Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 56 of 75
Found at i:17945796 original size:21 final size:20
Alignment explanation
Indices: 17945761--17945830 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
17945751 TTTACTTTCC
*
17945761 GTTTAGCTCTCATGAGCTTCT
1 GTTTAACTCT-ATGAGCTTCT
* *
17945782 GTTTAACTCATATGAGTTTCC
1 GTTTAACTC-TATGAGCTTCT
*
17945803 GTTCAGA-TCTATTGAGCTTCT
1 GTTTA-ACTCTA-TGAGCTTCT
17945824 GTTTAAC
1 GTTTAAC
17945831 CCTTATGGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 3 0.08
21 33 0.87
22 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (20 bp):
GTTTAACTCTATGAGCTTCT
Found at i:17945819 original size:42 final size:42
Alignment explanation
Indices: 17945756--17945868 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
17945746 TCGTGTTTAC
* * *
17945756 TTTCCGTTTAGCTCTCATGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGATCTCATGAGCTTCTGTTTAACCCATATGAG
* *
17945798 TTTCCGTTCAGATCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGATCTCA-TGAGCTTCTGTTTAACCCATATGAG
** * *
17945840 TTTCCGTTCAGCCCTTACGAGCTTCTGTT
1 TTTCCGTTCAGATCTCATGAGCTTCTGTT
17945869 CAGCCTTCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
TTTCCGTTCAGATCTCATGAGCTTCTGTTTAACCCATATGAG
Found at i:17945884 original size:19 final size:21
Alignment explanation
Indices: 17945816--17945885 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
17945806 CAGATCTATT
* * *
17945816 GAGCTTCTGTTTAACCCTTAT
1 GAGCTTCTGTTCAGCCCTTAC
* * *
17945837 GGGTTTCCGTTCAGCCCTTAC
1 GAGCTTCTGTTCAGCCCTTAC
17945858 GAGCTTCTGTTCAG-CCTT-C
1 GAGCTTCTGTTCAGCCCTTAC
*
17945877 GGGCTTCTG
1 GAGCTTCTG
17945886 ATAATGATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 9 0.23
20 4 0.10
21 26 0.67
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (21 bp):
GAGCTTCTGTTCAGCCCTTAC
Found at i:17946444 original size:19 final size:19
Alignment explanation
Indices: 17946420--17946460 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
17946410 GGTGAATGAG
*
17946420 ATAGTATGGTAGATATGGT
1 ATAGTATGGTAGAGATGGT
17946439 ATAGTATGGTAGAGATGGT
1 ATAGTATGGTAGAGATGGT
17946458 ATA
1 ATA
17946461 AGCATGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (19 bp):
ATAGTATGGTAGAGATGGT
Found at i:17950284 original size:88 final size:88
Alignment explanation
Indices: 17950151--17950325 Score: 343
Period size: 87 Copynumber: 2.0 Consensus size: 88
17950141 TTTTTTAAAT
17950151 AATGTAAATAAACTTTAATTTATTAAAATGATTTTTTATACTTTTTTTGAATTTTTAAATTTTAA
1 AATGTAAATAAACTTTAATTTATTAAAATGATTTTTTATACTTTTTTTGAATTTTTAAATTTTAA
17950216 AAAATTAAGTAATTGGTGACGTA
66 AAAATTAAGTAATTGGTGACGTA
17950239 AATGTAAAT-AACTTTAATTTATTAAAATGATTTTTTATACTTTTTTTGAATTTTTAAATTTTAA
1 AATGTAAATAAACTTTAATTTATTAAAATGATTTTTTATACTTTTTTTGAATTTTTAAATTTTAA
17950303 AAAATTAAGTAATTGGTGACGTA
66 AAAATTAAGTAATTGGTGACGTA
17950326 TGTCATATCC
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
87 78 0.90
88 9 0.10
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (88 bp):
AATGTAAATAAACTTTAATTTATTAAAATGATTTTTTATACTTTTTTTGAATTTTTAAATTTTAA
AAAATTAAGTAATTGGTGACGTA
Found at i:17951073 original size:5 final size:5
Alignment explanation
Indices: 17951063--17951088 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17951053 TGAGCATTCG
17951063 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
17951089 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:17951618 original size:30 final size:31
Alignment explanation
Indices: 17951579--17951638 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17951569 AGAGGTGGGA
*
17951579 TGGGAAGGGAATAAAATTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
17951610 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
17951639 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:17952219 original size:15 final size:15
Alignment explanation
Indices: 17952186--17952216 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17952176 ATAAAAATAT
17952186 AATAAATTATTAAAA
1 AATAAATTATTAAAA
17952201 AATAAA-TATTAAAA
1 AATAAATTATTAAAA
17952215 AA
1 AA
17952217 ATATACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATTATTAAAA
Found at i:17954959 original size:3 final size:3
Alignment explanation
Indices: 17954951--17954996 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
17954941 TAGGAATATT
* *
17954951 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17954997 CGGTACCATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17956707 original size:70 final size:70
Alignment explanation
Indices: 17956620--17956760 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
17956610 TTTTATTTTA
* *
17956620 AAGTCCCTTTTTACATTTAAACATTTACTTACTTGCATTAAAATTTATCAACACAACATTGAAAT
1 AAGTCCCTTTTTACATTTAAACATTTACATACTTACATTAAAATTTATCAACACAACATTGAAAT
17956685 TTCAT
66 TTCAT
17956690 AAGTCCCTTTTTACATTTAAACATTTACATACTTACATTAAAATTTATCAACACAACATTGAAAT
1 AAGTCCCTTTTTACATTTAAACATTTACATACTTACATTAAAATTTATCAACACAACATTGAAAT
17956755 TTCAT
66 TTCAT
17956760 A
1 A
17956761 CACGTGGAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (70 bp):
AAGTCCCTTTTTACATTTAAACATTTACATACTTACATTAAAATTTATCAACACAACATTGAAAT
TTCAT
Found at i:17956907 original size:23 final size:23
Alignment explanation
Indices: 17956881--17956925 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
17956871 ATACATGCCA
*
17956881 TGTAATATCCTGAAAATTACTAT
1 TGTAATACCCTGAAAATTACTAT
17956904 TGTAATACCCTGAAAATTACTA
1 TGTAATACCCTGAAAATTACTA
17956926 CAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
TGTAATACCCTGAAAATTACTAT
Found at i:17956931 original size:23 final size:23
Alignment explanation
Indices: 17956882--17956931 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
17956872 TACATGCCAT
* **
17956882 GTAATATCCTGAAAATTACTATT
1 GTAATACCCTGAAAATTACTACA
17956905 GTAATACCCTGAAAATTACTACA
1 GTAATACCCTGAAAATTACTACA
17956928 GTAA
1 GTAA
17956932 GAAAGTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (23 bp):
GTAATACCCTGAAAATTACTACA
Found at i:17960344 original size:51 final size:52
Alignment explanation
Indices: 17960284--17960503 Score: 234
Period size: 51 Copynumber: 4.3 Consensus size: 52
17960274 TTCGGTGGTT
* * *
17960284 TGCACATAGTACCACCCATGTGAACATTGTC-ATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * * * * *
17960335 TACACATAGTACTACACACGTGATCA-AG-CTTTCCGGTTCACGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * *
17960385 TGCACATAGTATTACACAAGTGACCAATGGC-ATCCGATACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* *
17960436 TGCACATAGTACTACACATGTGACCATTATCTAT-CGATAGACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
*
17960487 TGCACTTAGTACTACAC
1 TGCACATAGTACTACAC
17960504 TCCTGTTCAT
Statistics
Matches: 137, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.01
50 39 0.28
51 94 0.69
52 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
Found at i:17967970 original size:51 final size:52
Alignment explanation
Indices: 17967908--17968128 Score: 200
Period size: 51 Copynumber: 4.3 Consensus size: 52
17967898 TTCGGTGGTT
* * *
17967908 TGCACATAGTACCACCCATGTGATCATTGTC-ATCCGATACACGTAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * * * * * *
17967959 TACACATAGTACTACACACGTGATCA-AG-CTTTCTGGTTCACGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * * * *
17968009 TGCACATAGTACTACACAAGTGACCA-AGGCCATCCGGTACACATAGTAGCC
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
* * * *
17968060 TGCACATAGTACTACACATGTGACCATTATCTAT-CAATAGACGTAGTAGCT
1 TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
*
17968111 TGCACTTAGTACTACACA
1 TGCACATAGTACTACACA
17968129 CCTGTTCATA
Statistics
Matches: 137, Mismatches: 30, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
49 1 0.01
50 41 0.30
51 92 0.67
52 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (52 bp):
TGCACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCC
Found at i:17974167 original size:17 final size:17
Alignment explanation
Indices: 17974145--17974178 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17974135 AGACGAGATT
17974145 GAAAGATGAAGTTGAAC
1 GAAAGATGAAGTTGAAC
17974162 GAAAGATGAAGTTGAAC
1 GAAAGATGAAGTTGAAC
17974179 AGAGTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.29, T:0.18
Consensus pattern (17 bp):
GAAAGATGAAGTTGAAC
Found at i:17986896 original size:29 final size:29
Alignment explanation
Indices: 17986859--17986977 Score: 130
Period size: 29 Copynumber: 4.1 Consensus size: 29
17986849 GTAGTTTCCG
* * *
17986859 TAAGAAATCTTTTATGGTGATCTTTGTTA
1 TAAGAAATCCTTTGTGGTGATCTCTGTTA
* * *
17986888 TAATAAATCATTTTTGGTGATCTCTGTTA
1 TAAGAAATCCTTTGTGGTGATCTCTGTTA
* ** * *
17986917 TAAGAAAGCCTTTGTGGCAATCTTTATTA
1 TAAGAAATCCTTTGTGGTGATCTCTGTTA
*
17986946 TAAGAAATCCTTTGTGGAGATCTCTGTTA
1 TAAGAAATCCTTTGTGGTGATCTCTGTTA
17986975 TAA
1 TAA
17986978 AGATGTTTTT
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (29 bp):
TAAGAAATCCTTTGTGGTGATCTCTGTTA
Found at i:17986997 original size:29 final size:29
Alignment explanation
Indices: 17986985--17987059 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
17986975 TAAAGATGTT
17986985 TTTGTAGCTATCTCTGTCAAAAGAACGTC
1 TTTGTAGCTATCTCTGTCAAAAGAACGTC
* * * *
17987014 TTTGTGGCTATCTCTATCAAAAGGA-GGC
1 TTTGTAGCTATCTCTGTCAAAAGAACGTC
*
17987042 ATTTGTGGCTATCTCTGT
1 -TTTGTAGCTATCTCTGT
17987060 TAAAGAAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTGTAGCTATCTCTGTCAAAAGAACGTC
Found at i:17988667 original size:22 final size:21
Alignment explanation
Indices: 17988635--17988676 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
17988625 TTGGTATTTA
17988635 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
17988656 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
17988677 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:17994721 original size:43 final size:42
Alignment explanation
Indices: 17994624--17994779 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 42
17994614 TAGGGTTACC
* *
17994624 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCAATAT
