Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 49
Found at i:7301116 original size:2 final size:2
Alignment explanation
Indices: 7301109--7301138 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7301099 TATAAAACCC
7301109 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7301139 TTTTTCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7304116 original size:41 final size:43
Alignment explanation
Indices: 7304065--7304189 Score: 152
Period size: 41 Copynumber: 3.0 Consensus size: 43
7304055 AAAGGAGTAG
* * *
7304065 CCACTAATAATCCGAAGTGAGATTCATCC-CGAAGGGT-AAAT
1 CCACTGATAATCTGAAGTGAAATTCATCCTCGAAGGGTGAAAT
*
7304106 CCACTGATAATCTAAAGTGAAATTCA-CCTCGAAGGGTGAAAT
1 CCACTGATAATCTGAAGTGAAATTCATCCTCGAAGGGTGAAAT
* * *
7304148 -CACTGATAATATGAAGTGAAATTCAT-CTCCAAGAGTGAAAT
1 CCACTGATAATCTGAAGTGAAATTCATCCTCGAAGGGTGAAAT
7304189 C
1 C
7304190 ATTGAACTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 2 0.03
41 66 0.92
42 4 0.06
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (43 bp):
CCACTGATAATCTGAAGTGAAATTCATCCTCGAAGGGTGAAAT
Found at i:7307234 original size:28 final size:28
Alignment explanation
Indices: 7307188--7307256 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
7307178 TTCGAATTCA
*
7307188 AGAAATTAAAAGTTAGTAGTTAGTAGTT
1 AGAAGTTAAAAGTTAGTAGTTAGTAGTT
* *
7307216 AGTAGTTAAAAGTTTGTAGTTAGTAGTT
1 AGAAGTTAAAAGTTAGTAGTTAGTAGTT
7307244 AGAAGTTAGAAAG
1 AGAAGTTA-AAAG
7307257 CCAATAGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.35
Consensus pattern (28 bp):
AGAAGTTAAAAGTTAGTAGTTAGTAGTT
Found at i:7307254 original size:7 final size:7
Alignment explanation
Indices: 7307198--7307252 Score: 74
Period size: 7 Copynumber: 7.9 Consensus size: 7
7307188 AGAAATTAAA
7307198 AGTTAGT
1 AGTTAGT
7307205 AGTTAGT
1 AGTTAGT
7307212 AGTTAGT
1 AGTTAGT
**
7307219 AGTTAAA
1 AGTTAGT
*
7307226 AGTTTGT
1 AGTTAGT
7307233 AGTTAGT
1 AGTTAGT
*
7307240 AGTTAGA
1 AGTTAGT
7307247 AGTTAG
1 AGTTAG
7307253 AAAGCCAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (7 bp):
AGTTAGT
Found at i:7308973 original size:115 final size:115
Alignment explanation
Indices: 7308764--7309105 Score: 370
Period size: 115 Copynumber: 2.9 Consensus size: 115
7308754 CTCCTTATTA
* * *
7308764 AAAATGTTAATCTACCTCATTT-TGCGATGGATTTGAGCACAAGGTT-AAGCAAGTTCTTCTCAT
1 AAAATGTTGATCCACCTC-TTTCTGTGATGGA--TGAGC-CAAGGTTGAA-CAAGTTCTTCTCAT
* * * * *
7308827 TATGTACTTATTC-TCTCACATCAGATAAGTTCTTCTCATTAT-AAACTCTCAATTG
61 TATGAACTTCTTCTTC-CATATCAGATGAGTTCTTCTCATTATGAAA-TCTCAACTG
* *
7308882 GAAATGTTGATCCACCTCTTTCTGTGATGGATGAGCCAAGGTTGAACAAATTCTTCTCATTATGA
1 AAAATGTTGATCCACCTCTTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGA
* * *
7308947 ACTCCTTCTTCCATATCATATGAGTTCTTCTCATTATGAAATCTCCACTG
66 ACTTCTTCTTCCATATCAGATGAGTTCTTCTCATTATGAAATCTCAACTG
** * **
7308997 AAAAT-TCTGATCCATTTCCTTCTGTGATGGATGAGCCAAAATTGAACAAGTTCTTCTCATTATG
1 AAAATGT-TGATCCACCTCTTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATG
* * * **
7309061 AACTTCTTCTTCCTTATCGGATGAGTTCTTATTGTTATGAAATCT
65 AACTTCTTCTTCCATATCAGATGAGTTCTTCTCATTATGAAATCT
7309106 TCCAATGGAA
Statistics
Matches: 192, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
114 1 0.01
115 153 0.80
116 12 0.06
117 3 0.02
118 23 0.12
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (115 bp):
AAAATGTTGATCCACCTCTTTCTGTGATGGATGAGCCAAGGTTGAACAAGTTCTTCTCATTATGA
ACTTCTTCTTCCATATCAGATGAGTTCTTCTCATTATGAAATCTCAACTG
Found at i:7312079 original size:16 final size:16
Alignment explanation
Indices: 7312058--7312100 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
7312048 ATAAATTCAA
*
7312058 ACAAGTTAATAAACTT
1 ACAAGTCAATAAACTT
7312074 ACAAGTCAATAAACTT
1 ACAAGTCAATAAACTT
*
7312090 GCAAGTACAAT
1 ACAAGT-CAAT
7312101 GAAGATTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (16 bp):
ACAAGTCAATAAACTT
Found at i:7332487 original size:14 final size:14
Alignment explanation
Indices: 7332468--7332502 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7332458 TTAATTTGAG
7332468 AATAATATAATGAT
1 AATAATATAATGAT
* *
7332482 AATAATATCATTAT
1 AATAATATAATGAT
7332496 AATAATA
1 AATAATA
7332503 AAGAGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (14 bp):
AATAATATAATGAT
Found at i:7337720 original size:35 final size:35
Alignment explanation
Indices: 7337681--7337886 Score: 229
Period size: 35 Copynumber: 5.8 Consensus size: 35
7337671 AAAGTCTCTG
7337681 TAGGTTCAG-CTCGATCAAACTGGTAATTCCTTATA
1 TAGGTTCAGAC-CGATCAAACTGGTAATTCCTTATA
* * *
7337716 TAGGTTCAGACCTATCAAACTGGTAATTCTTTATGG
1 TAGGTTCAGACCGATCAAACTGGTAATTCCTTAT-A
* * *
7337752 CAGATTTAG-CTCGATCAAACTGGTAATTCCTTATA
1 TAGGTTCAGAC-CGATCAAACTGGTAATTCCTTATA
* * *
7337787 TAGGTTCAGACCTATCAAACTGGTAATTCTTTATGG
1 TAGGTTCAGACCGATCAAACTGGTAATTCCTTAT-A
* * *
7337823 CAGGTTCA-ACTCGGTCAAATTGGTAATTCCTTATA
1 TAGGTTCAGAC-CGATCAAACTGGTAATTCCTTATA
*
7337858 TAGGTTCAGACCAATCAAACTGGTAATTC
1 TAGGTTCAGACCGATCAAACTGGTAATTC
7337887 TTTACGGATA
Statistics
Matches: 139, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
35 82 0.59
36 57 0.41
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (35 bp):
TAGGTTCAGACCGATCAAACTGGTAATTCCTTATA
Found at i:7337781 original size:71 final size:71
Alignment explanation
Indices: 7337685--7337890 Score: 358
Period size: 71 Copynumber: 2.9 Consensus size: 71
7337675 TCTCTGTAGG
7337685 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTAT
1 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTAT
7337750 GGCAGA
66 GGCAGA
*
7337756 TTTAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTAT
1 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTAT
*
7337821 GGCAGG
66 GGCAGA
* * * *
7337827 TTCAACTCGGTCAAATTGGTAATTCCTTATATAGGTTCAGACCAATCAAACTGGTAATTCTTTA
1 TTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTA
7337891 CGGATATAAG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 128 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (71 bp):
TTCAGCTCGATCAAACTGGTAATTCCTTATATAGGTTCAGACCTATCAAACTGGTAATTCTTTAT
GGCAGA
Found at i:7340069 original size:17 final size:17
Alignment explanation
Indices: 7340030--7340071 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
7340020 TTGAAAATTA
*
7340030 CTCCCCCTTATTTTATT
1 CTCCCCCTTACTTTATT
*
7340047 -TTCCCCTTACTTTATT
1 CTCCCCCTTACTTTATT
7340063 CTCCCCCTT
1 CTCCCCCTT
7340072 TTTGTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (17 bp):
CTCCCCCTTACTTTATT
Found at i:7342545 original size:257 final size:256
Alignment explanation
Indices: 7342090--7342590 Score: 939
Period size: 257 Copynumber: 2.0 Consensus size: 256
7342080 GAAAATTTTC
* *
7342090 GGATTTGAGTGAGAATAGATGTTGTTTGCACGAATTTGATTATTCCAACAGGTTTAGAAGTTGAA
1 GGATTTGAGTGAGAATAGATGTTGTTTGCACAAATTTGATTATTCCAACAGGTTTAGAAGTTAAA
7342155 GAACAGTTGGATTCCGACTGATTTTGTTGATTTTAAGCAAAATAGAGAGTAGGGGTGATTTGGAG
66 GAACAGTTGGATTCCGACTGATTTTGTTGATTTTAAGCAAAATAGAGAGTAGGGGTGATTTGGAG
7342220 AGGAAAGACGGCAATGAGTATATTTTGGGGTTTTTGACAAAATGAATGAATTTTAGGGATTTTAA
131 AGGAAAGACGGCAATGAGTATATTTTGGGGTTTTTGACAAAATGAATGAATTTTAGGGATTTTAA
*
7342285 GCCTAAAGCCTGACGAGTGTATTGGTACACTCCTGAGTGTATCGATACATAGAGGAATGTA
196 GCCTAAAACCTGACGAGTGTATTGGTACACTCCTGAGTGTATCGATACATAGAGGAATGTA
7342346 GGATTTGAGTGAGAATAGATGTTGTTTGCACAAATTTGATTATTCCAACAGGTTTAGAAGTTAAA
1 GGATTTGAGTGAGAATAGATGTTGTTTGCACAAATTTGATTATTCCAACAGGTTTAGAAGTTAAA
7342411 GAACAGTTGGATTCCGACCTGATTTTGTTGATTTTAAGCAAAATAGAGAGTAGGGGTGATTTGGA
66 GAACAGTTGGATTCCGA-CTGATTTTGTTGATTTTAAGCAAAATAGAGAGTAGGGGTGATTTGGA
* * *
7342476 GAGGAATGACGGTAATGAGTATGTTTTGGGGTTTTTGACAAAATGAATGAATTTTAGGGATTTTA
130 GAGGAAAGACGGCAATGAGTATATTTTGGGGTTTTTGACAAAATGAATGAATTTTAGGGATTTTA
7342541 AGCCTAAAACCTGACGAGTGTATTGGTACACTCCTGAGTGTATCGATACA
195 AGCCTAAAACCTGACGAGTGTATTGGTACACTCCTGAGTGTATCGATACA
7342591 CATTCTAGGA
Statistics
Matches: 238, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
256 80 0.34
257 158 0.66
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (256 bp):
GGATTTGAGTGAGAATAGATGTTGTTTGCACAAATTTGATTATTCCAACAGGTTTAGAAGTTAAA
GAACAGTTGGATTCCGACTGATTTTGTTGATTTTAAGCAAAATAGAGAGTAGGGGTGATTTGGAG
AGGAAAGACGGCAATGAGTATATTTTGGGGTTTTTGACAAAATGAATGAATTTTAGGGATTTTAA
GCCTAAAACCTGACGAGTGTATTGGTACACTCCTGAGTGTATCGATACATAGAGGAATGTA
Found at i:7343043 original size:15 final size:15
Alignment explanation
Indices: 7343023--7343053 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7343013 TCTCCTTTAG
7343023 TGAAATGATCTCTAA
1 TGAAATGATCTCTAA
*
7343038 TGAAATGATGTCTAA
1 TGAAATGATCTCTAA
7343053 T
1 T
7343054 TTCAATGTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAATGATCTCTAA
Found at i:7353181 original size:139 final size:139
Alignment explanation
Indices: 7352923--7353203 Score: 438
Period size: 139 Copynumber: 2.0 Consensus size: 139
7352913 TATATATTTA
* * * * * *
7352923 TGGTTCACTCTGAAACAGGAAGTAGGGATGTGTATTCCACTAACATTTGATGTGTTTTGATTTGA
1 TGGTTCACTCAGAAACAGGAAGTAAGGATGTGTATTCCACTAACATTTGATGGGTTTCGACTTCA
* * *
7352988 TTTGATTCGGTTTAATTAATTTTTATTTTAAAATTTAGGCTTGGAGTAAGTTCCTTTATTTTCAA
66 TTCGATTCAGTTTAATTAACTTTTATTTTAAAATTTAGGCTTGGAGTAAGTTCCTTTATTTTCAA
7353053 AAGTGAAAG
131 AAGTGAAAG
* *
7353062 TGGTTCACTCAGAAACGGGAAGTAAGGATGTGTATTCCACTGACATTTGATGGGTTTCGACTTCA
1 TGGTTCACTCAGAAACAGGAAGTAAGGATGTGTATTCCACTAACATTTGATGGGTTTCGACTTCA
*
7353127 TTCGATTCAGTTTAATTAACTTTTATTTTGAAAATTTAGGTTTGGAGTAA-TTCCTTTATTTTCA
66 TTCGATTCAGTTTAATTAACTTTTATTTT-AAAATTTAGGCTTGGAGTAAGTTCCTTTATTTTCA
7353191 AAAGTGAAAG
130 AAAGTGAAAG
7353201 TGG
1 TGG
7353204 ATTGGGTTTA
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
139 110 0.85
140 19 0.15
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.41
Consensus pattern (139 bp):
TGGTTCACTCAGAAACAGGAAGTAAGGATGTGTATTCCACTAACATTTGATGGGTTTCGACTTCA
TTCGATTCAGTTTAATTAACTTTTATTTTAAAATTTAGGCTTGGAGTAAGTTCCTTTATTTTCAA
AAGTGAAAG
Found at i:7362208 original size:40 final size:40
Alignment explanation
Indices: 7362159--7362238 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
7362149 ATAGGAGTCA
* * * * *
7362159 AATATTGCACTGTGGTACTGAGGTCGAGCCTTGCTCACCT
1 AATAATGCACCGTAGTACTGAGGTCGAGCCATGCCCACCT
* *
7362199 AATAATGCACCGTAGTGCTGAGGTCGGGCCATGCCCACCT
1 AATAATGCACCGTAGTACTGAGGTCGAGCCATGCCCACCT
7362239 TATACACTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (40 bp):
AATAATGCACCGTAGTACTGAGGTCGAGCCATGCCCACCT
Found at i:7363284 original size:16 final size:16
Alignment explanation
Indices: 7363263--7363304 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7363253 TAACATTTTA
7363263 GTAGTCACTCTTTACC
1 GTAGTCACTCTTTACC
7363279 GTAGTCACTCTTTACC
1 GTAGTCACTCTTTACC
* *
7363295 ATAGTAACTC
1 GTAGTCACTC
7363305 CGTCACTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.36
Consensus pattern (16 bp):
GTAGTCACTCTTTACC
Found at i:7375242 original size:36 final size:36
Alignment explanation
Indices: 7375202--7375272 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
7375192 AGGATTAAAT
*
7375202 TTTAAATAGGATAAACTATATATATTG-TCACTAATA
1 TTTAAATAGGATAAACTATATA-AATGATCACTAATA
7375238 TTTAAATAGGATAAACTATATAAATGATCACTAAT
1 TTTAAATAGGATAAACTATATAAATGATCACTAAT
7375273 GTTTGAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 3 0.09
36 30 0.91
