Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 201 of 214
Found at i:58888411 original size:67 final size:66
Alignment explanation
Indices: 58888298--58888422 Score: 196
Period size: 67 Copynumber: 1.9 Consensus size: 66
58888288 TTTCCATTTC
* * *
58888298 AGAGGGCACACTCCCGCGAACCTCATCCTTACAGTGGGATTACCAGTCCAGGCTAAATCGCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGAGGGATTACCAGTCCAAGCTAAATCGCCTGC
58888363 A
66 A
* *
58888364 AGAGAGCACACTCCCGCGAACCTTATTCCTTATAGAGGGATTACCAGTCCAAGCTAAAT
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTACAGAGGGATTACCAGTCCAAGCTAAAT
58888423 TCCGCGTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
66 23 0.43
67 30 0.57
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGAGGGATTACCAGTCCAAGCTAAATCGCCTGC
A
Found at i:58888644 original size:57 final size:56
Alignment explanation
Indices: 58888555--58888662 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 56
58888545 AATTCGGATT
* *
58888555 ACCCGTCCGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCGTCCGAGCTAAATCCATTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
* **
58888611 ACCCGTCCGAGCTAGATCTTTTTCACACATATTCTTCAGGAGGGCTATATCA
1 ACCCGTCCGAGCTAAATCCATTTC-CACATATTCTTCAGGAGGGCTATATCA
58888663 GGATAGGATC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 20 0.43
57 26 0.57
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (56 bp):
ACCCGTCCGAGCTAAATCCATTTCCACATATTCTTCAGGAGGGCTATATCAAGATC
Found at i:58892812 original size:46 final size:46
Alignment explanation
Indices: 58892656--58892934 Score: 418
Period size: 46 Copynumber: 6.0 Consensus size: 46
58892646 ACAATACTAT
* * *
58892656 AACTTAGTATGATTTTCTTTACTGAAATACCATACCTACCTTTTCA-
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTA-CTTTTCAC
58892702 ACACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTTCA-
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTAC-TTTTCAC
* *
58892749 ACACTGAGTATGGTTTTCTTTATTGAAATACCATACCTACATTTCAC
1 A-ACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* *
58892796 AAATCAGTATGATTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
58892842 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
* * *
58892888 AACTCGGTATGGTTTTCTTTATTGAAATACCATGCCTACTTTACAC
1 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
58892934 A
1 A
58892935 CTTTGCCATG
Statistics
Matches: 216, Mismatches: 14, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 136 0.63
47 80 0.37
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACTTTTCAC
Found at i:58893053 original size:31 final size:31
Alignment explanation
Indices: 58893015--58893078 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
58893005 TACGTATTCC
58893015 TTAATTTGAACTTACAAAGTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
*
58893046 TTAATTTGAACTTACAAATTGATTTTCACAT
1 TTAATTTGAACTTACAAAGTGATTTTCACAT
58893077 TT
1 TT
58893079 TTACCATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (31 bp):
TTAATTTGAACTTACAAAGTGATTTTCACAT
Found at i:58897788 original size:3 final size:3
Alignment explanation
Indices: 58897780--58897847 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
58897770 CTAACTTTGC
58897780 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
*
58897828 TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
58897848 TTACGAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:58897805 original size:363 final size:360
Alignment explanation
Indices: 58896522--58897802 Score: 2229
Period size: 363 Copynumber: 3.6 Consensus size: 360
58896512 ACTCAATATC
*
58896522 CTTTAAGTCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
*
58896587 TTGCCAGCTATTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
58896652 CTCTCCACTCTAGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTA
131 CTCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTA
58896717 TT-TTA--A---T---AATTTGAAGTACTTAGAATTCAAGTGGGATTTTTATAGGGCAGTGTATG
195 TTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGT-GGATTTTTATAGGGCAGTGTATG
* *
58896773 TATGGGAAGCTGTTCACGCGAGTCAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATT
259 TATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATT
*
58896838 ATACAAAGGAACCTGAGCTTAACAATGTCACCCTTAT
324 ATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
58896875 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* * *
58896940 TTGCCATCTCTTCTTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCTACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
*
58897005 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTACTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
58897070 TATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTA
196 TATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTA
* * *
58897135 TGAGAAGCTATTCACGTGAGTGAGTGGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT
261 TGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT
*
58897200 ACAAGGGAACCTGAGCTTAACAATGTCATCCTTAT
326 ACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
* *
58897235 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTTTTCGAATACATTGTCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
*
58897300 TTACCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
58897365 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTA-T-T
58897430 CATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTAT
194 -ATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTAT
*
58897495 GTACGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTAT
258 GTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTAT
58897560 TATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
323 TATACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
** * *
58897598 CTTTAAATCAATGGTTGGAACCAATGGTCCTCCATTTTTCTCTTCTTCTAATACATTGCCTATGC
1 CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
* *
58897663 TTGCCAGCTCTTCCTTAGGTCTAATATACTCCTTCGGGATTGACTGATTCCCACTGCTTGCCAAG
66 TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
* *
58897728 CTCTCTACTCGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
131 CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
58897793 TATTATTATT
196 TATTATTATT
58897803 ATTATTATTA
Statistics
Matches: 880, Mismatches: 36, Indels: 17
0.94 0.04 0.02
Matches are distributed among these distances:
352 54 0.06
353 139 0.16
355 1 0.00
358 1 0.00
360 314 0.36
361 27 0.03
362 2 0.00
363 342 0.39
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (360 bp):
CTTTAAATCAATGGTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGC
TTGCCAGCTCTTCCTTAGGTCTAATATACTCTTTCGGGATTGACTGAATCCCACTGCTTGCCAAG
CTCTCCACTCTGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATTAT
TATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTTATAGGGCAGTGTATGTA
TGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGACTGGAAGATTTGTATTAT
ACAAGGGAACCTGAGCTTAACAATGTCACCCTTAT
Found at i:58898564 original size:85 final size:85
Alignment explanation
Indices: 58898421--58898599 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
58898411 GGCCGGCCAT
58898421 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
58898486 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
58898506 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
58898571 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
58898591 GGGCATGGG
1 GAGCATGGG
58898600 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:58899995 original size:47 final size:47
Alignment explanation
Indices: 58899861--58900352 Score: 698
Period size: 47 Copynumber: 10.6 Consensus size: 47
58899851 TATTTGAATA
*
58899861 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58899908 -ATGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
58899956 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
58900003 AATGTGAAAGTGTATATATGTGATAAGGCCTAA--GCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58900047 AA-GTG-AAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
58900091 AATGTGAAAGTGTATATATGCGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58900138 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58900185 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
58900232 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
58900279 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
58900326 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
58900353 TCCCGAAGGG
Statistics
Matches: 417, Mismatches: 17, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
41 4 0.01
42 21 0.05
43 6 0.01
44 20 0.05
45 6 0.01
46 32 0.08
47 282 0.68
48 35 0.08
49 11 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:58900230 original size:22 final size:22
Alignment explanation
Indices: 58900203--58900324 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
58900193 CATGTGTATG
58900203 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
58900225 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
58900250 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
58900272 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
58900297 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
58900319 TGTGAT
1 TGTGAT
58900325 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:58902265 original size:3 final size:3
Alignment explanation
Indices: 58902257--58902294 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
58902247 CTAACTTTGC
*
58902257 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58902295 TTACGAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58902624 original size:3 final size:3
Alignment explanation
Indices: 58902616--58902656 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
58902606 CTAACTTTGC
58902616 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58902657 TTACAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:58902871 original size:362 final size:359
Alignment explanation
Indices: 58902203--58903379 Score: 1963
Period size: 362 Copynumber: 3.2 Consensus size: 359
58902193 GGCGTTACAT
*
58902203 GCTCTCCACTCTGGGGTCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
1 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
*
58902268 ATTATTATTATTATTATTGTTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTT
66 ATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTT
* *
58902333 ATAGGGCAATGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTAAGTTGAC
131 ATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGAC
58902398 TGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACCTGTGGTCC
196 TGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACCTGTGGTCC
*
58902463 TCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATGCT
261 TCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACT
58902528 CTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
326 CTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
*
58902562 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTCTAGCAAATCCTAACTTTGCTTATTATTATT
1 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC---TTATTATT
*
58902627 ATTATTATTATTATTATTATTATTATTATTTTACAAATTTGAAGTACTTAGAATTCAAGTGGATT
63 ATTATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATT
*
58902692 TTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGGGTAGCCATGGTCAAAGTGAGTT
128 TTTATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTT
*
58902757 GACTGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACTTGTGG
193 GACTGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACCTGTGG
*
58902822 TCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACAAGCTCTTCCTTAGGTCTAATAT
258 TCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATAT
58902887 ACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
323 ACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
58902924 GCTCTCCACTCT-GGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGC------TTATT
1 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
*
58902982 ATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTGCTTAGAATTCAAGTGGATTTTT
66 ATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTT
* * *
58903047 ATGGGGCAGTGTATGTATGGGAAGCTATTCATGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGAC
131 ATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGAC
* *
58903112 AGGAAGATTTGTATTATACAAGGGAACATGAGCTTAAAAATGTCACCCTTATCTTTAAATCAATG
196 TGGAAGATTTGTATTAT--------ACA--AG-------ATGTCACCCTTATCTTTAAGTCAATG
* *
58903177 GTTGGAACCTGTGGTCTTCATTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTC
244 GTTGGAACCTGTGGTCCTCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTC
58903242 CTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
309 CTTAGGTCTAATATACTCTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
58903293 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
1 GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
58903358 ATTATTATTATTATTATTATTA
66 ATTATTATTATTATTATTATTA
58903380 AGGGTGCGCA
Statistics
Matches: 768, Mismatches: 23, Indels: 37
0.93 0.03 0.04
Matches are distributed among these distances:
352 145 0.19
359 52 0.07
360 3 0.00
361 40 0.05
362 311 0.40
369 149 0.19
370 41 0.05
376 27 0.04
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (359 bp):
GCTCTCCACTCTGGGGGCAATTGAACTCGTCATTTTAGCAAATCCTAACTTTGCTTATTATTATT
ATTATTATTATTATTATTATTATTATTTTACGAATTTGAAGTACTTAGAATTCAAGTGGATTTTT
ATAGGGCAGTGTATGTATGGGAAGCTGTTCACGTGAGTGAGTAGCCATGGTCAAAGTGAGTTGAC
TGGAAGATTTGTATTATACAAGATGTCACCCTTATCTTTAAGTCAATGGTTGGAACCTGTGGTCC
TCCTTTTTTCTCTTCTTCGAATACATTGCCTATGCTTACCAGCTCTTCCTTAGGTCTAATATACT
CTTTCGGGATTGACTGATTCCCACTGCTTGCCAA
Found at i:58902985 original size:3 final size:3
Alignment explanation
Indices: 58902977--58903008 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
58902967 CTAACTTTGC
58902977 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58903009 TTACGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:58903355 original size:3 final size:3
Alignment explanation
Indices: 58903347--58903379 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58903337 CTAACTTTGC
58903347 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58903380 AGGGTGCGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58903766 original size:18 final size:18
Alignment explanation
Indices: 58903743--58903781 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
58903733 GTAGTGATTC
*
58903743 AATTCAGTTAATTCGGGT
1 AATTCAGGTAATTCGGGT
*
58903761 AATTCAGGTAATTCGGTT
1 AATTCAGGTAATTCGGGT
58903779 AAT
1 AAT
58903782 GTGGTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (18 bp):
AATTCAGGTAATTCGGGT
Found at i:58907895 original size:43 final size:43
Alignment explanation
Indices: 58907845--58907969 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
58907835 AAGGCTAGTA
* * * *
58907845 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAC-AGAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAG-T
* *
58907888 CGATGCC-ACTGTCCCAGGCAG-GGTCTTACACGAAAACACAAGT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAAACACAAGT
58907931 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAC
58907970 TTTTCAAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
42 3 0.04
43 61 0.88
44 5 0.07
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.18
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACAAGT
Found at i:58908149 original size:98 final size:98
Alignment explanation
Indices: 58907978--58908179 Score: 379
Period size: 98 Copynumber: 2.1 Consensus size: 98
58907968 ACTTTTCAAA
*
58907978 AATCCTATGTCATGACATAAGTATCCCATTTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
1 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
58908043 TATCAATCGAATCGAACTCGAAATAAAATCCCT
66 TATCAATCGAATCGAACTCGAAATAAAATCCCT
58908076 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
1 AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
*
58908141 TATTAATCGAATCGAACTCGAAATAAAATCCCT
66 TATCAATCGAATCGAACTCGAAATAAAATCCCT
58908174 -ATCCTA
1 AATCCTA
58908180 GCATACACAT
Statistics
Matches: 102, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 6 0.06
98 96 0.94
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.31
Consensus pattern (98 bp):
AATCCTATGTCATGACATAAGTATCCCATCTATTCCTAGGGTTCGTACGGGCTTCAAACATTGAT
TATCAATCGAATCGAACTCGAAATAAAATCCCT
Found at i:58910521 original size:21 final size:21
Alignment explanation
Indices: 58910479--58910521 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
58910469 TATCTTATTC
*
58910479 ATTGATAATATATAAAACTAT
1 ATTGATAATACATAAAACTAT
*
58910500 ATTGATTAATACATCAAA-TAT
1 ATTGA-TAATACATAAAACTAT
58910521 A
1 A
58910522 AATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTGATAATACATAAAACTAT
Found at i:58910808 original size:22 final size:23
Alignment explanation
Indices: 58910762--58910805 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
58910752 TTTCATAGAA
*
58910762 AAGTCTAAAAATTATCATATTTT
1 AAGTCTAAAAAGTATCATATTTT
58910785 AAGTCT-AAAAGTATC-TATTTT
1 AAGTCTAAAAAGTATCATATTTT
58910806 TAAATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 8 0.40
23 6 0.30
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (23 bp):
AAGTCTAAAAAGTATCATATTTT
Found at i:58912247 original size:2 final size:2
Alignment explanation
Indices: 58912240--58912270 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58912230 TGTCCCTTTA
58912240 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
58912271 AGTTCCATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:58919452 original size:7 final size:7
Alignment explanation
Indices: 58919440--58919472 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
58919430 TTCTTCACTT
58919440 GAAAAAG
1 GAAAAAG
58919447 GAAAAAG
1 GAAAAAG
58919454 GAAAAAG
1 GAAAAAG
58919461 GAAAAAG
1 GAAAAAG
58919468 GAAAA
1 GAAAA
58919473 CTATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:58931990 original size:31 final size:31
Alignment explanation
Indices: 58931955--58932015 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
58931945 CTAAATCCAA
58931955 CTTATTAGCATAATAATATAGATAGGTGGGG
1 CTTATTAGCATAATAATATAGATAGGTGGGG
*
58931986 CTTATTAGCATAGTAATATAGATAGGTGGG
1 CTTATTAGCATAATAATATAGATAGGTGGG
58932016 AAGGCAGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (31 bp):
CTTATTAGCATAATAATATAGATAGGTGGGG
Found at i:58932114 original size:4 final size:4
Alignment explanation
Indices: 58932107--58932132 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
58932097 GAATAAAAGA
58932107 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
58932133 GATAAAGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:58933777 original size:17 final size:16
Alignment explanation
Indices: 58933730--58933784 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
58933720 GGCCTAGAAT
*
58933730 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
58933747 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
58933765 ATTTGATAGATTAATTA
1 ATTTGATAGATT-ATTA
58933782 ATT
1 ATT
58933785 ATGGGATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.09
17 19 0.59
18 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:58934353 original size:21 final size:21
Alignment explanation
Indices: 58934271--58934375 Score: 106
Period size: 21 Copynumber: 5.0 Consensus size: 21
58934261 TTCGGGTGGA
*
58934271 TCAGCTCTTACGAGCTTCAGT
1 TCAGCTCTTACGAGCTTCTGT
* *
58934292 TCAGCTTCTTATGAGCTTCTAT
1 TCAGC-TCTTACGAGCTTCTGT
*
58934314 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
** * *
58934335 TCTTCTCTTATGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTGT
*
58934356 TCAACT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
58934375 T
1 T
58934376 AGCGTATTCG
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 10 0.15
20 2 0.03
21 38 0.56
22 18 0.26
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:58934368 original size:40 final size:42
Alignment explanation
Indices: 58934275--58934375 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
58934265 GGTGGATCAG
* * ** *
58934275 CTCTTACGAGCTTCAGTTCAGCTTCTTATGAGCTTCTATTCAG
1 CTCTCACGAGCTTCTGTTCTTC-TCTTATGAGCTTCTATTCAA
58934318 CTCTCACGAGCTTCTGTTCTTCTCTTATGAGCTTCTATTCAA
1 CTCTCACGAGCTTCTGTTCTTCTCTTATGAGCTTCTATTCAA
*
58934360 CT-T-TCGAGCTTCTGTT
1 CTCTCACGAGCTTCTGTT
58934376 AGCGTATTCG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 12 0.23
41 1 0.02
42 21 0.40
43 18 0.35
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.43
Consensus pattern (42 bp):
CTCTCACGAGCTTCTGTTCTTCTCTTATGAGCTTCTATTCAA
Found at i:58939252 original size:17 final size:18
Alignment explanation
Indices: 58939210--58939252 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
58939200 TCTCTCTTCG
* *
58939210 TTTTATTTTATTTTATCT
1 TTTTAATTTATCTTATCT
58939228 TTTT-ATTTATCTT-TCT
1 TTTTAATTTATCTTATCT
