTTCATTTACGTTCGTGAACGTTCGATTATATGTTCATTTATGTTCGTTTA-TT-TTCAT
1 AGTTCTTTCATTTACGTTCGTGAACGTTCGA-TATATGTTCATTTATGTTCGTTCATTTGTTCA-
5121215 TTATGTTCGTTCA-TTATGTTCA
64 TTATGTTCGTTCATTTATGTTCA
5121237 AGTTCTTTCATTTACGTTCGTGAACGTTCGATATATGTTCATTTATGTTCGTTCATTTGTTCATT
1 AGTTCTTTCATTTACGTTCGTGAACGTTCGATATATGTTCATTTATGTTCGTTCATTTGTTCATT
5121302 ATGTTCGTTCATTTATGTTCA
66 ATGTTCGTTCATTTATGTTCA
5121323 TTTATGTACG
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
84 23 0.28
85 46 0.56
86 13 0.16
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (86 bp):
AGTTCTTTCATTTACGTTCGTGAACGTTCGATATATGTTCATTTATGTTCGTTCATTTGTTCATT
ATGTTCGTTCATTTATGTTCA
Found at i:5121292 original size:14 final size:14
Alignment explanation
Indices: 5121273--5121346 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 14
5121263 TTCGATATAT
5121273 GTTCATTTATGTTC
1 GTTCATTTATGTTC
5121287 GTTC----AT-TT-
1 GTTCATTTATGTTC
5121295 GTTCA-TTATGTTC
1 GTTCATTTATGTTC
5121308 GTTCATTTA---T-
1 GTTCATTTATGTTC
*
5121318 GTTCATTTATGTAC
1 GTTCATTTATGTTC
5121332 GTTCATTTATGTTC
1 GTTCATTTATGTTC
5121346 G
1 G
5121347 AACAAAGGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 20
0.69 0.03 0.29
Matches are distributed among these distances:
8 4 0.08
9 2 0.04
10 11 0.23
11 3 0.06
12 2 0.04
13 5 0.10
14 21 0.44
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:5121345 original size:10 final size:10
Alignment explanation
Indices: 5121186--5121329 Score: 65
Period size: 10 Copynumber: 13.5 Consensus size: 10
5121176 CGTTCGATTA
5121186 TATGTTCATT
1 TATGTTCATT
*
5121196 TATGTTCGTT
1 TATGTTCATT
*
5121206 TATTTTCATT
1 TATGTTCATT
*
5121216 TATGTTCGTTCAT
1 TATGTTC-AT--T
*
5121229 TATGTTCAAGT
1 TATGTTC-ATT
*
5121240 TCT-TTCATT
1 TATGTTCATT
* * *
5121249 TACGTTCGTG
1 TATGTTCATT
* * *
5121259 AACGTTCGATA
1 TATGTTC-ATT
5121270 TATGTTCATT
1 TATGTTCATT
*
5121280 TATGTTCGTT
1 TATGTTCATT
*
5121290 CATTTGTTCATT
1 --TATGTTCATT
*
5121302 ATGTTCGTTCATT
1 -T-AT-GTTCATT
5121315 TATGTTCATT
1 TATGTTCATT
5121325 TATGT
1 TATGT
5121330 ACGTTCATTT
Statistics
Matches: 101, Mismatches: 24, Indels: 18
0.71 0.17 0.13
Matches are distributed among these distances:
9 3 0.03
10 59 0.58
11 13 0.13
12 11 0.11
13 15 0.15
ACGTcount: A:0.18, C:0.13, G:0.14, T:0.55
Consensus pattern (10 bp):
TATGTTCATT
Found at i:5122439 original size:26 final size:25
Alignment explanation
Indices: 5122398--5122447 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
5122388 TTTTAATAAT
*
5122398 AAAAATATTATTTTTAATTAAAAAAG
1 AAAAATATTATTTTT-ATAAAAAAAG
5122424 AAAAATATT-TTATTTATAAAAAAA
1 AAAAATATTATT-TTTATAAAAAAA
5122448 ACCCAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AAAAATATTATTTTTATAAAAAAAG
Found at i:5125412 original size:15 final size:15
Alignment explanation
Indices: 5125403--5125435 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5125393 TAAATTAATT
5125403 AAATTAAAATTAAAA
1 AAATTAAAATTAAAA
5125418 AAATTAAAATTAAAA
1 AAATTAAAATTAAAA
5125433 AAA
1 AAA
5125436 ACCCTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATTAAAATTAAAA
Found at i:5126609 original size:21 final size:19
Alignment explanation
Indices: 5126560--5126614 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
5126550 ATTTTTGGCT
5126560 CAAAGGATTGATCCCTTAA
1 CAAAGGATTGATCCCTTAA
* * *
5126579 AAAAGTATTGATCCCTTCGAC
1 CAAAGGATTGATCCCTT--AA
5126600 CAAAGGATTGATCCC
1 CAAAGGATTGATCCC
5126615 CTCGTAGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
21 14 0.48
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (19 bp):
CAAAGGATTGATCCCTTAA
Found at i:5128285 original size:103 final size:103
Alignment explanation
Indices: 5128102--5128311 Score: 264
Period size: 103 Copynumber: 2.0 Consensus size: 103
5128092 AACAAAAGAA
* * *
5128102 AAAAAATCATTTCTAAAAATAATTCATCTAATTCAATAATGGTAAAATGTTTACATCATCATTAT
1 AAAAAATCATTTCTAAAAATAATTCATCTAATTCAATAATGGAAAAATGCTCACATCATCATTAT
* *
5128167 CATGGTCATAGTCTACATTCTTGTCCTATCT-AAAATAG
66 CATGGTCATAGTCTACATACTTGTCATAT-TAAAAATAG
* * * * **
5128205 TAAAAAATCATTTGTAAAAATAATGT-ATTTAGTTTAATAAT-GAAAAATGCTCACATTGTCATT
1 -AAAAAATCATTTCTAAAAATAAT-TCATCTAATTCAATAATGGAAAAATGCTCACATCATCATT
*
5128268 ATCATGGTCATATTCTACATACTTGTCATATTAAAAATAG