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (36 bp):
TTTAAATAGGATAAACTATATAAATGATCACTAATA
Found at i:7375372 original size:31 final size:31
Alignment explanation
Indices: 7375309--7375380 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
7375299 AGTTTTAAAA
** **
7375309 ATAATAAATTGGCTACTAACATTATCGGTTT
1 ATAATAAATTGATTACTAACATTATCAATTT
7375340 ATCAA-AAATTGATTACTAACATTATCAATTT
1 AT-AATAAATTGATTACTAACATTATCAATTT
7375371 ATAATAAATT
1 ATAATAAATT
7375381 AATCACTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 2 0.06
31 31 0.89
32 2 0.06
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (31 bp):
ATAATAAATTGATTACTAACATTATCAATTT
Found at i:7378486 original size:163 final size:160
Alignment explanation
Indices: 7378172--7378494 Score: 576
Period size: 163 Copynumber: 2.0 Consensus size: 160
7378162 ATGCAAGGGA
7378172 GCAATGAGTGAATGGGATGCGCTCATACTTCTTGGAAGGACTTAGACCAGGGGCAATGCTCGGGG
1 GCAATGAGTGAATGGGATGCGCTCATACTTCTTGGAAGGACTTAGACCAGGGGCAATGCTCGGGG
* * *
7378237 GGAGAGCAATGTGATGCCCGAGACTTTCGAAAGCATAGCTGTAGCCGGAAAGCTGATTGAGCTTG
66 GGAGAGCAATGTGATCCCCAAGACTTTCGAAAGCATAGCTATAGCCGGAAAGCTGATTGAGCTTG
7378302 CAGATGTCAAGTCAAGTAGCAATGTGTCGT
131 CAGATGTCAAGTCAAGTAGCAATGTGTCGT
7378332 GCAATGAGTGAATGGGATGCGCTCAATACCTTCTTGGAAGGACTTAGACCAGGGGCAATGCTC-G
1 GCAATGAGTGAATGGGATGCGCTC-ATA-CTTCTTGGAAGGACTTAGACCAGGGGCAATGCTCGG
7378396 GGGGAGAGCAATGTGATCCCCAAAGACTTTCGAAAGCCATAGCTATAGCCGGAAAGCTGATTGAG
64 GGGGAGAGCAATGTGATCCCC-AAGACTTTCGAAAG-CATAGCTATAGCCGGAAAGCTGATTGAG
7378461 CTTGCAGATGTCAAGTCAAGTAGCAATGTGTCGT
127 CTTGCAGATGTCAAGTCAAGTAGCAATGTGTCGT
7378495 CCAGGCCCAT
Statistics
Matches: 156, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
160 24 0.15
161 24 0.15
162 47 0.30
163 61 0.39
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (160 bp):
GCAATGAGTGAATGGGATGCGCTCATACTTCTTGGAAGGACTTAGACCAGGGGCAATGCTCGGGG
GGAGAGCAATGTGATCCCCAAGACTTTCGAAAGCATAGCTATAGCCGGAAAGCTGATTGAGCTTG
CAGATGTCAAGTCAAGTAGCAATGTGTCGT
Found at i:7381674 original size:17 final size:17
Alignment explanation
Indices: 7381631--7381677 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
7381621 TGAGGCCAGA
*
7381631 TACTGAAACCTATAGCT
1 TACTGAAACTTATAGCT
7381648 TACTGAAACTTATAGCT
1 TACTGAAACTTATAGCT
7381665 TACTGAAACTTAT
1 TACTGAAACTTAT
7381678 TGACCAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (17 bp):
TACTGAAACTTATAGCT
Found at i:7383500 original size:3 final size:3
Alignment explanation
Indices: 7383492--7383550 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
7383482 ACCCCAACGT
7383492 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7383540 TTA TTA TTA TT
1 TTA TTA TTA TT
7383551 GAGTATTTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7383987 original size:21 final size:20
Alignment explanation
Indices: 7383961--7384000 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
7383951 AAAAAAAATT
7383961 GAGTTATTCAAACTACTATTC
1 GAGTTATTCAAACT-CTATTC
7383982 GAGTTATTCAAACTCTATT
1 GAGTTATTCAAACTCTATT
7384001 TTATAACTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
GAGTTATTCAAACTCTATTC
Found at i:7385404 original size:35 final size:35
Alignment explanation
Indices: 7385358--7385428 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
7385348 AAGAAATAAG
* *
7385358 TTTATGGGCCCTGCTTTTAATTTAGTTTATTAATA
1 TTTATGAGCCCTGCTTTTAATTTAGTATATTAATA
*
7385393 TTTATGAGCCCTTCTTTTAATTTAGTATATTAATA
1 TTTATGAGCCCTGCTTTTAATTTAGTATATTAATA
7385428 T
1 T
7385429 AATTTTTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.52
Consensus pattern (35 bp):
TTTATGAGCCCTGCTTTTAATTTAGTATATTAATA
Found at i:7393109 original size:14 final size:14
Alignment explanation
Indices: 7393090--7393116 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7393080 ATATTAAATA
7393090 ATAATTATAATTAT
1 ATAATTATAATTAT
7393104 ATAATTATAATTA
1 ATAATTATAATTA
7393117 AAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTATAATTAT
Found at i:7397502 original size:20 final size:20
Alignment explanation
Indices: 7397441--7397502 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
7397431 ACAAACTTAC
** *
7397441 ACCAAAAAATTTGGTTTCCA
1 ACCAAAAAACCTGGATTCCA
** *
7397461 ACCTCAAAACCT-GAGTTGCA
1 ACCAAAAAACCTGGA-TTCCA
7397481 ACCAAAAAACCTGGATTCCA
1 ACCAAAAAACCTGGATTCCA
7397501 AC
1 AC
7397503 ATAAAATATG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.90
21 2 0.06
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.21
Consensus pattern (20 bp):
ACCAAAAAACCTGGATTCCA
Found at i:7402449 original size:30 final size:30
Alignment explanation
Indices: 7402408--7402551 Score: 135
Period size: 30 Copynumber: 4.7 Consensus size: 30
7402398 TTACCATATA
*
7402408 CACTAAGTGTCCTTACACACCACAGTGTTG
1 CACTAAGTGTCCTTACACACCACAGTATTG
* * * *
7402438 CACTGAGTGTCCTTACACGCTACAATATTG
1 CACTAAGTGTCCTTACACACCACAGTATTG
* * * * *
7402468 TACTAATTGTCCTTAAACACTATAGTATTG
1 CACTAAGTGTCCTTACACACCACAGTATTG
* * *
7402498 TACTAAGTTTCCTTACACACCACAGTACCATATA
1 CACTAAGTGTCCTTACACACCACAGT---AT-TG
7402532 CACTAAGTGTCCTTACACAC
1 CACTAAGTGTCCTTACACAC
7402552 TATAGTGCTA
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
30 69 0.77
33 2 0.02
34 19 0.21
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (30 bp):
CACTAAGTGTCCTTACACACCACAGTATTG
Found at i:7405171 original size:31 final size:30
Alignment explanation
Indices: 7405136--7405222 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 30
7405126 TAAATTTAGG
* * * **
7405136 AAATTAACCTTTTGGTCTCTAAACTATTGGA
1 AAATTAACATTATGGTCCCTAAACT-TTCCA
*
7405167 AAATTATCATTATGGTCCCTAAACTTTCCA
1 AAATTAACATTATGGTCCCTAAACTTTCCA
7405197 AAATTAAC-TT-TGG-CCACTAAACTTTC
1 AAATTAACATTATGGTCC-CTAAACTTTC
7405223 AAACTTTACA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 2 0.04
28 13 0.27
29 2 0.04
30 10 0.21
31 21 0.44
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (30 bp):
AAATTAACATTATGGTCCCTAAACTTTCCA
Found at i:7405244 original size:29 final size:28
Alignment explanation
Indices: 7405136--7405245 Score: 78
Period size: 31 Copynumber: 3.7 Consensus size: 28
7405126 TAAATTTAGG
* **
7405136 AAATTAACCTTTTGGTCTCTAAACTATTGGA
1 AAATTAA-C-TTTGGTCACTAAACT-TTCCA
* *
7405167 AAATTATCATTATGGTCCCTAAACTTTCCA
1 AAATTAAC-TT-TGGTCACTAAACTTTCCA
*
7405197 AAATTAACTTTGGCCACTAAACTTT-CA
1 AAATTAACTTTGGTCACTAAACTTTCCA
* *
7405224 AACTTTACAGTTTGGTCACTAA
1 AA-ATTA-ACTTTGGTCACTAA
7405246 CCAAATTTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.06
28 16 0.25
29 14 0.22
30 13 0.20
31 18 0.28
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (28 bp):
AAATTAACTTTGGTCACTAAACTTTCCA
Found at i:7409009 original size:23 final size:23
Alignment explanation
Indices: 7408954--7409011 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
7408944 TAGTCAGCGA
* *
7408954 ATGATGTGGCAGCTGACATGTTG
1 ATGATGTGGTAGCTGACATGGTG
* *
7408977 ATGATGTGGTAGCTTACGTGGTG
1 ATGATGTGGTAGCTGACATGGTG
7409000 ATGATGTGGTAG
1 ATGATGTGGTAG
7409012 GTGATGTGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.09, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGTGGTAGCTGACATGGTG
Found at i:7410782 original size:2 final size:2
Alignment explanation
Indices: 7410775--7410825 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7410765 TTTCAAATAC
7410775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7410817 AT AT AT AT A
1 AT AT AT AT A
7410826 AATAATAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7414870 original size:19 final size:20
Alignment explanation
Indices: 7414842--7414885 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
7414832 GTCATCCAAT
7414842 TTTTTAAACCCCATACCGGA
1 TTTTTAAACCCCATACCGGA
7414862 TTTTT-AACCCCATACCGGA
1 TTTTTAAACCCCATACCGGA
7414881 TTTTT
1 TTTTT
7414886 TTTGGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (20 bp):
TTTTTAAACCCCATACCGGA
Found at i:7418038 original size:34 final size:33
Alignment explanation
Indices: 7417958--7418041 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
7417948 TCTATTCGGG
* *
7417958 TCGGGTC-GGTAGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTTAAATGTGATAT
7417990 TCGGGTCGGGTCGGGTTTTTTTAAATGTGATAT
1 TCGGGTCGGGTCGGGTTTTTTTAAATGTGATAT
*
7418023 TCGGGTCGGATTCGGGTTT
1 TCGGGTCGG-GTCGGGTTT
7418042 AGGGAGAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 7 0.15
33 32 0.68
34 8 0.17
ACGTcount: A:0.13, C:0.10, G:0.36, T:0.42
Consensus pattern (33 bp):
TCGGGTCGGGTCGGGTTTTTTTAAATGTGATAT
Found at i:7418630 original size:16 final size:18
Alignment explanation
Indices: 7418611--7418650 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7418601 CTTCATATTT
7418611 CAATTCC-T-ACAGATTC
1 CAATTCCTTCACAGATTC
7418627 CAATTCCTTCACAGATTC
1 CAATTCCTTCACAGATTC
*
7418645 TAATTC
1 CAATTC
7418651 TCTCAGAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (18 bp):
CAATTCCTTCACAGATTC
Found at i:7419485 original size:24 final size:24
Alignment explanation
Indices: 7419455--7419507 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
7419445 ATTTACCATA
7419455 AAATGTTAGATATGATTGTAAAAT
1 AAATGTTAGATATGATTGTAAAAT
*
7419479 AAATGTTAGATATGATTGTGAAAT
1 AAATGTTAGATATGATTGTAAAAT
7419503 AAATG
1 AAATG
7419508 CATAATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (24 bp):
AAATGTTAGATATGATTGTAAAAT
Found at i:7424539 original size:19 final size:19
Alignment explanation
Indices: 7424482--7424544 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 19
7424472 TTTCCTTTAC
7424482 ATTTTCATTTCCCTGATAG
1 ATTTTCATTTCCCTGATAG
** *
7424501 A--TT--TTT-CCTTTTAC
1 ATTTTCATTTCCCTGATAG
7424515 ATTTTCATTTCCCTGATAG
1 ATTTTCATTTCCCTGATAG
*
7424534 ATTTTCCTTTC
1 ATTTTCATTTC
7424545 TTATTACAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
14 6 0.19
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 16 0.50
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.54
Consensus pattern (19 bp):
ATTTTCATTTCCCTGATAG
Found at i:7424539 original size:32 final size:33
Alignment explanation
Indices: 7424472--7424543 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
7424462 CCAACTTTTC
7424472 TTTCC-TTTACATTTTCATTTCCCTGATAGATT
1 TTTCCTTTTACATTTTCATTTCCCTGATAGATT
7424504 TTTCCTTTTACATTTTCATTTCCCTGATAGA-T
1 TTTCCTTTTACATTTTCATTTCCCTGATAGATT
7424536 TTTCCTTT
1 TTTCCTTT
7424544 CTTATTACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 14 0.36
33 25 0.64
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (33 bp):
TTTCCTTTTACATTTTCATTTCCCTGATAGATT
Found at i:7429581 original size:7 final size:6
Alignment explanation
Indices: 7429571--7429633 Score: 60
Period size: 6 Copynumber: 10.3 Consensus size: 6
7429561 GAATAGAAAA
7429571 TATTTT CTATTTT TA-TTT TA-TTT TATTTTT TATTTT T-TATTT TATTTT
1 TATTTT -TATTTT TATTTT TATTTT TA-TTTT TATTTT TAT-TTT TATTTT
*
7429619 CTATTTT TGTTTT TA
1 -TATTTT TATTTT TA
7429634 AAAATAGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
5 11 0.22
6 20 0.41
7 18 0.37
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:7429591 original size:5 final size:5
Alignment explanation
Indices: 7429581--7429618 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
7429571 TATTTTCTAT