1 GAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATAT
* * *
17994666 GAGACTT-TGTGTAAGACCATGTCTGGGACATCGGCATTGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGACAT-GGCATCGATAT
* * ** *
17994709 GTGATTTCGTGTAAGACCATGGCTGGG-CTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGAC-A-TGGCATCGATAT
*
17994752 GAGATTACATGTAAGACCATATCTGGGA
1 GAGATTACGTGTAAGACCATATCTGGGA
17994780 TATGACATTG
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.30
43 64 0.69
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATAT
Found at i:17998410 original size:6 final size:7
Alignment explanation
Indices: 17998391--17998416 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17998381 TTGCTTCTTC
17998391 TATTTTT
1 TATTTTT
17998398 TATTTTT
1 TATTTTT
17998405 TATTTTT
1 TATTTTT
17998412 TATTT
1 TATTT
17998417 GCTTACGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:18009081 original size:18 final size:19
Alignment explanation
Indices: 18009060--18009095 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18009050 ATCTCTTCTC
*
18009060 TCATCT-CTGGTTCTTTGT
1 TCATCTGCTGCTTCTTTGT
18009078 TCATCTGCTGCTTCTTTG
1 TCATCTGCTGCTTCTTTG
18009096 ATCCTCTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.06, C:0.25, G:0.17, T:0.53
Consensus pattern (19 bp):
TCATCTGCTGCTTCTTTGT
Found at i:18009117 original size:25 final size:25
Alignment explanation
Indices: 18009083--18009205 Score: 141
Period size: 25 Copynumber: 5.2 Consensus size: 25
18009073 TTTGTTCATC
* *
18009083 TGCTGCTTCTTTGATCCTCTACTGG
1 TGCTGGTTCTTTGTTCCTCTACTGG
* *
18009108 TGCTGGTTCTTTGTTCTTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTACTGG
*
18009133 TGCTGGTTCTTTCTT-C-CT-C---
1 TGCTGGTTCTTTGTTCCTCTACTGG
* *
18009152 TGCTGGTTATTTGTTCCTCTGCTGG
1 TGCTGGTTCTTTGTTCCTCTACTGG
18009177 TGCTGGTTCTTTGTTCCTCTACTGG
1 TGCTGGTTCTTTGTTCCTCTACTGG
18009202 TGCT
1 TGCT
18009206 TTGTTCCTCT
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.16
20 1 0.01
21 2 0.02
22 2 0.02
23 2 0.02
25 62 0.76
ACGTcount: A:0.03, C:0.24, G:0.24, T:0.49
Consensus pattern (25 bp):
TGCTGGTTCTTTGTTCCTCTACTGG
Found at i:18009132 original size:19 final size:19
Alignment explanation
Indices: 18009066--18009133 Score: 55
Period size: 19 Copynumber: 3.3 Consensus size: 19
18009056 TCTCTCATCT
*
18009066 CTGGTTCTTTGTTCATCTG
1 CTGGTTCTTTGTTCTTCTG
* *
18009085 CTGCTTCTTTGATCCTCTACTGGTG
1 CTGGTTCTTTG-T--TCT--T-CTG
18009110 CTGGTTCTTTGTTCTTCTG
1 CTGGTTCTTTGTTCTTCTG
18009129 CTGGT
1 CTGGT
18009134 GCTGGTTCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 17 0.45
20 2 0.05
22 5 0.13
24 2 0.05
25 12 0.32
ACGTcount: A:0.04, C:0.24, G:0.22, T:0.50
Consensus pattern (19 bp):
CTGGTTCTTTGTTCTTCTG
Found at i:18009155 original size:19 final size:19
Alignment explanation
Indices: 18009133--18009177 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
18009123 CTTCTGCTGG
*
18009133 TGCTGGTTCTTTCTTCCTC
1 TGCTGGTTATTTCTTCCTC
*
18009152 TGCTGGTTATTTGTTCCTC
1 TGCTGGTTATTTCTTCCTC
18009171 TGCTGGT
1 TGCTGGT
18009178 GCTGGTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.02, C:0.24, G:0.22, T:0.51
Consensus pattern (19 bp):
TGCTGGTTATTTCTTCCTC
Found at i:18009156 original size:44 final size:44
Alignment explanation
Indices: 18009108--18009215 Score: 171
Period size: 44 Copynumber: 2.5 Consensus size: 44
18009098 CCTCTACTGG
*
18009108 TGCTGGTTCTTTGTTCTTCTGCTGGTGCTGGTTCTTTCTTCCTC
1 TGCTGGTTCTTTGTTCCTCTGCTGGTGCTGGTTCTTTCTTCCTC
* *
18009152 TGCTGGTTATTTGTTCCTCTGCTGGTGCTGGTTCTTTGTTCCTC
1 TGCTGGTTCTTTGTTCCTCTGCTGGTGCTGGTTCTTTCTTCCTC
* *
18009196 TACTGGTGCTTTGTTCCTCT
1 TGCTGGTTCTTTGTTCCTCT
18009216 TCTCCACCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.02, C:0.24, G:0.23, T:0.51
Consensus pattern (44 bp):
TGCTGGTTCTTTGTTCCTCTGCTGGTGCTGGTTCTTTCTTCCTC
Found at i:18009170 original size:69 final size:69
Alignment explanation
Indices: 18009066--18009205 Score: 208
Period size: 69 Copynumber: 2.0 Consensus size: 69
18009056 TCTCTCATCT
* * * *
18009066 CTGGTTCTTTGTTCATCTGCTGCTTCTTTGATCCTCTACTGGTGCTGGTTCTTTGTTCTTCTGCT
1 CTGGTTCTTTCTTCATCTGCTGCTTATTTGATCCTCTACTGGTGCTGGTTCTTTGTTCCTCTACT
18009131 GGTG
66 GGTG
* * * *
18009135 CTGGTTCTTTCTTCCTCTGCTGGTTATTTGTTCCTCTGCTGGTGCTGGTTCTTTGTTCCTCTACT
1 CTGGTTCTTTCTTCATCTGCTGCTTATTTGATCCTCTACTGGTGCTGGTTCTTTGTTCCTCTACT
18009200 GGTG
66 GGTG
18009204 CT
1 CT
18009206 TTGTTCCTCT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.04, C:0.24, G:0.23, T:0.49
Consensus pattern (69 bp):
CTGGTTCTTTCTTCATCTGCTGCTTATTTGATCCTCTACTGGTGCTGGTTCTTTGTTCCTCTACT
GGTG
Found at i:18009207 original size:19 final size:19
Alignment explanation
Indices: 18009179--18009215 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18009169 TCTGCTGGTG
*
18009179 CTGGTTCTTTGTTCCTCTA
1 CTGGTGCTTTGTTCCTCTA
18009198 CTGGTGCTTTGTTCCTCT
1 CTGGTGCTTTGTTCCTCT
18009216 TCTCCACCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.27, G:0.19, T:0.51
Consensus pattern (19 bp):
CTGGTGCTTTGTTCCTCTA
Found at i:18013310 original size:18 final size:18
Alignment explanation
Indices: 18013287--18013334 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
18013277 AAAATATGAG
*
18013287 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
18013305 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
18013323 AAATGATGTTCA
1 AAATGATGTTCA
18013335 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:18013909 original size:72 final size:72
Alignment explanation
Indices: 18013755--18013927 Score: 201
Period size: 72 Copynumber: 2.4 Consensus size: 72
18013745 AACAACAATG
* * * *
18013755 CTAAACTAGTTTTATCAACAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTA
1 CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTTTTTGCATATTGAATTTATATTCTACTTA
18013820 TTTATGT
66 TTTATGT
* * *
18013827 GT-AATCTAGTTTTATTAAAAGTTGTTTATGTTTGGTCTTTCTTCAT-TT-AATTTATATTCTAC
1 CTAAAT-TAGTTTTATCAAAAGTTGTTTATGTTTGGT-TTT-TGCATATTGAATTTATATTCTAC
*
18013889 TTATTT-TTT
63 TTATTTATGT
*
18013898 ACTAAATTAGTTTTATCAATAGTTGTTTAT
1 -CTAAATTAGTTTTATCAAAAGTTGTTTAT
18013928 ATGTGATTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
71 4 0.05
72 70 0.82
73 8 0.09
74 3 0.04
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (72 bp):
CTAAATTAGTTTTATCAAAAGTTGTTTATGTTTGGTTTTTGCATATTGAATTTATATTCTACTTA
TTTATGT
Found at i:18020795 original size:13 final size:13
Alignment explanation
Indices: 18020777--18020821 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
18020767 TCAAATTTCC
18020777 CAAAAGCACTTCT
1 CAAAAGCACTTCT
18020790 CAAAAGCACTTCT
1 CAAAAGCACTTCT
* * *
18020803 CCACAGCACTTTT
1 CAAAAGCACTTCT
18020816 CAAAAG
1 CAAAAG
18020822 TGATGAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (13 bp):
CAAAAGCACTTCT
Found at i:18021851 original size:25 final size:25
Alignment explanation
Indices: 18021804--18021855 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
18021794 ACCTTTCTTT
*
18021804 AACTCTCATCAAAACCAGATATGAA
1 AACTCTCATCAAAACAAGATATGAA
* * *
18021829 AACTCTCATTAAAATAAGTTATGAA
1 AACTCTCATCAAAACAAGATATGAA
18021854 AA
1 AA
18021856 TAAAAACCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (25 bp):
AACTCTCATCAAAACAAGATATGAA
Found at i:18022231 original size:10 final size:9
Alignment explanation
Indices: 18022218--18022243 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18022208 TTTAAATTTT
18022218 AAAAAATTC
1 AAAAAATTC
18022227 AAAAAATTC
1 AAAAAATTC
18022236 AAAAAATT
1 AAAAAATT
18022244 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAAATTC
Found at i:18022272 original size:19 final size:20
Alignment explanation
Indices: 18022227--18022272 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
18022217 TAAAAAATTC
18022227 AAAAAATTCAAAAAATTATTT
1 AAAAAATT-AAAAAATTATTT
**
18022248 TTAAAATT-AAAAATTATTT
1 AAAAAATTAAAAAATTATTT
18022267 AAAAAA
1 AAAAAA
18022273 AATTAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.71
21 6 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTAAAAAATTATTT
Found at i:18026607 original size:3 final size:3
Alignment explanation
Indices: 18026586--18026626 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
18026576 AAGTGGTCAG
* * *
18026586 CAT CAC CAT CAT TAT CAT CAT CAT TAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
18026627 CCGTCACCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:18026607 original size:12 final size:12
Alignment explanation
Indices: 18026587--18026626 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
18026577 AGTGGTCAGC
*
18026587 ATCACCATCATT
1 ATCATCATCATT
18026599 ATCATCATCATT
1 ATCATCATCATT
*
18026611 ATCATCATCATC
1 ATCATCATCATT
18026623 ATCA
1 ATCA
18026627 CCGTCACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCATCATCATT
Found at i:18032854 original size:16 final size:17
Alignment explanation
Indices: 18032823--18032857 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18032813 GCCCAATAAT
18032823 TAATAAACAGAACAGAA
1 TAATAAACAGAACAGAA
*
18032840 TAATAAA-ATAACAGAA
1 TAATAAACAGAACAGAA
18032856 TA
1 TA
18032858 TTTAATGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (17 bp):
TAATAAACAGAACAGAA
Found at i:18042813 original size:78 final size:78
Alignment explanation
Indices: 18042719--18042882 Score: 274
Period size: 78 Copynumber: 2.1 Consensus size: 78
18042709 GATATTGGAT
* *
18042719 AATATTATTACAAAAGTAGAAGTAAAGGAAAACTTTTTACAAAGAAAGAGAGGATGGTGGATAAG
1 AATATTTTTACAAAAGTAGAAGTAAAAGAAAACTTTTTACAAAGAAAGAGAGGATGGTGGATAAG
18042784 AAGTGGATAAAGA
66 AAGTGGATAAAGA
* *
18042797 AATATTTTTACAAAAGTAGAAGTAAAAGAAAAGTTTTTACAAAGAAAGAGAGGGTGGTGGATAAG
1 AATATTTTTACAAAAGTAGAAGTAAAAGAAAACTTTTTACAAAGAAAGAGAGGATGGTGGATAAG
*
18042862 AAGTGGATAGAGA
66 AAGTGGATAAAGA
*
18042875 AAGATTTT
1 AATATTTT
18042883 CTAAACTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.48, C:0.03, G:0.25, T:0.24
Consensus pattern (78 bp):
AATATTTTTACAAAAGTAGAAGTAAAAGAAAACTTTTTACAAAGAAAGAGAGGATGGTGGATAAG
AAGTGGATAAAGA