64 ATCATGGTCATAGTCTACATACTTGTCATATTAAAAATAG
5128308 AAAA
1 AAAA
5128312 CTTTTTTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
102 5 0.05
103 52 0.57
104 34 0.37
105 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.37
Consensus pattern (103 bp):
AAAAAATCATTTCTAAAAATAATTCATCTAATTCAATAATGGAAAAATGCTCACATCATCATTAT
CATGGTCATAGTCTACATACTTGTCATATTAAAAATAG
Found at i:5131353 original size:16 final size:15
Alignment explanation
Indices: 5131332--5131364 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
5131322 TGCTTATTCT
5131332 TTTTCAAATCAAACAA
1 TTTTCAAATCAAA-AA
5131348 TTTTCAAATCAAAAA
1 TTTTCAAATCAAAAA
5131363 TT
1 TT
5131365 GACTTTGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTTCAAATCAAAAA
Found at i:5135636 original size:23 final size:22
Alignment explanation
Indices: 5135610--5135669 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
5135600 AAAGAGGGTT
5135610 GAATGTAGAAAAAAAAGC-AGTTC
1 GAATG-AGAAAAAAAAGCTA-TTC
**
5135633 GAATGA-AAAAAAGGGCTATTC
1 GAATGAGAAAAAAAAGCTATTC
*
5135654 GAAAGAGAAAAAAAAG
1 GAATGAGAAAAAAAAG
5135670 AAAAAAAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
21 16 0.53
22 9 0.30
23 5 0.17
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.13
Consensus pattern (22 bp):
GAATGAGAAAAAAAAGCTATTC
Found at i:5137365 original size:18 final size:19
Alignment explanation
Indices: 5137335--5137377 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
5137325 TATTATCTTA
*
5137335 TTTT-TTTACTTTAATTGC
1 TTTTATTTACTTTAATCGC
*
5137353 TTTTATTTA-TTTAATCGT
1 TTTTATTTACTTTAATCGC
5137371 TTTTATT
1 TTTTATT
5137378 ACTACTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTATTTACTTTAATCGC
Found at i:5137881 original size:32 final size:32
Alignment explanation
Indices: 5137747--5137875 Score: 134
Period size: 32 Copynumber: 4.0 Consensus size: 32
5137737 ATACTGGTTA
* *
5137747 TACTGTGCATTATCTGAATGTC-ATGCTAACTC
1 TACTGTGCATTATCTGAATG-CAATACTGACTC
* * * *
5137779 TGCTATGCATTATCTGGATGCAATACTGATTC
1 TACTGTGCATTATCTGAATGCAATACTGACTC
* * * *
5137811 TACTATGCATTATCTGAATGTAATAATGATTC
1 TACTGTGCATTATCTGAATGCAATACTGACTC
* *
5137843 TATTGTGCATTATCTGAATGCAATATTGACTC
1 TACTGTGCATTATCTGAATGCAATACTGACTC
5137875 T
1 T
5137876 GTTGTGACTC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 1 0.01
32 80 0.99
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (32 bp):
TACTGTGCATTATCTGAATGCAATACTGACTC
Found at i:5142277 original size:20 final size:20
Alignment explanation
Indices: 5142241--5142278 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5142231 ATCTTATTCC
**
5142241 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTACATTCCCA
5142261 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
5142279 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:5144411 original size:33 final size:33
Alignment explanation
Indices: 5144374--5144445 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
5144364 CGATAGATAA
5144374 AATTCAGGTCGGATGTTTACC-AGATACGGATTG
1 AATTCAGGTCGGATGTTTACCGA-ATACGGATTG
* *
5144407 AATTCAGGTTGGATGTTTACCGAATATGGATTG
1 AATTCAGGTCGGATGTTTACCGAATACGGATTG
*
5144440 AGTTCA
1 AATTCA
5144446 AATCGAGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (33 bp):
AATTCAGGTCGGATGTTTACCGAATACGGATTG
Found at i:5144956 original size:7 final size:7
Alignment explanation
Indices: 5144946--5145056 Score: 53
Period size: 7 Copynumber: 16.7 Consensus size: 7
5144936 TTAAAAAAAT
5144946 TATAATA
1 TATAATA
5144953 TAT-ATA
1 TATAATA
5144959 TAT-ATA
1 TATAATA
5144965 TTATAATA
1 -TATAATA
5144973 TATAA-A
1 TATAATA
* *
5144979 GACAAATA
1 TA-TAATA
5144987 TATAATA
1 TATAATA
5144994 TAT-ATA
1 TATAATA
*
5145000 GT-TTATA
1 -TATAATA
* *
5145007 TGTAATT
1 TATAATA
5145014 TATTAATA
1 TA-TAATA
*
5145022 -A-ACTA
1 TATAATA
*
5145027 TGTAAT-
1 TATAATA
5145033 T-T-ATA
1 TATAATA
5145038 TATAATA
1 TATAATA
5145045 TATAATA
1 TATAATA
5145052 TATAA
1 TATAA
5145057 GATTTATGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 26
0.68 0.09 0.22
Matches are distributed among these distances:
4 2 0.03
5 5 0.06
6 18 0.22
7 46 0.57
8 9 0.11
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:5145215 original size:19 final size:19
Alignment explanation
