Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 34 of 143
Found at i:10092254 original size:50 final size:50
Alignment explanation
Indices: 10092151--10092270 Score: 136
Period size: 50 Copynumber: 2.4 Consensus size: 50
10092141 CATAATGGAA
* * *
10092151 AATCTCATACACCTAAAGCTGTAGAGGGGCAGATTAAAGATGCATTGGTG
1 AATCTCATACACCTAAAGCTGTAGAGGAGCAGATTAAAGATGCATAGGCG
* *
10092201 AATCTCATTCACCTAAAGCTGTAGAGGAGCAGATTGAAG-TCGCA-AGGACG
1 AATCTCATACACCTAAAGCTGTAGAGGAGCAGATTAAAGAT-GCATAGG-CG
* * *
10092251 AATCTTATACTCCTGAAGCT
1 AATCTCATACACCTAAAGCT
10092271 AAGGTGGAGT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 3 0.05
50 56 0.95
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (50 bp):
AATCTCATACACCTAAAGCTGTAGAGGAGCAGATTAAAGATGCATAGGCG
Found at i:10092339 original size:39 final size:40
Alignment explanation
Indices: 10092296--10092425 Score: 133
Period size: 39 Copynumber: 3.3 Consensus size: 40
10092286 TACAACCTCG
* *
10092296 AATC-TTTACCCTAACCAGAGGGTAGATTGAAGACTATCT
1 AATCTTTTACCCTAACAAGAGGGTAGATTGAAGACAATCT
* * * * * *
10092335 AATCTCTTACCCCAATTATG-GGATAGATTGAAG-CAATCC
1 AATCTTTTACCCTAA-CAAGAGGGTAGATTGAAGACAATCT
* *
10092374 AATCTTTTACCCTAACAAGAAGGAAGATTG-AGACAATCT
1 AATCTTTTACCCTAACAAGAGGGTAGATTGAAGACAATCT
10092413 AATCTTTTACCCT
1 AATCTTTTACCCT
10092426 TAAAGTTATA
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 4 0.06
39 46 0.65
40 20 0.28
41 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (40 bp):
AATCTTTTACCCTAACAAGAGGGTAGATTGAAGACAATCT
Found at i:10092996 original size:4 final size:4
Alignment explanation
Indices: 10092987--10093011 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10092977 TTTTTTATAA
10092987 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
10093012 CATAAATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:10093964 original size:30 final size:29
Alignment explanation
Indices: 10093920--10093984 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
10093910 GCTTTATTTT
10093920 AAAATTATTTTTAACCCCCAAACTATCTA
1 AAAATTATTTTTAACCCCCAAACTATCTA
* * *
10093949 AAAATTATGTTTTAACCCCTAAACTTTTTA
1 AAAATTAT-TTTTAACCCCCAAACTATCTA
10093979 AAAATT
1 AAAATT
10093985 TCTATTTGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTATTTTTAACCCCCAAACTATCTA
Found at i:10094024 original size:30 final size:30
Alignment explanation
Indices: 10093963--10094162 Score: 138
Period size: 30 Copynumber: 6.6 Consensus size: 30
10093953 TTATGTTTTA
* ** **
10093963 ACCCCTAAACTTTTTAAAAATTTCTATTTG
1 ACCCTTAAACTTTCAAAAAATTTGAATTTG
* * *
10093993 ACCCTTAAATTTTCCAAACATTTGAATTTG
1 ACCCTTAAACTTTCAAAAAATTTGAATTTG
* * * *
10094023 ACCCCTAAACTTTAAAAAAATTCGAATTTA
1 ACCCTTAAACTTTCAAAAAATTTGAATTTG
* *
10094053 ACCCCTAAAATTTCTAAAAAA-TTGAATTTG
1 ACCCTTAAACTTTC-AAAAAATTTGAATTTG
* * * *
10094083 A-CCTCAAAATTTTCCAAAAATTCT-AATTTT
1 ACCCT-TAAACTTTCAAAAAATT-TGAATTTG
10094113 ACCCTTAAACTTTCAAAAAATTATG-ATTTG
1 ACCCTTAAACTTTCAAAAAATT-TGAATTTG
** *
10094143 ACTTTTAAAGTTTTCAAAAA
1 ACCCTTAAA-CTTTCAAAAA
10094163 TGCAAATTTG
Statistics
Matches: 132, Mismatches: 31, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
29 7 0.05
30 106 0.80
31 19 0.14
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (30 bp):
ACCCTTAAACTTTCAAAAAATTTGAATTTG
Found at i:10094042 original size:90 final size:91
Alignment explanation
Indices: 10093948--10094138 Score: 228
Period size: 90 Copynumber: 2.1 Consensus size: 91
10093938 CAAACTATCT
* * * * * *
10093948 AAAAATTATG-TTTTAACCCCTAAACTTTTTAAAAATTTCTATTTGACC-CTTAAATTTTCCAAA
1 AAAAATTATGAATTTAACCCCTAAAATTTCTAAAAAATTCAATTTGACCTC-AAAATTTTCCAAA
*
10094011 CATT-TGAATTTGACCCCTAAACTTTAA
65 AATTCT-AATTTGACCCCTAAACTTTAA
* *
10094038 AAAAATT-CGAATTTAACCCCTAAAATTTCTAAAAAATTGAATTTGACCTCAAAATTTTCCAAAA
1 AAAAATTATGAATTTAACCCCTAAAATTTCTAAAAAATTCAATTTGACCTCAAAATTTTCCAAAA
* * *
10094102 ATTCTAATTTTACCCTTAAACTTTCA
66 ATTCTAATTTGACCCCTAAACTTTAA
10094128 AAAAATTATGA
1 AAAAATTATGA
10094139 TTTGACTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 1 0.01
90 79 0.94
91 4 0.05
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.37
Consensus pattern (91 bp):
AAAAATTATGAATTTAACCCCTAAAATTTCTAAAAAATTCAATTTGACCTCAAAATTTTCCAAAA
ATTCTAATTTGACCCCTAAACTTTAA
Found at i:10094161 original size:60 final size:59
Alignment explanation
Indices: 10093968--10094177 Score: 183
Period size: 60 Copynumber: 3.5 Consensus size: 59
10093958 TTTTAACCCC
* * * * *
10093968 TAAACTTTTTAAAAATTTCT-ATTTGACCCTTAAATTTTCCAAACATTTGAATTTGACCCC
1 TAAACTTTTCAAAAA-TTCTAATTTGACCCTTAAAATTTCAAAAAATTTGAATTTGA-CCT
** * * *
10094028 TAAACTTTAAAAAAATTCGAATTTAACCCCTAAAATTTCTAAAAAA-TTGAATTTGACCT
1 TAAACTTTTCAAAAATTCTAATTTGACCCTTAAAATTTC-AAAAAATTTGAATTTGACCT
* * * * *
10094087 CAAAATTTTCCAAAAATTCTAATTTTACCCTTAAACTTTCAAAAAATTATG-ATTTGACTTT
1 TAAACTTTT-CAAAAATTCTAATTTGACCCTTAAAATTTCAAAAAATT-TGAATTTGAC-CT
* * *
10094148 TAAAGTTTTCAAAAATGCAAATTTGACCCT
1 TAAACTTTTCAAAAATTCTAATTTGACCCT
10094178 GTTTTAATGT
Statistics
Matches: 121, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
59 17 0.14
60 90 0.74
61 14 0.12
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (59 bp):
TAAACTTTTCAAAAATTCTAATTTGACCCTTAAAATTTCAAAAAATTTGAATTTGACCT
Found at i:10098898 original size:15 final size:15
Alignment explanation
Indices: 10098878--10098908 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10098868 TATATTATTA
10098878 TACAATAAATGCTAT
1 TACAATAAATGCTAT
10098893 TACAATAAATGCTAT
1 TACAATAAATGCTAT
10098908 T
1 T
10098909 TTGGTAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TACAATAAATGCTAT
Found at i:10102540 original size:17 final size:17
Alignment explanation
Indices: 10102518--10102551 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10102508 CACTAACACT
*
10102518 AAAATGCAATGACAATG
1 AAAATGCAACGACAATG
10102535 AAAATGCAACGACAATG
1 AAAATGCAACGACAATG
10102552 CTTACTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.18, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATG
Found at i:10103631 original size:21 final size:21
Alignment explanation
Indices: 10103607--10103662 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
10103597 CTTTAGACCA
* *
10103607 CTACCTATACAAGTGACAGTT
1 CTACCAATACAAGTGACACTT
*
10103628 CTACCAATACAAGTGACTCTT
1 CTACCAATACAAGTGACACTT
*
10103649 CTACCAAAACAAGT
1 CTACCAATACAAGT
10103663 CTTACTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.25
Consensus pattern (21 bp):
CTACCAATACAAGTGACACTT
Found at i:10104402 original size:52 final size:53
Alignment explanation
Indices: 10104345--10104528 Score: 235
Period size: 53 Copynumber: 3.5 Consensus size: 53
10104335 TTCGCATTTG
* * * * **
10104345 ATAACTCATGATGACACAGAGTTATCGGACCTTTAATACATGAT-GGATTTGT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
* * *
10104397 GTAACTCCCGATGACACAAAGTCATCAGACCTTTAATCCATGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
* * * * *
10104450 ATAATTTACGATGACACATAGTCATCGAACCTTTAATCCAAGATAGGATTCAT
1 ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
10104503 ATAACTCACGATGACACAAAGTCATC
1 ATAACTCACGATGACACAAAGTCATC
10104529 AAACTTTTAA
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
52 37 0.33
53 74 0.67
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (53 bp):
ATAACTCACGATGACACAAAGTCATCGGACCTTTAATCCATGATAGGATTCAT
Found at i:10114485 original size:116 final size:116
Alignment explanation
Indices: 10114281--10114498 Score: 384
Period size: 116 Copynumber: 1.9 Consensus size: 116
10114271 TCCAAGATGT
*
10114281 AATAGATCCAGCCAGTAATCCCAAAAACCATGTTCTCGCTTTACCCTAGAATGAATAAGGAAATA
1 AATAGATCCAGCCAGTAATCCCAAAAACCATGTTCTCACTTTACCCTAGAATGAATAAGGAAATA
10114346 ATTGCATTTTCAAGGCATCATCAGGGACACCATGTTGACTAAAGGATGCAC
66 ATTGCATTTTCAAGGCATCATCAGGGACACCATGTTGACTAAAGGATGCAC
* **
10114397 AATAGATCCAGCCGGTAATCCCAGGAACCATGTTCTCACTTTACCCT-GCAATGAATAAGGAAAT
1 AATAGATCCAGCCAGTAATCCCAAAAACCATGTTCTCACTTTACCCTAG-AATGAATAAGGAAAT
10114461 AATTGCATTTTCAAGGCATCATCAGGGACACCATGTTG
65 AATTGCATTTTCAAGGCATCATCAGGGACACCATGTTG
10114499 CATTTTCAAC
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
115 1 0.01
116 96 0.99
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (116 bp):
AATAGATCCAGCCAGTAATCCCAAAAACCATGTTCTCACTTTACCCTAGAATGAATAAGGAAATA
ATTGCATTTTCAAGGCATCATCAGGGACACCATGTTGACTAAAGGATGCAC
Found at i:10122520 original size:334 final size:333
Alignment explanation
Indices: 10121912--10122578 Score: 1228
Period size: 334 Copynumber: 2.0 Consensus size: 333
10121902 AAGGAGGAGA
10121912 AGGTAGAAGAGAAAGAAGACCTGGCTCCATCTGTTATGAATCAGGCCGAGGCTATGACATTCAGC
1 AGGTAGAAGAGAAAGAAGACCTGGCTCCATCTGTTATGAATCAGGCCGAGGCTATGACATTCAGC
*
10121977 AACGAGGATTTTAATCCTCTGGCTATTGTGCCTTATATGGCACCACTTGCAGAAATTCATCATTC
66 AACGAGGATTTTAATCCTCTGGCTATTGTGCCTTATATGGCACCACTTGCAGAAATTCATCATCC
10122042 GAATGTTACAGCTGATAAAGCCAGCATACAATAGAACCTGGAGGAGTAATTCACCGCCTCGGTTG
131 GAATGTTACAGCTGATAAAGCCAGCATACAATAGAACCTGGAGGAGTAATTCACCGCCTCGGTTG
10122107 AACCAACGAAAAGGAAACGTAAGCGCAAAGACAAAAGGAAGCACAAGGAGGAGCGCCCAAAGAAA
196 AACCAACGAAAAGGAAACGTAAGCGCAAAGACAAAAGGAAGCACAAGGAGGAGCGCCCAAAGAAA
*
10122172 AAGAAAAAGAGCAAGGCAGTCACATCTTCGGCTACGACACACTGAGTTAGTATTTACTTTTTAGT
261 AAGAAAAAGAGCAAGGCAGTCACATCTTCGGCTACGACACACTAAGTTAGTATTTACTTTTTAGT
10122237 ACTTAGTT
326 ACTTAGTT
* *
10122245 AGGTAGAAGAGAAAGAAGACCTGGCTCCATCTGTTGTGAATCAGGCCGAGGCTATGACATTTAGC
1 AGGTAGAAGAGAAAGAAGACCTGGCTCCATCTGTTATGAATCAGGCCGAGGCTATGACATTCAGC
10122310 AAACGAGGATTTTAATCCTCTGGCTATTGTGCCTTATATGGCACCACTTGCAGAAATTCATCATC
66 -AACGAGGATTTTAATCCTCTGGCTATTGTGCCTTATATGGCACCACTTGCAGAAATTCATCATC
* *
10122375 CGGATGTTACAGCTGATAAAGCCAGCATACAATCA-AACTTGGAGGAGTAATTCACCGCCTCGGT
130 CGAATGTTACAGCTGATAAAGCCAGCATACAAT-AGAACCTGGAGGAGTAATTCACCGCCTCGGT
*
10122439 TGAACCAACGAAAAGGAAACGTAAGTGCAAAGACAAAAGGAAGCACAAGGAGGAGCGCCCAAAGA
194 TGAACCAACGAAAAGGAAACGTAAGCGCAAAGACAAAAGGAAGCACAAGGAGGAGCGCCCAAAGA
* *
10122504 AAAAGAAAAAGAGCAAGGCAGTCACATTTTCGGCTACGACACACTAAGTTAGTATTTATTTTTTA
259 AAAAGAAAAAGAGCAAGGCAGTCACATCTTCGGCTACGACACACTAAGTTAGTATTTACTTTTTA
10122569 GTACTTAGTT
324 GTACTTAGTT
10122579 TAGTTTAGTT
Statistics
Matches: 323, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
333 63 0.20
334 259 0.80
335 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (333 bp):
AGGTAGAAGAGAAAGAAGACCTGGCTCCATCTGTTATGAATCAGGCCGAGGCTATGACATTCAGC
AACGAGGATTTTAATCCTCTGGCTATTGTGCCTTATATGGCACCACTTGCAGAAATTCATCATCC
GAATGTTACAGCTGATAAAGCCAGCATACAATAGAACCTGGAGGAGTAATTCACCGCCTCGGTTG
AACCAACGAAAAGGAAACGTAAGCGCAAAGACAAAAGGAAGCACAAGGAGGAGCGCCCAAAGAAA
AAGAAAAAGAGCAAGGCAGTCACATCTTCGGCTACGACACACTAAGTTAGTATTTACTTTTTAGT
ACTTAGTT
Found at i:10123319 original size:22 final size:22
Alignment explanation
Indices: 10123291--10123334 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10123281 GATTTAAGAT
* *
10123291 TTAAAGCATGATGCTAGCATTA
1 TTAAAGCATGATACTAGAATTA
10123313 TTAAAGCATGATACTAGAATTA
1 TTAAAGCATGATACTAGAATTA
10123335 GTGAAGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (22 bp):
TTAAAGCATGATACTAGAATTA
Found at i:10130641 original size:43 final size:44
Alignment explanation
Indices: 10130521--10130644 Score: 177
Period size: 43 Copynumber: 2.9 Consensus size: 44