58939244 TTTTAATTT
1 TTTTAATTT
58939253 TGTTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 11 0.50
18 4 0.18
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTAATTTATCTTATCT
Found at i:58941287 original size:23 final size:23
Alignment explanation
Indices: 58941251--58941301 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
58941241 TACCAATTAG
* **
58941251 AAGAAGACCTAAGAGGGCACTCA
1 AAGAAGACCGAAGAAAGCACTCA
* *
58941274 AAGAAGATCGAAGAAAGCACTCG
1 AAGAAGACCGAAGAAAGCACTCA
58941297 AAGAA
1 AAGAA
58941302 CGTCATCAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.25, T:0.08
Consensus pattern (23 bp):
AAGAAGACCGAAGAAAGCACTCA
Found at i:58942237 original size:98 final size:98
Alignment explanation
Indices: 58942061--58942257 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
58942051 CTAGTACTTT
*
58942061 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGTTTG
1 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
* *
58942126 CCTTAGTCGTATTTATAGTTAGTTTAGTGACCA
66 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
* *
58942159 TAGTCCTCGTGGATACGATATTTCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
1 TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
58942224 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
66 CCTTAATCATATTTATAGTTAGTTTAGTGACCA
58942257 T
1 T
58942258 CAAGTGAATA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (98 bp):
TAGTCCTCGTAGATACGATATTCCCTACTCACCATAACTATACTATTGTTCGATAGGTGTGCTTG
CCTTAATCATATTTATAGTTAGTTTAGTGACCA
Found at i:58959041 original size:24 final size:24
Alignment explanation
Indices: 58959014--58959065 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
58959004 ATTAAATATG
58959014 AAAAAGAAATAAATAAAAATAAAA
1 AAAAAGAAATAAATAAAAATAAAA
** * * *
58959038 AAAACTAATTAATTAAAAATAAAG
1 AAAAAGAAATAAATAAAAATAAAA
58959062 AAAA
1 AAAA
58959066 TAAAAAAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAAGAAATAAATAAAAATAAAA
Found at i:58964750 original size:21 final size:22
Alignment explanation
Indices: 58964721--58964767 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
58964711 CAGAAGGAGT
*
58964721 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
58964743 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
58964764 GAGT
1 GAGT
58964768 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:58986142 original size:4 final size:4
Alignment explanation
Indices: 58986133--58986168 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
58986123 AAGTCAAGAA
58986133 CATC CATC CATC CATC CATC CATC CATC CATC CATC
1 CATC CATC CATC CATC CATC CATC CATC CATC CATC
58986169 ATGTCTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CATC
Found at i:58991524 original size:36 final size:36
Alignment explanation
Indices: 58991478--58991668 Score: 238
Period size: 36 Copynumber: 5.0 Consensus size: 36
58991468 GGTAGCTTTA
58991478 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
58991514 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAA---GT
58991553 AGCTTTAGCTACAGTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GC--TA--TAC--TTATCTGATCAAGTGAAAAAGTGATAAGT
* *
58991596 GTTATACTTATCTGATCAAGTGAAAAAGTGATATGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
58991632 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
58991668 G
1 G
58991669 GTAGCTTAGC
Statistics
Matches: 134, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
36 93 0.69
38 3 0.02
39 2 0.01
40 4 0.03
42 3 0.02
43 2 0.01
44 2 0.01
46 25 0.19
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:58991579 original size:82 final size:81
Alignment explanation
Indices: 58991442--58991668 Score: 310
Period size: 82 Copynumber: 2.9 Consensus size: 81
58991432 TTTGAGTACT
* *
58991442 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTATACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACA-TTATCTGATCAAGTGAAAAAGT
58991507 GATAAGTGCTACACTTA
65 GATAAGTGCTACACTTA
*
58991524 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACA-TTATCTGATCAAGTGAAAAAGT
* *
58991589 GATAAGTGTTATACTTA
65 GATAAGTGCTACACTTA
* *
58991606 TCTGATCAAGTGAAAAAGTGAT-A-T-GT-GC--TA--TAC-TTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACATTATCTGATCAAGTGAAAAAGTG
58991662 ATAAGTG
66 ATAAGTG
58991669 GTAGCTTAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
72 29 0.21
74 3 0.02
76 2 0.01
78 2 0.01
79 2 0.01
80 1 0.01
81 1 0.01
82 97 0.71
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (81 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACATTATCTGATCAAGTGAAAAAGTG
ATAAGTGCTACACTTA
Found at i:59002083 original size:63 final size:63
Alignment explanation
Indices: 59002005--59002134 Score: 242
Period size: 63 Copynumber: 2.1 Consensus size: 63
59001995 TTCAAGTGGT
*
59002005 TTTAAAAAATGAGGTATTAGGACCTTATTTTTATAAACTAAACCGTAAATATTTTTATAAATA
1 TTTAAAAAATGAGGTATCAGGACCTTATTTTTATAAACTAAACCGTAAATATTTTTATAAATA
*
59002068 TTTAGAAAATGAGGTATCAGGACCTTATTTTTATAAACTAAACCGTAAATATTTTTATAAATA
1 TTTAAAAAATGAGGTATCAGGACCTTATTTTTATAAACTAAACCGTAAATATTTTTATAAATA
59002131 TTTA
1 TTTA
59002135 CGGAATGTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (63 bp):
TTTAAAAAATGAGGTATCAGGACCTTATTTTTATAAACTAAACCGTAAATATTTTTATAAATA
Found at i:59002514 original size:27 final size:28
Alignment explanation
Indices: 59002487--59002587 Score: 96
Period size: 25 Copynumber: 3.9 Consensus size: 28
59002477 TTTAAAGTTA
59002487 AAATA-TATATTATA-ATATTATACCTT
1 AAATATTATATTATATATATTATACCTT
*
59002513 AATTATTATATTATATTATATTATA--TT
1 AAATATTATATTATA-TATATTATACCTT
59002540 --ATATTATATTATATTATATTATA--TT
1 AAATATTATATTATA-TATATTATACCTT
59002565 --ATATTATATTATATTATATTATA
1 AAATATTATATTATA-TATATTATA
59002588 GTGATAAAAT
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
25 47 0.67
26 4 0.06
27 11 0.16
29 8 0.11
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (28 bp):
AAATATTATATTATATATATTATACCTT
Found at i:59002526 original size:5 final size:5
Alignment explanation
Indices: 59002516--59002587 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
59002506 ATACCTTAAT
59002516 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
59002566 TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TA
59002588 GTGATAAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:59003583 original size:41 final size:40
Alignment explanation
Indices: 59003540--59003673 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
59003530 ACTTCGAGTT
**
59003540 GATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTT
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATCC
* * * *
59003581 GATGAGGCACTAGGTGCCAA-TT-TACTTCGGTTTAA-CC
1 GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
* * *
59003618 GATGAAACACTGGATGTCAATTTATTACTTCGAATT-ATCC
1 GATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAATCC
*
59003658 GATGAGGCACTGGGTG
1 GATGAGACACTGGGTG
59003674 CCAAAATAGT
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
37 15 0.21
38 14 0.19
39 1 0.01
40 26 0.36
41 17 0.23
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAATTTATACTTCGGATTAATCC
Found at i:59006458 original size:10 final size:10
Alignment explanation
Indices: 59006443--59006467 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59006433 CATTTTTAAG
59006443 TTTATAATAT
1 TTTATAATAT
59006453 TTTATAATAT
1 TTTATAATAT
59006463 TTTAT
1 TTTAT
59006468 TTTTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:59009955 original size:2 final size:2
Alignment explanation
Indices: 59009948--59009982 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
59009938 GGGGGAAGGG
59009948 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
59009983 GTGGTAGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:59011329 original size:21 final size:22
Alignment explanation
Indices: 59011291--59011332 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
59011281 GGGAGGTACC
**
59011291 TTTTATTAAATTTTATTCATTT
1 TTTTATTAAATTGCATTCATTT
59011313 TTTTATTAAA-TGCATTCATT
1 TTTTATTAAATTGCATTCATT
59011333 CTGAGGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTATTAAATTGCATTCATTT
Found at i:59015022 original size:46 final size:45
Alignment explanation
Indices: 59014920--59015163 Score: 330
Period size: 46 Copynumber: 5.6 Consensus size: 45
59014910 TACGTATGAT
*
59014920 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
59014963 CACTTATCACTTTTTCACTTGATTAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
59015009 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
*
59015055 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
59015091 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
59015137 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
59015164 AGTACTCAAA
Statistics
Matches: 180, Mismatches: 8, Indels: 23
0.85 0.04 0.11
Matches are distributed among these distances:
36 29 0.16
38 3 0.02
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.06
44 7 0.04
45 20 0.11
46 105 0.58
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:59015096 original size:36 final size:36
Alignment explanation
Indices: 59015055--59015127 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
59015045 CTGAGGCTAC
59015055 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
59015091 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
59015127 C
1 C
59015128 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:59015146 original size:82 final size:82
Alignment explanation
Indices: 59015009--59015163 Score: 274
Period size: 82 Copynumber: 1.9 Consensus size: 82
59014999 CTAAGGCTAC
* * *
59015009 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
59015074 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
*
59015091 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
59015156 TGATCAGA
66 TGATCAGA
59015164 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:59021399 original size:6 final size:6
Alignment explanation
Indices: 59021389--59021427 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
59021379 AGTTGAATCT
*
59021389 TTTGGT TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTT
1 TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTTGGA TTT
59021428 TTCAAGCAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.31, T:0.56
Consensus pattern (6 bp):
TTTGGA
Found at i:59034584 original size:16 final size:18
Alignment explanation