7429581 TTTTA TTTTA TTTTA TTTT- TTATT- TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTT
7429619 CTATTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:7429603 original size:12 final size:12
Alignment explanation
Indices: 7429580--7429625 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
7429570 ATATTTTCTA
7429580 TTTTTATTTTAT
1 TTTTTATTTTAT
7429592 TTTATT-TTTTAT
1 TTT-TTATTTTAT
7429604 TTTTTATTTTAT
1 TTTTTATTTTAT
*
7429616 TTTCTATTTT
1 TTTTTATTTT
7429626 TGTTTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:7429633 original size:19 final size:19
Alignment explanation
Indices: 7429586--7429626 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
7429576 TCTATTTTTA
*
7429586 TTTTATTTTATTTTTTATT
1 TTTTATTTTATTTTCTATT
7429605 TTTTATTTTATTTTCTATT
1 TTTTATTTTATTTTCTATT
7429624 TTT
1 TTT
7429627 GTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTTTATTTTCTATT
Found at i:7429633 original size:24 final size:24
Alignment explanation
Indices: 7429570--7429633 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 24
7429560 AGAATAGAAA
7429570 ATATTTTCTATTTTTATTTTATTTT
1 ATATTTT-TATTTTTATTTTATTTT
7429595 AT-TTTTTATTTTTTATTTTATTTT
1 ATATTTTTA-TTTTTATTTTATTTT
* *
7429619 CTATTTTTGTTTTTA
1 ATATTTTTATTTTTA
7429634 AAAATAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 26 0.74
25 7 0.20
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (24 bp):
ATATTTTTATTTTTATTTTATTTT
Found at i:7432631 original size:3 final size:3
Alignment explanation
Indices: 7432625--7432676 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
7432615 ATTTATTATT
* *
7432625 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA T-A TAA TAA -AA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7432671 TAA TAA
1 TAA TAA
7432677 ATCAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 40 0.91
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7433042 original size:121 final size:117
Alignment explanation
Indices: 7432894--7433449 Score: 595
Period size: 121 Copynumber: 4.8 Consensus size: 117
7432884 GATGTAATGT
* *
7432894 AACAAAAGGTTGAACACGTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGATGAGTTCTTCTC
1 AACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
**
7432959 ATTATGAACACTTCTGGAAATGTTGATATTGATCTATCTCCTTCTGTGATAGAATT-A
66 ATTATGAACACTTCTGGAAAT-TTGATATTGATCTA-CT-C--AAGTGAT-GAATTCA
* * *
7433016 AAC-AAAGGTTGAAGAAGTTCTTCTCATTATGAACTTCTTCTTTCTCTTCAGACGAGTTCTTCTC
1 AACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
* *
7433080 ATTATGAACACTTCTGGAAATGTTGATGTTGATCTATCTCGTTATGTGATAGAA-TCA
66 ATTATGAACACTTCTGGAAAT-TTGATATTGATCTA-CTC---AAGTGAT-GAATTCA
* *
7433137 AAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATAAGTTCTTCTC
1 AACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
** * * *
7433201 ATTATGAACTTTCTCTGGAAA----A-ATTGATC-AATCGAGTTATGAATTCA
66 ATTATGAACACT-TCTGGAAATTTGATATTGATCTACTCAAGTGATGAATTCA
* * *
7433248 AACAAAAGGTTTGAACAAATTCTTCTAATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AACAAAAGG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTC
* * * * * * *
7433313 TCATTATGAACTCTACCTGGCAA--TG---CTGATCCA-TCAAATGATGAATTCG
64 TCATTATGAACACT-TCTGGAAATTTGATATTGATCTACTCAAGTGATGAATTCA
* * *
7433362 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTC
1 AACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
7433427 ATTATGAACACTTCTGGAAATTT
66 ATTATGAACACTTCTGGAAATTT
7433450 TGATCCATTG
Statistics
Matches: 384, Mismatches: 38, Indels: 33
0.84 0.08 0.07
Matches are distributed among these distances:
110 3 0.01
111 16 0.04
112 35 0.09
113 67 0.17
114 63 0.16
115 2 0.01
116 6 0.02
117 1 0.00
120 2 0.01
121 178 0.46
122 11 0.03
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (117 bp):
AACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
ATTATGAACACTTCTGGAAATTTGATATTGATCTACTCAAGTGATGAATTCA
Found at i:7433094 original size:19 final size:20
Alignment explanation
Indices: 7433033--7433094 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 20
7433023 GTTGAAGAAG
**
7433033 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACGAC
*
7433053 TTCTTTCTC-TTCA-G-ACGAG
1 TTC-TTCTCATT-ATGAACGAC
7433072 TTCTTCTCATTATGAAC-AC
1 TTCTTCTCATTATGAACGAC
7433091 TTCT
1 TTCT
7433095 GGAAATGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
18 6 0.18
19 13 0.39
20 8 0.24
21 6 0.18
ACGTcount: A:0.19, C:0.26, G:0.08, T:0.47
Consensus pattern (20 bp):
TTCTTCTCATTATGAACGAC
Found at i:7433343 original size:114 final size:112
Alignment explanation
Indices: 7433126--7433435 Score: 419
Period size: 113 Copynumber: 2.8 Consensus size: 112
7433116 TCTCGTTATG
* *
7433126 TGATAGAA-TCAAAC-AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAGA
1 TGAT-GAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGA
* * * *
7433189 TAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATCAATCGAG
65 TAAGTTCTTCTCATTATGAACTTACTCTGGAAAAACTGATCAATCAAA
* * *
7433237 TTATGAATTCAAACAAAAGGTTTGAACAAATTCTTCTAATTATGAATTTCTTCTTCCTTCTTCAG
1 TGATGAATTCAAACAAAAGG-TTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAG
* * ** *
7433302 ATGAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGCTGATCCATCAAA
64 ATAAGTTCTTCTCATTATGAACT-TACTCTGGAAAAACTGATCAATCAAA
* *
7433351 TGATGAATTCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGAT
1 TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGAT
7433416 AAGTTCTTCTCATTATGAAC
66 AAGTTCTTCTCATTATGAAC
7433436 ACTTCTGGAA
Statistics
Matches: 174, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
110 3 0.02
111 9 0.05
112 33 0.19
113 66 0.38
114 61 0.35
115 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (112 bp):
TGATGAATTCAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGAT
AAGTTCTTCTCATTATGAACTTACTCTGGAAAAACTGATCAATCAAA
Found at i:7435023 original size:19 final size:23
Alignment explanation
Indices: 7435004--7435046 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
7434994 CTATATATTT
7435004 TTTCA-TCA-TTTTTTTCTTTTCA
1 TTTCATTCATTTTTTTTCTTTT-A
7435026 TTTCATTCATTTTTTTTCTTT
1 TTTCATTCATTTTTTTTCTTT
7435047 CCTTTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 5 0.26
23 3 0.16
24 11 0.58
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTCATTCATTTTTTTTCTTTTA
Found at i:7445749 original size:22 final size:23
Alignment explanation
Indices: 7445694--7445750 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 23
7445684 ATTTAATACT
*
7445694 TGAAAATAAAATAAAAACATTAA
1 TGAAAATAATATAAAAACATTAA
* * *
7445717 TAAAAAGTAATATATAAATATT-A
1 TGAAAA-TAATATAAAAACATTAA
7445740 TGAAAATAATA
1 TGAAAATAATA
7445751 AGTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 5 0.18
23 11 0.39
24 12 0.43
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (23 bp):
TGAAAATAATATAAAAACATTAA
Found at i:7445771 original size:28 final size:29
Alignment explanation
Indices: 7445715--7445773 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
7445705 TAAAAACATT
*
7445715 AATAAAAAGTAATATATAAATATTATGAA
1 AATAAAAAGTAATATATAAAAATTATGAA
* *
7445744 AATAATAAGT-ATATATAAAAATTTTGAA
1 AATAAAAAGTAATATATAAAAATTATGAA
7445772 AA
1 AA
7445774 GAAAGAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (29 bp):
AATAAAAAGTAATATATAAAAATTATGAA
Found at i:7446292 original size:17 final size:18
Alignment explanation
Indices: 7446270--7446307 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
7446260 AAATCTATTA
7446270 ATTTATATATATA-AAAT
1 ATTTATATATATAGAAAT
* *
7446287 ATTTATTTATTTAGAAAT
1 ATTTATATATATAGAAAT
7446305 ATT
1 ATT
7446308 AGAAAATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTTATATATATAGAAAT
Found at i:7446636 original size:20 final size:21
Alignment explanation
Indices: 7446612--7446660 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
7446602 TAATAATAAT
7446612 AATAATTAA-ATATA-TAAAC
1 AATAATTAAGATATACTAAAC
7446631 ATATAAATTAAGATATACTTAAAC
1 A-AT-AATTAAGATATAC-TAAAC
7446655 AATAAT
1 AATAAT
7446661 ATTAAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 6 0.24
22 8 0.32
23 2 0.08
24 6 0.24
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATTAAGATATACTAAAC
Found at i:7446655 original size:24 final size:20
Alignment explanation
Indices: 7446615--7446666 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 20
7446605 TAATAATAAT
7446615 AATTAAATATATAAACATATA
1 AATTAAATATATAAACA-ATA
7446636 AATTAAGATATACTTAAACAATA
1 AATTAA-ATATA--TAAACAATA
7446659 ATATTAAA
1 A-ATTAAA
7446667 ACTAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.22
22 5 0.19
23 5 0.19
24 11 0.41
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTAAATATATAAACAATA
Found at i:7447993 original size:3 final size:3
Alignment explanation
Indices: 7447987--7448041 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
7447977 ATTTATTATT
* * *
7447987 TAA TAA TAA TAT TAA TAA TAA TAG TAA TAA TGA T-A TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
7448033 TTA TAA TAA
1 TAA TAA TAA
7448042 ATCAAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:7449913 original size:40 final size:40
Alignment explanation
Indices: 7449858--7449944 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
7449848 ATAAATCTCG
*
7449858 TATTGATACCCTCATAGGGTACTGATATCACCCCTTGTCA
1 TATTGATACCCTCATAGGGTACTAATATCACCCCTTGTCA
7449898 TATTGATACCCTCATAGGGTACTAATATCACCCCTTGTCA
1 TATTGATACCCTCATAGGGTACTAATATCACCCCTTGTCA
7449938 TATTGAT
1 TATTGAT
7449945 GCTTAGCTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (40 bp):
TATTGATACCCTCATAGGGTACTAATATCACCCCTTGTCA
Found at i:7453001 original size:35 final size:36
Alignment explanation
Indices: 7452940--7453009 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
7452930 TTACATAGGT
**
7452940 TTTATTCTTGTAAAGTAAGAAACTAAAATTAAGGAC
1 TTTATTCCAGTAAAGTAAGAAACTAAAATTAAGGAC
*
7452976 TTTATTCCAGTAAA-TAAGATACTAAAATTAAGGA
1 TTTATTCCAGTAAAGTAAGAAACTAAAATTAAGGA
7453010 TTTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.33
Consensus pattern (36 bp):
TTTATTCCAGTAAAGTAAGAAACTAAAATTAAGGAC
Found at i:7459469 original size:21 final size:21
Alignment explanation
Indices: 7459443--7459484 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7459433 AAAAATTACA
7459443 TAAAAATATTAAAAATTTAATT
1 TAAAAA-ATTAAAAATTTAATT
*
7459465 TAAAAAATTAAAATTTTAAT
1 TAAAAAATTAAAAATTTAAT
7459485 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAAAATTAAAAATTTAATT
Found at i:7462359 original size:168 final size:165
Alignment explanation
Indices: 7462073--7462383 Score: 487
Period size: 168 Copynumber: 1.9 Consensus size: 165
7462063 GAAACTTGTT
* * *
7462073 CACTTAATCAATAATTGTGCTATCCCATTTAGGAAGAAACTCATAAATTGTCAACAAACTGTAAA
1 CACTTAATAAATAATTATGCTATCCCAATTAGGAAGAAACTCATAAATTGTCAACAAACTGTAAA
*
7462138 ATTATTATTAAAGAGTTCAATAAACGAACAGAATCAACAGGAGAAATTCTTTAACATACAACTCC
66 ATTATTATAAAAGAGTTCAATAAACGAACAGAATCAACAGGAGAAATTCTTTAACATACAACTCC
7462203 AAGATCATAAGCAGACACTTGATCAATAATTCTGC
131 AAGATCATAAGCAGACACTTGATCAATAATTCTGC
* * * *
7462238 CACTTAATAAATAATTATGCTGATCTCAATTAGGAAGAAACTCATAATTTGTCAATAAACTGTGA
1 CACTTAATAAATAATTATGCT-ATCCCAATTAGGAAGAAACTCATAAATTGTCAACAAACTGTAA
** *
7462303 AATTATTATGAAAAAGAGTTTGATAAACGAACAGAATCAATAGGAGAAATTCTTTAACATACAAC