10130511 TGACATTGAA
*
10130521 AGGAACACTGTTTCCTAAATATTGAAT-GTATGT-AATGAATGAT
1 AGGAACACTGTTTCCT-AATATTGAATAGTATGTGATTGAATGAT
10130564 AGGAACACTGTTTCCTAATATTGAA-AGTATGTGATTGAATGAAT
1 AGGAACACTGTTTCCTAATATTGAATAGTATGTGATTGAATG-AT
*
10130608 A-GAACAATGTTTCCTAATATT-AATAGTATGTGATTGA
1 AGGAACACTGTTTCCTAATATTGAATAGTATGTGATTGA
10130645 TTGAGAGCAT
Statistics
Matches: 75, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
42 17 0.23
43 55 0.73
44 3 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (44 bp):
AGGAACACTGTTTCCTAATATTGAATAGTATGTGATTGAATGAT
Found at i:10131938 original size:13 final size:13
Alignment explanation
Indices: 10131920--10131946 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10131910 ATAGTAGATC
10131920 CAGAAGGGTGCTT
1 CAGAAGGGTGCTT
10131933 CAGAAGGGTGCTT
1 CAGAAGGGTGCTT
10131946 C
1 C
10131947 CATTGAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (13 bp):
CAGAAGGGTGCTT
Found at i:10137511 original size:188 final size:191
Alignment explanation
Indices: 10137193--10137576 Score: 542
Period size: 188 Copynumber: 2.0 Consensus size: 191
10137183 TTTTTTTGAT
* * *
10137193 ATATTTTAGTTAATTCATTGAATTTACATGCACATTAAATAAGAAAAAAACTAGTATATATATAT
1 ATATTTTAATTAAGTCATTGAATTAACATGCACATTAAATAAGAAAAAAACTAGTATATATATAT
* *** *
10137258 GATAAAAAGGTGACAAAAAAGGAATGTTAGAAATAATTTTTTTTTTTACTTTTTTAATGTAAAAA
66 GATAAAAAGGTGACAAAAAAGGAATGTTAAAAATAAAGATTTTATTTACTTTTTTAATGTAAAAA
* *
10137323 TAATAATTTTATTTGGATACATTTCCATAT-AAAGAAATGTACGTAAGCTTTATAAGG-AA
131 TAATAATTTTATTTGGATACATTACCATATAAAAGAAATGTACATAAGCTTTATAAGGAAA
* * *
10137382 ATATTTTAATTAAGTCATTGAATTAACATGCACATTACATAA-CAAAAAACTAGTGTATATATAT
1 ATATTTTAATTAAGTCATTGAATTAACATGCACATTAAATAAGAAAAAAACTAGTATATATATAT
* * * * *
10137446 GGTAAAAAGGTGACAGAATATGAATGTTAAAAATAAAGATTTTATTTAGTTTTTTAA-GATAAAA
66 GATAAAAAGGTGACAAAAAAGGAATGTTAAAAATAAAGATTTTATTTACTTTTTTAATG-TAAAA
* * *
10137510 ATATTGATTTTATTTGGATACATTACCATATAAAAGAAATGTACATAAGTTTTATAAGGAAA
130 ATAATAATTTTATTTGGATACATTACCATATAAAAGAAATGTACATAAGCTTTATAAGGAAA
10137572 ATATT
1 ATATT
10137577 GCAAATTGAA
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
187 1 0.01
188 100 0.58
189 63 0.37
190 7 0.04
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (191 bp):
ATATTTTAATTAAGTCATTGAATTAACATGCACATTAAATAAGAAAAAAACTAGTATATATATAT
GATAAAAAGGTGACAAAAAAGGAATGTTAAAAATAAAGATTTTATTTACTTTTTTAATGTAAAAA
TAATAATTTTATTTGGATACATTACCATATAAAAGAAATGTACATAAGCTTTATAAGGAAA
Found at i:10138012 original size:15 final size:15
Alignment explanation
Indices: 10137992--10138022 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10137982 ATTTCGCCTC
10137992 TACTCTTATTCAATA
1 TACTCTTATTCAATA
10138007 TACTCTTATTCAATA
1 TACTCTTATTCAATA
10138022 T
1 T
10138023 TAACTAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (15 bp):
TACTCTTATTCAATA
Found at i:10138703 original size:73 final size:73
Alignment explanation
Indices: 10138584--10138730 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
10138574 TTAGACATCA
* *
10138584 CTCTTGACAAAAAAATGGCTTAGGTACATAAACGGGATAAACACTGAAGTTTAGGGCCAAATTTC
1 CTCTTGACAAAAAAAAGGCTTAAGTACATAAACGGGATAAACACTGAAGTTTAGGGCCAAATTTC
10138649 ATTCAAGG
66 ATTCAAGG
* * *
10138657 CTCTTGTCAAAAAAAAGGTTTAAGTACCTAAACGGGATAAACACTGAAGTTTAGGGCCAAATTTC
1 CTCTTGACAAAAAAAAGGCTTAAGTACATAAACGGGATAAACACTGAAGTTTAGGGCCAAATTTC
10138722 ATTCAAGG
66 ATTCAAGG
10138730 C
1 C
10138731 CCTATATACA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (73 bp):
CTCTTGACAAAAAAAAGGCTTAAGTACATAAACGGGATAAACACTGAAGTTTAGGGCCAAATTTC
ATTCAAGG
Found at i:10141254 original size:13 final size:13
Alignment explanation
Indices: 10141236--10141260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10141226 TAAGTTAAAA
10141236 ATGCTAAAAATGC
1 ATGCTAAAAATGC
10141249 ATGCTAAAAATG
1 ATGCTAAAAATG
10141261 ATAAAATGGG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:10144812 original size:13 final size:13
Alignment explanation
Indices: 10144794--10144818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10144784 TAAGTTAAAA
10144794 ATGCTAAAAATGC
1 ATGCTAAAAATGC
10144807 ATGCTAAAAATG
1 ATGCTAAAAATG
10144819 TTACAATGGG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:10146349 original size:200 final size:199
Alignment explanation
Indices: 10145968--10146367 Score: 746
Period size: 200 Copynumber: 2.0 Consensus size: 199
10145958 CCCCAATTGC
* *
10145968 ATAGATTTGTGGTTGTATTTATCGATGAGATATTAATCTATTCTAACACAGAGTCAGAGCATACT
1 ATAGATTTGTGGTTCTATTTATCAATGAGATATTAATCTATTCTAACACAGAGTCAGAGCATACT
*
10146033 CATCATTTGAAAGAAGTGTTAAATTTTTTTGAGAGAAACAGTTGTATGCAAAGTACAGTAAATGT
66 CATCATTTGAAAGAAGTGTTAAATTTTTTTGAGAGAAACAGCTGTATGCAAAGTACAGTAAATGT
10146098 GAGTTTTAGCTTCGAGAGGCTAAATTTTTGGGTCATGTGGTATCTCCGGAAGGAATACGGGTTGA
131 GAGTTTTAGCTTCGAGAGGCTAAATTTTTGGGTCATGTGGTATCTCCGGAAGGAATACGGGTTGA
10146163 TCTG
196 TCTG
*
10146167 ATAGATTTGTGGTTCTATTTATCAATGAGATATTAATCTATTCTAAGACAGAGTCAGAGCATACT
1 ATAGATTTGTGGTTCTATTTATCAATGAGATATTAATCTATTCTAACACAGAGTCAGAGCATACT
10146232 CATCATTTGAAAGAAGTGTTAAATTTTTTTTGAGAGAAACAGCTGTATGCAAAGTACAGTAAATG
66 CATCATTTGAAAGAAGTGTTAAA-TTTTTTTGAGAGAAACAGCTGTATGCAAAGTACAGTAAATG
*
10146297 TGAGTTTTAGCTTCGAGAGGCTAGATTTTTGGGTCATGTGGTATCTCCGGAAGGAATACGGGTTG
130 TGAGTTTTAGCTTCGAGAGGCTAAATTTTTGGGTCATGTGGTATCTCCGGAAGGAATACGGGTTG
10146362 ATCTG
195 ATCTG
10146367 A
1 A
10146368 GTAAAGTTTC
Statistics
Matches: 195, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
199 85 0.44
200 110 0.56
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (199 bp):
ATAGATTTGTGGTTCTATTTATCAATGAGATATTAATCTATTCTAACACAGAGTCAGAGCATACT
CATCATTTGAAAGAAGTGTTAAATTTTTTTGAGAGAAACAGCTGTATGCAAAGTACAGTAAATGT
GAGTTTTAGCTTCGAGAGGCTAAATTTTTGGGTCATGTGGTATCTCCGGAAGGAATACGGGTTGA
TCTG
Found at i:10153017 original size:25 final size:24
Alignment explanation
Indices: 10152976--10153023 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10152966 TGTGTCGACA
10152976 AAGAAGAAGTTAACAATTGTGAATT
1 AAGAAGAAGTTAACAATTG-GAATT
*
10153001 AAGACAGAA-TTAGCAATTGGAAT
1 AAGA-AGAAGTTAACAATTGGAAT
10153024 CTTTGGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 13 0.62
26 4 0.19
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (24 bp):
AAGAAGAAGTTAACAATTGGAATT
Found at i:10156021 original size:20 final size:21
Alignment explanation
Indices: 10155985--10156023 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10155975 GCATTTTTTA
*
10155985 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
10156006 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
10156024 AATTCCTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:10172736 original size:30 final size:30
Alignment explanation
Indices: 10172446--10172728 Score: 331
Period size: 30 Copynumber: 9.5 Consensus size: 30
10172436 TTTTGAGAAT
** **
10172446 TTTAGGGGCCAAAATGTAATTTTACAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
10172476 TTTAGGGGTTAAAATGTAACTTTGGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
10172506 TTTAGGGGTTAAAATGTAATTTTGGAAATA-
1 TTTAGGGGTTAAAATGTAATTTTGGAAA-AG
* *
10172536 TTTAGGGGTTAAAATATAATTTTGAAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
10172566 TTAAGTGGTTAAAATGTAATTTTGGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
10172596 TTTAGGGGTCAAAATGAAATTTTGGAAACA-
1 TTTAGGGGTTAAAATGTAATTTTGGAAA-AG
* * *
10172626 TTTAGAGGTCAAAATGTAATTTTGGAAAAT
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*
10172656 TTTA-GGGTCAAAATGTAATTTTGG-AAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * ** *
10172684 TTTAGGGGTCAAAATATAATTTTGGTGACG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
10172714 TTTAGGGGTTAAAAT
1 TTTAGGGGTTAAAAT
10172729 ATTATTTTTA
Statistics
Matches: 221, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
28 7 0.03
29 40 0.18
30 172 0.78
31 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:10174641 original size:37 final size:37
Alignment explanation
Indices: 10174600--10174671 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
10174590 CCGCTTTTTT
10174600 GATTTAATCCACTTCTATGCATCTCATCAGGAAGACG
1 GATTTAATCCACTTCTATGCATCTCATCAGGAAGACG
** ** * *
10174637 GATTTGGTTTACTTCTCTGTATCTCATCAGGAAGA
1 GATTTAATCCACTTCTATGCATCTCATCAGGAAGA
10174672 TGACCACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (37 bp):
GATTTAATCCACTTCTATGCATCTCATCAGGAAGACG
Found at i:10174697 original size:85 final size:85
Alignment explanation
Indices: 10174552--10174728 Score: 212
Period size: 85 Copynumber: 2.1 Consensus size: 85
10174542 TCTCTTCATT
* * * * *
10174552 GATTTGGTCTACTTCTTTGTATCTTCTCAAGAAGATGACCGCTTTTTTGATTTAATCCACTTCTA
1 GATTTGGTCTACTTCTCTGTATCTTCTCAAGAAGATGACCACTTTATTCATTTAACCCACTTCTA
10174617 TGCATCTCATCAGGAAGACG
66 TGCATCTCATCAGGAAGACG
* * * *
10174637 GATTTGGTTTACTTCTCTGTATC-TCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCT
1 GATTTGGTCTACTTCTCTGTATCTTC-TCAAGAAGATGACCACTTTATTCATTTAACCCACTTCT
* * * *
10174701 CTGTATCTCATTAGGAAGATG
65 ATGCATCTCATCAGGAAGACG
10174722 GAGTTTG
1 GA-TTTG
10174729 AAGTCTCATT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
84 2 0.03
85 71 0.92
86 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTGTATCTTCTCAAGAAGATGACCACTTTATTCATTTAACCCACTTCTA
TGCATCTCATCAGGAAGACG
Found at i:10174796 original size:208 final size:208
Alignment explanation
Indices: 10174432--10174929 Score: 695
Period size: 208 Copynumber: 2.4 Consensus size: 208
10174422 GCTTCATTTC
* **
10174432 TTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACTGCTTTATTAC--TT-ACACCACTTCTCT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATT-CTTTTGAC-CCACTTCTCT
* *
10174494 GTATCTCATCAGGAAGATAGGGGCTTGAAGTCTCATTCGTATTGAGCTTCTCTTCATTGATTTGG
64 GTATCTCATCAGGAAGAT-GGAGCTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGG
* * **
10174559 TCTACTTCTTTGTATCTTCTCAAGAAGATGACCGCTTTTTTGATTTAATCCAC-T-TCTATGCAT
128 TCTACTTCTCTGTATCTTCTCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTAT--AT
*
10174622 CTCATCAGGAAGACGGAT
191 CTCATCAAGAAGACGGAT
*
10174640 TTGGTTTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGT
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGT
* *
10174705 ATCTCATTAGGAAGATGGAGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCT
66 ATCTCATCAGGAAGATGGAGCTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCT
10174770 ACTTCTCTGTATC-TCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCA
131 ACTTCTCTGTATCTTC-TCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCA
*
10174834 TCAAGAAGGCGGAT
195 TCAAGAAGACGGAT
* * * ** *
10174848 TTGGTCCACTTCTCTTTATCTCATCAGGACGATGA-CTGTTATATTGTTTTGACCCACTTCTCTG
1 TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTT-TATTCTTTTGACCCACTTCTCTG
*
10174912 TATCTCATCAAGAAGATG
65 TATCTCATCAGGAAGATG
10174930 ACCGCTTTAT
Statistics
Matches: 260, Mismatches: 23, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
207 6 0.02
208 217 0.83
209 30 0.12
210 7 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (208 bp):
TTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGT
ATCTCATCAGGAAGATGGAGCTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCT
ACTTCTCTGTATCTTCTCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCAT
CAAGAAGACGGAT
Found at i:10174804 original size:48 final size:47
Alignment explanation
Indices: 10174751--10174977 Score: 188
Period size: 48 Copynumber: 5.0 Consensus size: 47
10174741 TATTGAGCTT
* *
10174751 CGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAA
1 CGCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATG-A
* * *
10174799 CGCTTCATTGATTTAATCCACATCTCTATATCTCATCAAGAAG--G-
1 CGCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
* * * *
10174843 CG-------GATTTGGTCCACTTCTCTTTATCTCATCAGGACGATGA
1 CGCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
* * *
10174883 CTG-TTATATTGTTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGA
1 C-GCTT-CATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
* ** * *
10174931 CCGCTTTATTCTTTTGACCCACTTCTCTGTATCTCATCAGGAAGATG
1 -CGCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATG
10174978 GGGTTTGAAG
Statistics
Matches: 147, Mismatches: 19, Indels: 26
0.77 0.10 0.14
Matches are distributed among these distances:
37 28 0.19
39 1 0.01
40 1 0.01
41 1 0.01
44 2 0.01
46 1 0.01
48 110 0.75
49 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (47 bp):
CGCTTCATTGATTTGATCCACTTCTCTGTATCTCATCAAGAAGATGA
Found at i:10174910 original size:85 final size:85
Alignment explanation
Indices: 10174760--10174926 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
10174750 TCGCTTCATT
* *
10174760 GATTTGGTCTACTTCTCTGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAACCCACATCTC
10174825 TATATCTCATCAAGAAGGCG
66 TATATCTCATCAAGAAGGCG
* * * * * * *
10174845 GATTTGGTCCACTTCTCTTTATCTCATCAGGACGATG-ACTG-TTATATTGTTTTGACCCACTTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAAC-GCTT-CATTGATTTAACCCACATC
*
10174908 TCTGTATCTCATCAAGAAG
64 TCTATATCTCATCAAGAAG
10174927 ATGACCGCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 4 0.06
85 66 0.94
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAACCCACATCTC
TATATCTCATCAAGAAGGCG
Found at i:10174929 original size:256 final size:256
Alignment explanation
Indices: 10174647--10175185 Score: 821
Period size: 256 Copynumber: 2.1 Consensus size: 256
10174637 GATTTGGTTT
10174647 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGTATCTCAT
* *
10174712 TAGGAAGATGGAGTTTGAAGTCTCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
66 CAGGAAGATGGAGTTTGAAGTATCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
10174777 TGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCATCAAGAAG
131 TGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCATCAAGAAG
** * * * * * **
10174842 GCGGATTTGGTCCACTTCTCTTTATCTCATCAGGACGATGA-CT-GTTATATTGTTTTGACCC
196 GCAAATTTAGTCCACTTCTCTGTATCTCATCAGGAAGAT-ATCTAATT-TATTGCTTACACCC
* *
10174903 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTCTTTTGACCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGTATCTCAT
* *
10174968 CAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTAGTTCTC
66 CAGGAAGATGGAGTTTGAAGTATCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
* * * * * * * *
10175033 TGTATCTCATTAGGAAGATGACCGTTTCATTTATTTAATCCGCTTCTCTGTATCTCATCAAGAAG
131 TGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCATCAAGAAG
10175098 GCAAATTTAGTCCACTTCTCTGTATCTCATCAGGAAGATATCTAATTTATTGCTTACACCC
196 GCAAATTTAGTCCACTTCTCTGTATCTCATCAGGAAGATATCTAATTTATTGCTTACACCC
* *
10175159 ACTTTTATGTATCTCATCAGGAAGATG
1 ACTTCTCTGTATCTCATCAGGAAGATG
10175186 GGGTTTGAAG
Statistics
Matches: 255, Mismatches: 26, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
255 1 0.00
256 252 0.99
257 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (256 bp):
ACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTCTTTTGACCCACTTCTCTGTATCTCAT
CAGGAAGATGGAGTTTGAAGTATCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTC
TGTATCTCATCAAGAAGATGAACGCTTCATTGATTTAATCCACATCTCTATATCTCATCAAGAAG
GCAAATTTAGTCCACTTCTCTGTATCTCATCAGGAAGATATCTAATTTATTGCTTACACCC
Found at i:10175286 original size:48 final size:48
Alignment explanation
Indices: 10175214--10175308 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
10175204 GTATTGAGCT
* * * *
10175214 TCACTTTATTGATTTGGTCGACTTCTCTGTATCTTATTACGAAGATGA
1 TCACTTTATTGATTTGATCCACTTCTCTATATCTCATTACGAAGATGA
* *
10175262 TCACTTTATTGCTTTGATCCACTTCTCTATATCTCATTAGGAAGATG
1 TCACTTTATTGATTTGATCCACTTCTCTATATCTCATTACGAAGATG
10175309 GGGTTTGAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (48 bp):
TCACTTTATTGATTTGATCCACTTCTCTATATCTCATTACGAAGATGA
Found at i:10175289 original size:208 final size:208
Alignment explanation
Indices: 10174901--10175298 Score: 552
Period size: 208 Copynumber: 1.9 Consensus size: 208
10174891 TTGTTTTGAC
** ** *
10174901 CCACTTCTCTGTATCTCATCAAGAAGATGACCGCTTTATTCTTTTGACCCACTTCTCTGTATCTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGACCAATTTATTCTTTACACCCACTTCTATGTATCTC
* * *
10174966 ATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCGCTTCATTGATTTGGTCTAGTTC
66 ATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTCATTGATTTGGTCGACTTC
* * * *
10175031 TCTGTATCTCATTAGGAAGATGACCGTTTCATTTATTTAATCCGCTTCTCTGTATCTCATCAAGA
131 TCTGTATCTCATTACGAAGATGACCGTTTCATTGATTTAATCCACTTCTCTATATCTCATCAAGA
10175096 AGGCAAATTTAGT
196 AGGCAAATTTAGT
* * *
10175109 CCACTTCTCTGTATCTCATCAGGAAGAT-ATCTAATTTATTGC-TTACACCCACTTTTATGTATC
1 CCACTTCTCTGTATCTCATCAAGAAGATGA-CCAATTTATT-CTTTACACCCACTTCTATGTATC
* *
10175172 TCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTTTATTGATTTGGTCGACT
64 TCATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTCATTGATTTGGTCGACT
* * *
10175237 TCTCTGTATCTTATTACGAAGATGATCAC-TTT-ATTGCTTTGATCCACTTCTCTATATCTCAT
129 TCTCTGTATCTCATTACGAAGATGA-C-CGTTTCATTGATTTAATCCACTTCTCTATATCTCAT
10175299 TAGGAAGATG
Statistics
Matches: 166, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
207 1 0.01
208 159 0.96
209 5 0.03
210 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (208 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGACCAATTTATTCTTTACACCCACTTCTATGTATCTC
ATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTCATTGATTTGGTCGACTTC
TCTGTATCTCATTACGAAGATGACCGTTTCATTGATTTAATCCACTTCTCTATATCTCATCAAGA
AGGCAAATTTAGT
Found at i:10175382 original size:122 final size:124
Alignment explanation
Indices: 10175102--10175427 Score: 419
Period size: 122 Copynumber: 2.7 Consensus size: 124
10175092 AAGAAGGCAA
* * * *
10175102 ATTTAGTCCACTTCTCTGTATCTCATCAGGAAGAT-ATCTAATTTATTGC-TTACACCCACTTTT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCTACTTTATTGCTTTA-ATCCACTTCT
*
10175165 ATGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCGTATTGAGCTTCACTTTATTG
65 ATGTATCTCATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTTATTG
* * * * * *
10175225 ATTTGGTCGACTTCTCTGTATCTTATTACGAAGATGATC-ACTTTATTGCTTTGATCCACTTCTC
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCTACTTTATTGCTTTAATCCACTTCTA
* * *
10175289 TATATCTCATTAGGAAGATGGGGTTTGAAGTATCA-TCGTATTGAGCTTCGCTTTATTG
66 TGTATCTCATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTTATTG
* * * * * *
10175347 ATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGA-CTGCTTCATTGATTTAATCCACTTCTT
1 ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCTACTTTATTGCTTTAATCCACTTCTA
*
10175411 TGTATCTCATCAAGAAG
66 TGTATCTCATCAGGAAG
10175428 GCAAATTTGG
Statistics
Matches: 173, Mismatches: 27, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
121 1 0.01
122 88 0.51
123 79 0.46
124 5 0.03
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (124 bp):
ATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATCTACTTTATTGCTTTAATCCACTTCTA
TGTATCTCATCAGGAAGATGGGGTTTGAAGTATCATTCGTATTGAGCTTCACTTTATTG
Found at i:10176557 original size:42 final size:41
Alignment explanation
Indices: 10176509--10176589 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
10176499 TCAACTCAAA
*
10176509 ATCCCTTTGGTTTCAAGATGCCCTTTGCGAGTTTTCATCTTG
1 ATCCCTTT-GTTTCAAGAAGCCCTTTGCGAGTTTTCATCTTG
* * * *
10176551 ATCCCTTTTTTTTAGGAAGCCCTTTGCGGGTTTTCATCT
1 ATCCCTTTGTTTCAAGAAGCCCTTTGCGAGTTTTCATCT
10176590 CGATTTCTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 26 0.76
42 8 0.24
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (41 bp):
ATCCCTTTGTTTCAAGAAGCCCTTTGCGAGTTTTCATCTTG
Found at i:10183738 original size:30 final size:30
Alignment explanation
Indices: 10183616--10183878 Score: 264
Period size: 30 Copynumber: 8.8 Consensus size: 30
10183606 TTTTGAGAAT
** *
10183616 TTTAGGGGCCAAAATATAATTTTAGG-AAAG
1 TTTAGGGGTTAAAATGTAATTTT-GGAAAAG
* * * * * *
10183646 TTT-GGAGTCAAAATATCACTTTGGGAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * *
10183675 TTTGGGGGTCAAAATGTAAGTTTGGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* *
10183705 TTTAGGGGTCAAAATGTAATTTTAGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * * *
10183735 TTTA-AGGTTAAAATGTGATTTTAGAAAAT
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
10183764 TTTAGGGGTTAAAATGTAATTTTGGAAACA-
1 TTTAGGGGTTAAAATGTAATTTTGGAAA-AG
* *
10183794 TTTAGGGGTTAAGATGTAATTTTGGAAAAA
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
* * *
10183824 TTTAAGGGTTAAAATGTTATTTTTGAAAAG
1 TTTAGGGGTTAAAATGTAATTTTGGAAAAG
*
10183854 TTCAGGGGTTAAAATGTAATTTTGG
1 TTTAGGGGTTAAAATGTAATTTTGG
10183879 TGAGGTTTAG
Statistics
Matches: 199, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
28 2 0.01
29 48 0.24
30 148 0.74
31 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
TTTAGGGGTTAAAATGTAATTTTGGAAAAG
Found at i:10183748 original size:89 final size:89
Alignment explanation
Indices: 10183616--10183898 Score: 300
Period size: 89 Copynumber: 3.2 Consensus size: 89
10183606 TTTTGAGAAT
* * * * * * * * * *
10183616 TTTAGGGGCCAAAATATAATTTTAGGAAAGTTT-GGAGTCAAAATATCACTTTGGGAAAGTTTGG
1 TTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAAG-GTTAAAATGTCATTTTAGAAAAGTTTAG
* *
10183680 GGGTCAAAATGTAAGTTTGGAAAAG
65 GGGTTAAAATGTAATTTTGGAAAAG
* *
10183705 TTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAAGGTTAAAATGTGATTTTAGAAAATTTTAGG
1 TTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAAGGTTAAAATGTCATTTTAGAAAAGTTTAGG
10183770 GGTTAAAATGTAATTTTGGAAACA-
66 GGTTAAAATGTAATTTTGGAAA-AG
* * * * * * *
10183794 TTTAGGGGTTAAGATGTAATTTTGGAAAAATTTAAGGGTTAAAATGTTATTTTTGAAAAGTTCAG
1 TTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAA-GGTTAAAATGTCATTTTAGAAAAGTTTAG
** *
10183859 GGGTTAAAATGTAATTTTGGTGAGG
65 GGGTTAAAATGTAATTTTGGAAAAG
*
10183884 TTTAGGTGTCAAAAT
1 TTTAGGGGTCAAAAT
10183899 ATAGTTTTTA
Statistics
Matches: 162, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
89 102 0.63
90 60 0.37
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (89 bp):
TTTAGGGGTCAAAATGTAATTTTAGAAAAGTTTAAGGTTAAAATGTCATTTTAGAAAAGTTTAGG
GGTTAAAATGTAATTTTGGAAAAG
Found at i:10183907 original size:60 final size:60
Alignment explanation
Indices: 10183596--10183907 Score: 265
Period size: 60 Copynumber: 5.2 Consensus size: 60
10183586 AATGGGTCTA
* * ** * *
10183596 AAAATG-AAGTTTTTGAGAATTTTAGGGGCCAAAATATAATTTTAGG-AAAGTTT-GGAGTC
1 AAAATGTAA-TTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTT-GGAAAAGTTTAGGGGTC
* * * * * * * *