Indices: 5145193--5145247 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
5145183 ATATATAAAG
5145193 TATTAAAGTATATAA-TTTA
1 TATTAAA-TATATAAGTTTA
5145212 TATTAATATAATATAAGTTTA
1 TATTAA-AT-ATATAAGTTTA
5145233 TATATAAACTATATA
1 TAT-TAAA-TATATA
5145248 TATAACTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.23
20 7 0.23
21 13 0.42
22 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (19 bp):
TATTAAATATATAAGTTTA
Found at i:5145296 original size:29 final size:28
Alignment explanation
Indices: 5145231--5145296 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
5145221 AATATAAGTT
**
5145231 TATATATAAACTATATATATAACTAATT
1 TATATATAAACTATATATATAACTAAGC
*
5145259 TATATTATAAACTATATAATTATTA-TAAGC
1 TATA-TATAAACTATAT-A-TATAACTAAGC
5145289 TATATATA
1 TATATATA
5145297 TAAATTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 8 0.25
31 4 0.12
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (28 bp):
TATATATAAACTATATATATAACTAAGC
Found at i:5145303 original size:20 final size:18
Alignment explanation
Indices: 5145262--5145304 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
5145252 ACTAATTTAT
*
5145262 ATTATAAACTATATAATT
1 ATTATAAACTATATAATA
*
5145280 ATTATAAGCTATATATATAA
1 ATTATAAACTATATA-AT-A
5145300 ATTAT
1 ATTAT
5145305 GTTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 2 0.10
20 5 0.24
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTATAAACTATATAATA
Found at i:5145440 original size:2 final size:2
Alignment explanation
Indices: 5145435--5145503 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
5145425 TTAGATAGTT
*
5145435 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5145476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5145504 ATTTATAGAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5146192 original size:19 final size:20
Alignment explanation
Indices: 5146154--5146195 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5146144 ACATAATGCT
5146154 CAGGGGGTATCGATTCCCCC
1 CAGGGGGTATCGATTCCCCC
5146174 CAGGGGGTATCGATTCCCCC
1 CAGGGGGTATCGATTCCCCC
5146194 CA
1 CA
5146196 TTGTTCAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (20 bp):
CAGGGGGTATCGATTCCCCC
Found at i:5146893 original size:7 final size:7
Alignment explanation
Indices: 5146885--5146926 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
5146875 CTCAACAAAT
*
5146885 CCTAAAT
1 CCTAAAC
*
5146892 CCTAAGC
1 CCTAAAC
5146899 CCTAAAC
1 CCTAAAC
*
5146906 CTTAAAC
1 CCTAAAC
5146913 CCTAAAC
1 CCTAAAC
5146920 CCTAAAC
1 CCTAAAC
5146927 GATATATGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.40, C:0.38, G:0.02, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:5146980 original size:20 final size:20
Alignment explanation
Indices: 5146957--5146995 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
5146947 TGATAATTCA
5146957 TATATATTTTATATAAACAT
1 TATATATTTTATATAAACAT
5146977 TATATATTTTATATAAACA
1 TATATATTTTATATAAACA
5146996 ATAGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TATATATTTTATATAAACAT
Found at i:5147139 original size:20 final size:18
Alignment explanation
Indices: 5147111--5147243 Score: 78
Period size: 17 Copynumber: 7.0 Consensus size: 18
5147101 TATAGTACAT
*
5147111 GTATGTATAAACTATGAATA
1 GTATATATAAACTAT--ATA
5147131 GTATATATAAACTATATA
1 GTATATATAAACTATATA
5147149 -TATATATAATA-TATATA
1 GTATATATAA-ACTATATA
*
5147166 -TATATATATA-TATATA
1 GTATATATAAACTATATA
*
5147182 ATATATTTATATAACTTAGTATA
1 GTATA--TATA-AAC-TA-TATA
* *
5147205 TTTATATATACATCTATTTATA
1 -GTATATATA-AACTA--TATA
5147227 GT-TATATAAACTATATA
1 GTATATATAAACTATATA
5147244 TGTAAACTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 23
0.75 0.07 0.18
Matches are distributed among these distances:
16 7 0.07
17 31 0.33
18 4 0.04
19 8 0.09
20 21 0.22
21 3 0.03
22 12 0.13
23 4 0.04
24 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (18 bp):
GTATATATAAACTATATA
Found at i:5147150 original size:13 final size:13
Alignment explanation
Indices: 5147132--5147254 Score: 56
Period size: 13 Copynumber: 9.2 Consensus size: 13
5147122 CTATGAATAG
5147132 TATATATAAACTA
1 TATATATAAACTA
*
5147145 TATATATATATAATA
1 TATATATA-A-ACTA
*
5147160 TATATATATA-TA
1 TATATATAAACTA