65 AATTATTAT--AAAAGAGTTCAATAAACGAACAGAATCAACAGGAGAAATTCTTTAACATACAAC
*
7462368 TCCAAGATCATGAGCA
128 TCCAAGATCATAAGCA
7462384 AACAGAGAAG
Statistics
Matches: 131, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
165 19 0.15
166 47 0.36
168 65 0.50
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.28
Consensus pattern (165 bp):
CACTTAATAAATAATTATGCTATCCCAATTAGGAAGAAACTCATAAATTGTCAACAAACTGTAAA
ATTATTATAAAAGAGTTCAATAAACGAACAGAATCAACAGGAGAAATTCTTTAACATACAACTCC
AAGATCATAAGCAGACACTTGATCAATAATTCTGC
Found at i:7462659 original size:100 final size:100
Alignment explanation
Indices: 7462389--7462685 Score: 354
Period size: 100 Copynumber: 3.0 Consensus size: 100
7462379 GAGCAAACAG
* * * * * *
7462389 AGAAGAAGATTAACTCTTGAAGAATAAAAAACATTTACTAATACCTTCTGGATTACCCAGA-AAT
1 AGAAGAAGATAAACTC-TGAAGGAGAGAAAACATTTACTAATACCTTCTGGATCACCC-GACAAC
* * *
7462453 CATACATTTGAAGGCTAAGTGTTAAAAGTTAAAACATGAA
64 CATACATTTGAAGACTAAGTGTTAAAA--CATAACA-GAA
* *
7462493 A-AAGGAAGATAAACTCT--AGGAGAGAAACCATTTACTAATACCTTCTGGATCA-CCAACAACC
1 AGAA-GAAGATAAACTCTGAAGGAGAGAAAACATTTACTAATACCTTCTGGATCACCCGACAACC
* *
7462554 ATACATTTGAAGACAAAGTGTTAAAACATGACA-AA
65 ATACATTTGAAGACTAAGTGTTAAAACATAACAGAA
*
7462589 AGAAGAAGATAAACTCTAGAAGGAGAGAAATCATTTACTAATACCTTCTGGATCACCCGACAACC
1 AGAAGAAGATAAACTCT-GAAGGAGAGAAAACATTTACTAATACCTTCTGGATCACCCGACAACC
*
7462654 ATACATTTGAAGACTAAGTGTTGAAACATAAC
65 ATACATTTGAAGACTAAGTGTTAAAACATAAC
7462686 CAAAAAGCTT
Statistics
Matches: 168, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
96 16 0.10
97 2 0.01
98 4 0.02
99 35 0.21
100 66 0.39
101 30 0.18
103 3 0.02
104 12 0.07
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (100 bp):
AGAAGAAGATAAACTCTGAAGGAGAGAAAACATTTACTAATACCTTCTGGATCACCCGACAACCA
TACATTTGAAGACTAAGTGTTAAAACATAACAGAA
Found at i:7471914 original size:42 final size:42
Alignment explanation
Indices: 7471855--7471937 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
7471845 TCTGTGTTGC
7471855 TTCCTAAAGATCTTACGAGTCAACCAAGTCTTTTTATATTGT
1 TTCCTAAAGATCTTACGAGTCAACCAAGTCTTTTTATATTGT
7471897 TTCCTAAAGATCTTACGAGTCAACCAAGTCTTTTTATATTG
1 TTCCTAAAGATCTTACGAGTCAACCAAGTCTTTTTATATTG
7471938 AACTTCTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (42 bp):
TTCCTAAAGATCTTACGAGTCAACCAAGTCTTTTTATATTGT
Found at i:7475663 original size:19 final size:18
Alignment explanation
Indices: 7475638--7475726 Score: 79
Period size: 19 Copynumber: 4.8 Consensus size: 18
7475628 ATGAACTTAA
*
7475638 AAATAAGATATGAATATG
1 AAATAAGTTATGAATATG
*
7475656 AAATTAAGTTATGAATCTG
1 AAA-TAAGTTATGAATATG
* **
7475675 AAATAAGTTATGAGTCCG
1 AAATAAGTTATGAATATG
* *
7475693 AAAACAAGTTCTGAATATG
1 -AAATAAGTTATGAATATG
*
7475712 AGAATAAGTTCTGAA
1 A-AATAAGTTATGAA
7475727 ATGTGAAAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
18 17 0.29
19 41 0.71
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (18 bp):
AAATAAGTTATGAATATG
Found at i:7475761 original size:13 final size:13
Alignment explanation
Indices: 7475743--7475788 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
7475733 AAGTATGGAT
7475743 TATGAAAATGAAA
1 TATGAAAATGAAA
*
7475756 TATGAAAGTGAAA
1 TATGAAAATGAAA
* *
7475769 GATGAAAATGAGA
1 TATGAAAATGAAA
7475782 TATGAAA
1 TATGAAA
7475789 GTTTTGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
TATGAAAATGAAA
Found at i:7482506 original size:18 final size:18
Alignment explanation
Indices: 7482483--7482547 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
7482473 TGAAAAAGAA
7482483 TATGATATGACTATTATG
1 TATGATATGACTATTATG
** *
7482501 TATGATATTGTTTATCATGG
1 TATGATA-TGACTATTAT-G
*
7482521 CTATGATCTGACTATTATG
1 -TATGATATGACTATTATG
7482540 TATGATAT
1 TATGATAT
7482548 TGTTTATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
18 14 0.39
19 8 0.22
20 8 0.22
21 6 0.17
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (18 bp):
TATGATATGACTATTATG
Found at i:7482533 original size:39 final size:39
Alignment explanation
Indices: 7482483--7482559 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
7482473 TGAAAAAGAA
7482483 TATGATATGACTATTATGTATGATATTGTTTATCATGGC
1 TATGATATGACTATTATGTATGATATTGTTTATCATGGC
*
7482522 TATGATCTGACTATTATGTATGATATTGTTTATCATGG
1 TATGATATGACTATTATGTATGATATTGTTTATCATGG
7482560 TTTAGATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (39 bp):
TATGATATGACTATTATGTATGATATTGTTTATCATGGC
Found at i:7485878 original size:15 final size:16
Alignment explanation
Indices: 7485850--7485892 Score: 70
Period size: 15 Copynumber: 2.7 Consensus size: 16
7485840 CTCTGGAGGA
7485850 TATTAAATTCAGTACT
1 TATTAAATTCAGTACT
7485866 TATTAAA-TCAGTACT
1 TATTAAATTCAGTACT
7485881 TATTAAAGTTCA
1 TATTAAA-TTCA
7485893 TTAGAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.60
16 7 0.28
17 3 0.12
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (16 bp):
TATTAAATTCAGTACT
Found at i:7492803 original size:7 final size:7
Alignment explanation
Indices: 7492791--7492835 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
7492781 TGACTTTTCG
7492791 GTCAACA
1 GTCAACA
7492798 GTCAACA
1 GTCAACA
7492805 GTCAACACA
1 GTC-A-ACA
7492814 GTCAA-A
1 GTCAACA
7492820 GTC-A-A
1 GTCAACA
7492825 GTCAACA
1 GTCAACA
7492832 GTCA
1 GTCA
7492836 TGTCAAAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.15
6 5 0.15
7 16 0.47
8 2 0.06
9 6 0.18
ACGTcount: A:0.42, C:0.27, G:0.16, T:0.16
Consensus pattern (7 bp):
GTCAACA
Found at i:7492816 original size:16 final size:15
Alignment explanation
Indices: 7492795--7492824 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7492785 TTTTCGGTCA
7492795 ACAGTCAACAGTCAAC
1 ACAGTCAA-AGTCAAC
7492811 ACAGTCAAAGTCAA
1 ACAGTCAAAGTCAA
7492825 GTCAACAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.27, G:0.13, T:0.13
Consensus pattern (15 bp):
ACAGTCAAAGTCAAC
Found at i:7492860 original size:20 final size:20
Alignment explanation
Indices: 7492823--7492861 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7492813 AGTCAAAGTC
*
7492823 AAGTCAACAGTCATGTCAAA
1 AAGTCAACAGTCAGGTCAAA
* *
7492843 AAGTCAATAGTTAGGTCAA
1 AAGTCAACAGTCAGGTCAA
7492862 TGGTCTGGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (20 bp):
AAGTCAACAGTCAGGTCAAA
Found at i:7497979 original size:21 final size:19
Alignment explanation
Indices: 7497950--7498007 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
7497940 TTCTCTGGCT
7497950 CAAAAGATCGATCCCTTTGA
1 CAAAAGATCGATCCCTTT-A
*
7497970 CCAAAGGATCGATCCCCTTTA
1 -CAAAAGATCGAT-CCCTTTA
7497991 -AAAATGATCGATCCCTT
1 CAAAA-GATCGATCCCTT
7498008 GGACAACAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 8 0.24
20 7 0.21
21 12 0.36
22 6 0.18
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.26
Consensus pattern (19 bp):
CAAAAGATCGATCCCTTTA
Found at i:7500740 original size:14 final size:14
Alignment explanation
Indices: 7500721--7500759 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
7500711 AGTTGATCAA
*
7500721 CAGAATCTGTTTTG
1 CAGAATCTGCTTTG
7500735 CAGAATCTGCTTTG
1 CAGAATCTGCTTTG
7500749 CAGAATCTGCT
1 CAGAATCTGCT
7500760 GTCCGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
CAGAATCTGCTTTG
Found at i:7504999 original size:27 final size:27
Alignment explanation
Indices: 7504947--7505005 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
7504937 GAAAGCAATC
* *
7504947 TTCAAGAGCTCAACCTTCTAGGTAATA
1 TTCAAGAACTCAACCTTCTAGATAATA
* *
7504974 TTCAAGAACTCAACCTTCTATATAATC
1 TTCAAGAACTCAACCTTCTAGATAATA
7505001 TTCAA
1 TTCAA
7505006 CAAAGGTACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TTCAAGAACTCAACCTTCTAGATAATA
Found at i:7508691 original size:16 final size:17
Alignment explanation
Indices: 7508670--7508703 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7508660 ATATTATCCG
7508670 ATCTGAAT-TTTCGGAT
1 ATCTGAATATTTCGGAT
7508686 ATCTGAATATTTCGGAT
1 ATCTGAATATTTCGGAT
7508703 A
1 A
7508704 CTTAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (17 bp):
ATCTGAATATTTCGGAT
Found at i:7510417 original size:6 final size:6
Alignment explanation
Indices: 7510406--7510437 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
7510396 TTCATCATCT
7510406 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTCC CT
7510438 TCTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CTCTCC
Found at i:7513187 original size:20 final size:20
Alignment explanation
Indices: 7513151--7513191 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7513141 AAGTAATAAC
7513151 AAAAATTCAAATAACCAAAT
1 AAAAATTCAAATAACCAAAT
*
7513171 AAAACATTCAAGT-ACCAAAT
1 AAAA-ATTCAAATAACCAAAT
7513191 A
1 A
7513192 TCAAATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAAATTCAAATAACCAAAT
Found at i:7514042 original size:19 final size:20
Alignment explanation
Indices: 7514017--7514063 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
7514007 CAGTGTGTTT
*
7514017 AAAAGTTTCAATACTTTCAC
1 AAAAGTTTCAAAACTTTCAC
*
7514037 -AAAGTTTCAAAACTTTCTC
1 AAAAGTTTCAAAACTTTCAC
7514056 AAAAGTTT
1 AAAAGTTT
7514064 GGAAACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (20 bp):
AAAAGTTTCAAAACTTTCAC
Found at i:7514062 original size:20 final size:19
Alignment explanation
Indices: 7514018--7514090 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
7514008 AGTGTGTTTA
* *
7514018 AAAGTTTCAATACTTTCAC
1 AAAGTTTCAAAACTTTCTC
7514037 AAAGTTTCAAAACTTTCTC
1 AAAGTTTCAAAACTTTCTC
** *
7514056 AAAAGTTTGGAAACTTTTTTC
1 -AAAGTTTCAAAAC-TTTCTC
*
7514077 AAAGTTTCGAAACT
1 AAAGTTTCAAAACT
7514091 GCATGTTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 18 0.39
20 23 0.50
21 5 0.11
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
AAAGTTTCAAAACTTTCTC
Found at i:7515315 original size:19 final size:20
Alignment explanation
Indices: 7515291--7515338 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7515281 AATGATTTTC
* * *
7515291 TTTTGAAAGCTAAAATG-GA
1 TTTTGAAAACCAAAATGAAA
7515310 TTTTGAAAACCAAAATGAAA
1 TTTTGAAAACCAAAATGAAA
7515330 TTTTGAAAA
1 TTTTGAAAA
7515339 AGGATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACCAAAATGAAA
Found at i:7516874 original size:106 final size:107
Alignment explanation
Indices: 7516681--7516883 Score: 291
Period size: 107 Copynumber: 1.9 Consensus size: 107
7516671 ACACTATTCA
* * * * ** *
7516681 GTCACTATTTAGCACTGTCCATGAAAATGTTCATACACGAGTATTGTTCATATTTTTGGAAACTT
1 GTCACTAGTTAGCACTGTCCAGGAAAATGTTCATACACGAGTACTATTCATATGATTGGAAAATT
7516746 TGTAAGAGTTTTGAAACTTTTATTAAGAGTTTCAAAACTGTT
66 TGTAAGAGTTTTGAAACTTTTATTAAGAGTTTCAAAACTGTT
* * * * *
7516788 GTCACTAGTTGGCACTGTTCAGGATACTGTTCATACACGGGTACTATTCATA-GATTGGAAAATT
1 GTCACTAGTTAGCACTGTCCAGGAAAATGTTCATACACGAGTACTATTCATATGATTGGAAAATT
7516852 TGTAAGAGTTTTGAAACTTTTATTAAGAGTTT
66 TGTAAGAGTTTTGAAACTTTTATTAAGAGTTT
7516884 TGAAATTTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
106 41 0.49
107 43 0.51
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (107 bp):
GTCACTAGTTAGCACTGTCCAGGAAAATGTTCATACACGAGTACTATTCATATGATTGGAAAATT
TGTAAGAGTTTTGAAACTTTTATTAAGAGTTTCAAAACTGTT
Found at i:7516878 original size:21 final size:21
Alignment explanation
Indices: 7516854--7516914 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