Indices: 59034553--59034588 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
59034543 TGAATTTTTG
59034553 TATTATTTTAATATTAAA
1 TATTATTTTAATATTAAA
59034571 TATT-TTTTAA-ATTAAA
1 TATTATTTTAATATTAAA
59034587 TA
1 TA
59034589 ACATTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATTTTAATATTAAA
Found at i:59041287 original size:12 final size:12
Alignment explanation
Indices: 59041270--59041298 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
59041260 ATGGGAAAGC
59041270 TTTAATTTTTTA
1 TTTAATTTTTTA
59041282 TTTAA-TTTTTA
1 TTTAATTTTTTA
59041293 TTTAAT
1 TTTAAT
59041299 GTAATTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTAATTTTTTA
Found at i:59044739 original size:52 final size:51
Alignment explanation
Indices: 59044668--59045072 Score: 489
Period size: 52 Copynumber: 8.1 Consensus size: 51
59044658 ATCAAGTGAC
* *
59044668 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59044720 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59044766 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59044817 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59044864 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59044916 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
59044962 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59045013 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
59045066 ATAAGTG
1 A-AAGTG
59045073 GCTACACTTA
Statistics
Matches: 303, Mismatches: 30, Indels: 39
0.81 0.08 0.10
Matches are distributed among these distances:
46 126 0.42
52 168 0.55
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59044823 original size:98 final size:98
Alignment explanation
Indices: 59044654--59045073 Score: 741
Period size: 98 Copynumber: 4.3 Consensus size: 98
59044644 TTTGAGTACT
59044654 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59044719 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59044752 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59044817 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59044850 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59044915 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
59044948 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
59045013 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59045046 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
59045074 CTACACTTAT
Statistics
Matches: 309, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 309 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59045079 original size:37 final size:37
Alignment explanation
Indices: 59045036--59045255 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
59045026 GATAGCTTTA
* *
59045036 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59045073 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59045110 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59045147 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59045184 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59045221 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59045256 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59046587 original size:58 final size:58
Alignment explanation
Indices: 59046510--59046677 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
59046500 CATGTGAACA
59046510 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
59046569 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
59046625 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
59046676 TG
1 TG
59046678 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:59046619 original size:28 final size:28
Alignment explanation
Indices: 59046529--59046619 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
59046519 GTGATTCCGT
59046529 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
59046557 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
59046586 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
59046615 GTAAG
1 GTAAG
59046620 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:59046642 original size:49 final size:49
Alignment explanation
Indices: 59046570--59046712 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
59046560 AGTGATATGT
* *
59046570 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59046619 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
59046668 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
59046713 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:59049924 original size:52 final size:51
Alignment explanation
Indices: 59049853--59050257 Score: 489
Period size: 52 Copynumber: 8.1 Consensus size: 51
59049843 ATCAAGTGAC
* *
59049853 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59049905 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59049951 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
59050002 AAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59050049 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-G
* * *
59050101 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
*
59050147 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
59050198 AAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACA-AGTG
59050251 ATAAGTG
1 A-AAGTG
59050258 GCTACACTTA
Statistics
Matches: 303, Mismatches: 30, Indels: 39
0.81 0.08 0.10
Matches are distributed among these distances:
46 126 0.42
52 168 0.55
53 9 0.03
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:59050008 original size:98 final size:98
Alignment explanation
Indices: 59049839--59050258 Score: 741
Period size: 98 Copynumber: 4.3 Consensus size: 98
59049829 TTTGAGTACT
59049839 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59049904 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59049937 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
59050002 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
59050035 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59050100 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* **
59050133 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
59050198 AAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59050231 TCTGATCAAGAGACAGAGTGATAAGTGG
1 TCTGATCAAGTGACAAAGTGATAAGTGG
59050259 CTACACTTAT
Statistics
Matches: 309, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 309 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59050264 original size:37 final size:37
Alignment explanation
Indices: 59050221--59050440 Score: 372
Period size: 37 Copynumber: 6.0 Consensus size: 37
59050211 GATAGCTTTA
* *
59050221 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59050258 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59050295 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59050332 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
59050369 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59050406 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59050441 ATCATACGTA
Statistics
Matches: 175, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 160 0.91
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59052796 original size:29 final size:29
Alignment explanation
Indices: 59052761--59052816 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
59052751 CTTTCAATAT
* *
59052761 GGTACTTGTACTTTGAAATTGCCCAATGC
1 GGTACTTATACTTTGAAAATGCCCAATGC
*
59052790 GGTACTTATACTTTGAAAATGTCCAAT
1 GGTACTTATACTTTGAAAATGCCCAAT
59052817 TTGGTACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (29 bp):
GGTACTTATACTTTGAAAATGCCCAATGC
Found at i:59052822 original size:29 final size:29
Alignment explanation
Indices: 59052755--59052823 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
59052745 TATAAACTTT
* *
59052755 CAATATGGTACTTGTACTTTGAAATTGCC
1 CAATATGGTACTTATACTTTGAAAATGCC
** *
59052784 CAATGCGGTACTTATACTTTGAAAATGTC
1 CAATATGGTACTTATACTTTGAAAATGCC
*
59052813 CAATTTGGTAC
1 CAATATGGTAC
59052824 ATGAACTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (29 bp):
CAATATGGTACTTATACTTTGAAAATGCC
Found at i:59060911 original size:21 final size:21
Alignment explanation
Indices: 59060886--59060928 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
59060876 TTTTCAAAAG
59060886 ATAAACTTTTTTGTAATTTTT
1 ATAAACTTTTTTGTAATTTTT
59060907 ATAAACTTTTTTGTAATTTTT
1 ATAAACTTTTTTGTAATTTTT
59060928 A
1 A
59060929 GATTATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (21 bp):
ATAAACTTTTTTGTAATTTTT
Found at i:59061391 original size:20 final size:20
Alignment explanation
Indices: 59061352--59061393 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59061342 GATTCAGTTT
*
59061352 TTTTATATTTGAGTATTTAA
1 TTTTATATTTGAGTAATTAA
59061372 TTTTATATTTG-GATAATTAA
1 TTTTATATTTGAG-TAATTAA
59061392 TT
1 TT
59061394 AAATAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTTATATTTGAGTAATTAA
Found at i:59061407 original size:66 final size:66
Alignment explanation
Indices: 59061335--59061472 Score: 213
Period size: 66 Copynumber: 2.1 Consensus size: 66
59061325 AAAAAAGTAA
* * * *
59061335 TTAATTGGATTCAGTTTTTTTATATTTGAGTATTTAATTTTATATTTGGATAATTAATTAAATAA
1 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
59061400 T
66 T
* * *
59061401 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTTATTGAGTAA
1 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
59061466 T
66 T
59061467 TTAATT
1 TTAATT
59061473 AGGTTGTGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.54
Consensus pattern (66 bp):
TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
T
Found at i:59061487 original size:66 final size:66
Alignment explanation
Indices: 59061335--59061500 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
59061325 AAAAAAGTAA
* ** * *
59061335 TTAATTGGATTCAGTTTTTTTATATTTGAGTATTTAATTTTATATTTGGATAATTAATTAAATAA
1 TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
59061400 T
66 T
* * * *
59061401 TTAATTGGATTAAGTTATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTTATTGAGTAA
1 TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
59061466 T
66 T
** * *
59061467 TTAATTAGG-TTGTGTAATTTTGTATTTGAATATT
1 TTAATT-GGATTAAGTAATTTTATATTTGAGTATT
59061501 AAGTAGGAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 85 0.98
67 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.54
Consensus pattern (66 bp):
TTAATTGGATTAAGTAATTTTATATTTGAGTATTTAACTTTACATTTGGATAATTAATTAAATAA
T
Found at i:59062601 original size:20 final size:20
Alignment explanation