5147172 TATATATATAA-TA
1 TATATATA-AACTA
*
5147185 TATTTATATAACT-
1 TATATATA-AACTA
**
5147198 TAGTATATTTA-TA
1 TA-TATATAAACTA
* * **
5147211 TATACATCTATTTA
1 TATATAT-AAACTA
5147225 TAGTTATATAAACTA
1 TA--TATATAAACTA
*
5147240 TATATGTAAACTA
1 TATATATAAACTA
5147253 TA
1 TA
5147255 GTTTATAACA
Statistics
Matches: 85, Mismatches: 15, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
12 15 0.18
13 40 0.47
14 10 0.12
15 16 0.19
16 4 0.05
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:5147205 original size:25 final size:25
Alignment explanation
Indices: 5147132--5147194 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
5147122 CTATGAATAG
*
5147132 TATATATAAACTATATATATATATAA
1 TATATATATA-TATATATATATATAA
5147158 TATATATATATATATATATATATAA
1 TATATATATATATATATATATATAA
*
5147183 TATATTTATATA
1 TATATATATATA
5147195 ACTTAGTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 26 0.74
26 9 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATATATATATATATATATATAA
Found at i:5147214 original size:2 final size:2
Alignment explanation
Indices: 5147132--5147194 Score: 85
Period size: 2 Copynumber: 32.0 Consensus size: 2
5147122 CTATGAATAG
*
5147132 TA TA TA TA AA CTA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
5147174 TA TA TA TA -A TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
5147195 ACTTAGTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 51 0.94
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5147330 original size:21 final size:21
Alignment explanation
Indices: 5147284--5147330 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
5147274 ATTACTGCAC
* *
5147284 TATATAGTTTATAACCTATTG
1 TATATAATTTATAACATATTG
*
5147305 AATATAATTTATAACATAGTT-
1 TATATAATTTATAACATA-TTG
5147326 TATAT
1 TATAT
5147331 TACACTATAG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (21 bp):
TATATAATTTATAACATATTG
Found at i:5147451 original size:37 final size:35
Alignment explanation
Indices: 5147363--5147455 Score: 105
Period size: 37 Copynumber: 2.6 Consensus size: 35
5147353 TTAATATCTT
* * *
5147363 AACTATAATTATATTAATATAGTATATAGTTTATA
1 AACTATATTTATATTAATATAGCAGATAGTTTATA
* * *
5147398 AATTATAATTTGTATTAATGTAGCAGATAGTTTTATA
1 AACTAT-ATTTATATTAATATAGCAGATAG-TTTATA
5147435 AACTATAGTTTATATTAATAT
1 AACTATA-TTTATATTAATAT
5147456 TAACATATTA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 5 0.11
36 19 0.41
37 22 0.48
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (35 bp):
AACTATATTTATATTAATATAGCAGATAGTTTATA
Found at i:5148317 original size:118 final size:118
Alignment explanation
Indices: 5148109--5148345 Score: 456
Period size: 118 Copynumber: 2.0 Consensus size: 118
5148099 GCGTTTTCGA
*
5148109 GATTTTCTTTCGTAGATCTAGCCTCCGAGGCTTATTTTTTTTAAAAACTGTTTTGATTTTTGAAA
1 GATTTTCTTTCGTAGATCTAGCCTCCGAGGCTTATTTTTTTAAAAAACTGTTTTGATTTTTGAAA
5148174 ATAGGGGTAAAAAAGCTTTCGAACATTTTTAAAAAAATTGTCGCCGATGAACG
66 ATAGGGGTAAAAAAGCTTTCGAACATTTTTAAAAAAATTGTCGCCGATGAACG
*
5148227 GATTTTCTTTCGTAGATCTAGCCTCCGAGGCTTGTTTTTTTAAAAAACTGTTTTGATTTTTGAAA
1 GATTTTCTTTCGTAGATCTAGCCTCCGAGGCTTATTTTTTTAAAAAACTGTTTTGATTTTTGAAA
5148292 ATAGGGGTAAAAAAGCTTTCGAACATTTTTAAAAAAATTGTCGCCGATGAACG
66 ATAGGGGTAAAAAAGCTTTCGAACATTTTTAAAAAAATTGTCGCCGATGAACG
5148345 G
1 G
5148346 CGGCCGGCGA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (118 bp):
GATTTTCTTTCGTAGATCTAGCCTCCGAGGCTTATTTTTTTAAAAAACTGTTTTGATTTTTGAAA
ATAGGGGTAAAAAAGCTTTCGAACATTTTTAAAAAAATTGTCGCCGATGAACG
Found at i:5148995 original size:19 final size:19
Alignment explanation
Indices: 5148955--5148996 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
5148945 TATATTTTTA
**
5148955 TTTTTTTCATTATTTTTTT
1 TTTTTTTCATTATTTTCAT
5148974 TTTTTTTCATT-TCTTTCAT
1 TTTTTTTCATTAT-TTTCAT
5148993 TTTT
1 TTTT
5148997 ATTTATGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTCATTATTTTCAT
Found at i:5152321 original size:98 final size:99
Alignment explanation
Indices: 5152175--5152382 Score: 269
Period size: 99 Copynumber: 2.1 Consensus size: 99
5152165 CGTATACCCA
* * * *
5152175 GATTATTATATATACACAATAAAGCTCGAACTGTCCCTCTAGAGCAATTGGATAAA-AACTCGGC
1 GATTATAATATATACACAAGAAAGCTCGAACTGTCCCTCTAGAGCAATTGGATAAACAACCCAGC
5152239 TTTATGGATAAGATTCAGCTAGA-CTGATAAAGGT