7516844 GGAAAATTTG
7516854 TAAGAGTTTTGAAACTTTTAT
1 TAAGAGTTTTGAAACTTTTAT
*
7516875 TAAGAGTTTTGAAATTTTTAT
1 TAAGAGTTTTGAAACTTTTAT
*
7516896 TAAGAGTTTCGAAACTTTT
1 TAAGAGTTTTGAAACTTTT
7516915 CAAAAGTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.48
Consensus pattern (21 bp):
TAAGAGTTTTGAAACTTTTAT
Found at i:7517016 original size:20 final size:20
Alignment explanation
Indices: 7516991--7517112 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
7516981 TTTAAGTAAG
7516991 AGTTTCGAAACTTTCATCAA
1 AGTTTCGAAACTTTCATCAA
**
7517011 AGTTTCGAAACTTTCAAGAA
1 AGTTTCGAAACTTTCATCAA
*
7517031 CAGTGT-G----TTT-A--AA
1 -AGTTTCGAAACTTTCATCAA
* *
7517044 AGTTTTGATACTTTCA-CAA
1 AGTTTCGAAACTTTCATCAA
*
7517063 AGTTTTGAAACTTTC-TCAAA
1 AGTTTCGAAACTTTCATC-AA
* * *
7517083 AGTTTCAAAATTTTCTTCAA
1 AGTTTCGAAACTTTCATCAA
7517103 AGTTTCGAAA
1 AGTTTCGAAA
7517113 TTGCATGTGC
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
12 4 0.05
13 3 0.04
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
19 17 0.21
20 44 0.54
21 6 0.07
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
AGTTTCGAAACTTTCATCAA
Found at i:7517066 original size:19 final size:20
Alignment explanation
Indices: 7517041--7517087 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
7517031 CAGTGTGTTT
*
7517041 AAAAGTTTTGATACTTTCAC
1 AAAAGTTTTGAAACTTTCAC
*
7517061 -AAAGTTTTGAAACTTTCTC
1 AAAAGTTTTGAAACTTTCAC
7517080 AAAAGTTT
1 AAAAGTTT
7517088 CAAAATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
AAAAGTTTTGAAACTTTCAC
Found at i:7519302 original size:2 final size:2
Alignment explanation
Indices: 7519295--7519326 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7519285 ATTAATGAAT
7519295 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7519327 GATAGAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7525027 original size:22 final size:23
Alignment explanation
Indices: 7524984--7525027 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7524974 ATACCTTGCA
**
7524984 TTTTGCATATGCATTTTTATTTT
1 TTTTGCATATGCATTTGCATTTT
7525007 TTTTGCA-ATGCATTTGCATTT
1 TTTTGCATATGCATTTGCATTT
7525028 AAATTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.59
Consensus pattern (23 bp):
TTTTGCATATGCATTTGCATTTT
Found at i:7528986 original size:799 final size:799
Alignment explanation
Indices: 7527442--7529840 Score: 4370
Period size: 799 Copynumber: 3.0 Consensus size: 799
7527432 GTTGACAACA
7527442 TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
1 TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
7527507 AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
66 AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
7527572 TTCGGCTTTGAATGTGATACCCGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
131 TTCGGCTTTGAATGTGATACCCGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
7527637 GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
196 GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
7527702 GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
261 GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
7527767 ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
326 ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
7527832 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
391 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
7527897 TCTATTTCTACTATTGCTCTGTATATTTAAGTGGATGAGCAAGCTGTTGGATGTT-TTTTCAGAT
456 TCTATTTCTACTATTGCTCTGTATATTTAAGTGGATGAGCAAGCTGTTGGATGTTCTTTT-AGAT
7527961 CGTTAGAGTTTGTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAA
520 CGTTAGAGTTTGTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAA
7528026 AACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGG
585 AACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGG
*
7528091 AAGTCGGTTGTAAGGACCAGTGAATCCAATCTTCCATGTTAATAAAAAAGATCATTTTGGTTTGG
650 AAGTCGGTTGCAAGGACCAGTGAATCCAATCTTCCATGTTAATAAAAAAGATCATTTTGGTTTGG
7528156 GGTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGAC
715 GGTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGAC
7528221 TTATTGGCTAGTGAAGACCT
780 TTATTGGCTAGTGAAGACCT
*
7528241 TACAAGTTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
1 TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
7528306 AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
66 AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
* * *
7528371 TTCGACTTTGAATGTGATACCCGTGGTGACTCTGAACAAGTTGTCATTAGATAGTTCTCTTATGA
131 TTCGGCTTTGAATGTGATACCCGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
7528436 GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
196 GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
7528501 GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
261 GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
7528566 ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
326 ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
7528631 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
391 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
**
7528696 TCTATTTCTACTATTGCTCCATATATTTAAGTGGATGAGCAAGCTGTTGGATGTTCTTTTAGATC
456 TCTATTTCTACTATTGCTCTGTATATTTAAGTGGATGAGCAAGCTGTTGGATGTTCTTTTAGATC
*
7528761 GTTAGAGTTTTTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAAA
521 GTTAGAGTTTGTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAAA
*
7528826 ACTGTACCAAAATAGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGGA
586 ACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGGA
7528891 AGTCGGTTGCAAGGACCAGTGAATCCAATCTTCCATGTTAATAAAAAAGATCATTTTGGTTTGGG
651 AGTCGGTTGCAAGGACCAGTGAATCCAATCTTCCATGTTAATAAAAAAGATCATTTTGGTTTGGG
7528956 GTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGACT
716 GTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGACT
*
7529021 TATTGGCTAGTGAAAACCT
781 TATTGGCTAGTGAAGACCT
7529040 TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
1 TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
* * *
7529105 AAGGCTTTGCATATCATAGTTAAGTGCAAAGGGCATGTGTTGTCCAGAGTATTGGTTAATAATGG
66 AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
*
7529170 TTCGGCTTTGAATGTGATACACGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
131 TTCGGCTTTGAATGTGATACCCGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
* * *
7529235 GAAGCTATGAGAGTGTGGTTTGAGCTTTTGATGGGACTAAAAAAGAAATGTTAGGCAAGATTGAT
196 GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
*
7529300 GTTCCTCTAACCATTGGTCTTGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
261 GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
* * * * * * *
7529365 ATACAATTGCTTGTTGGGAAGGCCTTGGATTCATCAGGCCGATATAGTTCCATCAACATTACGCC
326 ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
*
7529430 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAATAGGATATTATTGCT
391 AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
* * *
7529495 TCTATTTCTACTACTGCTCTGTATATTTAAGTGGATGAGCAAGCCGTTGGATGTTCTTTCAGATC
456 TCTATTTCTACTATTGCTCTGTATATTTAAGTGGATGAGCAAGCTGTTGGATGTTCTTTTAGATC
* * * *
7529560 GTTAGAGTTTGTCAATGCCACGTTTGTAGCTGAAGGCAGGAAGATACCAAAGCCTAGATTATCAA
521 GTTAGAGTTTGTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAAA
*
7529625 ACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGTGTTAGGA
586 ACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGGA
* * * *
7529690 AGTCGATTGCAAGGACCGGTGAATCCAATCTGT-CATGTTAATAAAAGAGATCGTTTTGGTTTGG
651 AGTCGGTTGCAAGGACCAGTGAATCCAATCT-TCCATGTTAATAAAAAAGATCATTTTGGTTTGG
* * * * *
7529754 GGTATCAACCAACTTTGAGGGAAAAGCTGAGGGGAATTAAAAGGGGTCAGGAAATGAGAAATGGC
715 GGTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGAC
*
7529819 ATATTGGCTAGTGAAGACCT
780 TTATTGGCTAGTGAAGACCT
7529839 TA
1 TA
7529841 GATGAGATCC
Statistics
Matches: 1545, Mismatches: 53, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
799 1540 1.00
800 5 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (799 bp):
TACAAGCTGATAATTTTCTATATTTTTCTGAGGATGAAATCCCTACTGGGATGATTGGTAGTCAT
AAGACTTTGCATATCACAGTTAAGTGCAAAGGGCATGTGCTGTCCAGAGTATTGGTTAATAATGG
TTCGGCTTTGAATGTGATACCCGTGGTGACTCTGAACAAGCTGTCATTAGATAGTTCACTTATGA
GAAGCTATCAGAGTGTGGTTCGAGCTTTTGATGGGACTAAAAAAGAAGTGTTAGGCAAGATTGAT
GTTCCTCTAACCATTGGTCTAGCAACTTATGAAGTGGAATTTCTCGTGATGGACGTTATGCCTAC
ATACAATTGCTTATTGGGAAGGCCTTGGATTCATCGGGCTGGTACAGTTCCATCAACATTGCACC
AGAGATTAAAATTTGTAATTGATGGAAGGTTGGTATGTATTCACACTGAAGAGGATATTATTGCT
TCTATTTCTACTATTGCTCTGTATATTTAAGTGGATGAGCAAGCTGTTGGATGTTCTTTTAGATC
GTTAGAGTTTGTCAATGCCACGTTTATAGCTGAAGGCATGAAGATACCAAAGCCTATATTATAAA
ACTGTACCAAAATGGGACTCAAGCTGACCCTTGGAAGAGGAGCAAAAGTTGGGAAAGGGTTAGGA
AGTCGGTTGCAAGGACCAGTGAATCCAATCTTCCATGTTAATAAAAAAGATCATTTTGGTTTGGG
GTATCAGCCAACTTTGAGGGAAAACCTGAGGGGAATTAATAGGGGCCAGGAAATGAGAAATGACT
TATTGGCTAGTGAAGACCT
Found at i:7530310 original size:2 final size:2
Alignment explanation
Indices: 7530303--7530330 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7530293 AGGTCATCCC
7530303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7530331 CTTCTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7533504 original size:19 final size:19
Alignment explanation
Indices: 7533476--7533637 Score: 77
Period size: 19 Copynumber: 8.9 Consensus size: 19
7533466 GCTTGAATGA
*
7533476 GAAAAGAGAAAAAGTGAAG
1 GAAAAGAGAAAAAATGAAG
*
7533495 GAAAATAGAAAAAATGAA-
1 GAAAAGAGAAAAAATGAAG
7533513 -AAAAGAAGAAAAAAATGAA-
1 GAAAAG-AG-AAAAAATGAAG
7533532 -AAAAGA-AAAAAATG-A-
1 GAAAAGAGAAAAAATGAAG
7533547 -AAAAGA-AAAAAATG-A-
1 GAAAAGAGAAAAAATGAAG
*
7533562 -AAAAGA-AAAAAAGGAAAAG
1 GAAAAGAGAAAAAATG--AAG
*
7533581 GAAAAAAGAGAAAAAAAGAA-
1 G--AAAAGAGAAAAAATGAAG
* *
7533601 -AAAATAAAAAAAATGGAA-
1 GAAAAGAGAAAAAAT-GAAG
*
7533619 GAAGAGATGAAAAAATGAA
1 GAAAAGA-GAAAAAATGAA
7533638 AAATAAAAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 26
0.76 0.07 0.17
Matches are distributed among these distances:
15 29 0.24
16 8 0.07
17 15 0.13
18 7 0.06
19 38 0.32
20 7 0.06
21 2 0.02
22 6 0.05
23 7 0.06
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (19 bp):
GAAAAGAGAAAAAATGAAG
Found at i:7533507 original size:8 final size:7
Alignment explanation
Indices: 7533495--7533611 Score: 71
Period size: 7 Copynumber: 16.0 Consensus size: 7
7533485 AAAAGTGAAG
*
7533495 GAAAATA
1 GAAAAAA
7533502 GAAAAAA
1 GAAAAAA
7533509 TGAAAAAA
1 -GAAAAAA
*
7533517 G-AAGAA
1 GAAAAAA
*
7533523 -AAAAAT
1 GAAAAAA
7533529 GAAAAAA
1 GAAAAAA
7533536 GAAAAAA
1 GAAAAAA
7533543 -ATGAAAAA
1 GA--AAAAA
7533551 GAAAAAA
1 GAAAAAA
7533558 -ATGAAAAA
1 GA--AAAAA
7533566 GAAAAAAA
1 G-AAAAAA
* *
7533574 GGAAAAG
1 GAAAAAA
7533581 GAAAAAAGA
1 G-AAAAA-A
7533590 GAAAAAAA
1 G-AAAAAA
7533598 GAAAAAA
1 GAAAAAA
*
7533605 TAAAAAA
1 GAAAAAA
7533612 AATGGAAGAA
Statistics
Matches: 88, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
6 9 0.10
7 41 0.47
8 29 0.33
9 8 0.09
10 1 0.01
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (7 bp):
GAAAAAA
Found at i:7533514 original size:34 final size:33
Alignment explanation
Indices: 7533492--7533604 Score: 110
Period size: 31 Copynumber: 3.5 Consensus size: 33
7533482 AGAAAAAGTG
*
7533492 AAGGAAAATAG-AAAAAATGAAAAAAGAAGAAAAA
1 AAGGAAAAAAGAAAAAAATG-AAAAAGAA-AAAAA
*