10183655 AAAATATCACTTTGGGAAAGTTTGGGGGTCAAAATGTAAGTTTGGAAAAGTTTAGGGGTC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* * * * * *
10183715 AAAATGTAATTTTAGAAAAGTTTA-AGGTTAAAATGTGATTTTAGAAAATTTTAGGGGTT
1 AAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* * * * *
10183774 AAAATGTAATTTTGGAAACA-TTTAGGGGTTAAGATGTAATTTTGGAAAAATTTAAGGGTT
1 AAAATGTAATTTTTGAAA-AGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* * ** * *
10183834 AAAATGTTATTTTTGAAAAGTTCAGGGGTTAAAATGTAATTTTGGTGAGGTTTAGGTGTC
1 AAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTC
* *
10183894 AAAATATAGTTTTT
1 AAAATGTAATTTTT
10183908 AATAAAACAA
Statistics
Matches: 201, Mismatches: 46, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
58 2 0.01
59 87 0.43
60 112 0.56
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (60 bp):
AAAATGTAATTTTTGAAAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTAGGGGTC
Found at i:10185171 original size:26 final size:27
Alignment explanation
Indices: 10185129--10185188 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
10185119 ATTCTAGGCC
*
10185129 CAATTCT-TGACACGTTCATGCAGTGA
1 CAATTCTGTGACACGTTCATGCAGTAA
*
10185155 CAATTCTGT-ACATGTTCATGCAGTAA
1 CAATTCTGTGACACGTTCATGCAGTAA
*
10185181 CATTTCTG
1 CAATTCTG
10185189 GGTGCAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 29 0.97
27 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
CAATTCTGTGACACGTTCATGCAGTAA
Found at i:10186536 original size:16 final size:17
Alignment explanation
Indices: 10186493--10186538 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
10186483 GACAATGTAG
*
10186493 ATGCAGCGACAATAAAA
1 ATGCAGGGACAATAAAA
10186510 ATGC-GGTGACAA-AAAA
1 ATGCAGG-GACAATAAAA
10186526 ATGCAGGGACAAT
1 ATGCAGGGACAAT
10186539 TATACTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (17 bp):
ATGCAGGGACAATAAAA
Found at i:10190400 original size:16 final size:16
Alignment explanation
Indices: 10190379--10190410 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10190369 GTTGTGGATC
10190379 CCATTTTACCTTTATT
1 CCATTTTACCTTTATT
*
10190395 CCATTTTATCTTTATT
1 CCATTTTACCTTTATT
10190411 TTCACATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (16 bp):
CCATTTTACCTTTATT
Found at i:10193660 original size:13 final size:13
Alignment explanation
Indices: 10193642--10193666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10193632 CCCATTATAT
10193642 CATTTTTAGCATG
1 CATTTTTAGCATG
10193655 CATTTTTAGCAT
1 CATTTTTAGCAT
10193667 TTTATATTTA
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:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:10194157 original size:16 final size:16
Alignment explanation
Indices: 10194136--10194167 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10194126 GTTGTGGATC
10194136 CCATTTTACCTTTATT
1 CCATTTTACCTTTATT
*
10194152 CCATTTTATCTTTATT
1 CCATTTTACCTTTATT
10194168 TTCACATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (16 bp):
CCATTTTACCTTTATT
Found at i:10197310 original size:10 final size:10
Alignment explanation
Indices: 10197295--10197319 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10197285 TTAGAATTGA
10197295 AAAATAAATT
1 AAAATAAATT
10197305 AAAATAAATT
1 AAAATAAATT
10197315 AAAAT
1 AAAAT
10197320 GGGGTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATAAATT
Found at i:10200796 original size:12 final size:12
Alignment explanation
Indices: 10200764--10200800 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
10200754 TTCTTCACCA
10200764 TATATATTTTGCT
1 TATATATTTTG-T
*
10200777 TTTATATTTTGT
1 TATATATTTTGT
10200789 TATATATTTTGT
1 TATATATTTTGT
10200801 CATCACATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (12 bp):
TATATATTTTGT
Found at i:10209262 original size:5 final size:6
Alignment explanation
Indices: 10209249--10209295 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
10209239 TAGTATTTAA
* *
10209249 TTTCTT TTTCTT TTTCTT TTTCTT CCTT-TT TCTCATT TTTCTT TTTC
1 TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT TTTC-TT TTTCTT TTTC
10209296 AAGTGACTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.03
6 26 0.76
7 7 0.21
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:10209294 original size:16 final size:14
Alignment explanation
Indices: 10209253--10209295 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
10209243 ATTTAATTTC
*
10209253 TTTTTCTTTTTCTT
1 TTTTTCTTTTTCTA
10209267 TTTCTTCCTTTTTCTCA
1 TTT-TT-CTTTTTCT-A
10209284 TTTTTCTTTTTC
1 TTTTTCTTTTTC
10209296 AAGTGACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 10 0.40
17 3 0.12
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTTTCTA
Found at i:10219702 original size:20 final size:20
Alignment explanation
Indices: 10219679--10219741 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
10219669 AAACCACCTA
10219679 TAATGTAGATAAACTACCAG
1 TAATGTAGATAAACTACCAG
* * * * *
10219699 TAATATAGACAAGCTATCAA
1 TAATGTAGATAAACTACCAG
* *
10219719 TATTGTAGATAAATTACCAG
1 TAATGTAGATAAACTACCAG
10219739 TAA
1 TAA
10219742 CATGGTCAAG
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (20 bp):
TAATGTAGATAAACTACCAG
Found at i:10223901 original size:24 final size:24
Alignment explanation
Indices: 10223869--10223924 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
10223859 TATATGGGTA
10223869 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
10223893 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCATTT
*
10223917 TCCTCTTG
1 TCTTCTTG
10223925 AGAACTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCATTT
Found at i:10225606 original size:17 final size:17
Alignment explanation
Indices: 10225584--10225627 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
10225574 ACCCACAGAA
* *
10225584 TATTTTTTTTATTTTTT
1 TATTTTTTTCATATTTT
*
10225601 TATTTTTCTCATATTTT
1 TATTTTTTTCATATTTT
*
10225618 TCTTTTTTTC
1 TATTTTTTTC
10225628 TCGACTCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (17 bp):
TATTTTTTTCATATTTT
Found at i:10225617 original size:19 final size:19
Alignment explanation
Indices: 10225593--10225629 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10225583 ATATTTTTTT
10225593 TATTTTT-TTATTTTTCTCA
1 TATTTTTCTT-TTTTTCTCA
10225612 TATTTTTCTTTTTTTCTC
1 TATTTTTCTTTTTTTCTC
10225630 GACTCTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTCTTTTTTTCTCA
Found at i:10231890 original size:188 final size:188
Alignment explanation
Indices: 10231564--10232079 Score: 863
Period size: 188 Copynumber: 2.8 Consensus size: 188
10231554 TTTCAATTTG
* * **
10231564 CAAAAT-TTCCCTTATAAAGCTTATGTACATTTCTTTATATGGTTATGTATCCAAATAAAATCAT
1 CAAAATATTTCCTTATAAAGCTTATGTACATTTCTTGATATGGAAATGTATCCAAATAAAATCAT
* *
10231628 TATTTCTACCTTAAAAAACTAAATAAAATCTTTATTTTTAACATTACTTTTCTGTCACCTTTTTA
66 TATTTCTACCTTAAAAAACTAAATAAAATCTTTATTTCTAACATTCCTTTTCTGTCACCTTTTTA
* *
10231693 CCATATATATACACTAGTTTTTTCTTATGTAATGTACATGTTAATTCAATGAATTAAT
131 CCATATATATACACTAGTTTTTTCTAATGCAATGTACATGTTAATTCAATGAATTAAT
*
10231751 TAAAATATTTCCTTATAAAGCTTATGTACATTTCTTGATATGGAAATGTATCCAAATAAAATCAT
1 CAAAATATTTCCTTATAAAGCTTATGTACATTTCTTGATATGGAAATGTATCCAAATAAAATCAT
* *
10231816 TATTTCTACCTTAAAAAATTAAATAAAATATTTATTTCTAACATTCCTTTTCTGTCACCTTTTTA
66 TATTTCTACCTTAAAAAACTAAATAAAATCTTTATTTCTAACATTCCTTTTCTGTCACCTTTTTA
*
10231881 CCATATATATACACTAGTTTTTTCTAATGCAATGTGCATGTTAATTCAATGAATTAAT
131 CCATATATATACACTAGTTTTTTCTAATGCAATGTACATGTTAATTCAATGAATTAAT
* *
10231939 CAAAATATTTCCTTATAAAGCTTATGAACATTTCTTGATATGGAAATCTATCCAAATAAAATCAT
1 CAAAATATTTCCTTATAAAGCTTATGTACATTTCTTGATATGGAAATGTATCCAAATAAAATCAT
* * * *
10232004 TATTTCTACCTTAAAAAAGTAAATAAACTCTTTATTTCTAACATTCCTTTTTTGTAACCTTTTTA
66 TATTTCTACCTTAAAAAACTAAATAAAATCTTTATTTCTAACATTCCTTTTCTGTCACCTTTTTA
10232069 CCATATATATA
131 CCATATATATA
10232080 TATATATATA
Statistics
Matches: 308, Mismatches: 20, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
187 5 0.02
188 303 0.98
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.43
Consensus pattern (188 bp):
CAAAATATTTCCTTATAAAGCTTATGTACATTTCTTGATATGGAAATGTATCCAAATAAAATCAT
TATTTCTACCTTAAAAAACTAAATAAAATCTTTATTTCTAACATTCCTTTTCTGTCACCTTTTTA
CCATATATATACACTAGTTTTTTCTAATGCAATGTACATGTTAATTCAATGAATTAAT
Found at i:10245113 original size:17 final size:18
Alignment explanation
Indices: 10245075--10245123 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
10245065 CAATAACACT
*
10245075 AAAATGCAATGACAATTG
1 AAAATGCAATGACAAATG
10245093 -AAATGCAATGA-AAATG
1 AAAATGCAATGACAAATG
**
10245109 AAAATATAATGACAA
1 AAAATGCAATGACAA
10245124 TGGGAATGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 20 0.77
18 2 0.08
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.20
Consensus pattern (18 bp):
AAAATGCAATGACAAATG
Found at i:10250141 original size:25 final size:25
Alignment explanation
Indices: 10250113--10250162 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10250103 TTATTTTCTC
10250113 TCTCCTATTGAGTATTTATCTTCAG
1 TCTCCTATTGAGTATTTATCTTCAG
10250138 TCTCCTATTGAGTATTTATCTTCAG
1 TCTCCTATTGAGTATTTATCTTCAG
10250163 CCAAATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (25 bp):
TCTCCTATTGAGTATTTATCTTCAG
Found at i:10255266 original size:185 final size:187
Alignment explanation
Indices: 10254951--10255329 Score: 568
Period size: 185 Copynumber: 2.0 Consensus size: 187
10254941 ATTGTTTGAT
* *
10254951 ATATTTTAATTCAGTCATTGAATTAACATGTACGTTACATAAGAAAAAACTAGTGTATATATATT
1 ATATTTTAATTAAGTCATTGAATTAACATGTACATTACATAAGAAAAAACTAGTGTATATATA-T
*
10255016 GTAAAAATGTGACAAAAAAGGAATGTTAGAAATAAAACTTTTATTTACTTTTTTAAGGTAGAAAT
65 -TAAAAAGGTGACAAAAAAGGAATGTTAGAAATAAAACTTTTATTTACTTTTTTAAGGTAGAAAT
* * * * * *
10255081 AATTATTTTATTTGAATACGTTTCCATATCAAGAAATGTACATAAGTTTTAT-AAGGAA
129 AATGATTTTAATTGAATACATTTCCATATCAAGAAATGTAAATAAGCTTTATAAAGAAA
* *
10255139 ATATTTTAATTAAGTCATTGAATTAACATGTACATTATATAAGAAAAAA-TTGTGTATATATGA-
1 ATATTTTAATTAAGTCATTGAATTAACATGTACATTACATAAGAAAAAACTAGTGTATATAT-AT
* *
10255202 TAAAAAGGTGACAGAAAAGGAATGTTAGAAATAAAGA-TTTTATTTACTTTTTTAATGTAGAAAT
65 TAAAAAGGTGACAAAAAAGGAATGTTAGAAATAAA-ACTTTTATTTACTTTTTTAAGGTAGAAAT
*
10255266 AATGATTTTAATTGGATACATTTCCATATCAAGAAATGTAAATAAGCTTTATAAAGAAA
129 AATGATTTTAATTGAATACATTTCCATATCAAGAAATGTAAATAAGCTTTATAAAGAAA
10255325 ATATT
1 ATATT
10255330 GCAAATCATA
Statistics
Matches: 174, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
185 105 0.60
186 11 0.06
187 11 0.06
188 47 0.27
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (187 bp):
ATATTTTAATTAAGTCATTGAATTAACATGTACATTACATAAGAAAAAACTAGTGTATATATATT
AAAAAGGTGACAAAAAAGGAATGTTAGAAATAAAACTTTTATTTACTTTTTTAAGGTAGAAATAA
TGATTTTAATTGAATACATTTCCATATCAAGAAATGTAAATAAGCTTTATAAAGAAA
Found at i:10270405 original size:18 final size:18
Alignment explanation
Indices: 10270374--10270415 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10270364 CCAGTGGCTA
10270374 CATCTGAGTATGTGACT-G
1 CATCTGAGTATGTGA-TAG
* *
10270392 CATCTGATTCTGTGATAG
1 CATCTGAGTATGTGATAG
10270410 CATCTG
1 CATCTG
10270416 GTCAGGCTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (18 bp):
CATCTGAGTATGTGATAG
Found at i:10272064 original size:24 final size:24
Alignment explanation
Indices: 10272023--10272069 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10272013 GTTAAGAGTA