Found at i:18052243 original size:88 final size:88
Alignment explanation
Indices: 18051982--18052258 Score: 432
Period size: 88 Copynumber: 3.2 Consensus size: 88
18051972 CACTTGACAA
18051982 TCAAGAGTTGCTAGCATGTTATGCCTCATCATAAAATATGTCTGATTAAACTGCTAACTTTCATT
1 TCAAGAGTTGCTAGCATGTTATGCCTCATCATAAAATATGTCTGATTAAACTGCTAACTTTCATT
18052047 GATGTTCATGCATCACATAAAAT
66 GATGTTCATGCATCACATAAAAT
* * * *
18052070 TCAAGAGTTGTTAGTATGTTATGCCTCAT--TAGAAATATGTCTGATTAAACTGCCAACTTTGAT
1 TCAAGAGTTGCTAGCATGTTATGCCTCATCATA-AAATATGTCTGATTAAACTGCTAACTTTCAT
* *
18052133 TGAAGTTCATGGATCACATAAAAT
65 TGATGTTCATGCATCACATAAAAT
* * *
18052157 TCAAGAGTTGCTAGCATGTTATGCCTCATCATAAAATATGTTTGATTAAATTGCTAACTTTCATC
1 TCAAGAGTTGCTAGCATGTTATGCCTCATCATAAAATATGTCTGATTAAACTGCTAACTTTCATT
* *
18052222 GATGTTCATACATTACATAAAAT
66 GATGTTCATGCATCACATAAAAT
18052245 TCAAGAGTTGCTAG
1 TCAAGAGTTGCTAG
18052259 TGTTAGAGTA
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
86 2 0.01
87 78 0.46
88 87 0.51
89 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (88 bp):
TCAAGAGTTGCTAGCATGTTATGCCTCATCATAAAATATGTCTGATTAAACTGCTAACTTTCATT
GATGTTCATGCATCACATAAAAT
Found at i:18052390 original size:21 final size:21
Alignment explanation
Indices: 18052364--18052405 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18052354 GGAGGGTCTT
18052364 ATCCTATATCGATCAACCATA
1 ATCCTATATCGATCAACCATA
18052385 ATCCTATATCGATCAACCATA
1 ATCCTATATCGATCAACCATA
18052406 TCCCTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (21 bp):
ATCCTATATCGATCAACCATA
Found at i:18059942 original size:13 final size:13
Alignment explanation
Indices: 18059924--18059948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18059914 AATTTTAATA
18059924 TTATTTTGTGTGT
1 TTATTTTGTGTGT
18059937 TTATTTTGTGTG
1 TTATTTTGTGTG
18059949 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:18061431 original size:13 final size:13
Alignment explanation
Indices: 18061413--18061437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18061403 TATTTTAATA
18061413 TTATTTTGTGTGT
1 TTATTTTGTGTGT
18061426 TTATTTTGTGTG
1 TTATTTTGTGTG
18061438 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:18065099 original size:30 final size:28
Alignment explanation
Indices: 18065025--18065100 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
18065015 TCGATACAAC
*
18065025 GTCAGCTTGTGTGAGCAAATTCATAAAT
1 GTCAGCTTGTGTGAGCAAACTCATAAAT
** * * *
18065053 GTCAGCTTGTACGAGCAAACCCTGATCATT
1 GTCAGCTTGTGTGAGCAAA--CTCATAAAT
18065083 GTCAGCTTGTGTGAGCAA
1 GTCAGCTTGTGTGAGCAA
18065101 TATAGTCTCG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 17 0.45
30 21 0.55
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (28 bp):
GTCAGCTTGTGTGAGCAAACTCATAAAT
Found at i:18066291 original size:22 final size:22
Alignment explanation
Indices: 18066247--18066292 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
18066237 CCGTAACACC
*
18066247 ATTTGTAGACAAGCCACCACTG
1 ATTTGTAGACAAACCACCACTG
* * *
18066269 ATTTGTAGATAAACTACCTCTG
1 ATTTGTAGACAAACCACCACTG
18066291 AT
1 AT
18066293 AACACTTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (22 bp):
ATTTGTAGACAAACCACCACTG
Found at i:18066310 original size:51 final size:49
Alignment explanation
Indices: 18066247--18066379 Score: 140
Period size: 51 Copynumber: 2.7 Consensus size: 49
18066237 CCGTAACACC
* * *
18066247 ATTTGTAGACAAGCCACCACTGATTTGTAGATAAACTACCTCTGATAACA
1 ATTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTGATAA-A
* * * * * * * *
18066297 CTTTCGTGGACAAGCCACCATTGGTATGCAAATATATTGCCACTGATAAA
1 ATTT-GTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTGATAAA
*
18066347 ATTTTTGGACAAGCCACCACTGATTTGCAGATA
1 ATTTGTGGACAAGCCACCACTGATTTGCAGATA
18066380 TACTGTCACT
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
49 24 0.37
50 7 0.11
51 34 0.52
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (49 bp):
ATTTGTGGACAAGCCACCACTGATTTGCAGATAAACTACCACTGATAAA
Found at i:18066381 original size:49 final size:51
Alignment explanation
Indices: 18066254--18066390 Score: 152
Period size: 49 Copynumber: 2.7 Consensus size: 51
18066244 ACCATTTGTA
* * * * *
18066254 GACAAGCCACCACTGATTTGTAGATAAACTACCTCTGATAACACTTTCGTG
1 GACAAGCCACCACTGATTTGCAGATATACTGCCACTGATAACAATTTCGTG
* * * * * *
18066305 GACAAGCCACCATTGGTATGCAAATATATTGCCACTGATAA-AATTT-TTG
1 GACAAGCCACCACTGATTTGCAGATATACTGCCACTGATAACAATTTCGTG
*
18066354 GACAAGCCACCACTGATTTGCAGATATACTGTCACTG
1 GACAAGCCACCACTGATTTGCAGATATACTGCCACTG
18066391 CTTTCACCTT
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
49 33 0.48
50 4 0.06
51 32 0.46
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (51 bp):
GACAAGCCACCACTGATTTGCAGATATACTGCCACTGATAACAATTTCGTG
Found at i:18071942 original size:44 final size:44
Alignment explanation
Indices: 18071879--18072256 Score: 274
Period size: 44 Copynumber: 8.6 Consensus size: 44
18071869 GTCATCGTGG
18071879 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
* * *
18071923 CAAATCTTATTTCCCTGAAGTTGCAGTGTAATAGATTAAGGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
** ** *
18071967 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-TTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATT-AAAGCTA
* * ** * * * * *
18072011 CAAGTTTTATCTCCCTGAAAATGCAGTAGAGTAGACTGAAGACTG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAG-CTA
* * * * **
18072056 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAATTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
* * * * * * *
18072100 CAAGTCTTATCTCCCTAAAGGTACAGTGGAACAGACTAAAGATA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
** ** * * *
18072144 TCAAATCTTATCTCCCTGCTG-TGCAGTGGAGCAGACTAAAACCA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
* * * * * * * *
18072188 CAAATCTCATCTCCTTAAAATTGTAGTGGAGTGGATTGAAGCTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
* * * *
18072232 CAAGTCATATCTCTCTGAATTTGCA
1 CAAATCTTATCTCCCTGAAGTTGCA
18072257 ATAGAGTGGA
Statistics
Matches: 253, Mismatches: 76, Indels: 10
0.75 0.22 0.03
Matches are distributed among these distances:
43 16 0.06
44 188 0.74
45 49 0.19
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
Found at i:18072080 original size:133 final size:132
Alignment explanation
Indices: 18071885--18072134 Score: 302
Period size: 133 Copynumber: 1.9 Consensus size: 132
18071875 GTGGCAAATC
** * * *
18071885 TTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATCTTATTTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAAATGCAGTAGAATAGACTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
* ** * * * *
18071950 GTAATAGATTAAGGCTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAG
66 GGAATAGATTAAAACTACAAGCCTTATCTCCCTAAAGGTACAGTGGAACAGATTGAAATTACAAG
18072015 TT
131 TT
* * * * *
18072017 TTATCTCCCTGAAAATGCAGTAGAGTAGACTGAAGACTGCAGATCTTGTCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAAATGCAGTAGAATAGACTAAAG-CTACAAATCTTATCTCCCTGAAGTTGCAG
* * * *
18072082 TGGAGTAGGTTAAAATTACAAGTCTTATCTCCCTAAAGGTACAGTGGAACAGA
65 TGGAATAGATTAAAACTACAAGCCTTATCTCCCTAAAGGTACAGTGGAACAGA
18072135 CTAAAGATAT
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
132 29 0.30
133 67 0.70
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (132 bp):
TTATCTCCCTGAAAATGCAGTAGAATAGACTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGT
GGAATAGATTAAAACTACAAGCCTTATCTCCCTAAAGGTACAGTGGAACAGATTGAAATTACAAG
TT
Found at i:18072098 original size:89 final size:87
Alignment explanation
Indices: 18071881--18072184 Score: 274
Period size: 89 Copynumber: 3.4 Consensus size: 87
18071871 CATCGTGGCA
* ** * * **
18071881 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAATCTTATTTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAATTACAAGTCTTATCTCCCTGAAAATG
* *
18071946 CAGTGTAATAGATTAAGGCTAC
66 CAGTGTAATAGATGAAGACTAC
* * * *
18071968 AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATTACAAGTTTTATCTCCCTGAAAAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAATTACAAGTCTTATCTCCCTGAAAAT
* *
18072033 GCAGTAG-AGTAGACTGAAGACTGC
65 GCAGT-GTAATAGA-TGAAGACTAC
* * *
18072057 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGTAGGTTAAAATTACAAGTCTTATCTCCCT-AAAGG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAATTACAAGTCTTATCTCCCTGAAA-A
* * * *
18072121 TACAGTGGAACAGACTAAAGA-TATC
64 TGCAGTGTAATAGA-TGAAGACTA-C
** * *
18072146 AAATCTTATCTCCCTGCTG-TGCAGTGGAGCAGACTAAAA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAA
18072185 CCACAAATCT
Statistics
Matches: 176, Mismatches: 33, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
87 2 0.01
88 83 0.47
89 89 0.51
90 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAATTACAAGTCTTATCTCCCTGAAAATG
CAGTGTAATAGATGAAGACTAC
Found at i:18072667 original size:15 final size:15
Alignment explanation
Indices: 18072647--18072678 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18072637 CTGTCACCTG
*
18072647 CAAGAAGCCAACAAA
1 CAAGAAGACAACAAA
18072662 CAAGAAGACAACAAA
1 CAAGAAGACAACAAA
18072677 CA
1 CA
18072679 GAGGAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.25, G:0.12, T:0.00
Consensus pattern (15 bp):
CAAGAAGACAACAAA
Found at i:18073786 original size:4 final size:4
Alignment explanation
Indices: 18073777--18073807 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
18073767 TAATTCCCAT
*
18073777 TTTA TTTA TTTA TGTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
18073808 CTTTGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:18074827 original size:53 final size:53
Alignment explanation
Indices: 18074748--18074924 Score: 297
Period size: 53 Copynumber: 3.4 Consensus size: 53
18074738 TCGACACGTA
18074748 GGTTATGACAT-ATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
1 GGTTATGACATCATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
*
18074800 GGTTATGTCATCATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
1 GGTTATGACATCATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
* * *
18074853 GG--ATGATATCATATGGAAAGGAGACCATATCATGTAAGACCGTAACTAGTG