7533526 AATGAAAAAAGAAAAAAATGAAAAAG--AAAAA
1 AAGGAAAAAAGAAAAAAATGAAAAAGAAAAAAA
* * *
7533557 AATG-AAAAAGAAAAAAA-GGAAAAGGAAAAAA
1 AAGGAAAAAAGAAAAAAATGAAAAAGAAAAAAA
* *
7533588 GAGAAAAAAAGAAAAAA
1 AAGGAAAAAAGAAAAAA
7533605 TAAAAAAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
29 6 0.09
30 13 0.19
31 15 0.22
32 12 0.17
34 15 0.22
35 8 0.12
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (33 bp):
AAGGAAAAAAGAAAAAAATGAAAAAGAAAAAAA
Found at i:7533517 original size:28 final size:27
Alignment explanation
Indices: 7533471--7533662 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 27
7533461 ATTTTGCTTG
* *
7533471 AATGAGAAAAGAGAAAAAGTGAAGGAAAA
1 AATGA-AAAA-AGAAAAAATGAAGAAAAA
*
7533500 TA-GAAAAAATGAAAAAA-GAAGAAAAA
1 AATGAAAAAA-GAAAAAATGAAGAAAAA
7533526 AATGAAAAAAGAAAAAAATGAAAAAGAAAAA
1 AATGAAAAAAG-AAAAAATG---AAGAAAAA
*
7533557 AATG-AAAAAGAAAAAAAGGAAAAGGAAAAA
1 AATGAAAAAAG-AAAAAATG--AA-GAAAAA
7533587 AGA-GAAAAAAAGAAAAAAT--A-AAAAA
1 A-ATG-AAAAAAGAAAAAATGAAGAAAAA
*
7533612 AATGGAAGAAGAGATGAAAAAATGAAAAATAAA
1 AAT-GAA-AA-A-A-GAAAAAATGAAGAA-AAA
*
7533645 AATAAAAAAAGAGAAAAA
1 AATGAAAAAAGA-AAAAA
7533663 ATAAAAAGGA
Statistics
Matches: 134, Mismatches: 7, Indels: 44
0.72 0.04 0.24
Matches are distributed among these distances:
24 1 0.01
25 8 0.06
26 14 0.10
27 25 0.19
28 6 0.04
29 19 0.14
30 23 0.17
31 22 0.16
32 10 0.07
33 6 0.04
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (27 bp):
AATGAAAAAAGAAAAAATGAAGAAAAA
Found at i:7533524 original size:16 final size:16
Alignment explanation
Indices: 7533471--7533604 Score: 114
Period size: 15 Copynumber: 8.1 Consensus size: 16
7533461 ATTTTGCTTG
*
7533471 AATGAGAAAAGAGAAAA
1 AATGAAAAAAGA-AAAA
* *
7533488 AGTGAAGGAAAATAGAAAA
1 AATGAA--AAAAGA-AAAA
7533507 AATGAAAAAAGAAGAAAAA
1 AATG--AAAA-AAGAAAAA
7533526 AATGAAAAAAGAAAAA
1 AATGAAAAAAGAAAAA
7533542 AATG-AAAAAGAAAAA
1 AATGAAAAAAGAAAAA
7533557 AATG-AAAAAGAAAAA
1 AATGAAAAAAGAAAAA
* *
7533572 AA-GGAAAAGGAAAAA
1 AATGAAAAAAGAAAAA
7533587 AGA-GAAAAAAAGAAAAA
1 A-ATG-AAAAAAGAAAAA
7533604 A
1 A
7533605 TAAAAAAAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.01
15 39 0.39
16 14 0.14
17 19 0.19
19 23 0.23
20 3 0.03
21 2 0.02
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (16 bp):
AATGAAAAAAGAAAAA
Found at i:7533588 original size:14 final size:15
Alignment explanation
Indices: 7533518--7533610 Score: 118
Period size: 15 Copynumber: 6.1 Consensus size: 15
7533508 ATGAAAAAAG
7533518 AAGAAAAAAATGAAAA
1 AAGAAAAAAATG-AAA
7533534 AAGAAAAAAATGAAA
1 AAGAAAAAAATGAAA
7533549 AAGAAAAAAATGAAA
1 AAGAAAAAAATGAAA
*
7533564 AAGAAAAAAAGGAAA
1 AAGAAAAAAATGAAA
*
7533579 AGGAAAAAAGA-GAAA
1 AAGAAAAAA-ATGAAA
*
7533594 AAAAGAAAAAAT-AAA
1 AAGA-AAAAAATGAAA
7533609 AA
1 AA
7533611 AAATGGAAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
15 52 0.74
16 18 0.26
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (15 bp):
AAGAAAAAAATGAAA
Found at i:7533612 original size:105 final size:104
Alignment explanation
Indices: 7533477--7533670 Score: 243
Period size: 105 Copynumber: 1.8 Consensus size: 104
7533467 CTTGAATGAG
** *
7533477 AAAAGAGAAAAAGTGAAGGAAAATAGAAAAAATGAAAAAAGA-AGAAAAAAATGAAAAA-AGAAA
1 AAAAGAGAAAAAAAGAA-GAAAATAAAAAAAATGAAAAAAGAGAG-AAAAAATGAAAAATA-AAA
7533540 AAAATGAAAAAGA-AAAAAATGAAAAAGAAAAAAAGGAAAAGGAA
63 AAAA--AAAAAGAGAAAAAAT-AAAAAGAAAAAAAGGAAAAGGAA
* * *
7533584 AAAAGAGAAAAAAAGAA-AAAATAAAAAAAATGGAAGAAGAGATGAAAAAATGAAAAATAAAAAT
1 AAAAGAGAAAAAAAGAAGAAAATAAAAAAAATGAAAAAAGAGA-GAAAAAATGAAAAATAAAAAA
7533648 AAAAAAAGAGAAAAAATAAAAAG
65 AAAAAAAGAGAAAAAATAAAAAG
7533671 GAGGTCTCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
104 13 0.17
105 27 0.35
106 20 0.26
107 17 0.22
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (104 bp):
AAAAGAGAAAAAAAGAAGAAAATAAAAAAAATGAAAAAAGAGAGAAAAAATGAAAAATAAAAAAA
AAAAAAGAGAAAAAATAAAAAGAAAAAAAGGAAAAGGAA
Found at i:7533670 original size:15 final size:15
Alignment explanation
Indices: 7533496--7533670 Score: 71
Period size: 15 Copynumber: 11.3 Consensus size: 15
7533486 AAAGTGAAGG
*
7533496 AAAATAGAAAAAATGAA
1 AAAAGAGAAAAAAT--A
7533513 AAAAGAAGAAAAAAATGA
1 AAAAG-AG-AAAAAAT-A
7533531 AAAA-AGAAAAAAATGA
1 AAAAGAG-AAAAAAT-A
7533547 AAAAGA-AAAAAATGA
1 AAAAGAGAAAAAAT-A
**
7533562 AAAAGA-AAAAAAGG
1 AAAAGAGAAAAAATA
*
7533576 AAAAG-GAAAAAAGAGA
1 AAAAGAG-AAAAA-ATA
*
7533592 AAAAAAGAAAAAATA
1 AAAAGAGAAAAAATA
** *
7533607 AAAA-A-AATGGAA-G
1 AAAAGAGAA-AAAATA
*
7533620 AAGAGATGAAAAAATGA
1 AAAAGA-GAAAAAAT-A
*
7533637 AAAATA-AAAATAA-A
1 AAAAGAGAAAA-AATA
7533651 AAAAGAGAAAAAATA
1 AAAAGAGAAAAAATA
7533666 AAAAG
1 AAAAG
7533671 GAGGTCTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 34
0.71 0.10 0.19
Matches are distributed among these distances:
13 5 0.04
14 17 0.14
15 48 0.38
16 31 0.25
17 10 0.08
18 7 0.06
19 7 0.06
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (15 bp):
AAAAGAGAAAAAATA
Found at i:7534955 original size:55 final size:55
Alignment explanation
Indices: 7534881--7535518 Score: 688
Period size: 55 Copynumber: 11.6 Consensus size: 55
7534871 TTTATGAAGA
* * *
7534881 TCGAGTCATATACTCTCTGAAGGAATATGGAGCAGACACATTTGTTGAAGATT-T
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* *
7534935 CTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTTTTGAAGATTGT
1 -TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * * * *
7534991 TTGAGTCCTATACTCTTTGAAGGAATGGGGAACATATACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * ** *
7535046 TCGATTCCTATACTCTCTGAAGGAATAGGGAGTGGACACGTTTGTTGAAGAATGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * * * *
7535101 TCAAGTCCTATGCTCTCTGATGGAATAAGGAGCGGACACGTTTGTTGAATATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * * *
7535156 TCGAGTTTTATACTCCCTGAATGAATAAGGAGTAGACACGTTTGCTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * * * * *
7535211 TCGAGTTTTATACTCCCTAAACGAATAGGGAGTAGACATGTTTATTCAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * * *
7535266 TTGAGTCTTATACTCCCTGAATGAATCGGGAGCGGACATGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * ** *
7535321 TCGAGTCCTATGA-TTTCTGAAGGAATAAGGAGTGGACACGTTTGCTGAAGATTGT
1 TCGAGTCTTAT-ACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * * * *
7535376 TCGAGTCTTATACTCCCTGAACGAATAGGGAGCATACATGTTTGTTCAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* * *
7535431 TCGAGTCTTATACTC-CATGAAAGAATAGGGAGCAGACACATTTGCTGAAGATTGT
1 TCGAGTCTTATACTCTC-TGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
* *
7535486 TCGAGTCTTATACTCCCTTAAGGAATAGGGAGC
1 TCGAGTCTTATACTCTCTGAAGGAATAGGGAGC
7535519 GGACCCGTCA
Statistics
Matches: 493, Mismatches: 85, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
54 2 0.00
55 488 0.99
56 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (55 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTTGTTGAAGATTGT
Found at i:7539047 original size:2 final size:2
Alignment explanation
Indices: 7539042--7539073 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7539032 CAAAGAGAGC
7539042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7539074 ACTCCTTCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7545069 original size:29 final size:29
Alignment explanation
Indices: 7545035--7545093 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7545025 CCTAAATTAA
7545035 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
7545064 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
7545093 T
1 T
7545094 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:7547806 original size:23 final size:23
Alignment explanation
Indices: 7547779--7547824 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
7547769 ATCTATTTTA
7547779 TCTCTTTAAAAATTTCATAAATTCC
1 TCTC-TTAAAAATTT-ATAAATTCC
*
7547804 TCTCTTTAAAATTTATAAATT
1 TCTCTTAAAAATTTATAAATT
7547825 TATTATTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 9 0.45
25 4 0.20
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (23 bp):
TCTCTTAAAAATTTATAAATTCC
Found at i:7547807 original size:25 final size:23
Alignment explanation
Indices: 7547779--7547824 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 23
7547769 ATCTATTTTA
7547779 TCTCTTTAAAAATTTCATAAATTCC
1 TCTCTTT-AAAATTT-ATAAATTCC
7547804 TCTCTTTAAAATTTATAAATT
1 TCTCTTTAAAATTTATAAATT
7547825 TATTATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
25 7 0.33
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (23 bp):
TCTCTTTAAAATTTATAAATTCC
Found at i:7548806 original size:28 final size:28
Alignment explanation
Indices: 7548764--7548829 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
7548754 GTTGGTTCAA
* *
7548764 CCAGTT-AATTGAGAATCGTTGTCTAGT
1 CCAGTTCAATCGAGAATCGCTGTCTAGT
**
7548791 CTGGTTCAATCGAGAATCGCTGTCTAGT
1 CCAGTTCAATCGAGAATCGCTGTCTAGT
7548819 CCAGTTCAATC
1 CCAGTTCAATC
7548830 TACATCGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (28 bp):
CCAGTTCAATCGAGAATCGCTGTCTAGT
Found at i:7556844 original size:30 final size:31
Alignment explanation
Indices: 7556773--7556864 Score: 150
Period size: 32 Copynumber: 3.0 Consensus size: 31
7556763 CCAAGAGTCG
7556773 AGGTTACCTATGTCCTTCGGGACATATGGAC
1 AGGTTACCTATGTCCTTCGGGACATATGGAC
7556804 AGGATTACCTATGTCCTTCGGGACATATGGAC
1 AGG-TTACCTATGTCCTTCGGGACATATGGAC
* *
7556836 A-GTTACCTATGTTCTTCGGAACATATGGA
1 AGGTTACCTATGTCCTTCGGGACATATGGA
7556865 TAAGTCCTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
30 25 0.43
31 4 0.07
32 29 0.50
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (31 bp):
AGGTTACCTATGTCCTTCGGGACATATGGAC
Found at i:7558848 original size:22 final size:22
Alignment explanation
Indices: 7558823--7558874 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7558813 TTAAGTTTTA
*
7558823 ATTTTAAAATAAT-TTTAAAACG
1 ATTTTAAAA-AATATTTAAAACC
* *
7558845 ATTTTACAAAATATTTCAAACC
1 ATTTTAAAAAATATTTAAAACC
7558867 ATTTTAAA
1 ATTTTAAA
7558875 GCCAAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTTAAAAAATATTTAAAACC
Found at i:7566266 original size:12 final size:12
Alignment explanation
Indices: 7566249--7566273 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7566239 TAAATTTGTC
7566249 ACATTATTCCAT
1 ACATTATTCCAT
7566261 ACATTATTCCAT
1 ACATTATTCCAT
7566273 A
1 A
7566274 TATATGGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ACATTATTCCAT
Found at i:7566672 original size:2 final size:2
Alignment explanation
Indices: 7566665--7566725 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
7566655 TCAATCTACA
7566665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7566707 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
7566726 ATTCATGAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7566890 original size:85 final size:85
Alignment explanation
Indices: 7566753--7566910 Score: 271
Period size: 85 Copynumber: 1.9 Consensus size: 85
7566743 ACGACACATG
* * * *
7566753 AATGTGTGTCATTTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTCATAAATGCGTG
1 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATATAAGTCATAAATGCGCG
7566818 TCATAAATTTATGACACACA
66 TCATAAATTTATGACACACA
*
7566838 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCACAATATAAGTCATAAATGCGCG
1 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATATAAGTCATAAATGCGCG
7566903 TCATAAAT
66 TCATAAAT
7566911 GCGTGTCATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 68 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (85 bp):
AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACACAATATAAGTCATAAATGCGCG
TCATAAATTTATGACACACA
Found at i:7566907 original size:13 final size:13
Alignment explanation
Indices: 7566889--7566949 Score: 104
Period size: 13 Copynumber: 4.7 Consensus size: 13
7566879 CACAATATAA
7566889 GTCATAAATGCGC
1 GTCATAAATGCGC
*
7566902 GTCATAAATGCGT
1 GTCATAAATGCGC
*
7566915 GTCATAAATGCGT
1 GTCATAAATGCGC
7566928 GTCATAAATGCGC
1 GTCATAAATGCGC
7566941 GTCATAAAT
1 GTCATAAAT
7566950 TTATGACGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (13 bp):
GTCATAAATGCGC
Found at i:7569457 original size:199 final size:199
Alignment explanation
Indices: 7569104--7570555 Score: 2161
Period size: 199 Copynumber: 7.3 Consensus size: 199
7569094 TTAAAAAGTG
* * * *
7569104 TATCAACACATATTTAAAAAGTGTCGATACATTATGTAGACTTATTTTCTCATAAAACC-GCTAT
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAG-TAT
* * *
7569168 ATTTATACCAGTTACATTGTAAATTTACTTATTACATTATAATTATCGATTTCGATGTTTTTAGG
65 ATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* *
7569233 ATCGATACAATTTTAAATATATCGACACTTTATGCGTGCACCTTGTTTGTCATTCATTATGGACA
130 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACA
*
7569298 AAAAG
195 AAAAA
* * * *
7569303 TATCGACATAAATTTAAAAAGTGTCGATACATTATGTAGATCTATTTTCTCATAAAACTAGTATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
* * * *
7569368 TTTATACCCGTTACATTGTAAATTTATCTATTACATTATAATTATCGGTTTCGATATTTTTTGGA
66 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
* *
7569433 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTTATTTTGGACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
*
7569498 AAAG
196 AAAA
* **
7569502 TATCGACAAAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACTGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
* * * *
7569567 TTTCTATCAGTTACATTGTAAATTTACCTATTACATTGTAATTATTGGTTTCGATGTTTTTGGGA
66 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
* * *
7569632 TCGATACAA---T---TGTATCGACACTTTATGCGTGTACCTAGTTTGTCATTCATTCTGTACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
*
7569691 AAAG
196 AAAA
* * * *
7569695 TATCGACACCAATTTAAAAAGTGTCGAAACATTGTGTAAACATATTTTCTCATAAAACCAGTATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
*** *
7569760 TTTATATTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGG
66 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
*
7569825 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCTGGACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
7569890 AAAA
196 AAAA
* * * * * * *
7569894 TATCAACACCAATTTAAAAATTGTCGAAACATTATATAAACATATTTTCTCATAAAACCAATATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
*** * *
7569959 TTTATATTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGG
66 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
*
7570024 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATAATGGACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
7570089 AAAA
196 AAAA
7570093 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
* * *
7570158 TTTCTACC-GATTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGCTTTTGGG
66 TTTATACCAG-TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGG
* * * *
7570222 ATCGATACAATTTTAAATGTATCGACACTTTATGCATGCATCTAGTTTGTCTTTCATTTTGGACA
130 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACA
7570287 AAAAA
195 AAAAA
* * *
7570292 TATCGACACAAATTTAAAAAGTGTTGAAACATTATGTAGACCTATTTTCTCATGAAACGA-TATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
* *
7570356 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTTTTGGGG
66 TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
*
7570421 T-GATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTATCATTCATTATGGACAA
131 TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
7570485 AAAA
196 AAAA
* * * * *
7570489 TATCGACATAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAAT-TAACCGGTATA
1 TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
7570553 TTT
66 TTT
7570556 TACAATATCA
Statistics
Matches: 1148, Mismatches: 95, Indels: 22
0.91 0.08 0.02
Matches are distributed among these distances:
193 175 0.15
196 5 0.00
197 118 0.10
198 64 0.06
199 785 0.68
200 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (199 bp):
TATCGACACAAATTTAAAAAGTGTCGAAACATTATGTAGACCTATTTTCTCATAAAACCAGTATA
TTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGA
TCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTATGGACAA
AAAA
Found at i:7571439 original size:182 final size:182
Alignment explanation
Indices: 7571218--7571875 Score: 934
Period size: 182 Copynumber: 3.6 Consensus size: 182
7571208 GTACTTATTA
* * * *
7571218 AAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTGTCAT-TTCGAGACTGGTTT
1 AAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAAT-GAGACTGGTTT
** * *
7571282 TGTCATAAATTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAATACTTTAT
65 TGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTAT
* * *
7571347 AGACGCTATTACTTCTTCACTTTTAAATTCCAAAAGTGTCGATACTTATATCT
130 AGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATCT
* * *
7571400 AAGTATC-AGCACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATAATGATACCT-GTT
1 AAGTATCGA-CACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGAGA-CTGGTT
7571463 TTGTCATATTTTTA-CATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
64 TTGTCATATTTTTATC-TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
7571527 ATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAT-T
128 ATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATCT
* * * * *
7571581 AAAGTATCGACACTTTCAACATATTCAGTAGCGCTTTACCATTTTTGTCAT-TTCGAGACCGGTT
1 -AAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAAT-GAGACTGGTT
*
7571645 TTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
64 TTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTA
* * *
7571710 TAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAATGTCGATATTTATTTC-
129 TAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATCT
* * * *
7571763 AATCTAATCGATACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGAAATTGGTT
1 AA-GT-ATCGACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGAGACTGGTT
**
7571828 TTGTCATATTTTTATCTGTTATATTACTATGGATCGATACATTTTTAT
64 TTGTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTAT
7571876 TTGTATCGAC
Statistics
Matches: 428, Mismatches: 35, Indels: 25
0.88 0.07 0.05
Matches are distributed among these distances:
181 7 0.02
182 321 0.75
183 99 0.23
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
AAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGAGACTGGTTTT
GTCATATTTTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATA
GGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATCT
Found at i:7571887 original size:364 final size:364
Alignment explanation
Indices: 7571213--7571875 Score: 1037
Period size: 364 Copynumber: 1.8 Consensus size: 364
7571203 TACGCGTACT
* * * *
7571213 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTGTCATTTCGAGACTG
1 TATTAAAGTATCGACACTTTCAACATATTCAGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCG
* *
7571278 GTTTTGTCATAAATTTATCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAATACT
66 GTTTTGTCATAAATTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACT
* * *
7571343 TTATAGACGCTATTACTTCTTCACTTTTAAATTCCAAAAGTGTCGATACTTATATCTAAGTATCA
131 TTATAGACGCTATTACTGCTTCACTTTTAAATTCCAAAAATGTCGATACTTATATCTAACTATCA
* * *
7571408 GCACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTGTCATAATGATACCTGTTTTGTCATATT
196 GCACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGATAACTGTTTTGTCATATT
**
7571473 TTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
261 TTTACATGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
7571538 TACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
326 TACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
*
7571577 TATTAAAGTATCGACACTTTCAACATATTCAGTAGCGCTTTACCATTTTTGTCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATTCAGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCG
** *
7571642 GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACT
66 GTTTTGTCATAAATTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACT
* * * *
7571707 TTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAATGTCGATATTTATTTC-AATCTAAT
131 TTATAGACGCTATTACTGCTTCACTTTTAAATTCCAAAAATGTCGATACTTATATCTAA-CT-AT
* *
7571771 C-GATACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGA-AATTGGTTTTGTCA
194 CAG-CACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGATAACT-GTTTTGTCA
7571834 TATTTTTATC-TGTTATATTACTATGGATCGATACATTTTTAT
257 TATTTTTA-CATGTTATATTACTATGGATCGATACATTTTTAT
7571876 TTGTATCGAC
Statistics
Matches: 270, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
363 2 0.01
364 174 0.64
365 93 0.34
366 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.43
Consensus pattern (364 bp):
TATTAAAGTATCGACACTTTCAACATATTCAGTAGCGCTTTACCAGTTTTGTCATTTCGAGACCG
GTTTTGTCATAAATTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCAACACT
TTATAGACGCTATTACTGCTTCACTTTTAAATTCCAAAAATGTCGATACTTATATCTAACTATCA
GCACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATAATGATAACTGTTTTGTCATATT
TTTACATGTTATATTACTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTAT
TACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:7572543 original size:13 final size:13
Alignment explanation
Indices: 7572495--7572537 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
7572485 CCGAAAGAAC
7572495 ATATATATAT-TT
1 ATATATATATATT
7572507 ATATATTATATATT
1 ATATA-TATATATT
*
7572521 ACATATATATATT
1 ATATATATATATT
7572534 ATAT
1 ATAT
7572538 CAATATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 5 0.19
13 16 0.59
14 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATATATATT
Found at i:7573953 original size:18 final size:19
Alignment explanation
Indices: 7573926--7573972 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
7573916 TATATACGCA
*
7573926 TATATATATTTGTT-TAT-
1 TATATTTATTTGTTGTATG
7573943 TATTATTTA-TTGTTGTATG
1 TA-TATTTATTTGTTGTATG
7573962 TATATTTATTT
1 TATATTTATTT
7573973 TCATTTATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 7 0.28
18 14 0.56
19 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (19 bp):
TATATTTATTTGTTGTATG
Found at i:7573994 original size:192 final size:190
Alignment explanation
Indices: 7573669--7574037 Score: 677
Period size: 192 Copynumber: 1.9 Consensus size: 190
7573659 TTACTCTATT
7573669 TATTATTATATATATATATATATATGTATTTTATCCCTTTTTTCTAATATAATCATATATATACG
1 TATTATTATATATATATATATATATGTATTTTATCCCTTTTTTCTAATATAATCATATATATACG
*
7573734 CATGTATATTTGTTTATTATTATTTATTGTTGTATGTATATTTATTTTCATTTATTCGTTTTATT
66 CATATATATTTGTTTATTATTATTTATTGTTGTATGTATATTTATTTTCATTTATTCGTTTTATT
*
7573799 TAATACTACATTGGATATTTACGTACGTATATTCTTTGTGTTTTTTTTTTAAATTTTTTA
131 TAATACTACATTGGATATTTACGTACATATATTCTTTGTGTTTTTTTTTTAAATTTTTTA