* *
10272023 AAAATTGTCAGTGCAAATGTAATAT
1 AAAATTGTCAGAGAAAAT-TAATAT
10272048 AAAA-TGTCAGAGAAAATTAATA
1 AAAATTGTCAGAGAAAATTAATA
10272070 AAAGCTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.28
Consensus pattern (24 bp):
AAAATTGTCAGAGAAAATTAATAT
Found at i:10273661 original size:20 final size:20
Alignment explanation
Indices: 10273623--10273679 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
10273613 ATGTTACTTG
**
10273623 TAGTTTATCTACAAGACTGA
1 TAGTTTATCTACATTACTGA
*
10273643 TA-TCTTATCTACATTACTGG
1 TAGT-TTATCTACATTACTGA
*
10273663 TAGTTTATCTGCATTAC
1 TAGTTTATCTACATTAC
10273680 AGGTGGTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (20 bp):
TAGTTTATCTACATTACTGA
Found at i:10273688 original size:20 final size:20
Alignment explanation
Indices: 10273647--10273688 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10273637 GACTGATATC
*
10273647 TTATCTACATTACTGGTAGT
1 TTATCTACATTACAGGTAGT
* *
10273667 TTATCTGCATTACAGGTGGT
1 TTATCTACATTACAGGTAGT
10273687 TT
1 TT
10273689 GACGACATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (20 bp):
TTATCTACATTACAGGTAGT
Found at i:10274532 original size:13 final size:13
Alignment explanation
Indices: 10274514--10274540 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10274504 TATGCATATA
10274514 TTTATTTTTACTT
1 TTTATTTTTACTT
10274527 TTTATTTTTACTT
1 TTTATTTTTACTT
10274540 T
1 T
10274541 CTTCTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTTTACTT
Found at i:10274704 original size:23 final size:23
Alignment explanation
Indices: 10274660--10274705 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10274650 TAAAACCCTA
* * *
10274660 AAAAAAATAAAGAAGATTATTTT
1 AAAAAAATAAAAAAAATCATTTT
10274683 AAAAAAATAAAAAAAATCATTTT
1 AAAAAAATAAAAAAAATCATTTT
10274706 TGAAGTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
AAAAAAATAAAAAAAATCATTTT
Found at i:10275308 original size:30 final size:28
Alignment explanation
Indices: 10275264--10275339 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 28
10275254 CACAGTGGGT
10275264 CCCCAAACTTTCCAAAATCACATTTTAA
1 CCCCAAACTTTCCAAAATCACATTTTAA
*
10275292 CCCCAAAACTTTTCCAAAATCATATTTTAA
1 CCCC-AAAC-TTTCCAAAATCACATTTTAA
* *
10275322 CCCTAAATTTCTCCAAAA
1 CCCCAAACTT-TCCAAAA
10275340 CTTTCTTGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.14
29 14 0.33
30 22 0.52
ACGTcount: A:0.39, C:0.30, G:0.00, T:0.30
Consensus pattern (28 bp):
CCCCAAACTTTCCAAAATCACATTTTAA
Found at i:10282111 original size:39 final size:38
Alignment explanation
Indices: 10282051--10282661 Score: 318
Period size: 39 Copynumber: 15.9 Consensus size: 38
10282041 GATTGAAGAT
** *
10282051 TCCAATCTCTTACCCTAAGCTTGGGGTAGATTGAAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
* *
10282090 TCCAATCTTTTACCCCGAGCTT-GAGTAGA-T-CACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
** ** *
10282125 TCAGCCAATCTCTTACATCGAGAATGGGGCAGATTGCAGCCA
1 T---CCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
* *
10282167 TCCGATCGT-TTACCCTGAGCTTGAGGG-AGA-T-CACCA
1 TCCAATC-TCTTACCCCGAGCTTG-GGGTAGATTGCACCA
* * *
10282203 TCAGCCAATCTCTTACCCCGAGCCTGAGGTAGATTGTAGCCA
1 T---CCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
* * * * ** *
10282245 TCCGATCTTTTACCCTGAGCTTGGGGCAGATCACATCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
** * *
10282283 TCTGATCTTTTACCCCGAGCTTGGGGCAGA-T-CACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
* *
10282319 TCAGCCAATCTCTTACCCCGAGCTTGGGGAAGATTACAGCCA
1 T---CCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
** * ** *
10282361 TCCGGTCTTTTACCCCGAGCCAGGGGCAGA-T-CACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
* ** * *
10282397 TCAGTTAATCTCTTACCTTGAGCTTGGGGCAGATTGCAGCGA
1 TC---CAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
* * * * *
10282439 TCCGATCTTTTACCTCGAGCTTAGGGTAGATCAT-CATCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGAT--TGCACCA
* * * * * *
10282478 GCCAATCTCTTACCCCGAGCCTAGGGCAGATTGTAGCGA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
** *
10282517 TCTGATCTTTTACCCCGAGCTTGGGGTAGA-T-CACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
* *
10282553 T-C-ATCTCTTACCCCGAGCTTGAGGAAGATTGCAGCCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCA-CCA
* * *
10282590 TCTAATCTTTTACCCCGAGCCTGGGGTAGATTGCAACCA
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGC-ACCA
* * * * * *
10282629 TTCGATCTCTTGCCCCGATCATGGGGTATATTG
1 TCCAATCTCTTACCCCGAGCTTGGGGTAGATTG
10282662 AAGACATCAT
Statistics
Matches: 434, Mismatches: 99, Indels: 78
0.71 0.16 0.13
Matches are distributed among these distances:
34 23 0.05
35 5 0.01
36 20 0.05
37 11 0.03
38 59 0.14
39 281 0.65
40 11 0.03
41 8 0.02
42 16 0.04
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (38 bp):
TCCAATCTCTTACCCCGAGCTTGGGGTAGATTGCACCA
Found at i:10282237 original size:78 final size:78
Alignment explanation
Indices: 10282052--10282313 Score: 305
Period size: 77 Copynumber: 3.4 Consensus size: 78
10282042 ATTGAAGATT
** * * * *
10282052 CCAATCTCTTACCCTAAGCTTGGGGTAGATTGAAGCCATCCAATCTTTTACCCCGAGCTTGA-GT
1 CCAATCTCTTACCCCGAGCATGGGGTAGATTGAAGCCATCCGATCTTTTACCCTGAGCTTGAGGG
10282116 AGATCACCATCAG
66 AGATCACCATCAG
** * * * *
10282129 CCAATCTCTTACATCGAGAATGGGGCAGATTGCAGCCATCCGATCGTTTACCCTGAGCTTGAGGG
1 CCAATCTCTTACCCCGAGCATGGGGTAGATTGAAGCCATCCGATCTTTTACCCTGAGCTTGAGGG
10282194 AGATCACCATCAG
66 AGATCACCATCAG
* * *
10282207 CCAATCTCTTACCCCGAGCCTGAGGTAGATTGTAGCCATCCGATCTTTTACCCTGAGCTTG-GGG
1 CCAATCTCTTACCCCGAGCATGGGGTAGATTGAAGCCATCCGATCTTTTACCCTGAGCTTGAGGG
*
10282271 CAGATCA-CATCAT
66 -AGATCACCATCAG
** * * *
10282284 CTGATCTTTTACCCCGAGCTTGGGGCAGAT
1 CCAATCTCTTACCCCGAGCATGGGGTAGAT
10282314 CACCATCAGC
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
77 83 0.53
78 73 0.47
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CCAATCTCTTACCCCGAGCATGGGGTAGATTGAAGCCATCCGATCTTTTACCCTGAGCTTGAGGG
AGATCACCATCAG
Found at i:10282387 original size:78 final size:78
Alignment explanation
Indices: 10282249--10282620 Score: 432
Period size: 78 Copynumber: 4.8 Consensus size: 78
10282239 TAGCCATCCG
* * ** * *
10282249 ATCTTTTACCCTGAGCTTGGGGCAGATCACA-TCATCTGATCTTTTACCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
10282313 TCACCATCAGCCA
66 TCACCATCAGCCA
* * * * ** *
10282326 ATCTCTTACCCCGAGCTTGGGGAAGATTACAGCCATCCGGTCTTTTACCCCGAGCCAGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
**
10282391 TCACCATCAGTTA
66 TCACCATCAGCCA
** * * * *
10282404 ATCTCTTACCTTGAGCTTGGGGCAGATTGCAGCGATCCGATCTTTTACCTCGAGCTTAGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
*
10282469 TCATCATCAGCCA
66 TCACCATCAGCCA
* * * *
10282482 ATCTCTTACCCCGAGCCTAGGGCAGATTGTAGCGATCTGATCTTTTACCCCGAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
10282547 TCACCAT----C-
66 TCACCATCAGCCA
* * * *
10282555 ATCTCTTACCCCGAGCTTGAGGAAGATTGCAGCCATCTAATCTTTTACCCCGAGCCTGGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
10282620 T
66 T
10282621 TGCAACCATT
Statistics
Matches: 252, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
73 58 0.23
74 1 0.00
77 27 0.11
78 166 0.66
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCATCTGATCTTTTACCCCGAGCTTGGGGTAGA
TCACCATCAGCCA
Found at i:10282394 original size:194 final size:194
Alignment explanation
Indices: 10282091--10282508 Score: 518
Period size: 194 Copynumber: 2.1 Consensus size: 194
10282081 TTGAAGCCAT
* * * *
10282091 CCAATCTTTTACCCCGAGCTTGAGTAGATCACCATCAGCCAATCTCTTACATCGAGAATGGGGCA
1 CCAATCTTTTACCCCGAGCTTGGGCAGATCACCATCAGCCAATCTCTTACACCGAGAATGGGGAA
* * **
10282156 GATTGCAGCCATCCGATCGTTTACCCTGAGCTTGAGGGAGATCACCATCAGCCAATCTCTTACCC
66 GATTACAGCCATCCGATCGTTTACCCCGAGCCAGAGGGAGATCACCATCAGCCAATCTCTTACCC
* * * *
10282221 CGAGCCTGAGGTAGATTGTAGCCATCCGATCTTTTACC-CTGAGCTTGGGGCAGATCA-CATCAT
131 CGAGCCTGAGGCAGATTGCAGCCATCCGATCTTTTACCTC-GAGCTTAGGGCAGATCATCATCAG
** * **
10282284 CTGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGA
1 CCAATCTTTTACCCCGAGCTT-GGGCAGATCACCATCAGCCAATCTCTTACACCGAGAATGGGGA
* * **
10282349 AGATTACAGCCATCCGGTCTTTTACCCCGAGCCAG-GGGCAGATCACCATCAGTTAATCTCTTAC
65 AGATTACAGCCATCCGATCGTTTACCCCGAGCCAGAGGG-AGATCACCATCAGCCAATCTCTTAC
** * * * *
10282413 CTTGAGCTTGGGGCAGATTGCAGCGATCCGATCTTTTACCTCGAGCTTAGGGTAGATCATCATCA
129 CCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGCAGATCATCATCA
10282478 G
194 G
* *
10282479 CCAATCTCTTACCCCGAGCCTAGGGCAGAT
1 CCAATCTTTTACCCCGAG-CTTGGGCAGAT
10282509 TGTAGCGATC
Statistics
Matches: 189, Mismatches: 31, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
193 22 0.12
194 136 0.72
195 29 0.15
196 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (194 bp):
CCAATCTTTTACCCCGAGCTTGGGCAGATCACCATCAGCCAATCTCTTACACCGAGAATGGGGAA
GATTACAGCCATCCGATCGTTTACCCCGAGCCAGAGGGAGATCACCATCAGCCAATCTCTTACCC
CGAGCCTGAGGCAGATTGCAGCCATCCGATCTTTTACCTCGAGCTTAGGGCAGATCATCATCAG
Found at i:10282459 original size:117 final size:116
Alignment explanation
Indices: 10282176--10282620 Score: 356
Period size: 117 Copynumber: 3.9 Consensus size: 116
10282166 ATCCGATCGT
* * * * *
10282176 TTACCCTGAGCTTGAGGG-AGATCACCATCAGCCAATCTCTTACCCCGAGCCT-GAGGTAGATTG
1 TTACCCCGAGCTTG-GGGCAGATCACCAGCAGCCAATCTCTTACCCCGAGCTTAG-GGAAGATTA
* * ** * *
10282239 TAGCCATCCGATCTTTTACCCTGAGCTTGGGGCAGATCACATCATCTGATCTT
64 CAGCCATCCGATCTTTTACCCCGAGCCAGGGGCAGATCACATCATCTAATCTC
* *
10282292 TTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGAAGATTACA
1 TTACCCCGAGCTTGGGGCAGATCACCAGCAGCCAATCTCTTACCCCGAGCTTAGGGAAGATTACA
*
10282357 GCCATCCGGTCTTTTACCCCGAGCCAGGGGCAGATCACCATCAGT-TAATCTC
66 GCCATCCGATCTTTTACCCCGAGCCAGGGGCAGATCA-CATCA-TCTAATCTC
** ** * * * * * *
10282409 TTACCTTGAGCTTGGGGCAGAT-TGCAGCGATCCGATCTTTTACCTCGAGCTTAGGGTAGATCAT
1 TTACCCCGAGCTTGGGGCAGATCACCAGC-AGCCAATCTCTTACCCCGAGCTTAGGGAAGATTA-
* * * * *** * * *
10282473 CA-TCAGCCAATCTCTTACCCCGAGCCTA-GGGCAGATTGTAGCGATCTGATCTT
64 CAGCCATCCGATCTTTTACCCCGAGCC-AGGGGCAGATCACATC-ATCTAATCTC
* * *
10282526 TTACCCCGAGCTTGGGGTAGATCA-C--CA-TC-ATCTCTTACCCCGAGCTT-GAGGAAGATTGC
1 TTACCCCGAGCTTGGGGCAGATCACCAGCAGCCAATCTCTTACCCCGAGCTTAG-GGAAGATTAC
** * *
10282585 AGCCATCTAATCTTTTACCCCGAGCCTGGGGTAGAT
65 AGCCATCCGATCTTTTACCCCGAGCCAGGGGCAGAT
10282621 TGCAACCATT
Statistics
Matches: 266, Mismatches: 50, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
111 3 0.01
112 49 0.18
113 1 0.00
114 1 0.00
115 4 0.02
116 93 0.35
117 111 0.42
118 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (116 bp):
TTACCCCGAGCTTGGGGCAGATCACCAGCAGCCAATCTCTTACCCCGAGCTTAGGGAAGATTACA
GCCATCCGATCTTTTACCCCGAGCCAGGGGCAGATCACATCATCTAATCTC
Found at i:10284638 original size:29 final size:29
Alignment explanation
Indices: 10284541--10284833 Score: 222
Period size: 29 Copynumber: 10.0 Consensus size: 29
10284531 GTCCCCGAAT
* * *
10284541 TTTCCCAAAATCATATTTTGACCCTTAAAA
1 TTTCCCAAAATCACATTTTAACCC-TAAAC
*
10284571 TTTTCCAAAATCACATTTTAAACCC-AAA-
1 TTTCCCAAAATCACATTTT-AACCCTAAAC
* *
10284599 TTTCTCTAAAATCAGATTTTAACCCTAAAC
1 TTTC-CCAAAATCACATTTTAACCCTAAAC
*
10284629 TTTCCCAAAATCACATTTTAACCCCAAAC
1 TTTCCCAAAATCACATTTTAACCCTAAAC
** ** *
10284658 -TTCTAAAAAAT-ACATTTTAACCTCCGAGC