1 GGTTATGACATCATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
18074904 GGTTATGACATCATATGGAAA
1 GGTTATGACATCATATGGAAA
18074925 AATTTAAGGA
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
51 47 0.41
52 10 0.09
53 59 0.51
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (53 bp):
GGTTATGACATCATATGGAAAGAAGACCATATCATGTAAGACCGTAACTGGTG
Found at i:18076313 original size:394 final size:393
Alignment explanation
Indices: 18075577--18076758 Score: 2041
Period size: 394 Copynumber: 3.0 Consensus size: 393
18075567 TGAACCCCGC
* * *
18075577 ATAATAACAAGAAAATAACAGTAAAGATAGAGTG-AGCCAGAATAGGTGACGAATCCGAGATATG
1 ATAATAACAAGAAAATAACAGTGAAGCTAGAGTGCA-CCAAAATAGGTGACGAATCCG-GATATG
*
18075641 TGTTATATTTATATATAGATAGCACCTTGAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTA
64 TGTTATATTTATATATAGATAGCACCTTAAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTA
18075706 ATGGGCGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAG
129 ATGGGCGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAG
18075771 TCTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAG
194 TCTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAG
* * *
18075836 AAAGTGAAGAGATTTTAAGTATAGAACGCTCAAAGGAAAAAAATAACTTGTAACACCCTTAACCC
259 AAAGTGAAGAGATTTTAAGTATAGTACGCTCAAAGGAAAAAAATGACCTGTAACACCCTTAA-CC
*
18075901 A-TATTCGTCGTCGAAATGGGGTTACGAGGCATTACCGGACCTGACACAACTTCTGAACTAACGC
323 AGTATTCGTCGTCGAAATGGGGTTACGAGGCATTACCGGACCCGACACAACTTCTGAACTAACGC
18075965 ATGTAT
388 ATGTAT
18075971 ATAATAACAAGAAAATAACAGTGAAGCTAGAGTGCACCAAAATAGGTGACGAATCCAGGATATGT
1 ATAATAACAAGAAAATAACAGTGAAGCTAGAGTGCACCAAAATAGGTGACGAATCC-GGATATGT
* *
18076036 GTTATATTTATATATAGATAGCACCTTCAAGTAAGGAAGATCTGGGTTAACTCTATGTTAAGTAA
65 GTTATATTTATATATAGATAGCACCTTAAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTAA
*
18076101 TGGGCATAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAGT
130 TGGGCGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAGT
18076166 CTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAGA
195 CTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAGA
* *
18076231 AAGTGAAGAGATTTTAAGTATAGTATGCTCAAAGGAAAAAATTGACCTGTAACACCCTTAACCAG
260 AAGTGAAGAGATTTTAAGTATAGTACGCTCAAAGGAAAAAAATGACCTGTAACACCCTTAACCAG
* *
18076296 TATTCATCGTTGAAATGGGGTTACGAGGCATTACCGGACCCGACACAACTTCTGAACTAACGCAT
325 TATTCGTCGTCGAAATGGGGTTACGAGGCATTACCGGACCCGACACAACTTCTGAACTAACGCAT
18076361 GTAT
390 GTAT
*
18076365 ATAATAACAAGAAAATAATAGTGAAGCTAGAGTGCACCAAAATAGGTGACGAATCCGGGATATGT
1 ATAATAACAAGAAAATAACAGTGAAGCTAGAGTGCACCAAAATAGGTGACGAATCC-GGATATGT
*
18076430 GTTATATTTATATATAGATAGCACCCTAAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTAA
65 GTTATATTTATATATAGATAGCACCTTAAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTAA
*
18076495 TGGGTGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAGT
130 TGGGCGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAGT
18076560 CTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAGA
195 CTGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAGA
* * *
18076625 AAGTGAAGAGATTTTAAGTATAGTACGCT-AAA--AAAAAAAAGAGCTGTAACACCCTTAACCCG
260 AAGTGAAGAGATTTTAAGTATAGTACGCTCAAAGGAAAAAAATGACCTGTAACACCCTTAACCAG
* * * ** *
18076687 TATCCGTCGCCGAAACGGGGTTACGAGGCATTACCGGACCCGACACAACTTCCAAACTAACTCAT
325 TATTCGTCGTCGAAATGGGGTTACGAGGCATTACCGGACCCGACACAACTTCTGAACTAACGCAT
18076752 GTAT
390 GTAT
18076756 ATA
1 ATA
18076759 CACGTAATCA
Statistics
Matches: 751, Mismatches: 34, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
391 90 0.12
393 6 0.01
394 653 0.87
395 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (393 bp):
ATAATAACAAGAAAATAACAGTGAAGCTAGAGTGCACCAAAATAGGTGACGAATCCGGATATGTG
TTATATTTATATATAGATAGCACCTTAAAGTAAGGAAGATCTGGGTTAACTCTACGTTAAGTAAT
GGGCGTAGTTTACCTCGCCCGAAGGTAGTGGTAAAATCAATAAGTATGAAATAAGATTTTAAGTC
TGCTAATAAGGTAAATGAAATGGTTAAGGACTATGTAAAGATAGGATTTAAGAAGAGATATAGAA
AGTGAAGAGATTTTAAGTATAGTACGCTCAAAGGAAAAAAATGACCTGTAACACCCTTAACCAGT
ATTCGTCGTCGAAATGGGGTTACGAGGCATTACCGGACCCGACACAACTTCTGAACTAACGCATG
TAT
Found at i:18082356 original size:9 final size:10
Alignment explanation
Indices: 18082330--18082355 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18082320 AAGAAAATGC
18082330 AAAAAAAGAA
1 AAAAAAAGAA
18082340 AAAAAAAGAA
1 AAAAAAAGAA
18082350 AAAAAA
1 AAAAAA
18082356 GGTCAAGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:18084413 original size:22 final size:23
Alignment explanation
Indices: 18084367--18084418 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
18084357 CTATTCAATT
18084367 TATA-TTTTATTTTATATATAAA
1 TATATTTTTATTTTATATATAAA
* **
18084389 TATTTTTTTA-TTTATATATTTA
1 TATATTTTTATTTTATATATAAA
18084411 TATATTTT
1 TATATTTT
18084419 GTTCGCTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATATTTTTATTTTATATATAAA
Found at i:18084435 original size:17 final size:17
Alignment explanation
Indices: 18084413--18084456 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
18084403 TATATTTATA
18084413 TATTTTGTTCGCTAACG
1 TATTTTGTTCGCTAACG
*
18084430 TATTTTGTTCGCTAACT
1 TATTTTGTTCGCTAACG
*
18084447 TGTTTTGTTC
1 TATTTTGTTC
18084457 AACAGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.55
Consensus pattern (17 bp):
TATTTTGTTCGCTAACG
Found at i:18086928 original size:13 final size:13
Alignment explanation
Indices: 18086887--18086922 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
18086877 AACAAAATTT
18086887 ATTAAAAATTTTA
1 ATTAAAAATTTTA
18086900 ATTATAAAATTTTA
1 ATTA-AAAATTTTA
18086914 ATTAAAAAT
1 ATTAAAAAT
18086923 AATAATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAAAATTTTA
Found at i:18087038 original size:7 final size:8
Alignment explanation
Indices: 18087016--18087040 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18087006 TTTTTTAATA
18087016 AAATTTTT
1 AAATTTTT
18087024 AAATTTTT
1 AAATTTTT
18087032 AAATTTTT
1 AAATTTTT
18087040 A
1 A
18087041 TAACATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AAATTTTT
Found at i:18087060 original size:12 final size:12
Alignment explanation
Indices: 18087035--18087074 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
18087025 AATTTTTAAA
18087035 TTTTTATAACATT
1 TTTTTATAA-ATT
18087048 TTTTTATAAATT
1 TTTTTATAAATT
18087060 TTGTTTATAAATT
1 TT-TTTATAAATT
18087073 TT
1 TT
18087075 ATGATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 5 0.19
13 21 0.81
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (12 bp):
TTTTTATAAATT
Found at i:18095260 original size:24 final size:23
Alignment explanation
Indices: 18095211--18095261 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
18095201 AACAAAAAAT
* * **
18095211 AAAATCTATTCTAAAAAAAGGGG
1 AAAACCTAATCTAAAAAAAGAAG
18095234 AAAACCTAATCTAAAAATAAGAAG
1 AAAACCTAATCTAAAAA-AAGAAG
18095258 AAAA
1 AAAA
18095262 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.18
Consensus pattern (23 bp):
AAAACCTAATCTAAAAAAAGAAG
Found at i:18099336 original size:22 final size:20
Alignment explanation
Indices: 18099299--18099343 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
18099289 TTGATACATA
18099299 TTTCTTTATTTGAATTCTTACT
1 TTTCTTTATTTGAATT-TT-CT
18099321 TTTCATTTATTT-AATTTTCT
1 TTTC-TTTATTTGAATTTTCT
18099341 TTT
1 TTT
18099344 ATGATTCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 2 0.09
22 8 0.36
23 7 0.32
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTCTTTATTTGAATTTTCT
Found at i:18113238 original size:23 final size:23
Alignment explanation
Indices: 18113207--18113250 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
18113197 CTCATAAAAA
18113207 TCAACTAATTATTGAAAAAATTG
1 TCAACTAATTATTGAAAAAATTG
* * *
18113230 TCAATTAATTTTTTAAAAAAT
1 TCAACTAATTATTGAAAAAAT
18113251 AGTAAAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (23 bp):
TCAACTAATTATTGAAAAAATTG
Found at i:18115358 original size:6 final size:6
Alignment explanation
Indices: 18115347--18115403 Score: 96
Period size: 6 Copynumber: 9.2 Consensus size: 6
18115337 GGTTTTCTCC
18115347 AAAATG AAAATG AAAATGG AAAATGG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAAT-G AAAAT-G AAAATG AAAATG AAAATG AAAATG
18115397 AAAATG A
1 AAAATG A
18115404 CCTAAAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 37 0.74
7 13 0.26
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:18118478 original size:25 final size:26
Alignment explanation
Indices: 18118450--18118514 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
18118440 AGTTTTCTGG
* *
18118450 AACTATTT-TTGATAGTATATCCTGA
1 AACTATTTATAGATAGTATATACTGA
*
18118475 AACT-TTTATAGATCGTATATACTGA
1 AACTATTTATAGATAGTATATACTGA
*
18118500 AACTA-CTATAGATAG
1 AACTATTTATAGATAG
18118515 ACTGTACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 3 0.09
25 30 0.91
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
AACTATTTATAGATAGTATATACTGA
Found at i:18126076 original size:20 final size:19
Alignment explanation
Indices: 18126034--18126076 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
18126024 GTTTGACCAG
*
18126034 TTTTTGGTCTCAGTCTCAG
1 TTTTTGGTCTCAGTCTCAA
18126053 TTTTTGGTTCTCAGT-TCCAA
1 TTTTTGG-TCTCAGTCT-CAA
18126073 TTTT
1 TTTT
18126077 CGATCTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (19 bp):
TTTTTGGTCTCAGTCTCAA
Found at i:18133726 original size:39 final size:39
Alignment explanation
Indices: 18133668--18133747 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
18133658 TTTAGTCTTC
* * *
18133668 ATGGGAACGATATCTTTGCTCACTGTAACTATACTATTA
1 ATGGGAAAGATATCGTTGCTCACCGTAACTATACTATTA
18133707 ATGGGAAAGATATCGTTGCTCACCGTAACTATACTATTA
1 ATGGGAAAGATATCGTTGCTCACCGTAACTATACTATTA
18133746 AT
1 AT
18133748 TCATAAGTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (39 bp):
ATGGGAAAGATATCGTTGCTCACCGTAACTATACTATTA
Found at i:18133820 original size:13 final size:13
Alignment explanation
Indices: 18133802--18133834 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18133792 GACATCAACC
18133802 ATACTTGTAGACG