66 TTTATGGATAAGATTCAGCTA-ACCTGATAAAGGT
* * ** * **
5152273 GATTATAATATATATACAAGAAAGCTTGAGTTGTCCCTCTACGA-CAATTGGTTAAACGCCCCAG
1 GATTATAATATATACACAAGAAAGCTCGAACTGTCCCTCTA-GAGCAATTGGATAAACAACCCAG
5152337 CTTTATGGATAAGATTCAGCTAACCTGATAAAGGT
65 CTTTATGGATAAGATTCAGCTAACCTGATAAAGGT
*
5152372 GTTTATAATAT
1 GATTATAATAT
5152383 TAAGCTGTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 47 0.49
99 48 0.51
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (99 bp):
GATTATAATATATACACAAGAAAGCTCGAACTGTCCCTCTAGAGCAATTGGATAAACAACCCAGC
TTTATGGATAAGATTCAGCTAACCTGATAAAGGT
Found at i:5153403 original size:64 final size:62
Alignment explanation
Indices: 5153323--5153546 Score: 291
Period size: 64 Copynumber: 3.6 Consensus size: 62
5153313 TGCAGCTTTT
*
5153323 AGAGTCAATTGCAACTTCACAGCGAAAGATATTGGACTCAACAAATAAATTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCAAC-AA-AAATTTCCAGTTTCATTC
5153387 AGAGTCAATTTCAACTTCACA--GATAAGTATATTGGACTCAAC-----TTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGA-AAG-ATATTGGACTCAACAAAAATTTCCAGTTTCATTC
* * *
5153444 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTTATTC
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCAACAAA-AA-TTTCCAGTTTCATTC
* *
5153508 AGAGTCAATTTCAACTTTACAGCGAATGATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTC
5153547 GAAACAATGC
Statistics
Matches: 143, Mismatches: 6, Indels: 22
0.84 0.04 0.13
Matches are distributed among these distances:
57 50 0.35
58 2 0.01
59 2 0.01
62 2 0.01
63 3 0.02
64 84 0.59
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (62 bp):
AGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCAACAAAAATTTCCAGTTTCATTC
Found at i:5153540 original size:121 final size:121
Alignment explanation
Indices: 5153323--5153546 Score: 351
Period size: 121 Copynumber: 1.9 Consensus size: 121
5153313 TGCAGCTTTT
* *
5153323 AGAGTCAATTGCAACTTCACAGCGAAAGATATTGGACTCAACAAATAAATTTCCAGTTTCATTCA
1 AGAGTCAATTGCAACTTCACAACGAAAGATATTGGACTCAACAAACAAATTTCCAGTTTCATTCA
*
5153388 GAGTCAATTTCAACTTCACAGATAAGTATATTGGACTCAACTTTCCAGTTTCATTC
66 GAGTCAATTTCAACTTCACAGAGAAGTATATTGGACTCAACTTTCCAGTTTCATTC
* * * *
5153444 AGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCAACAAACAACTTTCCAGTTTTATTCA
1 AGAGTCAATTGCAACTTCACAACGAAAGATATTGGACTCAACAAACAAATTTCCAGTTTCATTCA
* *
5153509 GAGTCAATTTCAACTTTACAGCGAA-TGATATTGGACTC
66 GAGTCAATTTCAACTTCACAGAGAAGT-ATATTGGACTC
5153547 GAAACAATGC
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
120 1 0.01
121 92 0.99
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (121 bp):
AGAGTCAATTGCAACTTCACAACGAAAGATATTGGACTCAACAAACAAATTTCCAGTTTCATTCA
GAGTCAATTTCAACTTCACAGAGAAGTATATTGGACTCAACTTTCCAGTTTCATTC
Found at i:5153795 original size:124 final size:124
Alignment explanation
Indices: 5153630--5154221 Score: 884
Period size: 124 Copynumber: 4.8 Consensus size: 124
5153620 GAAACAACCC
** * *
5153630 TTGGATTTCAACTTCACAACGAATTATATCCAATTCAAAGCTCAATTTCACAATGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * * *
5153695 CCATGATTTCAACTTCACGACAAAGGATATCATGCCCACAAGCAGTACCCATCTCTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGCAGCATCCATCTCTAGA
* * * *
5153754 TTGGATTTCAACTTCCCAATGAAGGATATCCAATTAAAAGCTCAACTTCACAATGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * *
5153819 CCACGATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCAGCATCTATCTCTATA
66 CCACGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGCAGCATCCATCTCTAGA
* * *
5153878 TTGGATTTCAACTTCACAACGAAGAATATCCAATTCAAATCTCAACTTCACAACGAATGAGCTAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * *
5153943 CCATGATTTCAACTTCACGACGAAGGATATTATGCCCACAAGAAGCATCCATCTCTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGCAGCATCCATCTCTAGA
*
5154002 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTTACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* * * *
5154067 CCACGATTTTAACTTCATGAAGAAGGATATCATGCCCACAAGCAACATCCATCTCCT---
66 CCACGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGCAGCATCCATCT-CTAGA
* *
5154124 TTGGATTTTAACTTCATAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
1 TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
* *
5154189 CCACAATTTCAACTTCACGATGAAGGATATCAT