Indices: 59062559--59062601 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
59062549 GAGTGGTTTC
*
59062559 TTAAATAATTATAAAAATTA
1 TTAAATAATTATAAAAATGA
59062579 TTAAA-AATTATAAATAATGA
1 TTAAATAATTATAAA-AATGA
59062599 TTA
1 TTA
59062602 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAAATAATTATAAAAATGA
Found at i:59062790 original size:11 final size:10
Alignment explanation
Indices: 59062772--59062837 Score: 64
Period size: 11 Copynumber: 6.4 Consensus size: 10
59062762 CTTATCATTC
59062772 TTAATAATTT
1 TTAATAATTT
59062782 TTAAATAATTT
1 TT-AATAATTT
59062793 TTAATAA-TT
1 TTAATAATTT
*
59062802 ATATATAATTT
1 TTA-ATAATTT
*
59062813 GT-ATAATTAT
1 TTAATAATT-T
59062823 TTAATAATTAT
1 TTAATAATT-T
59062834 TTAA
1 TTAA
59062838 AAAACAATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
9 10 0.21
10 13 0.27
11 25 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAATAATTT
Found at i:59080972 original size:16 final size:16
Alignment explanation
Indices: 59080951--59080982 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
59080941 AAGAAACATC
59080951 CTGAATAAATAAATTG
1 CTGAATAAATAAATTG
59080967 CTGAATAAATAAATTG
1 CTGAATAAATAAATTG
59080983 AAAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
CTGAATAAATAAATTG
Found at i:59082304 original size:16 final size:15
Alignment explanation
Indices: 59082261--59082303 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
59082251 TTTAGAAAAA
*
59082261 TTTTAGTTTTTGGAT
1 TTTTAGTTTTTAGAT
59082276 TTTCTAGCTTTTTAGAT
1 TTT-TAG-TTTTTAGAT
59082293 TTTTAGTTTTT
1 TTTTAGTTTTT
59082304 TTTATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
17 11 0.44
ACGTcount: A:0.14, C:0.05, G:0.14, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTTAGAT
Found at i:59083848 original size:22 final size:21
Alignment explanation
Indices: 59083819--59083874 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
59083809 TGCACTAATG
*
59083819 AACAGAGAGCACTGAAGTGCT
1 AACAGAGAGCACAGAAGTGCT
*
59083840 ATACAGAGAGCACAGATGTGCT
1 A-ACAGAGAGCACAGAAGTGCT
59083862 AATCAGAGAGCAC
1 AA-CAGAGAGCAC
59083875 CAACGTGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.14
Consensus pattern (21 bp):
AACAGAGAGCACAGAAGTGCT
Found at i:59083882 original size:22 final size:22
Alignment explanation
Indices: 59083820--59083887 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
59083810 GCACTAATGA
*
59083820 ACAGAGAGCACTGAAGTGCT-AT
1 ACAGAGAGCAC-CAAGTGCTAAT
59083842 ACAGAGAGCA-CAGATGTGCTAAT
1 ACAGAGAGCACCA-A-GTGCTAAT
59083865 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACCAA-GTGCTAAT
59083887 A
1 A
59083888 ATTAGAGAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 33 0.85
23 4 0.10
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (22 bp):
ACAGAGAGCACCAAGTGCTAAT
Found at i:59084783 original size:13 final size:13
Alignment explanation
Indices: 59084765--59084789 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59084755 CAAAATTCCC
59084765 TTTTCTTTCTTTT
1 TTTTCTTTCTTTT
59084778 TTTTCTTTCTTT
1 TTTTCTTTCTTT
59084790 CCTTTCTCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:59087747 original size:17 final size:17
Alignment explanation
Indices: 59087710--59087757 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
59087700 GAATTTAGAA
*
59087710 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
59087726 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
59087743 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
59087758 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:59092505 original size:46 final size:46
Alignment explanation
Indices: 59092435--59092618 Score: 305
Period size: 46 Copynumber: 4.0 Consensus size: 46
59092425 CCATGGAAAG
* * *
59092435 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAATCATACTGGGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
59092481 TGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
59092527 TGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
*
59092573 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
59092619 AATAGCAATG
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:59102034 original size:31 final size:30
Alignment explanation
Indices: 59101981--59102040 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
59101971 TGTCTATAAT
* * *
59101981 CACATCAAATTAAAGTTTATGTATCAATTTA
1 CACATCAAATCAAAATTAATGTAT-AATTTA
*
59102012 CACATTAAATCAAAATTAATGTATAATTT
1 CACATCAAATCAAAATTAATGTATAATTT
59102041 TAAGATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (30 bp):
CACATCAAATCAAAATTAATGTATAATTTA
Found at i:59110625 original size:16 final size:16
Alignment explanation
Indices: 59110605--59110651 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
59110595 ATAAAAATTT
*
59110605 TATATAAATATAATAAA
1 TATATAAA-AAAATAAA
59110622 -ATATCAAAAAAATAAA
1 TATAT-AAAAAAATAAA
59110638 TATATAAAAAAATA
1 TATATAAAAAAATA
59110652 TATGATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
TATATAAAAAAATAAA
Found at i:59122689 original size:16 final size:17
Alignment explanation
Indices: 59122647--59122692 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
59122637 AACTTGAAAG
59122647 AAATATTTTT-TCTTTA
1 AAATATTTTTATCTTTA
* **
59122663 AAAAAAATTTAT-TTTA
1 AAATATTTTTATCTTTA
59122679 AAATATTTTTATCT
1 AAATATTTTTATCT
59122693 CAAAAAATCT
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTTTTATCTTTA
Found at i:59124405 original size:22 final size:21
Alignment explanation
Indices: 59124380--59124446 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
59124370 GCATTTTACT
59124380 ATAAATTTTTTTGAATAATTTA
1 ATAAATTTTTTT-AATAATTTA
* *
59124402 ATAACA--ATTTT-ATAATTTT
1 ATAA-ATTTTTTTAATAATTTA
*
59124421 TTAAATTTTTTTAAATAATTTA
1 ATAAATTTTTTT-AATAATTTA
59124443 ATAA
1 ATAA
59124447 CAATTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.03
19 10 0.29
20 4 0.12
21 4 0.12
22 14 0.41
23 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
ATAAATTTTTTTAATAATTTA
Found at i:59124418 original size:19 final size:19
Alignment explanation
Indices: 59124394--59124460 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
59124384 ATTTTTTTGA
59124394 ATAATTTAATAACAATTTT
1 ATAATTTAATAACAATTTT
** *
59124413 ATAATTTTTTAA-ATTTTTTT
1 ATAATTTAATAACA--ATTTT
59124433 AAATAATTTAATAACAATTTT
1 --ATAATTTAATAACAATTTT
59124454 ATAATTT
1 ATAATTT
59124461 TTTAAATTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 1 0.03
19 17 0.46
20 4 0.11
21 4 0.11
22 10 0.27
23 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTAATAACAATTTT
Found at i:59124432 original size:41 final size:41
Alignment explanation
Indices: 59124381--59124469 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
59124371 CATTTTACTA
*
59124381 TAAATTTTTTTGAATAATTTAATAACAATTTTATAATTTTT
1 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
59124422 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
1 TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
59124463 TAAATTT
1 TAAATTT
59124470 AAGTGGTCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (41 bp):
TAAATTTTTTTAAATAATTTAATAACAATTTTATAATTTTT
Found at i:59124453 original size:22 final size:21
Alignment explanation
Indices: 59124387--59124458 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
59124377 ACTATAAATT
59124387 TTTTTGAATAATTTAATAACAA
1 TTTTT-AATAATTTAATAACAA
** *
59124409 -TTTT-ATAATTTTTTAA-ATT
1 TTTTTAATAATTTAATAACA-A
59124428 TTTTTAAATAATTTAATAACAA
1 TTTTT-AATAATTTAATAACAA
59124450 TTTTATAAT
1 TTTT-TAAT
59124459 TTTTTAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 1 0.03
19 10 0.26
20 4 0.11
21 4 0.11
22 17 0.45
23 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (21 bp):
TTTTTAATAATTTAATAACAA
Found at i:59124464 original size:22 final size:22
Alignment explanation
Indices: 59124398--59124465 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
59124388 TTTTGAATAA
59124398 TTTAATAACAATTTTATAATTT
1 TTTAATAACAATTTTATAATTT
*** **
59124420 TTT-A-AATTTTTTTA-AATAA
1 TTTAATAACAATTTTATAATTT
59124439 TTTAATAACAATTTTATAATTT
1 TTTAATAACAATTTTATAATTT
59124461 TTTAA
1 TTTAA
59124466 ATTTAAGTGG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 8 0.24
22 11 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATAACAATTTTATAATTT
Found at i:59135809 original size:22 final size:22
Alignment explanation
Indices: 59135783--59135831 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
59135773 ATATCCAAAC
59135783 AATAATAACAAAATAGTAGCAA
1 AATAATAACAAAATAGTAGCAA
* ** *
59135805 CATAATAGTAAAATGGTAGCAA
1 AATAATAACAAAATAGTAGCAA
59135827 AATAA
1 AATAA
59135832 GGAGAAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.20
Consensus pattern (22 bp):
AATAATAACAAAATAGTAGCAA
Found at i:59135839 original size:22 final size:22
Alignment explanation
Indices: 59135792--59135841 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
59135782 CAATAATAAC
* *
59135792 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
59135814 AAAATGGTAGCAAAATAAGGAG-
1 AAAATAGTAGCAAAATAA-GAGT
59135836 AAAATA
1 AAAATA
59135842 ACATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:59147335 original size:3 final size:3
Alignment explanation
Indices: 59147327--59147358 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
59147317 AAGCATAAAC
59147327 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59147359 CATTGGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:59147346 original size:14 final size:14
Alignment explanation
Indices: 59147329--59147357 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59147319 GCATAAACTA
59147329 ATAATAATAATAAT
1 ATAATAATAATAAT
59147343 ATAATAATAATAAT
1 ATAATAATAATAAT
59147357 A
1 A
59147358 ACATTGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:59149290 original size:44 final size:44
Alignment explanation
Indices: 59149168--59149363 Score: 200
Period size: 44 Copynumber: 4.5 Consensus size: 44
59149158 ATACAGGGAT
* * *
59149168 AAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGAC
* * * *
59149213 AAGATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * * *
59149256 AGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * * *
59149300 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGAC
59149345 AAGATCTGC-ATCTTCGATC
1 AAGATCTGCTATCTTCGATC
59149364 ACNNNNNNNN
Statistics
Matches: 120, Mismatches: 27, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.01