1 ATACTTGTAGACG
*
18133815 ATACTTGTAGACT
1 ATACTTGTAGACG
18133828 ATACTTG
1 ATACTTG
18133835 CGAGCCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (13 bp):
ATACTTGTAGACG
Found at i:18137043 original size:10 final size:9
Alignment explanation
Indices: 18137020--18137044 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
18137010 AATTGTTAAT
18137020 TAAAAATTG
1 TAAAAATTG
18137029 TAAAAATTG
1 TAAAAATTG
18137038 TAAAAAT
1 TAAAAAT
18137045 CATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
TAAAAATTG
Found at i:18137370 original size:379 final size:379
Alignment explanation
Indices: 18136671--18137431 Score: 1387
Period size: 379 Copynumber: 2.0 Consensus size: 379
18136661 GTTCTTCTCC
* *
18136671 AAACTTTATTTTGGGCTTTTGGACATCCTAATGAGTCAATTTTCAAAAACTTGGACTTATGATAT
1 AAACTTTATTTTGGGCTTTTGGACATCCCAATGACTCAATTTTCAAAAACTTGGACTTATGATAT
* *
18136736 GGTCGCTCTAGAAATGGACTTGTTCAGGCTCGTTACTAAAAGTCATCATGCACAGACTTCAATAA
66 GGTCGCTCTAGAAATGGACTCGTTCAAGCTCGTTACTAAAAGTCATCATGCACAGACTTCAATAA
18136801 TTGGTTTCTTGGACTAAAAATTTCAAGATTTCAAAATTTGATTTTCTTTTTTCCTCTTATGTGCT
131 TTGGTTTCTTGGACTAAAAATTTCAAGATTTCAAAATTTGATTTTCTTTTTTCCTCTTATGTGCT
18136866 TCTAAGGCTTTCATCACGAAGTCTTGGATAGTCTCGTTCTATCTTGACTTGATTTGCTTCACTTT
196 TCTAAGGCTTTCATCACGAAGTCTTGGATAGTCTCGTTCTATCTTGACTTGATTTGCTTCACTTT
*
18136931 CAACCTCATAATTAGGTCTTACGGTAGAGTAAGACCAACAAATCCGTTGGCCTGAATTTAGGCCT
261 CAACCTCATAATTAGGTCTTACGGTAGAGTAAGACCAACAAATCCGTGGGCCTGAATTTAGGCCT
18136996 TGAGTCTTGCATCAAATTGTTAATTAAAAATTGTAAAAATTGTAAAAATCATAA
326 TGAGTCTTGCATCAAATTGTTAATTAAAAATTGTAAAAATTGTAAAAATCATAA
18137050 AAACTTTATTTTGGGCTTTTGGACATCCCAATGACTCAATTTTCAAAAACTTGGACTTATGATAT
1 AAACTTTATTTTGGGCTTTTGGACATCCCAATGACTCAATTTTCAAAAACTTGGACTTATGATAT
* * *
18137115 GGTCGCTCTAGAAATGGGCTCGTTCAAGCTCGTTACTATAGGTCATCATGCACAGACTTCAATAA
66 GGTCGCTCTAGAAATGGACTCGTTCAAGCTCGTTACTAAAAGTCATCATGCACAGACTTCAATAA
*
18137180 TTGGTTTCTTGGACTAAAAATTTCAAGATTTCAAATTTTGATTTTCTTTTTTCCTCTTATGTGCT
131 TTGGTTTCTTGGACTAAAAATTTCAAGATTTCAAAATTTGATTTTCTTTTTTCCTCTTATGTGCT
* * *
18137245 TCTAAGGCTTTCATCACGAAGTCTTGGATAGTCTTGTTTTGTCTTGACTTGATTTGCTTCACTTT
196 TCTAAGGCTTTCATCACGAAGTCTTGGATAGTCTCGTTCTATCTTGACTTGATTTGCTTCACTTT
* * *
18137310 CAACCTCGTAATTAGGTCTTATGGTAGAGTAAGACCAACAAGTCCGTGGGCCTGAATTTAGGCCT
261 CAACCTCATAATTAGGTCTTACGGTAGAGTAAGACCAACAAATCCGTGGGCCTGAATTTAGGCCT
18137375 TGAGTCTTGCATCAAATTGTTAATTAAAAATTGTAAAAATTGTAAAAATCATAA
326 TGAGTCTTGCATCAAATTGTTAATTAAAAATTGTAAAAATTGTAAAAATCATAA
18137429 AAA
1 AAA
18137432 TTATAAAATT
Statistics
Matches: 367, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
379 367 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (379 bp):
AAACTTTATTTTGGGCTTTTGGACATCCCAATGACTCAATTTTCAAAAACTTGGACTTATGATAT
GGTCGCTCTAGAAATGGACTCGTTCAAGCTCGTTACTAAAAGTCATCATGCACAGACTTCAATAA
TTGGTTTCTTGGACTAAAAATTTCAAGATTTCAAAATTTGATTTTCTTTTTTCCTCTTATGTGCT
TCTAAGGCTTTCATCACGAAGTCTTGGATAGTCTCGTTCTATCTTGACTTGATTTGCTTCACTTT
CAACCTCATAATTAGGTCTTACGGTAGAGTAAGACCAACAAATCCGTGGGCCTGAATTTAGGCCT
TGAGTCTTGCATCAAATTGTTAATTAAAAATTGTAAAAATTGTAAAAATCATAA
Found at i:18137440 original size:8 final size:9
Alignment explanation
Indices: 18137399--18137443 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
18137389 AATTGTTAAT
*
18137399 TAAAAATTG
1 TAAAAATTA
*
18137408 TAAAAATTG
1 TAAAAATTA
*
18137417 TAAAAATCA
1 TAAAAATTA
18137426 TAAAAATTA
1 TAAAAATTA
18137435 T-AAAATTA
1 TAAAAATTA
18137443 T
1 T
18137444 TTTTTTGGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 8 0.24
9 25 0.76
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:18137720 original size:15 final size:16
Alignment explanation
Indices: 18137691--18137723 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
18137681 TGATATTTGA
*
18137691 TATAATTATTTGATTT
1 TATAATTATTAGATTT
18137707 TATAA-TATTAGATTT
1 TATAATTATTAGATTT
18137722 TA
1 TA
18137724 CCATAGCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATAATTATTAGATTT
Found at i:18137804 original size:16 final size:17
Alignment explanation
Indices: 18137767--18137808 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
18137757 TTTGACATAT
18137767 AAAAAATTATATATAAG
1 AAAAAATTATATATAAG
*
18137784 GAAAAA-TATATAATAA-
1 AAAAAATTATAT-ATAAG
18137800 AAAAAATTA
1 AAAAAATTA
18137809 GTTGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAAATTATATATAAG
Found at i:18138165 original size:19 final size:19
Alignment explanation
Indices: 18138141--18138185 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18138131 ATTGTAACAC
*
18138141 ATAACAAAATATC-CCCTAA
1 ATAACAAAATATCTCAC-AA
*
18138160 ATAACAATATATCTCACAA
1 ATAACAAAATATCTCACAA
18138179 ATAACAA
1 ATAACAA
18138186 TATTCTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 21 0.91
20 2 0.09
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAACAAAATATCTCACAA
Found at i:18145830 original size:15 final size:15
Alignment explanation
Indices: 18145797--18145853 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
18145787 ATACGCATGC
* **
18145797 TTTTTATTTTTATTT
1 TTTTTATTTTTGTGA
18145812 TTTTTATTTTTGTGA
1 TTTTTATTTTTGTGA
* * *
18145827 TTTTCACTTTAGTGA
1 TTTTTATTTTTGTGA
*
18145842 TTTTAATTTTTG
1 TTTTTATTTTTG
18145854 GTAAAAGGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.72
Consensus pattern (15 bp):
TTTTTATTTTTGTGA
Found at i:18150271 original size:24 final size:24
Alignment explanation
Indices: 18150229--18150313 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 24
18150219 CAACGAAGAG
18150229 GAAAAA-GAAAAGAAGAGAAGAAAAA
1 GAAAAATGAAAA-AA-AGAAGAAAAA
*
18150254 TAAAAATGAAAAAAAGAAGAAAAA
1 GAAAAATGAAAAAAAGAAGAAAAA
18150278 GGAAAAA-GAAAGAAAAG--GAAAAA
1 -GAAAAATGAAA-AAAAGAAGAAAAA
* *
18150301 GGAAAATGGAAAA
1 GAAAAATGAAAAA
18150314 TGGAAAAAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
22 7 0.13
23 9 0.17
24 14 0.27
25 17 0.33
26 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (24 bp):
GAAAAATGAAAAAAAGAAGAAAAA
Found at i:18150282 original size:7 final size:7
Alignment explanation
Indices: 18150272--18150322 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
18150262 AAAAAAAGAA
18150272 GAAAAAG
1 GAAAAAG
18150279 GAAAAAG
1 GAAAAAG
*
18150286 AAAGAAAAG
1 -GA-AAAAG
18150295 GAAAAAG
1 GAAAAAG
*
18150302 GAAAATG
1 GAAAAAG
*
18150309 GAAAATG
1 GAAAAAG
18150316 GAAAAAG
1 GAAAAAG
18150323 AAATAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 31 0.82
8 2 0.05
9 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (7 bp):
GAAAAAG
Found at i:18150283 original size:16 final size:16
Alignment explanation
Indices: 18150264--18150313 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
18150254 TAAAAATGAA
18150264 AAAAAGAAGAAAAAGG
1 AAAAAGAAGAAAAAGG
18150280 AAAAAGAA-AGAAAAGG
1 AAAAAGAAGA-AAAAGG
*
18150296 AAAAAG--GAAAATGG
1 AAAAAGAAGAAAAAGG
18150310 AAAA
1 AAAA
18150314 TGGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 9 0.29
15 2 0.06
16 20 0.65
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (16 bp):
AAAAAGAAGAAAAAGG
Found at i:18153903 original size:18 final size:19
Alignment explanation
Indices: 18153877--18153913 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
18153867 GAACGAAATT
18153877 AAAGTAAAGA-AAAGAAAGA
1 AAAGTAAAGATAAA-AAAGA
18153896 AAAG-AAAGATAAAAAAGA
1 AAAGTAAAGATAAAAAAGA
18153914 TTTTTTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (19 bp):
AAAGTAAAGATAAAAAAGA
Found at i:18159669 original size:25 final size:25
Alignment explanation
Indices: 18159611--18159697 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
18159601 GCGGACACAC
*
18159611 CACAGCTCGTATGAGCTTCTTGATT
1 CACAGCTCGTATGAGCTTCCTGATT
**
18159636 TGCAGCTCGTATGAGCTTCCTGATT
1 CACAGCTCGTATGAGCTTCCTGATT
* * *
18159661 CACAACTCGTGA-GAGCATACTGATT
1 CACAGCTCGT-ATGAGCTTCCTGATT
*
18159686 CATAGCTCGTAT
1 CACAGCTCGTAT
18159698 AAGCATACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 48 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTCCTGATT
Found at i:18166581 original size:18 final size:18
Alignment explanation
Indices: 18166558--18166602 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
18166548 CTTAAACACC
*
18166558 TCTAACCAATACTAAACA
1 TCTAACCAATACCAAACA
*
18166576 TCTAACCAATACCAAACG
1 TCTAACCAATACCAAACA
18166594 TCTAACCAA
1 TCTAACCAA
18166603 ACAAACCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (18 bp):
TCTAACCAATACCAAACA
Found at i:18170904 original size:804 final size:805
Alignment explanation
Indices: 18169498--18171106 Score: 3211
Period size: 804 Copynumber: 2.0 Consensus size: 805
18169488 GTAATATTAA
18169498 ATTAATCAAAATAATTAAATTTAATATTATATTTTTAAAAATTAATTTTCAAGTCAAACAATTAG
1 ATTAATCAAAATAATTAAATTTAATATTATATTTTTAAAAATTAATTTTCAAGTCAAACAATTAG
18169563 CCTAGTGGGTAATTGTACTTGAAAATTGGACCTGAGATCGTTAATTGGGTCTGGAAGTCCAAAAC
66 CCTAGTGGGTAATTGTACTTGAAAATTGGACCTGAGATCGTTAATTGGGTCTGGAAGTCCAAAAC
18169628 CTAAACCAAGAACCAAAAACGGGTCGAACCAGGCCTAGTATGTGAAATTAGGCTGACGATCCAAC
131 CTAAACCAAGAACCAAAAACGGGTCGAACCAGGCCTAGTATGTGAAATTAGGCTGACGATCCAAC
18169693 TGGTGGTTAGACTGAATCGGTTGGGTCGTCACTGGTCTGGACCAAATCGGTAGAAATTGAACCAG
196 TGGTGGTTAGACTGAATCGGTTGGGTCGTCACTGGTCTGGACCAAATCGGTAGAAATTGAACCAG
18169758 CTTGGGTGTCGGCGGCTGCAATGGCGGCATTCTGGTGGTCAGAAAATGGTTGGCGGCTGCGTTCT
261 CTTGGGTGTCGGCGGCTGCAATGGCGGCATTCTGGTGGTCAGAAAATGGTTGGCGGCTGCGTTCT
18169823 TCGATGGTTGAACACTGGAAAAATTACACTCCTACTAGGACTCTACTTGAGAATTGGAATAATAT
326 TCGATGGTTGAACACTGGAAAAATTACACTCCTACTAGGACTCTACTTGAGAATTGGAATAATAT
18169888 TATTTTAATGGATTTAATATTAAATATAATTTAATATTTACATTTAATATTAAAGTGATTAAGTT
391 TATTTTAATGGATTTAATATTAAATATAATTTAATATTTACATTTAATATTAAAGTGATTAAGTT
18169953 TAATCAAAGTTGAACTCTCTAAACTCTCCCTATATAAAAAGAGCCATGGTTATTATTTACACTCA
456 TAATCAAAGTTGAACTCTCTAAACTCTCCCTATATAAAAAGAGCCATGGTTATTATTTACACTCA
18170018 CTTGAATTCAAGAGAAAGTTGTAGATAAAAAATTCTCTGAAGCAATTATTTCAGAAAATTTATGT
521 CTTGAATTCAAGAGAAAGTTGTAGATAAAAAATTCTCTGAAGCAATTATTTCAGAAAATTTATGT
18170083 TTTTCTTATTTACAACATGGCCCAAAAGTTTAAAGAAATTGCAAAATTACCCCACTAGTAATTTT