1 TTTC-CCAAAATCACATTTTAACC-CTAAAC
**
10284687 -TTCTCCAAAATTGCATTTTAA-CCTAAAAC
1 TTTC-CCAAAATCACATTTTAACCCT-AAAC
10284716 -TTCTCCAAAATCACATTTTAACCCTCAAAC
1 TTTC-CCAAAATCACATTTTAACCCT-AAAC
*
10284746 TTTTCCAAAATCACATTTTAACCCCTAAAC
1 TTTCCCAAAATCACATTTTAA-CCCTAAAC
* ** * *
10284776 TCTCTTAAAATTACAATTTTACCCCTAAAC
1 TTTCCCAAAATCAC-ATTTTAACCCTAAAC
* * * *
10284806 TTTTCTAAAATTATATTTTAACCCTAAA
1 TTTCCCAAAATCACATTTTAACCCTAAA
10284834 TTCTCCTAAA
Statistics
Matches: 217, Mismatches: 34, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
28 23 0.11
29 94 0.43
30 84 0.39
31 16 0.07
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (29 bp):
TTTCCCAAAATCACATTTTAACCCTAAAC
Found at i:10295993 original size:684 final size:675
Alignment explanation
Indices: 10294782--10296126 Score: 1871
Period size: 684 Copynumber: 2.0 Consensus size: 675
10294772 TTGGTATTAG
* *
10294782 ATCTCTTTGTTTACTCGTTTTATCTACTTCCTTTATCCATTAATTTTATTTTGATCTGGTTTTCC
1 ATCTCTTTGTTTACTCATTTTATCTACTTCCTTTACCCATTAATTTTATTTTGATCTGGTTTTCC
* *
10294847 CTTCCTAGTTCTATTTCCTTAACTGATTCAGTTTCGGATTGATTTTCATTTTCCCTTTCTTTAAT
66 CTTCCTAGTTCTATTTCCTTAACTGAATCAGTTTCGGATTGATTTTCATTTTCCCTTTCTCTAAT
* *
10294912 TTTGTTTCCCTTATCTGAATCAATTTTGGAAAATGATGATAATGAAAATTTAATTAGTTAAAAGT
131 TTTGTTTCCCTTATCTGAATCAATTTTGAAAAACGATGATAATGAAAATTTAATTAGTTAAAAGT
* *
10294977 TTTCATTTTTAATTAATAAAATTAGTAAAAAATAAATTAAATATTTTTTAGTACATGTCATGCAA
196 TTTCATTTTAAATTAATAAAATTAGTAAAAAATAAATTAAATATTTTTTAGTACATGTCACGCAA
* * * * * * * *
10295042 TGTTTTTTGGTTTTACACGTTGCGCAATTTGAGTGGTTGATATTACAAATTTAACGGTGTTAATG
261 TATTTTTTGGATTTACACGTTGCACAATTTGAATGGTTGATACTAAAAACTAAACGGTGTTAATG
* * * *
10295107 TTGAATTTGGTGTCCTAAATGTAGTATTTCATTTATGTAAACTTATACATTTCTCAGCTATATTG
326 TTGAATCTGATGTCCTAAATGTAGTATTTCATTTATATAAACTTATACATTTCTCAGCCATATTG
* *
10295172 GTTAATAAAATTATTCACGAATGAAATTAATATTTTATATATTGTCCTCACATGATTGTTGCATA
391 GTTAATAAAATTATTCACAAATGAAATTAATATTTTATATATTGTCCACACATGATTGTTGCATA
* * *
10295237 TAAAGCAAAATAGAAACAAATGGTGCTCATTGGTTGTCTCATGTTTAACTATTACTAAGCGATAT
456 TAAACCAAAATAGAAACAAATGATGCTAATTGGTTGTCTCATGTTTAACTATTACTAAGCGATAT
* * * *
10295302 TACGTTGTCAGATCTTAATACAGAAAGACAACGTATATTAGTAGACT-AACCTAAACATTTATTT
521 TACGTTGTCAAATCGTAATACAAAAAGACAACGTATATTAGTAGA-TGAACCAAAACATTTATTT
* * * * *
10295366 AGTCTAATAAAAAATAATCAAAG-CGATTGAAAGATTAATATGTTATGTATCAAGTCCAATTAAA
585 AGTCTAATAAAAAATAAGC-AAGCCAATTGAAAGATTAATATGTCATCTATCAAGTCCAATCAAA
10295430 AAGATATTTTATCCGAGGCATGCCTAA
649 AAGATATTTTATCCGAGGCATGCCTAA
* *
10295457 ATCTCTTTGTTTACTCATTTTCTCTACTTCCTTTACCCATTAATTTTATTTTGATTTGGTTTTCC
1 ATCTCTTTGTTTACTCATTTTATCTACTTCCTTTACCCATTAATTTTATTTTGATCTGGTTTTCC
* * * *
10295522 CTTTCTCTAGTTCTGTTTCCTTTATCTGAATCAGTTTTGTATTGATTTTCATTTTCCCTTTCTCT
66 C-TTC-CTAGTTCTATTTCC-TTAACTGAATCAGTTTCGGATTGATTTTCATTTTCCCTTTCTCT
10295587 AATTTTGTTTCCCTTATCTGAATCAATTTTGAAAAACGATGATAATGAAAATTTAATTAATTAGT
128 AATTTTGTTTCCCTTATCTGAATCAATTTTGAAAAACGATGATAATGAAAA--T--TTAATTAGT
* * *
10295652 TAATTAAATTTTTTTATTTTAAATTAATAAAATTAG-AAAAAA-AAATTAAATATTTTTTAGTAT
189 T-A--AAA-GTTTTCATTTTAAATTAATAAAATTAGTAAAAAATAAATTAAATATTTTTTAGTAC
*
10295715 ATGTCACGCAATATTTTTTGGATTTACTCGTTGCACAATTTGAATGGTTGATACTAAAAACTAAA
250 ATGTCACGCAATATTTTTTGGATTTACACGTTGCACAATTTGAATGGTTGATACTAAAAACTAAA
* * **
10295780 TGGTGTTAATGTT-AGATCTGATGTCCTAAATGTAGTATTTTCATTTATATACACTTATATTTTT
315 CGGTGTTAATGTTGA-ATCTGATGTCCTAAATGTAGTA-TTTCATTTATATAAACTTATACATTT
* * * * *
10295844 TTC-GACCATATTGGTTAATAAAATTATTCATAAATTAAATTAATATTTTGTATATTGTCCACAT
378 CTCAG-CCATATTGGTTAATAAAATTATTCACAAATGAAATTAATATTTTATATATTGTCCACAC
* * * *
10295908 GTGGTTGTTGCATGTAAACCAAAATA-AAAGCAAATGATGCTAATTGGTTGTC-CGATTTTTAAC
442 ATGATTGTTGCATATAAACCAAAATAGAAA-CAAATGATGCTAATTGGTTGTCTC-ATGTTTAAC
* *
10295971 -ATTACTAAGCTATATTACGTTGTCAAATCGTAATACAAAAAGACAGCGTATATTAGTAGATGAA
505 TATTACTAAGCGATATTACGTTGTCAAATCGTAATACAAAAAGACAACGTATATTAGTAGATGAA
* * * *
10296035 CCAAAATATTTCTTTATTCTAATAAAAAATGAGCAAGCCAATTGAAAGATTAATATGTCATCTAT
570 CCAAAACATTTATTTAGTCTAATAAAAAATAAGCAAGCCAATTGAAAGATTAATATGTCATCTAT
* * *
10296100 GAAGTCCAATCAGAGAGATATTTTATC
635 CAAGTCCAATCAAAAAGATATTTTATC
10296127 TTGGGCATCG
Statistics
Matches: 586, Mismatches: 66, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
675 62 0.11
676 3 0.01
677 13 0.02
678 88 0.15
680 1 0.00
682 10 0.02
683 6 0.01
684 244 0.42
685 135 0.23
686 24 0.04
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (675 bp):
ATCTCTTTGTTTACTCATTTTATCTACTTCCTTTACCCATTAATTTTATTTTGATCTGGTTTTCC
CTTCCTAGTTCTATTTCCTTAACTGAATCAGTTTCGGATTGATTTTCATTTTCCCTTTCTCTAAT
TTTGTTTCCCTTATCTGAATCAATTTTGAAAAACGATGATAATGAAAATTTAATTAGTTAAAAGT
TTTCATTTTAAATTAATAAAATTAGTAAAAAATAAATTAAATATTTTTTAGTACATGTCACGCAA
TATTTTTTGGATTTACACGTTGCACAATTTGAATGGTTGATACTAAAAACTAAACGGTGTTAATG
TTGAATCTGATGTCCTAAATGTAGTATTTCATTTATATAAACTTATACATTTCTCAGCCATATTG
GTTAATAAAATTATTCACAAATGAAATTAATATTTTATATATTGTCCACACATGATTGTTGCATA
TAAACCAAAATAGAAACAAATGATGCTAATTGGTTGTCTCATGTTTAACTATTACTAAGCGATAT
TACGTTGTCAAATCGTAATACAAAAAGACAACGTATATTAGTAGATGAACCAAAACATTTATTTA
GTCTAATAAAAAATAAGCAAGCCAATTGAAAGATTAATATGTCATCTATCAAGTCCAATCAAAAA
GATATTTTATCCGAGGCATGCCTAA
Found at i:10297769 original size:14 final size:14
Alignment explanation
Indices: 10297730--10297769 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
10297720 GAAAACAACC
*
10297730 TTCTTTTTCTCTTA
1 TTCTTTTTCTCTAA
* *
10297744 TTCTTCTCCTCTAA
1 TTCTTTTTCTCTAA
10297758 TTCTTTTTCTCT
1 TTCTTTTTCTCT
10297770 TTTCTATCCC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (14 bp):
TTCTTTTTCTCTAA
Found at i:10301370 original size:16 final size:16
Alignment explanation
Indices: 10301332--10301379 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
10301322 TCAGTCATTT
*
10301332 GAAAAAGAAACAAAATGA
1 GAAAAAGAAAGAAAA--A
*
10301350 GAAAAAGGAAGAAAAA
1 GAAAAAGAAAGAAAAA
10301366 GAAAAAGAAAGAAA
1 GAAAAAGAAAGAAA
10301380 TTTTTGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 14 0.52
18 13 0.48
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (16 bp):
GAAAAAGAAAGAAAAA
Found at i:10309284 original size:20 final size:20
Alignment explanation
Indices: 10309256--10309298 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
10309246 TTATACTTAG
10309256 TTTCGTTTTTAC-TTTATTAT
1 TTTCGTTTTTACGTTT-TTAT
* *
10309276 TTTCTTTTTTTCGTTTTTAT
1 TTTCGTTTTTACGTTTTTAT
10309296 TTT
1 TTT
10309299 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTCGTTTTTACGTTTTTAT
Found at i:10309287 original size:28 final size:28
Alignment explanation
Indices: 10309256--10309311 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10309246 TTATACTTAG
10309256 TTTCGTTTTTACTTTATTATTTTCTTTT
1 TTTCGTTTTTACTTTATTATTTTCTTTT
*
10309284 TTTCGTTTTTATTTTATTATTTTCTTTT
1 TTTCGTTTTTACTTTATTATTTTCTTTT
10309312 CGTTTTAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.77
Consensus pattern (28 bp):
TTTCGTTTTTACTTTATTATTTTCTTTT
Found at i:10309306 original size:20 final size:19
Alignment explanation
Indices: 10309262--10309311 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
10309252 TTAGTTTCGT
* *
10309262 TTTTACTTTATTATTTTCTTT
1 TTTT-CTTT-TTATTTTATTA
10309283 TTTTCGTTTTTATTTTATTA
1 TTTTC-TTTTTATTTTATTA
10309303 TTTTCTTTT
1 TTTTCTTTT
10309312 CGTTTTAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 15 0.58
21 7 0.27
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (19 bp):
TTTTCTTTTTATTTTATTA
Found at i:10326058 original size:13 final size:14
Alignment explanation
Indices: 10326029--10326058 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10326019 TTCAGTACAT
10326029 TGACATTTAACCTC
1 TGACATTTAACCTC
10326043 TGACATTTAA-CTC
1 TGACATTTAACCTC
10326056 TGA
1 TGA
10326059 TTGCGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:10341196 original size:15 final size:15
Alignment explanation
Indices: 10341176--10341219 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
10341166 CTCATGCAAG
*
10341176 TTCACAATTTTACAA
1 TTCACAATTTCACAA
10341191 TTCACAA-TTCACAA
1 TTCACAATTTCACAA
10341205 TTCACAATTTCACAA
1 TTCACAATTTCACAA
10341220 GCATACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (15 bp):
TTCACAATTTCACAA
Found at i:10341199 original size:7 final size:7
Alignment explanation
Indices: 10341176--10341219 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
10341166 CTCATGCAAG
10341176 TTCACAA
1 TTCACAA
*
10341183 TTTTACAA
1 -TTCACAA
10341191 TTCACAA
1 TTCACAA
10341198 TTCACAA
1 TTCACAA
10341205 TTCACAA
1 TTCACAA
10341212 TTTCACAA
1 -TTCACAA
10341220 GCATACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (7 bp):
TTCACAA
Found at i:10341204 original size:22 final size:22
Alignment explanation
Indices: 10341177--10341219 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10341167 TCATGCAAGT
*
10341177 TCACAATTTTACAATTCACAAT
1 TCACAATTTCACAATTCACAAT
10341199 TCACAA-TTCACAATTTCACAA
1 TCACAATTTCACAA-TTCACAA
10341220 GCATACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.33
Consensus pattern (22 bp):
TCACAATTTCACAATTCACAAT
Found at i:10355705 original size:16 final size:16
Alignment explanation
Indices: 10355683--10355723 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
10355673 ATGCTCGAGA
*
10355683 AAAAAAAAAGAGAAATG
1 AAAAAAAAAGA-AAAAG
10355700 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
10355716 AAAAAAAA
1 AAAAAAAA
10355724 TAGAGCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:10355705 original size:17 final size:17
Alignment explanation
Indices: 10355683--10355728 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
10355673 ATGCTCGAGA
*
10355683 AAAAAAAAAGAGAAATG
1 AAAAAAAAAGAGAAAAG
10355700 AAAAAAAAAGA-AAAAG
1 AAAAAAAAAGAGAAAAG
10355716 AAAAAAAATAGAG
1 AAAAAAAA-AGAG
10355729 CATATGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAGAGAAAAG
Found at i:10355743 original size:29 final size:31
Alignment explanation
Indices: 10355711--10355772 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
10355701 AAAAAAAAGA
*
10355711 AAAAGAAAAA-A-AATAGAGCAT-ATGTACTC
1 AAAAGAAAAAGAGAATAGAACATGA-GTACTC
10355740 AAAAGAAAAAGAGAATAGAACATGAGTACTC
1 AAAAGAAAAAGAGAATAGAACATGAGTACTC
10355771 AA
1 AA
10355773 GTTTGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 10 0.34
30 1 0.03
31 17 0.59
32 1 0.03
ACGTcount: A:0.60, C:0.10, G:0.16, T:0.15
Consensus pattern (31 bp):
AAAAGAAAAAGAGAATAGAACATGAGTACTC
Found at i:10390983 original size:17 final size:17
Alignment explanation
Indices: 10390957--10390989 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10390947 GAGGTTTCAC
10390957 AAAAGAAAGAA-AAGGG
1 AAAAGAAAGAAGAAGGG
10390973 AAAAGGAAAGAAGAAGG
1 AAAA-GAAAGAAGAAGG
10390990 CCACTCAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAGAAGGG
Found at i:10391967 original size:19 final size:20
Alignment explanation
Indices: 10391931--10391978 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
10391921 GTTAGTTGCA
10391931 TGCATTTATTTTATTTGTCAT
1 TGCATTT-TTTTATTTGTCAT
*
10391952 TGCATTTTTTTA-TTGTCTT
1 TGCATTTTTTTATTTGTCAT
*
10391971 TGGATTTT
1 TGCATTTT
10391979 ATTTGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
20 5 0.20
21 7 0.28
ACGTcount: A:0.15, C:0.08, G:0.12, T:0.65