43 18 0.15
44 70 0.58
45 31 0.26
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
Found at i:59164914 original size:21 final size:21
Alignment explanation
Indices: 59164870--59164921 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
59164860 ATTATTTTTA
* *
59164870 ATAATTTTTAAATAATTTCTT
1 ATAAATTTTAAATAAATTCTT
59164891 ATAAATTTTAAATAAAATTC-T
1 ATAAATTTTAAAT-AAATTCTT
*
59164912 ATAACTTTTA
1 ATAAATTTTA
59164922 GAATTATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAATTTTAAATAAATTCTT
Found at i:59167857 original size:12 final size:12
Alignment explanation
Indices: 59167841--59167906 Score: 80
Period size: 12 Copynumber: 5.5 Consensus size: 12
59167831 TTGATAATCA
59167841 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
59167853 CTTCTTTTCGTC
1 TTTCTTTTCATC
59167865 TTTCTTTTCATC
1 TTTCTTTTCATC
* *
59167877 TTTCTTGTCGTC
1 TTTCTTTTCATC
59167889 TTT-TTTGTCATC
1 TTTCTTT-TCATC
59167901 TTTCTT
1 TTTCTT
59167907 CTCTTCTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.05, C:0.24, G:0.06, T:0.65
Consensus pattern (12 bp):
TTTCTTTTCATC
Found at i:59167868 original size:24 final size:24
Alignment explanation
Indices: 59167841--59167915 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
59167831 TTGATAATCA
* *
59167841 TTTCTTTTCATCCTTCTTTTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
59167865 TTTCTTTTCATCTTTCTTGTCGTC
1 TTTCTTTTCATCTTTCTTCTCGTC
*
59167889 TTT-TTTGTCATCTTTCTTCTCTTC
1 TTTCTTT-TCATCTTTCTTCTCGTC
59167913 TTT
1 TTT
59167916 AGCAGGTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.04, C:0.25, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTCTTTTCATCTTTCTTCTCGTC
Found at i:59175260 original size:14 final size:12
Alignment explanation
Indices: 59175243--59175285 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
59175233 AATACTTCTC
59175243 AAAATCACTTTTT
1 AAAA-CACTTTTT
59175256 CAAAACACTTTTT
1 -AAAACACTTTTT
*
59175269 AAAAGCAATTTTT
1 AAAA-CACTTTTT
59175282 AAAA
1 AAAA
59175286 ACAATGCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (12 bp):
AAAACACTTTTT
Found at i:59175265 original size:26 final size:26
Alignment explanation
Indices: 59175225--59175288 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
59175215 TAAACTAAAC
* * *
59175225 TTTTCAAAAATACTTCTCAAAATCACT
1 TTTTC-AAAACACTTCTCAAAAGCAAT
* *
59175252 TTTTCAAAACACTTTTTAAAAGCAAT
1 TTTTCAAAACACTTCTCAAAAGCAAT
*
59175278 TTTTAAAAACA
1 TTTTCAAAACA
59175289 ATGCTAAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTTCAAAACACTTCTCAAAAGCAAT
Found at i:59186303 original size:37 final size:38
Alignment explanation
Indices: 59186228--59186303 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
59186218 AATTATTTTC
*
59186228 GTATTTTATTTTGAAGGTGAGATATTTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
59186266 GTATTTTATTTTGAAGGTGAGACA-TTTTATAAATAAT
1 GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
59186303 G
1 G
59186304 AAACTTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 14 0.38
38 23 0.62
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (38 bp):
GTATTTTATTTTGAAGGTGAGACATTTTTATAAATAAT
Found at i:59186402 original size:24 final size:24
Alignment explanation
Indices: 59186366--59186412 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
59186356 TTGATTATTT
*
59186366 TTTTCACCCTTCTTTTCGTCTTTC
1 TTTTCACCCTTCTTCTCGTCTTTC
* * *
59186390 TTTTCATCTTTCTTCTCTTCTTT
1 TTTTCACCCTTCTTCTCGTCTTT
59186413 AGCAGGTCCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.30, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTCACCCTTCTTCTCGTCTTTC
Found at i:59186799 original size:28 final size:28
Alignment explanation
Indices: 59186759--59186815 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
59186749 TTCTGATGAG
59186759 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
59186787 AAAACTAATTCTAAAGGGAAACCAAAGT
1 AAAACTAATTCTAAAGGGAAACCAAAGT
59186815 A
1 A
59186816 CTGAAGCAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (28 bp):
AAAACTAATTCTAAAGGGAAACCAAAGT
Found at i:59187259 original size:21 final size:21
Alignment explanation
Indices: 59187233--59187286 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
59187223 ACAGTGGTGA
*
59187233 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
59187254 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
59187275 CGGTGAGATTAG
1 CGGTGAGATTAG
59187287 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:59189417 original size:16 final size:16
Alignment explanation
Indices: 59189395--59189426 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
59189385 CAATTGATTT
59189395 TAAAAAAATAAA-AAG
1 TAAAAAAATAAACAAG
59189410 TAAAAAAATAAACAAG
1 TAAAAAAATAAACAAG
59189426 T
1 T
59189427 TGCATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (16 bp):
TAAAAAAATAAACAAG
Found at i:59190714 original size:36 final size:35
Alignment explanation
Indices: 59190647--59190714 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 35
59190637 ATTTAACCCA
*
59190647 AAGGCTATACTCCATATTTGAGCATATTAAAATAC
1 AAGGCTATACTCCATATTTGAGCATAGTAAAATAC
* *
59190682 AAGGACTATATTCCATATTTGAGCATGGTAAAA
1 AAGG-CTATACTCCATATTTGAGCATAGTAAAA
59190715 AGACCAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (35 bp):
AAGGCTATACTCCATATTTGAGCATAGTAAAATAC
Found at i:59199273 original size:21 final size:20
Alignment explanation
Indices: 59199247--59199301 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
59199237 AATAGCGGTG
*
59199247 GCGGTGAGATTAATTACTGTA
1 GCGGTGAGATTAA-TAATGTA
59199268 GCGGTGAGATTAGATAATGTA
1 GCGGTGAGATTA-ATAATGTA
*
59199289 GTGGTGAGATTAA
1 GCGGTGAGATTAA
59199302 AAATAATGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (20 bp):
GCGGTGAGATTAATAATGTA
Found at i:59207447 original size:20 final size:19
Alignment explanation
Indices: 59207403--59207452 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
59207393 ATATGTATTT
* *
59207403 TTAAATAATATTGATACAT
1 TTAAAAAATATTGATACAA
*
59207422 TTAAAACATATTGATAACAA
1 TTAAAAAATATTGAT-ACAA
59207442 TTAAAAAATAT
1 TTAAAAAATAT
59207453 ATTATTATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAAATATTGATACAA
Found at i:59208433 original size:12 final size:12
Alignment explanation
Indices: 59208418--59208445 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
59208408 CTATTTACAG
59208418 AAAATAAAATAA
1 AAAATAAAATAA
59208430 AAAATAAAATAA
1 AAAATAAAATAA
59208442 AAAA
1 AAAA
59208446 ACTGATGTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:59208780 original size:28 final size:28
Alignment explanation
Indices: 59208748--59208811 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
59208738 GGTCATGGGC
* *
59208748 ATTTGGGCTAGTTGGGTTTGGGTAGTGG
1 ATTTGGGCTAATTAGGTTTGGGTAGTGG
59208776 ATTTGGGCTAATTAGGTTTGGGTAGTGG
1 ATTTGGGCTAATTAGGTTTGGGTAGTGG
59208804 ATTTGGGC
1 ATTTGGGC
59208812 CATTAGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.14, C:0.05, G:0.42, T:0.39
Consensus pattern (28 bp):
ATTTGGGCTAATTAGGTTTGGGTAGTGG
Found at i:59211000 original size:23 final size:23
Alignment explanation
Indices: 59210974--59211049 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
59210964 ATAAGTGCCA
59210974 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59210997 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
59211020 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
59211043 CACTGAT
1 CACTGAT
59211050 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:59227411 original size:17 final size:18
Alignment explanation
Indices: 59227389--59227436 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
59227379 ATAACATCTT
59227389 TTTTAGAT-AATCTAAAA
1 TTTTAGATAAATCTAAAA
*
59227406 TTTTAGGTGAAATCTAAAA
1 TTTTAGAT-AAATCTAAAA
* *
59227425 TATAAGATAAAT
1 TTTTAGATAAAT
59227437 TTACCAACTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 7 0.28
18 4 0.16
19 14 0.56
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (18 bp):
TTTTAGATAAATCTAAAA
Found at i:59231291 original size:587 final size:587
Alignment explanation
Indices: 59230179--59231303 Score: 2097
Period size: 587 Copynumber: 1.9 Consensus size: 587
59230169 CTAGAAGAGG
59230179 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
1 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
*
59230244 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTTGAAAAAAAAATCATCAATGATGAGAT
66 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
59230309 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
131 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
59230374 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
196 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
*
59230439 ATAGCCAGGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
261 ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
*
59230504 ACTTATGTATGCGACACAGTACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
326 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
*
59230569 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTTTCACTTTTAACTTT
391 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
*
59230634 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTGTGTAATA
456 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
59230699 AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
521 AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
59230764 AA
586 AA
* * *
59230766 TAAAAGAACAGTAAAAGATTTTGACCTTGATTATTATGTGTTTATTGTTGAGGAAGATCTTAAAA
1 TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
* *
59230831 CTTTATATAAGGTTTTATCTTATCCTAATTTTGACCTTAGAAAAAAAAATCATCAATGATGAGAT
66 CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
*
59230896 AAATTTCTTGACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
131 AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
* *
59230961 TCATTGTAGCCTTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAATACTCATT
196 TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
*
59231026 ATAGCTAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
261 ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
59231091 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
326 ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
*
59231156 TAATTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
391 TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
* *
59231221 TGCAAGTTCGTAAGGTGTTTAATGGATGATTGGATTTATTGTATCTTGAGAGATAGTATGTAATA