586 TTTTCTTATTTACAACATGGCCCAAAAGTTTAAAGAAATTGCAAAATTACCCCACTAGTAATTTT
18170148 TGTGAATTTTTTTTGATTTGAAGCGAGCCCACACTCTGCAGATGTGAGCTTTTGGATAGCAGAGA
651 TGTGAATTTTTTTTGATTTGAAGCGAGCCCACACTCTGCAGATGTGAGCTTTTGGATAGCAGAGA
18170213 ATACTACTTGATCGAAGCGTTCATCCTAAATGAATCGAAATGGTACAATTTTGATTAAGCGTTTA
716 ATACTACTTGATCGAAGCGTTCATCCTAAATGAATCGAAATGGTACAATTTTGATTAAGCGTTTA
18170278 TTACTTTACATATTACAACCAACTT
781 TTACTTTACATATTACAACCAACTT
18170303 ATTAATC-AAATAATTAAATTTAATATTATATTTTTAAAAATTAATTTTCAAGTCAAACAATTAG
1 ATTAATCAAAATAATTAAATTTAATATTATATTTTTAAAAATTAATTTTCAAGTCAAACAATTAG
18170367 CCTAGTGGGTAATTGTACTTGAAAATTGGACCTGAGATCGTTAATTGGGTCTGGAAGTCCAAAAC
66 CCTAGTGGGTAATTGTACTTGAAAATTGGACCTGAGATCGTTAATTGGGTCTGGAAGTCCAAAAC
18170432 CTAAACCAAGAACCAAAAACGGGTCGAACCAGGCCTAGTATGTGAAATTAGGCTGACGATCCAAC
131 CTAAACCAAGAACCAAAAACGGGTCGAACCAGGCCTAGTATGTGAAATTAGGCTGACGATCCAAC
18170497 TGGTGGTTAGACTGAATCGGTTGGGTCGTCACTGGTCTGGACCAAATCGGTAGAAATTGAACCAG
196 TGGTGGTTAGACTGAATCGGTTGGGTCGTCACTGGTCTGGACCAAATCGGTAGAAATTGAACCAG
18170562 CTTGGGTGTCGGCGGCTGCAATGGCGGCATTCTGGTGGTCAGAAAATGGTTGGCGGCTGCGTTCT
261 CTTGGGTGTCGGCGGCTGCAATGGCGGCATTCTGGTGGTCAGAAAATGGTTGGCGGCTGCGTTCT
18170627 TCGATGGTTGAACACTGGAAAAATTACACTCCTACTAGGACTCTACTTGAGAATTGGAATAATAT
326 TCGATGGTTGAACACTGGAAAAATTACACTCCTACTAGGACTCTACTTGAGAATTGGAATAATAT
18170692 TATTTTAATGGATTTAATATTAAATATAATTTAATATTTACATTTAATATTAAAGTGATTAAGTT
391 TATTTTAATGGATTTAATATTAAATATAATTTAATATTTACATTTAATATTAAAGTGATTAAGTT
18170757 TAATCAAAGTTGAACTCTCTAAACTCTCCCTATATAAAAAGAGCCATGGTTATTATTTACACTCA
456 TAATCAAAGTTGAACTCTCTAAACTCTCCCTATATAAAAAGAGCCATGGTTATTATTTACACTCA
18170822 CTTGAATTCAAGAGAAAGTTGTAGATAAAAAATTCTCTGAAGCAATTATTTCAGAAAATTTATGT
521 CTTGAATTCAAGAGAAAGTTGTAGATAAAAAATTCTCTGAAGCAATTATTTCAGAAAATTTATGT
18170887 TTTTCTTATTTACAACATGGCCCAAAAGTTTAAAGAAATTGCAAAATTACCCCACTAGTAATTTT
586 TTTTCTTATTTACAACATGGCCCAAAAGTTTAAAGAAATTGCAAAATTACCCCACTAGTAATTTT
18170952 TGTGAATTTTTTTTGATTTGAAGCGAGCCCACACTCTGCAGATGTGAGCTTTTGGATAGCAGAGA
651 TGTGAATTTTTTTTGATTTGAAGCGAGCCCACACTCTGCAGATGTGAGCTTTTGGATAGCAGAGA
18171017 ATACTACTTGATCGAAGCGTTCATCCTAAATGAATCGAAATGGTACAATTTTGATTAAGCGTTTA
716 ATACTACTTGATCGAAGCGTTCATCCTAAATGAATCGAAATGGTACAATTTTGATTAAGCGTTTA
18171082 TTACTTTACATATTACAACCAACTT
781 TTACTTTACATATTACAACCAACTT
18171107 TTTGTTTGGC
Statistics
Matches: 804, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
804 797 0.99
805 7 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (805 bp):
ATTAATCAAAATAATTAAATTTAATATTATATTTTTAAAAATTAATTTTCAAGTCAAACAATTAG
CCTAGTGGGTAATTGTACTTGAAAATTGGACCTGAGATCGTTAATTGGGTCTGGAAGTCCAAAAC
CTAAACCAAGAACCAAAAACGGGTCGAACCAGGCCTAGTATGTGAAATTAGGCTGACGATCCAAC
TGGTGGTTAGACTGAATCGGTTGGGTCGTCACTGGTCTGGACCAAATCGGTAGAAATTGAACCAG
CTTGGGTGTCGGCGGCTGCAATGGCGGCATTCTGGTGGTCAGAAAATGGTTGGCGGCTGCGTTCT
TCGATGGTTGAACACTGGAAAAATTACACTCCTACTAGGACTCTACTTGAGAATTGGAATAATAT
TATTTTAATGGATTTAATATTAAATATAATTTAATATTTACATTTAATATTAAAGTGATTAAGTT
TAATCAAAGTTGAACTCTCTAAACTCTCCCTATATAAAAAGAGCCATGGTTATTATTTACACTCA
CTTGAATTCAAGAGAAAGTTGTAGATAAAAAATTCTCTGAAGCAATTATTTCAGAAAATTTATGT
TTTTCTTATTTACAACATGGCCCAAAAGTTTAAAGAAATTGCAAAATTACCCCACTAGTAATTTT
TGTGAATTTTTTTTGATTTGAAGCGAGCCCACACTCTGCAGATGTGAGCTTTTGGATAGCAGAGA
ATACTACTTGATCGAAGCGTTCATCCTAAATGAATCGAAATGGTACAATTTTGATTAAGCGTTTA
TTACTTTACATATTACAACCAACTT
Found at i:18185882 original size:18 final size:18
Alignment explanation
Indices: 18185855--18185891 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18185845 AAGCTTTCGC
*
18185855 AATTAGTAACATTTTGAA
1 AATTAATAACATTTTGAA
*
18185873 AATTAATAACGTTTTGAA
1 AATTAATAACATTTTGAA
18185891 A
1 A
18185892 GAGAATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
AATTAATAACATTTTGAA
Found at i:18189239 original size:21 final size:21
Alignment explanation
Indices: 18189213--18189256 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
18189203 TTTAAATTGT
*
18189213 TATATACTTTAATTATGAATTTG
1 TATAT-CTTTAATAAT-AATTTG
*
18189236 TATATGTTTAATAATAATTTG
1 TATATCTTTAATAATAATTTG
18189257 AATTGTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (21 bp):
TATATCTTTAATAATAATTTG
Found at i:18202489 original size:96 final size:97
Alignment explanation
Indices: 18202324--18202517 Score: 381
Period size: 96 Copynumber: 2.0 Consensus size: 97
18202314 ATTTTTTTTC
18202324 GAATTAAATAAAAGCTAATTTACTGTAACAGTTTTTAAACTCGACAATCTTGTCTTCAAGTGCCT
1 GAATTAAATAAAAGCTAATTTACTGTAACAGTTTTTAAACTCGACAATCTTGTCTTCAAGTGCCT
18202389 TTCCATGTGACATCGCCAGATCCTGCCATAAT
66 TTCCATGTGACATCGCCAGATCCTGCCATAAT
18202421 GAATTAAAT-AAAGCTAATTTACTGTAACAGTTTTTAAACTCGACAATCTTGTCTTCAAGTGCCT
1 GAATTAAATAAAAGCTAATTTACTGTAACAGTTTTTAAACTCGACAATCTTGTCTTCAAGTGCCT
18202485 TTCCATGTGACATCGCCAGATCCTGCCATAAT
66 TTCCATGTGACATCGCCAGATCCTGCCATAAT
18202517 G
1 G
18202518 TCTAGGCTGG
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 88 0.91
97 9 0.09
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (97 bp):
GAATTAAATAAAAGCTAATTTACTGTAACAGTTTTTAAACTCGACAATCTTGTCTTCAAGTGCCT
TTCCATGTGACATCGCCAGATCCTGCCATAAT
Found at i:18212051 original size:9 final size:9
Alignment explanation
Indices: 18212034--18212071 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
18212024 TTTCAAGCTG
*
18212034 ACAAGCTGA
1 ACAAACTGA
18212043 ACAAACTGA
1 ACAAACTGA
18212052 ACAAACTGA
1 ACAAACTGA
18212061 ACAAACTGA
1 ACAAACTGA
18212070 AC
1 AC
18212072 TCAACTGAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.53, C:0.24, G:0.13, T:0.11
Consensus pattern (9 bp):
ACAAACTGA
Found at i:18213884 original size:18 final size:18
Alignment explanation
Indices: 18213858--18213893 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18213848 CTAATGTCAG
18213858 TAACCGCTAACAACTAAC
1 TAACCGCTAACAACTAAC
* *
18213876 TAACTGCTAACAGCTAAC
1 TAACCGCTAACAACTAAC
18213894 CATTACTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
TAACCGCTAACAACTAAC
Found at i:18216938 original size:10 final size:10
Alignment explanation
Indices: 18216923--18216947 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18216913 AATTAGTTAA
18216923 AAATTAAATC
1 AAATTAAATC
18216933 AAATTAAATC
1 AAATTAAATC
18216943 AAATT
1 AAATT
18216948 GATTTTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAATC
Found at i:18218406 original size:70 final size:70
Alignment explanation
Indices: 18218293--18218431 Score: 242
Period size: 70 Copynumber: 2.0 Consensus size: 70
18218283 GTCTCTTCTA
* * *
18218293 GAGCACCCGCCTCCACTATATGACCATCTTGAAGAATTTTCATATTTTGAACTAATCAATCTATT
1 GAGCACCCGCCTCCACTATATGACCATCTAGAAGAATTTTCATATTTGGAACCAATCAATCTATT
18218358 ATTTG
66 ATTTG
*
18218363 GAGCACCCGCCTCCACTATATGACCATCTAGAAGAATTTTCATATTTGGAACCGATCAATCTATT
1 GAGCACCCGCCTCCACTATATGACCATCTAGAAGAATTTTCATATTTGGAACCAATCAATCTATT
18218428 ATTT
66 ATTT
18218432 TATTCCAACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (70 bp):
GAGCACCCGCCTCCACTATATGACCATCTAGAAGAATTTTCATATTTGGAACCAATCAATCTATT
ATTTG
Found at i:18218783 original size:41 final size:39
Alignment explanation
Indices: 18218738--18218830 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 39
18218728 AGCGGCACTT
** *
18218738 TTAGCGGCGTTTGAACAAAAAACGCCGGTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCAAGCA
** * *
18218779 TTAGCGGCGCTTTATGAAAACCGCCACTAAAGATCAAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCAAGCA
18218819 TTAGCGGCGTTT
1 TTAGCGGCGTTT
18218831 TTCGGAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.07
40 29 0.66
41 9 0.20
42 3 0.07
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCAAGCA
Found at i:18218941 original size:41 final size:40
Alignment explanation
Indices: 18218886--18219044 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 40
18218876 GTTACCTTTC
*
18218886 GGGGCTTTAGCGGCGTTTTCAAAAAAGCGCCGCTAATGCT
1 GGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
* * * * *
18218926 CGGGGTTTTAACGGCGTTTTTGAGAAAGCGCCACTAATGCT
1 -GGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
* **
18218967 GGGGCCTTTAGCGGTGTTTTTGGAAAAGCGCCGCTAATGCT
1 GGGG-CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
*
18219008 GGGGTCTTTAGTGGCGTTTTTAAAAAAGCGCCGCTAA
1 GGGG-CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA
18219045 AAACATTTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 4 0.04
41 96 0.96
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (40 bp):
GGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCT
Found at i:18219325 original size:14 final size:15
Alignment explanation
Indices: 18219299--18219329 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
18219289 GTTTAGAGAG
18219299 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
18219314 TATGGA-TTAGGGAT
1 TATGGATTTAGGGAT
18219328 TA
1 TA
18219330 CGGTTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:18219363 original size:21 final size:22
Alignment explanation
Indices: 18219302--18219387 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 22
18219292 TAGAGAGTAT
* * *
18219302 GGATTTAGGGATTATGGATTAG
1 GGATTTAAGGTTTATGGGTTAG
* **
18219324 GGA-TTACGGTTTAAAGGTT-G
1 GGATTTAAGGTTTATGGGTTAG
*
18219344 GGATTTAAGGTTTATGGGTTAT
1 GGATTTAAGGTTTATGGGTTAG
* *
18219366 GG-TTTAGGGGTTTAAGGGTTAG
1 GGATTTA-AGGTTTATGGGTTAG
18219388 ACATTAGGGG
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
20 4 0.08
21 28 0.57
22 17 0.35
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.38
Consensus pattern (22 bp):
GGATTTAAGGTTTATGGGTTAG
Found at i:18221703 original size:39 final size:39
Alignment explanation
Indices: 18221660--18221738 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
18221650 CTAAATGCAA
* * *
18221660 ACATGTTATGATGCATGGGCCTATGTTATAAATTCTATG
1 ACATGTTATGATGCATAGGCCTATGGTATAAATTCAATG
* *
18221699 ACATGTTATGATGGATAGGCCTTTGGTATAAATTCAATG
1 ACATGTTATGATGCATAGGCCTATGGTATAAATTCAATG
18221738 A
1 A
18221739 TTGCCAGTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (39 bp):
ACATGTTATGATGCATAGGCCTATGGTATAAATTCAATG
Found at i:18222594 original size:2 final size:2