Consensus pattern (20 bp):
TGCATTTTTTTATTTGTCAT
Found at i:10395590 original size:15 final size:16
Alignment explanation
Indices: 10395570--10395599 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10395560 GTACATAGTT
10395570 TAGTTGT-ATGTCATG
1 TAGTTGTAATGTCATG
10395585 TAGTTGTAATGTCAT
1 TAGTTGTAATGTCAT
10395600 CACATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (16 bp):
TAGTTGTAATGTCATG
Found at i:10396236 original size:15 final size:15
Alignment explanation
Indices: 10396216--10396251 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10396206 AGTCGCATAA
*
10396216 AAAAAAGAAAGAAAG
1 AAAAAAGAAAAAAAG
10396231 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
10396246 AAAAAA
1 AAAAAA
10396252 ATAGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:10396252 original size:8 final size:8
Alignment explanation
Indices: 10396215--10396252 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
10396205 CAGTCGCATA
10396215 AAAAAAAG
1 AAAAAAAG
*
10396223 AAAGAAAG
1 AAAAAAAG
10396231 -AAAAAAG
1 AAAAAAAG
10396238 AAAAAAAG
1 AAAAAAAG
10396246 AAAAAAA
1 AAAAAAA
10396253 TAGATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10403309 original size:17 final size:18
Alignment explanation
Indices: 10403271--10403310 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
10403261 AAACTGAAAG
10403271 GAATGCAGTGACAATTAA
1 GAATGCAGTGACAATTAA
10403289 -AATGCAG-GCACAA-TAA
1 GAATGCAGTG-ACAATTAA
10403305 GAATGC
1 GAATGC
10403311 TTGAAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (18 bp):
GAATGCAGTGACAATTAA
Found at i:10411314 original size:17 final size:19
Alignment explanation
Indices: 10411292--10411328 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
10411282 TTAAAAATCT
10411292 GAAAAAGAA-AACA-ATTA
1 GAAAAAGAACAACAGATTA
*
10411309 GAAAAATAACAACAGATTA
1 GAAAAAGAACAACAGATTA
10411328 G
1 G
10411329 TAAGGATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.14
Consensus pattern (19 bp):
GAAAAAGAACAACAGATTA
Found at i:10436735 original size:49 final size:50
Alignment explanation
Indices: 10436662--10436759 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 50
10436652 ATCTATTTAT
* * *
10436662 AGGTTGAAAAAACCTTATTCTAATCAAATTAAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGTA
10436712 AGGTTG-AAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGT
1 AGGTTGAAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGT
10436760 TCTATATGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 39 0.87
50 6 0.13
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (50 bp):
AGGTTGAAAAAACCTTATTCTAATCAAAATAAAATAAAAGAAGTGTAGTA
Found at i:10438640 original size:25 final size:26
Alignment explanation
Indices: 10438612--10438674 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
10438602 TTGAATTCTA
* *
10438612 GCTCGTAAGAGCATAATTCTGT-TTG
1 GCTCGTAAGAGCATAATTCTATCTGG
*
10438637 GCTCGTAAGAGCGTAATTCTATCTGG
1 GCTCGTAAGAGCATAATTCTATCTGG
*
10438663 GCTCGTATGAGC
1 GCTCGTAAGAGC
10438675 TAAAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (26 bp):
GCTCGTAAGAGCATAATTCTATCTGG
Found at i:10439561 original size:17 final size:17
Alignment explanation
Indices: 10439539--10439571 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10439529 ATTTTTGCCC
10439539 TTATTAAGTTG-TGATTA
1 TTATTAA-TTGATGATTA
10439556 TTATTAATTGATGATT
1 TTATTAATTGATGATT
10439572 TATGACCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
TTATTAATTGATGATTA
Found at i:10445108 original size:22 final size:23
Alignment explanation
Indices: 10445083--10445135 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
10445073 CAGTAAACTT
*
10445083 AATTAAAAT-ATTTAATTT-CAAA
1 AATTAAAATGA-TTAATTTGAAAA
* *
10445105 AATTTAAATGATTGATTTGAAAA
1 AATTAAAATGATTAATTTGAAAA
10445128 AATTAAAA
1 AATTAAAA
10445136 AATACCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
AATTAAAATGATTAATTTGAAAA
Found at i:10445936 original size:39 final size:38
Alignment explanation
Indices: 10445862--10445936 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
10445852 TCAAAAGTAG
* * * *
10445862 TAGAGGATTTTCCTCAAGAGAAAATATTTTGCAACAGT
1 TAGAGGATTTTCCTCAAAAAAAAATATTCTACAACAGT
*
10445900 TAGAGGATTTTTCTCAACAAAAAAATATTCTACAACA
1 TAGAGGATTTTCCTCAA-AAAAAAATATTCTACAACA
10445937 AAAAATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 16 0.52
39 15 0.48
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (38 bp):
TAGAGGATTTTCCTCAAAAAAAAATATTCTACAACAGT
Found at i:10445939 original size:17 final size:17
Alignment explanation
Indices: 10445910--10445945 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10445900 TAGAGGATTT
10445910 TTCTCAACAAAAAAATA
1 TTCTCAACAAAAAAATA
10445927 TTCTACAAC-AAAAAATA
1 TTCT-CAACAAAAAAATA
10445944 TT
1 TT
10445946 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (17 bp):
TTCTCAACAAAAAAATA
Found at i:10449364 original size:29 final size:29
Alignment explanation
Indices: 10449331--10449391 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
10449321 CTAGGAATAA
10449331 TAAATTCCATTAGGATATCTTAGGTTAAT
1 TAAATTCCATTAGGATATCTTAGGTTAAT
* *
10449360 TAAATTCCATTAGGTTATTTTAGGTTAAT
1 TAAATTCCATTAGGATATCTTAGGTTAAT
10449389 TAA
1 TAA
10449392 TTTAATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.44
Consensus pattern (29 bp):
TAAATTCCATTAGGATATCTTAGGTTAAT
Found at i:10450188 original size:27 final size:27
Alignment explanation
Indices: 10450132--10450196 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
10450122 TTGCAAGTTA
10450132 GGTTCGCCAGTTGGTTTAGAGAGCTAG
1 GGTTCGCCAGTTGGTTTAGAGAGCTAG
* * * * *
10450159 GGTTTGCCAGTTGGTTTCGCGAGTTGG
1 GGTTCGCCAGTTGGTTTAGAGAGCTAG
10450186 GGTTCGCCAGT
1 GGTTCGCCAGT
10450197 CAAAGTCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.12, C:0.17, G:0.38, T:0.32
Consensus pattern (27 bp):
GGTTCGCCAGTTGGTTTAGAGAGCTAG
Found at i:10459232 original size:33 final size:33
Alignment explanation
Indices: 10459183--10459263 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
10459173 TCCTCTTTGG
* *
10459183 CCCTCTTTTACGTTTTATTTTATTTCTCATTTT
1 CCCTCTTTTTCTTTTTATTTTATTTCTCATTTT
* *
10459216 CCTTCTTTTTCTTTTTATTTTCTTTCTCATTTT
1 CCCTCTTTTTCTTTTTATTTTATTTCTCATTTT
10459249 CCCTCTTTTTCTTTT
1 CCCTCTTTTTCTTTT
10459264 CTTCTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.07, C:0.23, G:0.01, T:0.68
Consensus pattern (33 bp):
CCCTCTTTTTCTTTTTATTTTATTTCTCATTTT
Found at i:10459248 original size:17 final size:17
Alignment explanation
Indices: 10459195--10459248 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
10459185 CTCTTTTACG
*
10459195 TTTTATTTTATTTCTCA
1 TTTTATTTTCTTTCTCA
** * *
10459212 TTTT-CCTTCTTTTTCT
1 TTTTATTTTCTTTCTCA
10459228 TTTTATTTTCTTTCTCA
1 TTTTATTTTCTTTCTCA
10459245 TTTT
1 TTTT
10459249 CCCTCTTTTT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTCTTTCTCA
Found at i:10459275 original size:33 final size:31
Alignment explanation
Indices: 10459183--10459275 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 31
10459173 TCCTCTTTGG
* *
10459183 CCCTCTTTTACGTTTTATTTTATTTCTCATTTT
1 CCCTCTTTTTC-TTTT-TTTTTTTTCTCATTTT
*
10459216 CCTTCTTTTTCTTTTTATTTTCTTTCTCATTTT
1 CCCTCTTTTTCTTTTT-TTTT-TTTCTCATTTT
10459249 CCCTCTTTTTCTTTTCTTCTTTTTTCT
1 CCCTCTTTTTCTTTT-TT-TTTTTTCT
10459276 TTTTTCAACC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
31 1 0.02
32 7 0.13
33 40 0.77
34 4 0.08
ACGTcount: A:0.06, C:0.24, G:0.01, T:0.69
Consensus pattern (31 bp):
CCCTCTTTTTCTTTTTTTTTTTTCTCATTTT
Found at i:10466916 original size:41 final size:41
Alignment explanation
Indices: 10466864--10467305 Score: 588
Period size: 41 Copynumber: 10.8 Consensus size: 41
10466854 TAGCGGTGTT
* * * *
10466864 TTTCCCGTAAGCCCCGCTATTGCTCTGACATTTAGCGACGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
*
10466905 TTTCCCATAAGCGCCGCTATTGCTCTGACATTTAGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
*
10466946 TTTCCCATAAGTGCCGCTATTGCTCTGACCTTTAGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
* *
10466987 TTGCCCATAAGCGCCGCTATTGCACTGACCTTTAGGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTA-GCGGCGC
* *
10467029 TTGCTCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
* *
10467070 TTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGACGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
** * *
10467111 TTATGTGC--AAGCGCCGCTATTGCTCTAACCTTTAGGCGACGC
1 TT-T-CCCATAAGCGCCGCTATTGCTCTGACCTTTA-GCGGCGC
* * *
10467153 TTGCCCATAAGTGCCGCTATTGCTTTGACCTTTAGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
* *
10467194 TTGCCCATAAGCACCGCTATTGCTCTGACCTTTAGCGGCGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
* * *
10467235 TTTCCCATAAGCACCGC--TTGCTCTGACCTTTAGTGGTGC
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
*
10467274 TTTCCCATAAGCGCCGCTATTACTCT-ACCTTT
1 TTTCCCATAAGCGCCGCTATTGCTCTGACCTTT
10467306 TGCGACGTTT
Statistics
Matches: 362, Mismatches: 31, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
39 36 0.10
40 7 0.02
41 247 0.68
42 71 0.20
43 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.22, T:0.30
Consensus pattern (41 bp):
TTTCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC
Found at i:10467077 original size:124 final size:123
Alignment explanation
Indices: 10466871--10467305 Score: 592
Period size: 124 Copynumber: 3.5 Consensus size: 123
10466861 GTTTTTCCCG
* * * *
10466871 TAAGCCCCGCTATTGCTCTGACATTTAGCGACGCTTTCCCATAAGCGCCGCTATTGCTCTGACAT
1 TAAGCGCCGCTATTGCTCTGACCTTTAGCGACGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
* *
10466936 TTAGCGGCGCTTTCCCATAAGTGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCA
66 TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCA
* * *
10466994 TAAGCGCCGCTATTGCACTGACCTTTAGGCGGCGCTTGCTCATAAGCGCCGCTATTGCTCTGACC
1 TAAGCGCCGCTATTGCTCTGACCTTTA-GCGACGCTTGCCCATAAGCGCCGCTATTGCTCTGACC
* **
10467059 TTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGACGCTTATGTGC-
65 TTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGC-T-TGCCCA
* * *
10467119 -AAGCGCCGCTATTGCTCTAACCTTTAGGCGACGCTTGCCCATAAGTGCCGCTATTGCTTTGACC
1 TAAGCGCCGCTATTGCTCTGACCTTTA-GCGACGCTTGCCCATAAGCGCCGCTATTGCTCTGACC
* *
10467183 TTTAGCGGCGCTTGCCCATAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCA
65 TTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCA
* * ** * *
10467242 TAAGCACCGC--TTGCTCTGACCTTTAGTGGTGCTTTCCCATAAGCGCCGCTATTACTCT-ACCT
1 TAAGCGCCGCTATTGCTCTGACCTTTAGCGACGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
10467304 TT
66 TT
10467306 TGCGACGTTT
Statistics
Matches: 275, Mismatches: 32, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
120 6 0.02
121 26 0.09
122 16 0.06
123 25 0.09
124 198 0.72
125 1 0.00
126 3 0.01
ACGTcount: A:0.17, C:0.32, G:0.22, T:0.29
Consensus pattern (123 bp):
TAAGCGCCGCTATTGCTCTGACCTTTAGCGACGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
TTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCA
Found at i:10467193 original size:165 final size:164
Alignment explanation
Indices: 10466871--10467312 Score: 606
Period size: 165 Copynumber: 2.7 Consensus size: 164
10466861 GTTTTTCCCG
* * * *