456 TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
59231286 AAACTTATTTGAGAAGGA
521 AAACTTATTTGAGAAGGA
59231304 GCTATCATCT
Statistics
Matches: 521, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
587 521 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (587 bp):
TAAAAGAACAGTAAAAGATTTTGACCCTAATTATTATGTGTTTATTGTTGAAGAAGATCTTAAAA
CTTTATATAAGGTTTTATCTTATCCTAATTCTAACCTTAGAAAAAAAAATCATCAATGATGAGAT
AAATTTCTTAACAACTATTATAACCAAGATAAAGTACATAGCCAAAACGTGCTAGTTTACAAAGT
TCATTGTAGCATTGCTTATATGAGTGTGAAAGTGAGTTCACTCTTTATTCTCTAGAACACTCATT
ATAGCCAAGATAAAGTACATGGCCAAATCGTGCTAGCTTACAAAACTCATTGTAGGGTACTAGAA
ACTTATGTATGCGACACAATACTATATTTCTCAAAGTAGCCTTAGCTCAAGAGTTAGTTCACTAT
TAACTCCATAGTAGAGGTTATTGAATATTAGGTGCCATTTGGTGGAGCTTCTCACTTTTAACTTT
TGCAAGTTCGTAAGGTGTTTAATGGATGATTAGATTTATTGTATCTTGAGAAATAGTATGTAATA
AAACTTATTTGAGAAGGAAAATAACAGTAATAAAAGAACAGTAACTTATTTGAGAAATAGTGTGT
AA
Found at i:59232403 original size:32 final size:32
Alignment explanation
Indices: 59232361--59232423 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
59232351 ACTTTTTTAT
*
59232361 TTTTTAAGAGATTTAAAAGCAATTTTGCAATA
1 TTTTAAAGAGATTTAAAAGCAATTTTGCAATA
59232393 TTTTAAAGAGATTTAAAAGCAATTTTGCAAT
1 TTTTAAAGAGATTTAAAAGCAATTTTGCAAT
59232424 TTGAGGGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (32 bp):
TTTTAAAGAGATTTAAAAGCAATTTTGCAATA
Found at i:59235385 original size:19 final size:22
Alignment explanation
Indices: 59235342--59235385 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
59235332 GCTTCAAATT
*
59235342 TTTGCATTTTTTATATTTAATA
1 TTTGCATTTTCTATATTTAATA
59235364 TTTG-ATTTTCTAT-TTTAA-A
1 TTTGCATTTTCTATATTTAATA
59235383 TTT
1 TTT
59235386 CAAGTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 8 0.38
22 4 0.19
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTGCATTTTCTATATTTAATA
Found at i:59235514 original size:24 final size:25
Alignment explanation
Indices: 59235468--59235515 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
59235458 TTTAAAATAA
*
59235468 AAATAAACATTAAATTATTATAAAT
1 AAATAAACATTAAATTATAATAAAT
59235493 AAATAAA-A-TAATATTATAATAAA
1 AAATAAACATTAA-ATTATAATAAA
59235516 CTATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 11 0.52
25 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATAAACATTAAATTATAATAAAT
Found at i:59248301 original size:95 final size:95
Alignment explanation
Indices: 59248138--59248327 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
59248128 TGAAACTAAA
59248138 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
1 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
59248203 TTCTTTGAGAACTGTCATTGACAAGTAGAT
66 TTCTTTGAGAACTGTCATTGACAAGTAGAT
59248233 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
1 TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
59248298 TTCTTTGAGAACTGTCATTGACAAGTAGAT
66 TTCTTTGAGAACTGTCATTGACAAGTAGAT
59248328 CACGAACTTG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (95 bp):
TTTTCAGACCAGAACTGAGAAATTAAAGAACAAATGAGATCCAAAAGATTAAACTAAAGGATATC
TTCTTTGAGAACTGTCATTGACAAGTAGAT
Found at i:59251469 original size:16 final size:16
Alignment explanation
Indices: 59251447--59251515 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
59251437 TTTGGTTCGC
59251447 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
59251463 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59251479 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
59251496 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
59251512 TGTA
1 TGTA
59251516 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:59251493 original size:33 final size:32
Alignment explanation
Indices: 59251447--59251515 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
59251437 TTTGGTTCGC
59251447 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
59251479 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
59251512 TGTA
1 TGTA
59251516 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:59251580 original size:44 final size:45
Alignment explanation
Indices: 59251496--59251586 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
59251486 GGATTAGAGG
* * *
59251496 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
59251541 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
59251585 TG
1 TG
59251587 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:59251772 original size:18 final size:17
Alignment explanation
Indices: 59251751--59251785 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59251741 TTATTATTAA
*
59251751 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
59251769 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
59251786 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:59252249 original size:120 final size:120
Alignment explanation
Indices: 59251734--59252839 Score: 1964
Period size: 120 Copynumber: 9.2 Consensus size: 120
59251724 ATCATATTTA
* *
59251734 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59251799 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* ** *
59251854 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATT
*
59251918 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* ** *
59251975 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATT
*
59252039 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
59252096 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59252161 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
59252216 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
59252281 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
59252336 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
59252401 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
59252456 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTTAAAAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAA-TTTAAAAAAATTCTTAATAATTA
*
59252521 ATGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
59252577 AACATAATTATTATTAAATGTATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59252642 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAGATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
59252697 AACATAATTATTATTAAATGTATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59252762 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAGATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
59252817 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
59252840 AACTTGAAAA
Statistics
Matches: 966, Mismatches: 16, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
119 1 0.00
120 613 0.63
121 351 0.36
122 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:59252511 original size:361 final size:360
Alignment explanation
Indices: 59251734--59252839 Score: 1991
Period size: 361 Copynumber: 3.1 Consensus size: 360
59251724 ATCATATTTA
* *
59251734 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
59251799 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* ** *
59251864 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAA-T-AATTAATATTCTTA
*
59251928 TATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
194 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
* *
59251993 TATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-TAATATTCTTATATTAATT
259 TATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTATATTAATT
*
59252057 TACTGAAATCATAATATATGATACTGTAAAATATAAATT
322 TACTCAAATCATAATATATGATACTGTAAAATATAAATT
59252096 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
59252161 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
59252226 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
59252291 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
59252356 TATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTACT
59252421 CAAATCATAATATATGATACTGTAAAATATAAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATT
59252456 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTTAAAAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAA-TTTAAAAAAATTCTTAATAATTA
* *
59252521 ATGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
65 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATT
*
59252586 ATTATTAAATGTATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
130 ATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTAT
*
59252651 ATTAATTTACTCAAATCATAATATATGATACTGTAAGATATAAATTAACATAATTATTATTAAAT
195 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
* **
59252716 GTATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTAC
260 ATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTAC
*
59252781 TCAAATCATAATATATGATACTGTAAGATATAAATT
325 TCAAATCATAATATATGATACTGTAAAATATAAATT
59252817 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
59252840 AACTTGAAAA
Statistics
Matches: 723, Mismatches: 18, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
359 1 0.00
360 100 0.14
361 449 0.62
362 173 0.24
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (360 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTACT
CAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:59252637 original size:481 final size:482
Alignment explanation
Indices: 59251734--59252839 Score: 2004
Period size: 481 Copynumber: 2.3 Consensus size: 482
59251724 ATCATATTTA
* *
59251734 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59251799 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
59251864 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATAATATTCTTAT
*
59251929 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
196 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
** *
59251994 ATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTATATTAATTTA
261 ATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATTGAATAATATTCTTATATTAATTTA
*
59252059 CTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAA
326 CTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAA
*
59252124 TTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTGAAATCAT
391 TTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCAT
59252189 AATATATGATACTGTAAAATATAAATT
456 AATATATGATACTGTAAAATATAAATT
59252216 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
59252281 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
59252346 TTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAA-T-AATTAATATTCTTA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAA-TAATATTCTTA