Alignment explanation
Indices: 18222587--18222795 Score: 418
Period size: 2 Copynumber: 104.5 Consensus size: 2
18222577 TATTTTTCCC
18222587 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18222629 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18222671 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18222713 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
18222755 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
18222796 AAGTTGTTGG
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 207 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18224207 original size:43 final size:43
Alignment explanation
Indices: 18224160--18224392 Score: 251
Period size: 43 Copynumber: 5.4 Consensus size: 43
18224150 TGATTGAATT
* *
18224160 TCGAGCTATAGCGGCGTTTGTGGGAAAAGCCCCGCTAAAGGTC
1 TCGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
* * * * * *
18224203 TCGAGCTATAGCGACTTTTGTGGAAAAAGTGCCACTAAAGGTC
1 TCGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
* * *
18224246 TTGATCTATAGCGGCGTTTGT-GCAAAAGTGCCGCTAAAGGTC
1 TCGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
18224288 -CTGATCTATAGCGGCGTTTGT-GGAAAATGCGCCGATAAAGGT-
1 TC-GATCTATAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGGTC
* * *
18224330 TCTGATCTATAGTGACGTTGGTGGGAAAAGCGCCGCTAAAGGTC
1 TC-GATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
*
18224374 AT-GATCTATAGCAGCGTTT
1 -TCGATCTATAGCGGCGTTT
18224393 ATTTCAGCGT
Statistics
Matches: 160, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
42 43 0.27
43 110 0.69
44 6 0.04
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (43 bp):
TCGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
Found at i:18224287 original size:85 final size:86
Alignment explanation
Indices: 18224165--18224385 Score: 270
Period size: 85 Copynumber: 2.6 Consensus size: 86
18224155 GAATTTCGAG
* *
18224165 CTATAGCGGCGTTTGTGGGAAAAGCCCCGCTAAAGGT-CTCGAGCTATAGCGACTTTTGTGGAAA
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCT-GAGCTATAGCGACGTTTGTGGAAA
*
18224229 AAGTGCC-ACTAAAGG-TCTTGAT
65 AAGCGCCGA-TAAAGGTTC-TGAT
* * * *
18224251 CTATAGCGGCGTTTGT-GCAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGAAAA
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAGCTATAGCGACGTTTGTGGAAAA
*
18224315 TGCGCCGATAAAGGTTCTGAT
66 AGCGCCGATAAAGGTTCTGAT
* * * * *
18224336 CTATAGTGACGTTGGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGC
1 CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAGCTATAGC
18224386 AGCGTTTATT
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
85 66 0.56
86 51 0.44
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (86 bp):
CTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAGCTATAGCGACGTTTGTGGAAAA
AGCGCCGATAAAGGTTCTGAT
Found at i:18227857 original size:19 final size:19
Alignment explanation
Indices: 18227835--18227900 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
18227825 AAATAGAAAT
18227835 TTTTGAATTTTTATAAA-TA
1 TTTTGAATTTTTA-AAATTA
*
18227854 TTTT-AAATTTTAAAATTTA
1 TTTTGAATTTTTAAAA-TTA
*
18227873 TTTTGAACTTTTGAAAATTA
1 TTTTGAA-TTTTTAAAATTA
18227893 TTTTGAAT
1 TTTTGAAT
18227901 GTCTTTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.08
18 7 0.17
19 11 0.28
20 12 0.30
21 7 0.17
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTGAATTTTTAAAATTA
Found at i:18227893 original size:20 final size:18
Alignment explanation
Indices: 18227835--18227900 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 18
18227825 AAATAGAAAT
18227835 TTTTGAATTTTTATAAA-TA
1 TTTTGAA-TTTTA-AAATTA
*
18227854 TTTTAAATTTTAAAATTTA
1 TTTTGAATTTTAAAA-TTA
18227873 TTTTGAACTTTTGAAAATTA
1 TTTTGAA-TTTT-AAAATTA
18227893 TTTTGAAT
1 TTTTGAAT
18227901 GTCTTTTGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 15 0.37
20 14 0.34
21 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTGAATTTTAAAATTA
Found at i:18228965 original size:43 final size:43
Alignment explanation
Indices: 18228807--18229180 Score: 563
Period size: 43 Copynumber: 8.7 Consensus size: 43
18228797 ACGTCGCTAA
*** * *
18228807 CTTTAGCGGCGCTTTTTTTACAAACGCCACTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
18228850 CTTTAGCTGCGC-TTTCCCAAAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
18228892 CTTTAGCAGCGC-TTTCCCACAAACGTCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
18228934 CTTTAACGGCGCTTTTCCCACAAGCGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
18228977 TTTTAGCTGCGCTTTTCCCACAAACGCCACTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
18229020 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
18229063 TTTTAGCTGCGCTTTTCCCACAAACGCCGCTATAAATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
18229106 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
**
18229149 CTTTAGCGGCGCTTTTTTCACAAACGCCGCTA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA
18229181 AAATTGCCAT
Statistics
Matches: 300, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 73 0.24
43 227 0.76
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:18229750 original size:21 final size:21
Alignment explanation
Indices: 18229687--18229741 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
18229677 TCTGCCTTCT
18229687 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
18229708 TTGAGTAACTACATGGCAATC
1 TTGAGTAACTACATGGCAATC
18229729 TTGAGTAACTACA
1 TTGAGTAACTACA
18229742 GTAGCATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
TTGAGTAACTACATGGCAATC
Found at i:18233652 original size:15 final size:16
Alignment explanation
Indices: 18233618--18233652 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18233608 GAAATTAGGG
*
18233618 ATTTTAGGGGGGAAAT
1 ATTTCAGGGGGGAAAT
18233634 ATTTCAGGGGGGAAA-
1 ATTTCAGGGGGGAAAT
18233649 ATTT
1 ATTT
18233653 ATAAATGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.31, C:0.03, G:0.34, T:0.31
Consensus pattern (16 bp):
ATTTCAGGGGGGAAAT
Found at i:18234750 original size:33 final size:33
Alignment explanation
Indices: 18234681--18234752 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
18234671 TAATCTAAAT
*
18234681 CCTAAACCCTAACCTGACCCTGAATCCCTAATC
1 CCTAAACCCTAACCTGACCCTGAATCCCTAACC
* **
18234714 CCTAAACCTTAA-CTCGACCCTGAATCTTTAACC
1 CCTAAACCCTAACCT-GACCCTGAATCCCTAACC
18234747 CCTAAA
1 CCTAAA
18234753 TATTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 32 0.94
ACGTcount: A:0.32, C:0.39, G:0.06, T:0.24
Consensus pattern (33 bp):
CCTAAACCCTAACCTGACCCTGAATCCCTAACC
Found at i:18234861 original size:114 final size:110
Alignment explanation
Indices: 18234530--18234836 Score: 267
Period size: 110 Copynumber: 2.8 Consensus size: 110
18234520 ATATAAGAAC
* * * *
18234530 TTATTTAGTATATAAATTAAAAAATACTAATTAATCTAAA-CCTTAAACCCTAACCCGACCCCGA
1 TTATTTAATATATAAATT-AAAAACACTAATTAATCTAAATCC---AA--CTAACCTGACCCTGA
* * ** *
18234594 ATCTC-TAAACCCTAAATCACTAACT--A---TTAACCCCAAACCCCTAAACC
60 ATC-CATAAACCCTAAA-CCCTAACTCGACCCTGAACCCTTAACCCCTAAACA
18234641 TTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTAACCTGACCCTGAAT
1 TTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCC--AA--CTAACCTGACCCTGAAT
* * * * * *
18234706 CCCTAATCCCTAAACCTTAACTCGACCCTGAATCTTTAACCCCTAAATA
62 CCATAAACCCTAAACCCTAACTCGACCCTGAACCCTTAACCCCTAAACA
18234755 TTATTTAATATATAAATTAAAACACACTAATTAATCTAAA-CC-A-TAACCTGACACC-GAATCC
1 TTATTTAATATATAAATTAAAA-ACACTAATTAATCTAAATCCAACTAACCTGAC-CCTGAATCC
18234816 ATAAACCCTAAATCCCTAACT
64 ATAAACCCTAAA-CCCTAACT
18234837 GATCTTAACC
Statistics
Matches: 169, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
108 25 0.15
109 16 0.09
110 52 0.31
111 21 0.12
114 38 0.22
115 17 0.10
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.28
Consensus pattern (110 bp):
TTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCAACTAACCTGACCCTGAATCCAT
AAACCCTAAACCCTAACTCGACCCTGAACCCTTAACCCCTAAACA
Found at i:18235585 original size:41 final size:41
Alignment explanation
Indices: 18235526--18235721 Score: 270
Period size: 41 Copynumber: 4.8 Consensus size: 41
18235516 ACGCCGCTAA
* * **
18235526 AGCGGAGCTTCTTT-AAAAATGCCGCTAAAGGAAAGAGCATT
1 AGCGGCGCTT-TTTCAAAAACGCCGCTAAAGGCCAGAGCATT
*
18235567 AGCGGCGCTTTTTCAAAAACGCCGCTTAAGGCCAGAGCATT
1 AGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATT
* *
18235608 AGCGGCACTTTTTCAAAAACGCCGCTAAAGGCCCGAGCATT
1 AGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATT
* * *
18235649 AGCAGCTCTTTTTCAAAAACGCCACTAAA-GCCAGAGCATT
1 AGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATT
*
18235689 AGCGGCGCTTTTTCAAAAACGCTGCTAAAGGCC
1 AGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCC
18235722 CCAAAAACTC
Statistics
Matches: 137, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 38 0.28
41 99 0.72
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (41 bp):
AGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCAGAGCATT
Found at i:18235716 original size:81 final size:82
Alignment explanation
Indices: 18235540--18235722 Score: 269
Period size: 81 Copynumber: 2.2 Consensus size: 82
18235530 GAGCTTCTTT
* *** * * *
18235540 AAAAATGCCGCTAAAGGAAAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTTAAGGCCAGAGC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCAGCGCTTTTTCAAAAACGCCACTTAAAGCCAGAGC
18235605 ATTAGCGGCACTTTTTC
66 ATTAGCGGCACTTTTTC
*
18235622 AAAAACGCCGCTAAAGGCCCGAGCATTAGCAGCTCTTTTTCAAAAACGCCAC-TAAAGCCAGAGC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCAGCGCTTTTTCAAAAACGCCACTTAAAGCCAGAGC
*
18235686 ATTAGCGGCGCTTTTTC
66 ATTAGCGGCACTTTTTC
*
18235703 AAAAACGCTGCTAAAGGCCC
1 AAAAACGCCGCTAAAGGCCC
18235723 CAAAAACTCA
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 46 0.51
82 45 0.49
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGGCCCGAGCATTAGCAGCGCTTTTTCAAAAACGCCACTTAAAGCCAGAGC
ATTAGCGGCACTTTTTC
Found at i:18242641 original size:42 final size:42
Alignment explanation
Indices: 18242571--18242717 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 42
18242561 TTTACTCTCA