66 CCACGATTTCAACTTCACGACGAAGGATATCAT
5154222 ATCCAATAGA
Statistics
Matches: 423, Mismatches: 44, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
122 91 0.22
124 330 0.78
125 2 0.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (124 bp):
TTGGATTTCAACTTCACAACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCATGCCCACAAGCAGCATCCATCTCTAGA
Found at i:5154458 original size:85 final size:85
Alignment explanation
Indices: 5154303--5154461 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
5154293 TGCAGCATAA
* * *
5154303 CTCAAGGCGAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACATTTAGCTCAAAGGC
1 CTCAAGGCGAGAAGGGTTATATGTCAACAAAGACATTCGAGTTCGATTACATTCAGCTCAAAGAC
5154368 ATATCAAATTTACAGTATAG
66 ATATCAAATTTACAGTATAG
* * * * * *
5154388 CTCACGGCGAGAAGGGTTATCTGTCAACTAAA-ATATTCGAGTTCGATTCCATTCAGCTCGATGA
1 CTCAAGGCGAGAAGGGTTATATGTCAAC-AAAGACATTCGAGTTCGATTACATTCAGCTCAAAGA
*
5154452 CGTATCAAAT
65 CATATCAAAT
5154462 ACATTTCGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 60 0.95
86 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (85 bp):
CTCAAGGCGAGAAGGGTTATATGTCAACAAAGACATTCGAGTTCGATTACATTCAGCTCAAAGAC
ATATCAAATTTACAGTATAG
Found at i:5156687 original size:9 final size:9
Alignment explanation
Indices: 5156596--5156687 Score: 66
Period size: 9 Copynumber: 10.1 Consensus size: 9
5156586 TGTTACCATG
5156596 TTATTTATT
1 TTATTTATT
*
5156605 TTGTTTATTT
1 TTATTTA-TT
5156615 TTATTT-TT
1 TTATTTATT
* *
5156623 ATCTTTATT
1 TTATTTATT
5156632 TTATTTATT
1 TTATTTATT
5156641 TTA-TTACTT
1 TTATTTA-TT
*
5156650 TT-TTACCATT
1 TTATT--TATT
*
5156660 ATATTATATT
1 TTATT-TATT
5156670 TTA-TTATT
1 TTATTTATT
5156678 TTATTTATT
1 TTATTTATT
5156687 T
1 T
5156688 GGCCATTTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
8 16 0.25
9 30 0.47
10 15 0.23
11 3 0.05
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (9 bp):
TTATTTATT
Found at i:5157412 original size:33 final size:34
Alignment explanation
Indices: 5157375--5157445 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
5157365 CCTTTACAAC
* *
5157375 TCCCTAG-TTTTTCACGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAAACTT
* * *
5157408 TCCCTAGCTTTTACATGGGCTAAGCTAGAAACTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAAACTT
5157442 TCCC
1 TCCC
5157446 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAAACTT
Found at i:5157673 original size:20 final size:20
Alignment explanation
Indices: 5157648--5157705 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
5157638 TCGTATATAA
5157648 CCGTTGGGGATGTTTTGGAG
1 CCGTTGGGGATGTTTTGGAG
* *
5157668 CCGTTGGAGATGTTTAGGAG
1 CCGTTGGGGATGTTTTGGAG
5157688 CCGTTTGGGGATGATTTT
1 CCG-TTGGGGATG-TTTT
5157706 TCTACTCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 21 0.66
21 8 0.25
22 3 0.09
ACGTcount: A:0.14, C:0.10, G:0.40, T:0.36
Consensus pattern (20 bp):
CCGTTGGGGATGTTTTGGAG
Found at i:5157872 original size:34 final size:35
Alignment explanation
Indices: 5157828--5157928 Score: 100
Period size: 34 Copynumber: 2.9 Consensus size: 35
5157818 CACAACAGGG
* *
5157828 TGCATCGATGCACTAATTG-TAGATGCACTGCAGA
1 TGCATGGATGCACTAAGTGCTAGATGCACTGCAGA
* *
5157862 TGCATGGATGCAC--AGTGCTTGGATGCACTGCAGG
1 TGCATGGATGCACTAAGTGC-TAGATGCACTGCAGA
*
5157896 TGCATGGATGCACTACAGGTGCATGGATGCACT
1 TGCATGGATGCACTA-A-GTGC-TAGATGCACT
5157929 TTGACACCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.05
34 38 0.68
37 1 0.02
38 14 0.25
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (35 bp):
TGCATGGATGCACTAAGTGCTAGATGCACTGCAGA
Found at i:5157873 original size:19 final size:19
Alignment explanation
Indices: 5157849--5157928 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
5157839 ACTAATTGTA
*
5157849 GATGCACTGCAGATGCATG
1 GATGCACTGCAGGTGCATG
*
5157868 GATGCA---CA-GTGCTTG
1 GATGCACTGCAGGTGCATG
5157883 GATGCACTGCAGGTGCATG
1 GATGCACTGCAGGTGCATG
*
5157902 GATGCACTACAGGTGCATG
1 GATGCACTGCAGGTGCATG
5157921 GATGCACT
1 GATGCACT
5157929 TTGACACCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.21
16 2 0.04
18 2 0.04
19 38 0.72
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (19 bp):
GATGCACTGCAGGTGCATG
Found at i:5161242 original size:20 final size:21
Alignment explanation