59252409 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
195 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAA
* *
59252474 TATATTTTAATTAAACTATATAATTTTAAAAAAATTCTTAA-T-AATTAATGTTCTTATATTAAT
260 TATATTTTAATTAAAATATATAA-TTTAAAAAAATTCTTAATTGAA-TAATATTCTTATATTAAT
*
59252537 TTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATGTATTT
323 TTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTT
59252602 TAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAAT
388 TAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAAT
*
59252667 CATAATATATGATACTGTAAGATATAAATT
453 CATAATATATGATACTGTAAAATATAAATT
*
59252697 AACATAATTATTATTAAATGTATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
59252762 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAGATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
59252827 TTATTAAATATAT
131 TTATTAAATATAT
59252840 AACTTGAAAA
Statistics
Matches: 604, Mismatches: 17, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
480 2 0.00
481 413 0.68
482 189 0.31
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (482 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGAATAATATTCTTAT
ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAAT
ATATTTTAATTAAAATATATAATTTAAAAAAATTCTTAATTGAATAATATTCTTATATTAATTTA
CTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAA
TTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCAT
AATATATGATACTGTAAAATATAAATT
Found at i:59255898 original size:33 final size:33
Alignment explanation
Indices: 59255859--59255968 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
59255849 ATTATAAAGC
59255859 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
59255892 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* * *
59255925 AATGT-T-ATTGTCCCTAAAA-AACATTGCTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
59255958 ATGTATAATTG
1 ATGTATAATTG
59255969 TTGGTTTAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 9 0.14
33 48 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:59255975 original size:51 final size:51
Alignment explanation
Indices: 59255915--59256171 Score: 462
Period size: 51 Copynumber: 5.0 Consensus size: 51
59255905 CTAAAATTAC
*
59255915 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGCTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
*
59255966 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGCTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
*
59256017 TTGTTGGTTTAATGTTATTTACCCTAAAATCACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAA-AACATTGTTGGTGTATGTATAA
59256069 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
59256120 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
59256171 T
1 T
59256172 CTTTTAATTT
Statistics
Matches: 201, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
50 1 0.00
51 151 0.75
52 49 0.24
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:59256093 original size:103 final size:102
Alignment explanation
Indices: 59255915--59256171 Score: 462
Period size: 103 Copynumber: 2.5 Consensus size: 102
59255905 CTAAAATTAC
*
59255915 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGCTGGTGTATGTATAATTGTTGGTTTAAT
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
59255979 GTTATTTACCCTAAAAAACATTGCTGGTGTATGTATAA
65 GTTATTTACCCTAAAAAACATTGCTGGTGTATGTATAA
*
59256017 TTGTTGGTTTAATGTTATTTACCCTAAAATCACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
1 TTGTTGGTTTAATGTTATTTACCCTAAAA-AACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
*
59256082 GTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
65 GTTATTTACCCTAAAAAACATTGCTGGTGTATGTATAA
59256120 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAAT
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAAT
59256172 CTTTTAATTT
Statistics
Matches: 149, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
101 1 0.01
102 49 0.33
103 99 0.66
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (102 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATG
TTATTTACCCTAAAAAACATTGCTGGTGTATGTATAA
Found at i:59264265 original size:775 final size:775
Alignment explanation
Indices: 59262775--59264325 Score: 3102
Period size: 775 Copynumber: 2.0 Consensus size: 775
59262765 CATATAAAGA
59262775 TTTAACAAGCTTACATACCTTATGCTCTTGTCCTGGAACAACAAATCCTTCCGGTTGCTCCATGT
1 TTTAACAAGCTTACATACCTTATGCTCTTGTCCTGGAACAACAAATCCTTCCGGTTGCTCCATGT
59262840 ACACTTCCTCTTCCAATTCACCATTTAAAAATGCAGTTTTAACATCCATTTGGTGAACAACCAAA
66 ACACTTCCTCTTCCAATTCACCATTTAAAAATGCAGTTTTAACATCCATTTGGTGAACAACCAAA
59262905 TTATATATAGAGGTAAGTGATATTAATAGTCTAATTGTAGCAATTCTTGCTACTGGAGCATAGGT
131 TTATATATAGAGGTAAGTGATATTAATAGTCTAATTGTAGCAATTCTTGCTACTGGAGCATAGGT
59262970 ATCAAAGTAATCAATACATTGTCTTTGTGTAAAACCTTTTGCTACCAACCTTGCTTTAAATTTAT
196 ATCAAAGTAATCAATACATTGTCTTTGTGTAAAACCTTTTGCTACCAACCTTGCTTTAAATTTAT
59263035 CAATGGTTCCATCGACCTTCATTTTTTTTTGAAGATCCATTTACAACCTATTGGTTTGGAACCTG
261 CAATGGTTCCATCGACCTTCATTTTTTTTTGAAGATCCATTTACAACCTATTGGTTTGGAACCTG
59263100 GTGGAAGATCAACTAAGATCCAAGTTTGATTTCCCATTATTGAATCCATCTCATCATTTATTGCT
326 GTGGAAGATCAACTAAGATCCAAGTTTGATTTCCCATTATTGAATCCATCTCATCATTTATTGCT
59263165 TCTTTCCAAAAAGCAGAGTCTTGAGATTTCACTGCCTCTTCAAATGTAATAGGATCAGATTCGGT
391 TCTTTCCAAAAAGCAGAGTCTTGAGATTTCACTGCCTCTTCAAATGTAATAGGATCAGATTCGGT
59263230 ATTATAACAATAAGGTATCTTATTGCATATACTTTCACCTTTTCCTTCTACAAGAAACATAATGA
456 ATTATAACAATAAGGTATCTTATTGCATATACTTTCACCTTTTCCTTCTACAAGAAACATAATGA
59263295 AATCTGGTCCAAAATCTTTTACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGACAAGATTCA
521 AATCTGGTCCAAAATCTTTTACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGACAAGATTCA
59263360 TCATTATTATCAATTTGTTTCAATGGAATCTCATTCTCATTTGAAGAATGAATCAATTGTTGTGG
586 TCATTATTATCAATTTGTTTCAATGGAATCTCATTCTCATTTGAAGAATGAATCAATTGTTGTGG
59263425 TTGTAATTGTCTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTGATTCAATAA
651 TTGTAATTGTCTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTGATTCAATAA
59263490 CAGTATTAATTGAAATTGAATCATTTGGTTCAATTACCATGAACCTATATGCCTTGCTAT
716 CAGTATTAATTGAAATTGAATCATTTGGTTCAATTACCATGAACCTATATGCCTTGCTAT
59263550 TTTAACAAGCTTACATACCTTATGCTCTTGTCCTGGAACAACAAATCCTTCCGGTTGCTCCATGT
1 TTTAACAAGCTTACATACCTTATGCTCTTGTCCTGGAACAACAAATCCTTCCGGTTGCTCCATGT
59263615 ACACTTCCTCTTCCAATTCACCATTTAAAAATGCAGTTTTAACATCCATTTGGTGAACAACCAAA
66 ACACTTCCTCTTCCAATTCACCATTTAAAAATGCAGTTTTAACATCCATTTGGTGAACAACCAAA
59263680 TTATATATAGAGGTAAGTGATATTAATAGTCTAATTGTAGCAATTCTTGCTACTGGAGCATAGGT
131 TTATATATAGAGGTAAGTGATATTAATAGTCTAATTGTAGCAATTCTTGCTACTGGAGCATAGGT
59263745 ATCAAAGTAATCAATACATTGTCTTTGTGTAAAACCTTTTGCTACCAACCTTGCTTTAAATTTAT
196 ATCAAAGTAATCAATACATTGTCTTTGTGTAAAACCTTTTGCTACCAACCTTGCTTTAAATTTAT
59263810 CAATGGTTCCATCGACCTTCATTTTTTTTTGAAGATCCATTTACAACCTATTGGTTTGGAACCTG
261 CAATGGTTCCATCGACCTTCATTTTTTTTTGAAGATCCATTTACAACCTATTGGTTTGGAACCTG
59263875 GTGGAAGATCAACTAAGATCCAAGTTTGATTTCCCATTATTGAATCCATCTCATCATTTATTGCT
326 GTGGAAGATCAACTAAGATCCAAGTTTGATTTCCCATTATTGAATCCATCTCATCATTTATTGCT
59263940 TCTTTCCAAAAAGCAGAGTCTTGAGATTTCACTGCCTCTTCAAATGTAATAGGATCAGATTCGGT
391 TCTTTCCAAAAAGCAGAGTCTTGAGATTTCACTGCCTCTTCAAATGTAATAGGATCAGATTCGGT
59264005 ATTATAACAATAAGGTATCTTATTGCATATACTTTCACCTTTTCCTTCTACAAGAAACATAATGA
456 ATTATAACAATAAGGTATCTTATTGCATATACTTTCACCTTTTCCTTCTACAAGAAACATAATGA
59264070 AATCTGGTCCAAAATCTTTTACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGACAAGATTCA
521 AATCTGGTCCAAAATCTTTTACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGACAAGATTCA
59264135 TCATTATTATCAATTTGTTTCAATGGAATCTCATTCTCATTTGAAGAATGAATCAATTGTTGTGG
586 TCATTATTATCAATTTGTTTCAATGGAATCTCATTCTCATTTGAAGAATGAATCAATTGTTGTGG
59264200 TTGTAATTGTCTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTGATTCAATAA
651 TTGTAATTGTCTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTGATTCAATAA
59264265 CAGTATTAATTGAAATTGAATCATTTGGTTCAATTACCATGAACCTATATGCCTTGCTAT
716 CAGTATTAATTGAAATTGAATCATTTGGTTCAATTACCATGAACCTATATGCCTTGCTAT
59264325 T
1 T
59264326 ATGTGCATAA
Statistics
Matches: 776, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
775 776 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.38
Consensus pattern (775 bp):
TTTAACAAGCTTACATACCTTATGCTCTTGTCCTGGAACAACAAATCCTTCCGGTTGCTCCATGT
ACACTTCCTCTTCCAATTCACCATTTAAAAATGCAGTTTTAACATCCATTTGGTGAACAACCAAA
TTATATATAGAGGTAAGTGATATTAATAGTCTAATTGTAGCAATTCTTGCTACTGGAGCATAGGT
ATCAAAGTAATCAATACATTGTCTTTGTGTAAAACCTTTTGCTACCAACCTTGCTTTAAATTTAT
CAATGGTTCCATCGACCTTCATTTTTTTTTGAAGATCCATTTACAACCTATTGGTTTGGAACCTG
GTGGAAGATCAACTAAGATCCAAGTTTGATTTCCCATTATTGAATCCATCTCATCATTTATTGCT
TCTTTCCAAAAAGCAGAGTCTTGAGATTTCACTGCCTCTTCAAATGTAATAGGATCAGATTCGGT
ATTATAACAATAAGGTATCTTATTGCATATACTTTCACCTTTTCCTTCTACAAGAAACATAATGA
AATCTGGTCCAAAATCTTTTACCTTTTTAATCCTCTTACTTCTTCTTAATTCTTGACAAGATTCA
TCATTATTATCAATTTGTTTCAATGGAATCTCATTCTCATTTGAAGAATGAATCAATTGTTGTGG
TTGTAATTGTCTTGATATAGAATTAAATCTATTTTCATCAAAAATAGCATCTCTTGATTCAATAA
CAGTATTAATTGAAATTGAATCATTTGGTTCAATTACCATGAACCTATATGCCTTGCTAT
Found at i:59272090 original size:20 final size:20
Alignment explanation
Indices: 59272065--59272114 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
59272055 TGGCTTAAAA
59272065 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
59272085 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
59272102 GTGGTAGTGGATT
1 TTGGTAGTGGATT
59272115 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:59276730 original size:20 final size:20
Alignment explanation
Indices: 59276705--59276754 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
59276695 TGGCTTAAAA
59276705 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
59276725 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
59276742 GTGGTAGTGGATT
1 TTGGTAGTGGATT
59276755 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:59283498 original size:40 final size:40
Alignment explanation
Indices: 59283444--59283550 Score: 162
Period size: 40 Copynumber: 2.6 Consensus size: 40
59283434 AAATATATTT
* *
59283444 ATTTTTTTAATTTTAAAATATTTTTTACAT-ACTTTTTAA
1 ATTTTTTTAATTTTAAAATATTTTTTAAATAAATTTTTAA
*
59283483 ATTTTTTTAAATTTTAAAATATTTTTAAAATAAATTTTTAA
1 ATTTTTTT-AATTTTAAAATATTTTTTAAATAAATTTTTAA
59283524 ATTTTTTTAATTTTAAAATACTTTTTT
1 ATTTTTTTAATTTTAAAATA-TTTTTT
59283551 TAATTTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 8 0.13
40 32 0.52
41 21 0.34
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTTAAATAAATTTTTAA
Done.