* * * * * *
18242571 TGAGCTTCAGTTTAGCCTTTCTGAGTTTCAATTCGGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCTTC
* *
18242613 TGAGCTTCAGTTTAACCCTAATGGGTTTCAATTTAGCTCTTC
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCTTC
** ** *
18242655 TGAGCTTCAAATTAACCCTTATGGGTTTCCGTTCAGCT-TCTA
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCT-TC
* *
18242697 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCAGTTTAACCCTTA
18242718 CGGGCTCCTG
Statistics
Matches: 85, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 84 0.99
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTTATGGGTTTCAATTCAGCTCTTC
Found at i:18242664 original size:21 final size:21
Alignment explanation
Indices: 18242571--18242664 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 21
18242561 TTTACTCTCA
*
18242571 TGAGCTTCAGTTTAGC-CTTTC
1 TGAGCTTCAATTTAGCTC-TTC
* ** *
18242592 TGAGTTTCAATTCGGCTCTTT
1 TGAGCTTCAATTTAGCTCTTC
* * * **
18242613 TGAGCTTCAGTTTAACCCTAA
1 TGAGCTTCAATTTAGCTCTTC
* *
18242634 TGGGTTTCAATTTAGCTCTTC
1 TGAGCTTCAATTTAGCTCTTC
18242655 TGAGCTTCAA
1 TGAGCTTCAA
18242665 ATTAACCCTT
Statistics
Matches: 50, Mismatches: 22, Indels: 2
0.68 0.30 0.03
Matches are distributed among these distances:
21 49 0.98
22 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (21 bp):
TGAGCTTCAATTTAGCTCTTC
Found at i:18251025 original size:34 final size:34
Alignment explanation
Indices: 18250982--18251050 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
18250972 TCACCTTTTC
18250982 CATGAAGAAGATGAGCCAATTCATCCAATTTCAT
1 CATGAAGAAGATGAGCCAATTCATCCAATTTCAT
* *
18251016 CATGAAGAAGATGAGCTAATTCATCTAATTTCAT
1 CATGAAGAAGATGAGCCAATTCATCCAATTTCAT
18251050 C
1 C
18251051 TTTTAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (34 bp):
CATGAAGAAGATGAGCCAATTCATCCAATTTCAT
Found at i:18252700 original size:20 final size:20
Alignment explanation
Indices: 18252677--18252870 Score: 79
Period size: 20 Copynumber: 9.8 Consensus size: 20
18252667 TACTGGTAGT
18252677 TTGTCTACAATACTGACAGC
1 TTGTCTACAATACTGACAGC
**
18252697 TTGTCTACAATACTG-GTGTC
1 TTGTCTACAATACTGACAG-C
* ** *
18252717 TTGTCGACAATACTGGTAGT
1 TTGTCTACAATACTGACAGC
* * *
18252737 TTATCTGCAATACTGACAAC
1 TTGTCTACAATACTGACAGC
* * ** *
18252757 TTGTTTGCAATGTTGGTC-GC
1 TTGTCTACAATACT-GACAGC
* * *
18252777 TTGTCCACAATACTGATAAC
1 TTGTCTACAATACTGACAGC
* ***
18252797 TTGTCTGCAATACTGGTGGC
1 TTGTCTACAATACTGACAGC
* * * *
18252817 TTGTCAACAACATTGACAGT
1 TTGTCTACAATACTGACAGC
* * *
18252837 TTATCTGCAATACTGGC-GC
1 TTGTCTACAATACTGACAGC
* *
18252856 TTGTTTGCAATACTG
1 TTGTCTACAATACTG
18252871 GTGGCTTGTC
Statistics
Matches: 121, Mismatches: 49, Indels: 9
0.68 0.27 0.05
Matches are distributed among these distances:
19 16 0.13
20 102 0.84
21 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTCTACAATACTGACAGC
Found at i:18252748 original size:40 final size:40
Alignment explanation
Indices: 18252667--18252751 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
18252657 AAGGAGGAAG
* *
18252667 TACTGGTAGTTTGTCTACAATACTGACAGCTTGTCTACAA
1 TACTGGTAGTTTGTCGACAATACTGACAGCTTATCTACAA
** * *
18252707 TACTGGT-GTCTTGTCGACAATACTGGTAGTTTATCTGCAA
1 TACTGGTAGT-TTGTCGACAATACTGACAGCTTATCTACAA
18252747 TACTG
1 TACTG
18252752 ACAACTTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (40 bp):
TACTGGTAGTTTGTCGACAATACTGACAGCTTATCTACAA
Found at i:18252748 original size:60 final size:60
Alignment explanation
Indices: 18252667--18252811 Score: 175
Period size: 60 Copynumber: 2.4 Consensus size: 60
18252657 AAGGAGGAAG
* * *
18252667 TACTGGTAGTTTGTCTACAATACTGACAGCTTGTCTACAATACTGGT-GTCTTGTCGACAA
1 TACTGGTAGTTTGTCTGCAATACTGACAACTTGTCTACAATACTGGTCG-CTTGTCCACAA
* * * **
18252727 TACTGGTAGTTTATCTGCAATACTGACAACTTGTTTGCAATGTTGGTCGCTTGTCCACAA
1 TACTGGTAGTTTGTCTGCAATACTGACAACTTGTCTACAATACTGGTCGCTTGTCCACAA
* **
18252787 TACTGATAACTTGTCTGCAATACTG
1 TACTGGTAGTTTGTCTGCAATACTG
18252812 GTGGCTTGTC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 71 0.99
61 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (60 bp):
TACTGGTAGTTTGTCTGCAATACTGACAACTTGTCTACAATACTGGTCGCTTGTCCACAA
Found at i:18252788 original size:40 final size:40
Alignment explanation
Indices: 18252744--18252859 Score: 126
Period size: 40 Copynumber: 2.9 Consensus size: 40
18252734 AGTTTATCTG
* ** *
18252744 CAATACTGACAACTTGTTTGCAATGTTGGTCGCTTGTCCA
1 CAATACTGACAACTTGTCTGCAATACTGGTCGCTTGTCAA
* *
18252784 CAATACTGATAACTTGTCTGCAATACTGGTGGCTTGTCAA
1 CAATACTGACAACTTGTCTGCAATACTGGTCGCTTGTCAA
* * ** *
18252824 CAACATTGACAGTTTATCTGCAATACTGG-CGCTTGT
1 CAATACTGACAACTTGTCTGCAATACTGGTCGCTTGT
18252860 TTGCAATACT
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 6 0.10
40 57 0.90
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
CAATACTGACAACTTGTCTGCAATACTGGTCGCTTGTCAA
Found at i:18254938 original size:39 final size:38
Alignment explanation
Indices: 18254835--18254938 Score: 104
Period size: 39 Copynumber: 2.7 Consensus size: 38
18254825 TGAATGGTAT
*
18254835 GTGCCCCTGTTTGTACTTCGGTACCCCTGAAAGAACGTAC
1 GTGCCCCTGTTTGTACTTCGGTA-CCCTGAAAG-ACCTAC
* ** *
18254875 GTGCCCATG-TTGTACTTCATTACCCTGAATG-CCTAAAC
1 GTGCCCCTGTTTGTACTTCGGTACCCTGAAAGACCT--AC
*
18254913 GTGCCCCCGTTTGTACTTCGGTACCC
1 GTGCCCCTGTTTGTACTTCGGTACCC
18254939 CTAAATCCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
36 2 0.04
38 17 0.33
39 25 0.48
40 8 0.15
ACGTcount: A:0.18, C:0.32, G:0.20, T:0.30
Consensus pattern (38 bp):
GTGCCCCTGTTTGTACTTCGGTACCCTGAAAGACCTAC
Found at i:18260630 original size:50 final size:51
Alignment explanation
Indices: 18260528--18260721 Score: 194
Period size: 50 Copynumber: 3.7 Consensus size: 51
18260518 GGTAATGAGA
* *
18260528 TCCCATGTAAGACCTTGTCTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--TGAG---ATGAGAGG
18260584 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-GAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
** * * * * * **
18260634 TCCCCCGTAAGACCATGTCTAGGACCTGGCATAGGCA-CTGATATAAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
* * * *
18260684 TCCCATGTAAGACAATATCTGGGATATGACATTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
18260722 TACAGAAAAC
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 75 0.65
53 3 0.03
56 37 0.32
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATGAGAGG
Found at i:18260755 original size:23 final size:23
Alignment explanation
Indices: 18260725--18260770 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18260715 TTGGCATTAC
18260725 AGAAAACATCCCATGTAAGACTA
1 AGAAAACATCCCATGTAAGACTA
18260748 AGAAAACATCCCATGTAAGACTA
1 AGAAAACATCCCATGTAAGACTA
18260771 TGTCTGGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (23 bp):
AGAAAACATCCCATGTAAGACTA
Found at i:18261009 original size:12 final size:12
Alignment explanation
Indices: 18260992--18261030 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18260982 ATGAGTTATT
18260992 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
18261004 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
18261016 TAAGTGAGTAAG
1 TAAGTAAGCAAG
18261028 TAA
1 TAA
18261031 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:18263477 original size:50 final size:50
Alignment explanation
Indices: 18263418--18263523 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
18263408 TATTGAGGTT
* * * *
18263418 ATGAAAGGTCCCACATAAGAACATGTCTTGGACGTGGCATTGGCACCGAG
1 ATGAGAGGTCCCACATAAGAACATGTCTGGGACATGGCATGGGCACCGAG
* * * *
18263468 ATGAGAGGTCCCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACATAAGAACATGTCTGGGACATGGCATGGGCACCGAG
18263518 ATGAGA
1 ATGAGA
18263524 ACTCCCATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGAACATGTCTGGGACATGGCATGGGCACCGAG
Found at i:18263536 original size:50 final size:50
Alignment explanation
Indices: 18263433--18263611 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
18263423 AGGTCCCACA
* * * * **
18263433 TAAGAACATGTCTTGGACGTGGCATTGGCACCGAGATGAGAGGTCCC-TCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAACTCCCAT-G
*
18263483 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAACTCCCATG
* * * * *
18263533 TAAGACCATATCTGGGATATGGAATTGGTA--GTATAGGA-AACATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATGAGAAC-TCCCATG
* * *
18263582 TAAGACCATGTTTGGGACAGGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
18263612 TGTTATTATC
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.04
49 35 0.33
50 66 0.62
51 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAACTCCCATG
Found at i:18263838 original size:20 final size:20
Alignment explanation
Indices: 18263813--18263862 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18263803 TGAATTATTT
18263813 AAGTAAGCAAATAAGTAAAC
1 AAGTAAGCAAATAAGTAAAC
* *
18263833 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AATAAGTAAAC
18263853 AAG-AAGCAAA
1 AAGTAAGCAAA
18263863 GATCATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.60, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAATAAGTAAAC
Found at i:18268059 original size:27 final size:27
Alignment explanation
Indices: 18267983--18268061 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
18267973 ACTAAGGTGG
* * * *
18267983 TCTATTCAAAGCATGCCACAAAGCCTA
1 TCTATACAAAGTATGCCACAAAGGCGA
** *
18268010 TCTATACAAAGTACACCAAAAAGGCGA
1 TCTATACAAAGTATGCCACAAAGGCGA
18268037 T-TCATACAAAGTATGCCACAAAGGC
1 TCT-ATACAAAGTATGCCACAAAGGC
18268062 TGATAGGATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.42, C:0.25, G:0.14, T:0.19
Consensus pattern (27 bp):
TCTATACAAAGTATGCCACAAAGGCGA
Found at i:18273195 original size:14 final size:14
Alignment explanation
Indices: 18273176--18273224 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
18273166 CGTATCAGGT
*
18273176 AAATTTCGAGGATG
1 AAATTTCGAGGATA
* *
18273190 AAATTTTGAGGACA
1 AAATTTCGAGGATA
18273204 AAATTTCGAGGATA
1 AAATTTCGAGGATA
18273218 AAATTTC
1 AAATTTC
18273225 TTTTAAGGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (14 bp):
AAATTTCGAGGATA
Done.