*
7573859 TATTATTATATATATATATATATATGTATTTT-TTCCTTCTTTTCTAATATAATCATATATATAC
1 TATTATTATATATATATATATATATGTATTTTATCCCTT-TTTTCTAATATAATCATATATATAC
7573923 GCATATATATATTTGTTTATTATTATTTATTGTTGTATGTATATTTATTTTCATTTATTCGTTTT
65 GC--ATATATATTTGTTTATTATTATTTATTGTTGTATGTATATTTATTTTCATTTATTCGTTTT
7573988 ATTTAATACTACATTGGATATTTACGTACATATATTCTTTGTGTTTTTTT
128 ATTTAATACTACATTGGATATTTACGTACATATATTCTTTGTGTTTTTTT
7574038 AAAATTACCA
Statistics
Matches: 173, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
189 5 0.03
190 59 0.34
192 109 0.63
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.58
Consensus pattern (190 bp):
TATTATTATATATATATATATATATGTATTTTATCCCTTTTTTCTAATATAATCATATATATACG
CATATATATTTGTTTATTATTATTTATTGTTGTATGTATATTTATTTTCATTTATTCGTTTTATT
TAATACTACATTGGATATTTACGTACATATATTCTTTGTGTTTTTTTTTTAAATTTTTTA
Found at i:7584636 original size:17 final size:17
Alignment explanation
Indices: 7584605--7584639 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7584595 TCCTAAGTTG
7584605 AAAAAAAAAGAAGAAGA
1 AAAAAAAAAGAAGAAGA
7584622 AAAAAGAAAAG-AGAAGA
1 AAAAA-AAAAGAAGAAGA
7584639 A
1 A
7584640 CGTTTAGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAGAAGA
Found at i:7584703 original size:72 final size:72
Alignment explanation
Indices: 7584571--7584708 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 72
7584561 AATACTTCGC
* * * *
7584571 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAAGAAGAAGAAAAAAGAAAAGAGA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAAGAAGAAGAAAAAAGAAAAAAGA
7584636 AGAACGT
66 AGAACGT
* * *
7584643 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAGAAAAGAAAA-AAGAA-AAAGAGGAAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGA-AAAA-AAAAGAAGAAGAAAAAAGAAAAAA
7584706 GAA
64 GAA
7584709 TAAAAGAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
72 44 0.77
73 9 0.16
74 4 0.07
ACGTcount: A:0.54, C:0.10, G:0.26, T:0.10
Consensus pattern (72 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAAAGAAGAAGAAAAAAGAAAAAAGA
AGAACGT
Found at i:7584704 original size:16 final size:18
Alignment explanation
Indices: 7584681--7584722 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
7584671 AAATTGAGAA
7584681 AAGAAAAAAG-A-AAAAG
1 AAGAAAAAAGAATAAAAG
*
7584697 AGGAAAAAAGAATAAAAG
1 AAGAAAAAAGAATAAAAG
7584715 AAGAAAAA
1 AAGAAAAA
7584723 TAAGGTGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 1 0.05
18 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAGAAAAAAGAATAAAAG
Found at i:7584713 original size:8 final size:7
Alignment explanation
Indices: 7584679--7584721 Score: 50
Period size: 7 Copynumber: 5.6 Consensus size: 7
7584669 CTAAATTGAG
7584679 AAAAGAA
1 AAAAGAA
7584686 AAAAGAA
1 AAAAGAA
7584693 AAAGAGGAA
1 AAA-A-GAA
7584702 AAAAGAA
1 AAAAGAA
7584709 TAAAAGAA
1 -AAAAGAA
7584717 GAAAA
1 -AAAA
7584722 ATAAGGTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
7 13 0.41
8 13 0.41
9 6 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:7585637 original size:105 final size:105
Alignment explanation
Indices: 7585455--7586363 Score: 1241
Period size: 105 Copynumber: 9.0 Consensus size: 105
7585445 CAGGTTTTAC
*
7585455 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTACAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
7585520 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
*
7585560 CCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
7585625 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
* *
7585665 CCAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
7585730 GACGAAGGGACCGCTGCTTGTCAAC-AACAATTTCTCAAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTC-AATT
7585771 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
7585835 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTC-AATT
*
7585876 -CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
7585940 GACGAA-GGA-CGCTGGTTGTCAATAAACA----T---TT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
* *** *
7585971 -C----CCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCAA
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
** *
7586031 GACGAAGGGACCGCTGACTGT---C-AGC--TTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
*
7586065 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
*
7586130 GACGAAGGGACCGCTGGTTGTCAA-TAA-A-----CAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
* * * *** *
7586163 TC----CCAATTTCAACTTCACGACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCAA
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
**
7586224 GACGAAGGGACCGCTGACTGT---C-AAC--TTCTCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
*
7586258 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* *
7586323 GACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATT
66 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATT
7586364 TCAGTTTCAC
Statistics
Matches: 721, Mismatches: 45, Indels: 75
0.86 0.05 0.09
Matches are distributed among these distances:
89 2 0.00
91 62 0.09
92 3 0.00
93 8 0.01
94 74 0.10
95 11 0.02
98 7 0.01
99 146 0.20
102 1 0.00
103 21 0.03
104 6 0.01
105 365 0.51
106 15 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATT
Found at i:7586240 original size:193 final size:196
Alignment explanation
Indices: 7585567--7586380 Score: 1178
Period size: 193 Copynumber: 4.1 Consensus size: 196
7585557 ATTCCAGAGT
* * *
7585567 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAAGACGAAG
** * *
7585632 GGACCGCTGGTTGTCAACAAACATTTCTCAATTCCAGAGTCAATTTCAACTTCACAACGAAGGAT
66 GGACCGCTGACTGT--ACAAACA-TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
* * *
7585697 ATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAATT
128 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-TA-AA--
*
7585762 TCTCAAATTCAGAGC
189 ---CAATTTC----C
* * *
7585777 CAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAAGACGAAG
** *
7585842 GGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGAT
66 GGACCGCTGACTGT--ACAAACA-TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAT
*
7585907 ATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAA-GGA-CGCTGGTTGTCAATAAAC-AT
128 ATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAT
7585969 TTCC
193 TTCC
**
7585973 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCAAGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAAGACGAAG
*
7586038 GGACCGCTGACTGT-C-AGC-TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
66 GGACCGCTGACTGTACAAACATTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
7586100 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
7586165 C
196 C
* **
7586166 CAATTTCAACTTCACGACGAAGGATATTGGACTCAAGACAGTACAAGTTCAACTTCAAGACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAAGACGAAG
7586231 GGACCGCTGACTGT-C-AAC-TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
66 GGACCGCTGACTGTACAAACATTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
7586293 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
131 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
7586358 C
196 C
**
7586359 CAATTTCAGTTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAG
7586381 TATCTTTGGT
Statistics
Matches: 579, Mismatches: 22, Indels: 23
0.93 0.04 0.04
Matches are distributed among these distances:
190 78 0.13
191 3 0.01
192 20 0.03
193 217 0.37
196 73 0.13
200 4 0.01
201 1 0.00
206 2 0.00
207 1 0.00
208 12 0.02
209 3 0.01
210 165 0.28
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (196 bp):
CAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAAGACGAAG
GGACCGCTGACTGTACAAACATTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTC
C
Found at i:7587693 original size:52 final size:52
Alignment explanation
Indices: 7587615--7587722 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
7587605 AAATAAGAGT
7587615 TAAAACAGATTTTTTAACTTAAATACACAGCCCGCAACCCGACCCGCCTAGC
1 TAAAACAGATTTTTTAACTTAAATACACAGCCCGCAACCCGACCCGCCTAGC
7587667 TAAAACAGATTTTTTAACTTAAATACACAGCCCGCAACCCGACCCGCCTAGC
1 TAAAACAGATTTTTTAACTTAAATACACAGCCCGCAACCCGACCCGCCTAGC
7587719 TAAA
1 TAAA
7587723 TCTAATATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.21
Consensus pattern (52 bp):
TAAAACAGATTTTTTAACTTAAATACACAGCCCGCAACCCGACCCGCCTAGC
Found at i:7587869 original size:2 final size:2
Alignment explanation
Indices: 7587859--7587890 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7587849 TTTAAATTTT
7587859 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7587891 GTGTATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:7589427 original size:108 final size:107
Alignment explanation
Indices: 7589223--7589444 Score: 394
Period size: 108 Copynumber: 2.1 Consensus size: 107
7589213 GAAGTAGAGC
7589223 GACTGAATCTTAACAGATTGATAAGTTATGGATTAGTTGTAAAATTTAACCATGTTTACTTAAAC
1 GACTG-ATCTTAACAGATTGATAAGTTATGGATTAGTTGTAAAATTTAACCATGTTTACTTAAAC
7589288 CCTAAACCCAATAATATTAATCCATGGCAAATCAATTATCCAA
65 CCTAAACCCAATAATATTAATCCATGGCAAATCAATTATCCAA
7589331 GACTGATCTTAACAGATTGATAAGTTTATGGATTAGTTGTAAAATTTAACCATGTTTACTTAAAC
1 GACTGATCTTAACAGATTGATAAG-TTATGGATTAGTTGTAAAATTTAACCATGTTTACTTAAAC
7589396 CCTAAACCC-ATAATA-TAATCCATGGCCCAAATCAATTATCCAA
65 CCTAAACCCAATAATATTAATCCATGG--CAAATCAATTATCCAA
7589439 GACTGA
1 GACTGA
7589445 ACTAAACTAA
Statistics
Matches: 111, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
106 10 0.09
107 25 0.23
108 76 0.68
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (107 bp):
GACTGATCTTAACAGATTGATAAGTTATGGATTAGTTGTAAAATTTAACCATGTTTACTTAAACC
CTAAACCCAATAATATTAATCCATGGCAAATCAATTATCCAA
Found at i:7593478 original size:48 final size:49
Alignment explanation
Indices: 7593425--7593523 Score: 173
Period size: 48 Copynumber: 2.0 Consensus size: 49
7593415 TTAACGTTTA
* *
7593425 TATGTTGTTCTTTTTAAATTCAATATAAGGTC-TCATGTATTTCAAGTT
1 TATGTTGTTATTTTTAAATTCAATATAAGGTCTTCATGTATTTAAAGTT
7593473 TATGTTGTTATTTTTAAATTCAATATAAGGTCTTCATGTATTTAAAGTT
1 TATGTTGTTATTTTTAAATTCAATATAAGGTCTTCATGTATTTAAAGTT
7593522 TA
1 TA
7593524 GGTTTGAGCA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 31 0.65
49 17 0.35
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (49 bp):
TATGTTGTTATTTTTAAATTCAATATAAGGTCTTCATGTATTTAAAGTT
Found at i:7601742 original size:19 final size:19
Alignment explanation
Indices: 7601705--7601743 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
7601695 ATGATGAAGC
7601705 AAGAACAATAATTGAATGAA
1 AAGAACAATAA-TGAATGAA
7601725 AAGAACAATGAA-GAATGAA
1 AAGAACAAT-AATGAATGAA
7601744 TCAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 9 0.50
21 2 0.11
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (19 bp):
AAGAACAATAATGAATGAA
Found at i:7602240 original size:22 final size:22
Alignment explanation
Indices: 7602215--7602281 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
7602205 TATAACCAGC
7602215 CCTCTTAATCATAATTAAGAGG
1 CCTCTTAATCATAATTAAGAGG
7602237 CCTCTTAATCATAATTAAGAGG
1 CCTCTTAATCATAATTAAGAGG
7602259 CCTCTTAATCATAATTAAGAGG
1 CCTCTTAATCATAATTAAGAGG
7602281 C
1 C
7602282 AAACCGGAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (22 bp):
CCTCTTAATCATAATTAAGAGG
Done.