Indices: 5161211--5161252 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
5161201 CTAGCCGTTG
*
5161211 CAGCATGGGTGCATGGATGCA
1 CAGCATGGGTGCATCGATGCA
5161232 CAGCA-GGGTGCATCGATGCA
1 CAGCATGGGTGCATCGATGCA
5161252 C
1 C
5161253 TAATTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.17
Consensus pattern (21 bp):
CAGCATGGGTGCATCGATGCA
Found at i:5161335 original size:19 final size:19
Alignment explanation
Indices: 5161277--5161360 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
5161267 GTTTGAGTGT
5161277 ATGGATGCACTACATGGTGC
1 ATGGATGCACTACA-GGTGC
* *
5161297 ATCGATGCA-TAC---TAC
1 ATGGATGCACTACAGGTGC
*
5161312 ATGGATGCACTACAGATGC
1 ATGGATGCACTACAGGTGC
*
5161331 ATGGATGCACTGCAGGTGC
1 ATGGATGCACTACAGGTGC
5161350 ATGGATGCACT
1 ATGGATGCACT
5161361 TTGACACCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 10 0.19
16 3 0.06
19 33 0.61
20 8 0.15
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (19 bp):
ATGGATGCACTACAGGTGC
Found at i:5163243 original size:3 final size:3
Alignment explanation
Indices: 5163235--5163384 Score: 270
Period size: 3 Copynumber: 50.7 Consensus size: 3
5163225 CAATGCCTAC
5163235 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
5163283 -TT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-TT CTT CTT CTT CTT
5163327 CTT CTT CTT CTT -TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
5163374 CTT CTT CTT CT
1 CTT CTT CTT CT
5163385 CTTTCCTTTC
Statistics
Matches: 143, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
2 6 0.04
3 134 0.94
4 3 0.02
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:5164435 original size:34 final size:33
Alignment explanation
Indices: 5164374--5164444 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
5164364 CCTTTACAAC
**
5164374 TCCCTAGTTTTTTACGGGATAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGATAAACTAGAACCTT
* *
5164407 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGATAAACTAGAACCTT
5164441 TCCC
1 TCCC
5164445 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGATAAACTAGAACCTT
Found at i:5165145 original size:21 final size:23
Alignment explanation
Indices: 5165105--5165159 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 23
5165095 ACTATATTAA
* *
5165105 TATAAATTATATTAACTATAGTT
1 TATAAAATATATTAACTATAATT
5165128 TATAAAATATATT-A-TATAATT
1 TATAAAATATATTAACTATAATT
5165149 TATAAAATATA
1 TATAAAATATA
5165160 GTTTATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 17 0.57
22 1 0.03
23 12 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TATAAAATATATTAACTATAATT
Found at i:5165930 original size:6 final size:6
Alignment explanation
Indices: 5165921--5165994 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
5165911 TAACCTCAAC
* * * * * *
5165921 CCCAAA CCC-AA CCCGAA CTCAAA CACACA CCCGAA CCCAAA CCCACA
1 CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA CCCAAA
*
5165968 CCCGAA CCCAAA CCCAAA CCCAAA CCC
1 CCCAAA CCCAAA CCCAAA CCCAAA CCC
5165995 GAACTCGAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
5 5 0.09
6 50 0.91
ACGTcount: A:0.42, C:0.53, G:0.04, T:0.01
Consensus pattern (6 bp):
CCCAAA
Found at i:5165932 original size:12 final size:11
Alignment explanation
Indices: 5165902--5165990 Score: 61
Period size: 12 Copynumber: 7.5 Consensus size: 11
5165892 TTCATCTATT
**
5165902 ACCCAACCTTA
1 ACCCAACCCAA
5165913 ACCTCAACCCCAA
1 ACC-CAA-CCCAA
*
5165926 ACCCAACCCGA
1 ACCCAACCCAA
* * *
5165937 ACTCAAACACAC
1 AC-CCAACCCAA
5165949 ACCCGAACCCAA
1 ACCC-AACCCAA
*
5165961 ACCCACACCCGA
1 ACCCA-ACCCAA
5165973 ACCCAAACCCAA
1 ACCC-AACCCAA
5165985 ACCCAA
1 ACCCAA
5165991 ACCCGAACTC
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
11 13 0.22
12 40 0.67
13 7 0.12
ACGTcount: A:0.42, C:0.51, G:0.03, T:0.04
Consensus pattern (11 bp):
ACCCAACCCAA
Found at i:5165952 original size:18 final size:18
Alignment explanation
Indices: 5165921--5165994 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
5165911 TAACCTCAAC
*
5165921 CCCAAACCCA-ACCCGAA
1 CCCAAACACACACCCGAA
*
5165938 CTCAAACACACACCCGAA
1 CCCAAACACACACCCGAA
*
5165956 CCCAAACCCACACCCGAA
1 CCCAAACACACACCCGAA
* * *
5165974 CCCAAACCCAAACCCAAA
1 CCCAAACACACACCCGAA
5165992 CCC
1 CCC