10466871 TAAGCCCCGCTATTGCTCTGACATTTAGCGACGCTTTCCCATAAGCGCCGCTATTGCTCTGACAT
1 TAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCTGACCT
* * * *
10466936 TTAGCGGCGCTTTCCCATAAGTGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGC
66 TTAGCGACGCTTTCCCA-AAGCGCCGCTATTGCTCTAACCTTTAGCGACGCTTGCCCATAAGCGC
*
10467001 CGCTATTGCACTGACCTTTAGGCGGCGCTTGCTCA
130 CGCTATTGCACTGACCTTTAGGCGGCGCTTGCCCA
* *
10467036 TAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCT
1 TAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCTGACCT
** *
10467101 TTAGCGACGCTTATGTGC-AAGCGCCGCTATTGCTCTAACCTTTAGGCGACGCTTGCCCATAAGT
66 TTAGCGACGCTT-T-CCCAAAGCGCCGCTATTGCTCTAACCTTTA-GCGACGCTTGCCCATAAGC
**
10467165 GCCGCTATTGCTTTGACCTTTA-GCGGCGCTTGCCCA
128 GCCGCTATTGCACTGACCTTTAGGCGGCGCTTGCCCA
*
10467201 TAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCACCGC--TTGCTCTGACCT
1 TAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCTGACCT
* ** * *
10467264 TTAGTGGTGCTTTCCCATAAGCGCCGCTATTACTCT-ACCTTTTGCGACG
66 TTAGCGACGCTTTCCCA-AAGCGCCGCTATTGCTCTAACCTTTAGCGACG
10467313 TTTATATAAA
Statistics
Matches: 247, Mismatches: 25, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
161 7 0.03
162 7 0.03
163 38 0.15
165 156 0.63
166 38 0.15
167 1 0.00
ACGTcount: A:0.17, C:0.32, G:0.22, T:0.29
Consensus pattern (164 bp):
TAAGCACCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCTCTGACCT
TTAGCGACGCTTTCCCAAAGCGCCGCTATTGCTCTAACCTTTAGCGACGCTTGCCCATAAGCGCC
GCTATTGCACTGACCTTTAGGCGGCGCTTGCCCA
Found at i:10471318 original size:75 final size:76
Alignment explanation
Indices: 10471183--10471344 Score: 220
Period size: 75 Copynumber: 2.1 Consensus size: 76
10471173 TTAGAAAATC
* * *
10471183 TTTTTAGGGGCAAAGTTAAATTGTAATTTTTTTGATAGTAAAAATGTAATTTTTAAAGGATTAAA
1 TTTTTAGGGGCAAAGTTAAATTGTAA---TTATGATAGTAAAAATGAAAATTTTAAAGGATTAAA
10471248 TAAAAAATTTAT-A
63 TAAAAAATTTATCA
* *
10471261 TTTTTTGGGGCCAAAGTTAAATTGTAA-TATGATAGTAAAAATGAAAATTTTATAGGATTAAATA
1 TTTTTAGGGG-CAAAGTTAAATTGTAATTATGATAGTAAAAATGAAAATTTTAAAGGATTAAATA
*
10471325 AAAATTTTATCA
65 AAAAATTTATCA
10471337 TTTTTAGG
1 TTTTTAGG
10471345 AGGGTCAAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
75 42 0.56
76 8 0.11
78 9 0.12
79 16 0.21
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (76 bp):
TTTTTAGGGGCAAAGTTAAATTGTAATTATGATAGTAAAAATGAAAATTTTAAAGGATTAAATAA
AAAATTTATCA
Found at i:10471527 original size:39 final size:38
Alignment explanation
Indices: 10471453--10471560 Score: 108
Period size: 39 Copynumber: 2.7 Consensus size: 38
10471443 AACGAAAATA
* * * *
10471453 CCGCAAAAGGTAAAGCAATAGCAGCATTTTTCCATAGACG
1 CCGC-AAAGGTAAAGCAATAGCA-CGTTCTACCATAAACG
10471493 CCGCAAAGGTAAAGCAATAGCTACGTTCTACCATAAACG
1 CCGCAAAGGTAAAGCAATAGC-ACGTTCTACCATAAACG
* *
10471532 CCGAAAAAAGTAAAAGCAATAGCGACGTT
1 CCG-CAAAGGT-AAAGCAATAGC-ACGTT
10471561 TATGAGAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
39 32 0.55
40 10 0.17
41 16 0.28
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (38 bp):
CCGCAAAGGTAAAGCAATAGCACGTTCTACCATAAACG
Found at i:10471581 original size:40 final size:41
Alignment explanation
Indices: 10471492--10471628 Score: 136
Period size: 41 Copynumber: 3.4 Consensus size: 41
10471482 TTCCATAGAC
* * ** * *
10471492 GCCGC-AAAGGTAAAGCAATAGCTACG-TTCTACCATAAAC
1 GCCGCAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAAT
* * *
10471531 GCCGAAAAAAGTAAAAGCAATAGCGACGTTTAT-GAGAAAAT
1 GCCGCAAAAGGT-AAAGCAATAGCGACGTTTATAGAAAAAAT
* *
10471572 GCTGCAAAAGGTAAAGCAATAGCGATGTTTATAGAAAAAAT
1 GCCGCAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAAT
10471613 GCCGCAAAAAGGTAAA
1 GCCGC-AAAAGGTAAA
10471629 TAGCATTAGC
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 4 0.05
40 24 0.31
41 37 0.47
42 13 0.17
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (41 bp):
GCCGCAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAAT
Found at i:10472607 original size:3 final size:3
Alignment explanation
Indices: 10472594--10472624 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
10472584 GCATATACTA
10472594 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
10472625 TAATTTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:10472993 original size:40 final size:40
Alignment explanation
Indices: 10472934--10473027 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
10472924 AATAATGAAA
* * ** **
10472934 TAAAGCAATAGCTGCATTTTTTCATAAACGCCGTAAAAGG
1 TAAAGCAATAGCGGAATTTTCCCATAAACGCCACAAAAGG
10472974 TAAAGCAATAGCGGAATTTTCCCATAAACGCCACAAAAGG
1 TAAAGCAATAGCGGAATTTTCCCATAAACGCCACAAAAGG
10473014 TAAAGCAATAGCGG
1 TAAAGCAATAGCGG
10473028 CGTTTATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (40 bp):
TAAAGCAATAGCGGAATTTTCCCATAAACGCCACAAAAGG
Found at i:10474193 original size:17 final size:17
Alignment explanation
Indices: 10474173--10474214 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10474163 CTCCCTTGAC
*
10474173 CTTTAACCTTCCATCTT
1 CTTTAACCTTCCATATT
*
10474190 CTTTAACCTTTCATATT
1 CTTTAACCTTCCATATT
10474207 CTTGTAAC
1 CTT-TAAC
10474215 TACTTTTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.21, C:0.29, G:0.02, T:0.48
Consensus pattern (17 bp):
CTTTAACCTTCCATATT
Found at i:10474198 original size:24 final size:24
Alignment explanation
Indices: 10474153--10474200 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10474143 ATGGATGTTC
* *
10474153 AACCTTTCATCTCCCTTGACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
* *
10474177 AACCTTCCATCTTCTTTAACCTTT
1 AACCTTCCATCTCCCTTAACCTTT
10474201 CATATTCTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.19, C:0.35, G:0.02, T:0.44
Consensus pattern (24 bp):
AACCTTCCATCTCCCTTAACCTTT
Found at i:10478734 original size:16 final size:15
Alignment explanation
Indices: 10478690--10478734 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10478680 TGGAGTGCTT
10478690 AAAGAAAGAATTTGA
1 AAAGAAAGAATTTGA
* *
10478705 AATGAAAGACTTTGA
1 AAAGAAAGAATTTGA
*
10478720 AAAGACAAGATTTTG
1 AAAGA-AAGAATTTG
10478735 TCTAGGGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.24
Consensus pattern (15 bp):
AAAGAAAGAATTTGA
Found at i:10479548 original size:17 final size:17
Alignment explanation
Indices: 10479528--10479570 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10479518 TCTCCCTTGA
*
10479528 TCTTTAACCTTCCATCT
1 TCTTTAACCTTCCATAT
*
10479545 TCTTTAACCTTTCATAT
1 TCTTTAACCTTCCATAT
10479562 TCTTGTAAC
1 TCTT-TAAC
10479571 TACTTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (17 bp):
TCTTTAACCTTCCATAT
Found at i:10481296 original size:48 final size:48
Alignment explanation
Indices: 10481242--10481393 Score: 187
Period size: 58 Copynumber: 3.0 Consensus size: 48
10481232 GAAACAACCT
10481242 AAATATTTAATTATTTAATTATTAAAAACAATCCAAATATTTAATTCA
1 AAATATTTAATTATTTAATTATTAAAAACAATCCAAATATTTAATTCA
* *
10481290 AAATATTTAATTATTGAATTATATTTAATTATTAAAAATAACTCAAATATTTAATTCA
1 AAATATTTAATTATTTAA-T-TA-TTAA--A--AACAAT--C-CAAATATTTAATTCA
*
10481348 AAATATTTAATTATTTAATTATTAAAAACAACCCAAATATTTAATT
1 AAATATTTAATTATTTAATTATTAAAAACAATCCAAATATTTAATT
10481394 ATTAAAAACA
Statistics
Matches: 89, Mismatches: 5, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
48 30 0.34
49 2 0.02
50 2 0.02
51 8 0.09
53 2 0.02
55 9 0.10
56 2 0.02
57 2 0.02
58 32 0.36
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (48 bp):
AAATATTTAATTATTTAATTATTAAAAACAATCCAAATATTTAATTCA
Found at i:10481321 original size:58 final size:58
Alignment explanation
Indices: 10481253--10481369 Score: 200
Period size: 58 Copynumber: 2.0 Consensus size: 58
10481243 AATATTTAAT
10481253 TATTTAATTATTAAAAACAA-TCCAAATATTTAATTCAAAATATTTAATTATTGAATTA
1 TATTTAATTATTAAAAACAACT-CAAATATTTAATTCAAAATATTTAATTATTGAATTA
* *
10481311 TATTTAATTATTAAAAATAACTCAAATATTTAATTCAAAATATTTAATTATTTAATTA
1 TATTTAATTATTAAAAACAACTCAAATATTTAATTCAAAATATTTAATTATTGAATTA
10481369 T
1 T
10481370 TAAAAACAAC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 55 0.98
59 1 0.02
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.45
Consensus pattern (58 bp):
TATTTAATTATTAAAAACAACTCAAATATTTAATTCAAAATATTTAATTATTGAATTA
Found at i:10481388 original size:26 final size:26
Alignment explanation
Indices: 10481359--10481414 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
10481349 AATATTTAAT
10481359 TATTTAATTATTAAAAACAACCCAAA
1 TATTTAATTATTAAAAACAACCCAAA
10481385 TATTTAATTATTAAAAACAACCCAAA
1 TATTTAATTATTAAAAACAACCCAAA
10481411 TATT
1 TATT
10481415 CAGTTCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (26 bp):
TATTTAATTATTAAAAACAACCCAAA
Found at i:10481648 original size:6 final size:6
Alignment explanation
Indices: 10481637--10481669 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10481627 TTGGATGATA
10481637 AAATCT AAATCT AAATCT AAATCT AAATCT AAA
1 AAATCT AAATCT AAATCT AAATCT AAATCT AAA
10481670 CATATATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATCT
Found at i:10493213 original size:18 final size:19
Alignment explanation
Indices: 10493187--10493226 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10493177 TTGAGAAGGC
10493187 GAAACCTGAAG-AGATGAAG
1 GAAACCTGAAGAAGA-GAAG
10493206 GAAA-CTGAAGAAGAGAAG
1 GAAACCTGAAGAAGAGAAG
10493224 GAA
1 GAA
10493227 GAAGAAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.53, C:0.07, G:0.33, T:0.07
Consensus pattern (19 bp):
GAAACCTGAAGAAGAGAAG
Found at i:10493524 original size:21 final size:21
Alignment explanation
Indices: 10493486--10493525 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10493476 GGTTGACTCC
*
10493486 AAGGACAAGAAAAGAAAGAGG
1 AAGGACAAGAAAAAAAAGAGG
10493507 AAGGACAA-AAAGAAAAAGA
1 AAGGACAAGAAA-AAAAAGA
10493526 AGCATAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.68, C:0.05, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGGACAAGAAAAAAAAGAGG
Found at i:10493642 original size:17 final size:18
Alignment explanation
Indices: 10493603--10493646 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10493593 ATGCATATCA
* *
10493603 TTTAGTTGTCATTGCATT
1 TTTATTTGTCACTGCATT
10493621 TTTATTTGTCACTGCA-T
1 TTTATTTGTCACTGCATT
10493638 TTTATTTGT
1 TTTATTTGT
10493647 TAGTACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (18 bp):
TTTATTTGTCACTGCATT
Found at i:10494259 original size:17 final size:17
Alignment explanation
Indices: 10494239--10494271 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10494229 AAAAAAAAGA
10494239 AAAGAAGAAAAGAAAAC
1 AAAGAAGAAAAGAAAAC
*
10494256 AAAGAAGAAGAGAAAA
1 AAAGAAGAAAAGAAAA
10494272 GCAGAAAAAA
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:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAAGAAAAC
Found at i:10494259 original size:22 final size:22
Alignment explanation
Indices: 10494229--10494282 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
10494219 AGTCACGTAT
10494229 AAAAAAAAGAA-AAGAAGAAAAG
1 AAAAAAAAGAAGAAG-AGAAAAG
*
10494251 AAAACAAAGAAGAAGAGAAAAG
1 AAAAAAAAGAAGAAGAGAAAAG
10494273 CAGAAAAAAA
1 -A-AAAAAAA
10494283 AATATTGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 17 0.63
23 4 0.15
24 6 0.22
ACGTcount: A:0.78, C:0.04, G:0.19, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAGAAGAGAAAAG
Done.