5165995 GAACTCGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
17 8 0.16
18 42 0.84
ACGTcount: A:0.42, C:0.53, G:0.04, T:0.01
Consensus pattern (18 bp):
CCCAAACACACACCCGAA
Found at i:5168476 original size:20 final size:20
Alignment explanation
Indices: 5168451--5168492 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5168441 GAAATATTGA
5168451 ATTTTACACTGAGTGTACCG
1 ATTTTACACTGAGTGTACCG
5168471 ATTTTACACTGAGTGTACCG
1 ATTTTACACTGAGTGTACCG
5168491 AT
1 AT
5168493 ACACCTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (20 bp):
ATTTTACACTGAGTGTACCG
Found at i:5173879 original size:23 final size:21
Alignment explanation
Indices: 5173834--5173914 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 21
5173824 ACCCTCACTA
* *
5173834 TGTATCGATACACTATGAATG
1 TGTACCGATACACTCTGAATG
*
5173855 TGTACCGATACATTCCTTGAATG
1 TGTACCGATACACT-C-TGAATG
* *
5173878 TGTATCGATACACTCTGGA-G
1 TGTACCGATACACTCTGAATG
5173898 TGTACCGATACAC-CTGA
1 TGTACCGATACACTCTGA
5173915 CGGGTTTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
19 3 0.06
20 13 0.26
21 15 0.30
22 1 0.02
23 18 0.36
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTACCGATACACTCTGAATG
Found at i:5176578 original size:18 final size:19
Alignment explanation
Indices: 5176555--5176596 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
5176545 ATGTAATTAG
5176555 TGTACCTATAC-ACAGGGA
1 TGTACCTATACAACAGGGA
*
5176573 TGTACCTATACAACCGGGA
1 TGTACCTATACAACAGGGA
5176592 TGTAC
1 TGTAC
5176597 TGATACACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (19 bp):
TGTACCTATACAACAGGGA
Found at i:5177197 original size:20 final size:20
Alignment explanation
Indices: 5177172--5177213 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
5177162 TAAATCGCTA
5177172 TGCAAATATTTTCAATTTTC
1 TGCAAATATTTTCAATTTTC
*
5177192 TGCAAATGTTTTCAATTTTC
1 TGCAAATATTTTCAATTTTC
5177212 TG
1 TG
5177214 TAAAAGCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (20 bp):
TGCAAATATTTTCAATTTTC
Found at i:5177628 original size:11 final size:11
Alignment explanation
Indices: 5177612--5177650 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
5177602 CTGAATTAAC
5177612 TCAAATGTTAT
1 TCAAATGTTAT
5177623 TCAAAT-TTAT
1 TCAAATGTTAT
5177633 ATCAAATGTTAT
1 -TCAAATGTTAT
*
5177645 TTAAAT
1 TCAAAT
5177651 TATCATTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:5177919 original size:24 final size:24
Alignment explanation
Indices: 5177892--5177945 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
5177882 ATTATTTTTC
*
5177892 TTACATAAATTAAA-ACTATATAAT
1 TTACATAAATTAAAGAATAT-TAAT
5177916 TTACATAAATTAAAGAATATTAAT
1 TTACATAAATTAAAGAATATTAAT
5177940 TTACAT
1 TTACAT
5177946 TTAATCATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (24 bp):
TTACATAAATTAAAGAATATTAAT
Found at i:5178176 original size:15 final size:16
Alignment explanation
Indices: 5178156--5178197 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5178146 GTTCGTCCAT
5178156 GGTAAATAT-AAGTCA
1 GGTAAATATCAAGTCA
*
5178171 GGTAAATGTCAAGTCA
1 GGTAAATATCAAGTCA
*
5178187 GTTAAATATCA
1 GGTAAATATCA
5178198 TATCAGATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (16 bp):
GGTAAATATCAAGTCA
Found at i:5182421 original size:42 final size:40
Alignment explanation
Indices: 5182305--5182421 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 40
5182295 ACTCTCACTG
* * *
5182305 TCAGCCTTACCCTTAGCACTCTCACCCTCA-TTGTTAGACT
1 TCAGCCTCACCCTCAGCACCCTCACCCTCAGTT-TTAGACT
* **
5182345 TCAGCCTCACCATCAGCACCCTCACCCTGGGTTTTAGACTT
1 TCAGCCTCACCCTCAGCACCCTCACCCTCAGTTTTAGAC-T
* **
5182386 CTCAGCCTCACCCTGAGCACCCTCAGTCTCAGTTTT
1 -TCAGCCTCACCCTCAGCACCCTCACCCTCAGTTTT
5182422 CAATTTCTCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 30 0.48
41 3 0.05
42 29 0.47
ACGTcount: A:0.19, C:0.39, G:0.13, T:0.29
Consensus pattern (40 bp):
TCAGCCTCACCCTCAGCACCCTCACCCTCAGTTTTAGACT
Found at i:5184119 original size:6 final size:6
Alignment explanation
Indices: 5184108--5184134 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5184098 ATATATTTCA
5184108 TGTAGC TGTAGC TGTAGC TGTAGC TGT
1 TGTAGC TGTAGC TGTAGC TGTAGC TGT
5184135 TTGGGAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (6 bp):
TGTAGC
Done.