Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 18 of 25
Found at i:2581275 original size:69 final size:69
Alignment explanation
Indices: 2581163--2581333 Score: 179
Period size: 69 Copynumber: 2.5 Consensus size: 69
2581153 AACTTTAAAT
* * * * *
2581163 AAAAATATAAATTTCTACAAATAAAGATAAATAATATCCTAAAAATTCA-AAATCATGTAATCA-
1 AAAAATTTAAACTTCTACAAATAAAAATAAATAATATCATAAAAAAT-ATAAA-CATGTAATCAT
2581226 A-CTGAA
64 ATCT-AA
* * * *
2581232 AAAAATTTAAACTTCTATAAATAAAAATAAATGATA-CTATAAAAAATATAAACTTGTAGTCATA
1 AAAAATTTAAACTTCTACAAATAAAAATAAATAATATC-ATAAAAAATATAAACATGTAATCATA
2581296 TCTAA
65 TCTAA
*
2581301 AAACATATTAAACTTCTACAAATAAAAATAAAT
1 AAAAAT-TTAAACTTCTACAAATAAAAATAAAT
2581334 TAGATTACCA
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
68 10 0.12
69 49 0.57
70 27 0.31
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.29
Consensus pattern (69 bp):
AAAAATTTAAACTTCTACAAATAAAAATAAATAATATCATAAAAAATATAAACATGTAATCATAT
CTAA
Found at i:2581332 original size:139 final size:136
Alignment explanation
Indices: 2581163--2581486 Score: 317
Period size: 139 Copynumber: 2.3 Consensus size: 136
2581153 AACTTTAAAT
* * *
2581163 AAAAATATAAATTTCTACAAATAAAGATAAATAATATCCTAAAAATTCAAAATCATGTAATCA-A
1 AAAAATATAAACTTCTACAAATAAAAATAAATAATATCCTAAAAATTCAAAATCATAT-ATCATA
**
2581227 CTGAAAAA-A-ATTTAAACTTCTATAAATAAAAATAAATGATA-CTATAAAAAATATAAACTTG-
65 CCCAAAAATACATTTAAA-TTCTATAAATAAAAAT--ATGATATCT-T-AAAAATATAAACTTGA
* *
2581288 TAGTCATATCTA
125 TAATCATACCTA
* *
2581300 AAAACATATTAAACTTCTACAAATAAAAATAAATTAGAT-TACC--AAAATTTAAACTCATATAT
1 AAAA-ATA-TAAACTTCTACAAATAAAAATAAA-TA-ATAT-CCTAAAAATTCAAAATCATATAT
* * *
2581362 CATACCCAAAAATACATTTAAATTTTATAAATAAAAATATTATATCTTAAAAATTTAAACTTGTA
61 CATACCCAAAAATACATTTAAATTCTATAAATAAAAATATGATATCTTAAAAATATAAACTTG-A
2581427 TAATCATACCTA
125 TAATCATACCTA
* *
2581439 AAAAATAACTACACTT-TCACAAAT-AAAATAAATAATACCCTAAAAATT
1 AAAAAT-A-TAAACTTCT-ACAAATAAAAATAAATAATATCCTAAAAATT
2581487 TAAACCTCGT
Statistics
Matches: 156, Mismatches: 15, Indels: 31
0.77 0.07 0.15
Matches are distributed among these distances:
136 4 0.03
137 20 0.13
138 30 0.19
139 72 0.46
140 19 0.12
141 11 0.07
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (136 bp):
AAAAATATAAACTTCTACAAATAAAAATAAATAATATCCTAAAAATTCAAAATCATATATCATAC
CCAAAAATACATTTAAATTCTATAAATAAAAATATGATATCTTAAAAATATAAACTTGATAATCA
TACCTA
Found at i:2581365 original size:70 final size:70
Alignment explanation
Indices: 2581230--2581400 Score: 174
Period size: 70 Copynumber: 2.5 Consensus size: 70
2581220 TAATCAACTG
* *
2581230 AAAAAA-ATTTAAACTTCTATAAATAAAAATAAATGATACTATAAAAAATATAAACTTGTAGTCA
1 AAAAAACATTTAAACTTCTATAAATAAAAATAAATGAGACTATAAAAAATATAAACTTATAGTCA
*
2581294 TA-TC
66 TACCC
* * * * *
2581298 TAAAAACATATTAAACTTCTACAAATAAAAATAAATTAGA-T-TACCAAAATTTAAACTCATATA
1 AAAAAACAT-TTAAACTTCTATAAATAAAAATAAATGAGACTATA-AAAAATATAAACT--TATA
2581361 -TCATACCC
62 GTCATACCC
*
2581369 AAAAATACATTTAAA-TTTTATAAATAAAAATA
1 AAAAA-ACATTTAAACTTCTATAAATAAAAATA
2581401 TTATATCTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
68 7 0.08
69 14 0.16
70 47 0.55
71 13 0.15
72 4 0.05
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (70 bp):
AAAAAACATTTAAACTTCTATAAATAAAAATAAATGAGACTATAAAAAATATAAACTTATAGTCA
TACCC
Found at i:2581817 original size:72 final size:73
Alignment explanation
Indices: 2581585--2582306 Score: 676
Period size: 73 Copynumber: 10.0 Consensus size: 73
2581575 CTCCAACATT
* * *
2581585 AAAATAAATTATACCATAAAAATATAAA-TTCGTATAATCATACCTCAAAAATAC--ATTTAAGC
1 AAAATAAATTATACCATAAAAATTTAAACTT-ATATAATCATACC-CAAAAA-ACAAATTTAAAC
*
2581647 TTTTTCAAATA
63 TTTTACAAATA
*
2581658 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAATAAATTTAAACTTT
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
*
2581723 TATAAATA
66 TACAAATA
* * ** * *
2581731 AAGATAAATAATACTTTAAAAATTTAAACTTATGTAATCA-A-CCAAAAAACCAAATCTAAACTT
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAA-CAAATTTAAACTT
* *
2581794 TTATAATTA
65 TTACAAATA
* * * ** *
2581803 AAAATAAATTATACTACAAAAATATAAACTCGTATAATCATACCC-AAAAACATATTTAAACTTT
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
2581867 TACAAATA
66 TACAAATA
* *** ** * *** * *
2581875 AAATTAAATTATATTTTCAAAAATTTAAACTCCTATAATCACAATAAAAAAACACATTTAAATTT
1 AAAATAAATTATACCAT-AAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTT
2581940 TTACAAATA
65 TTACAAATA
* * * * * *
2581949 AAAATAAATTAGACCTTAAAAATTTAAACTTATGTGATCATATCCAAAAAACAAATTT-ATCTTT
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAAC-TT
2582013 TTACAAAT-
65 TTACAAATA
* * * *
2582021 AAAAT-AA-TA-CCCA-AAAAATTTAAACTTATGTAATCA-ACCCAGAAAATAAATTTAAACTTT
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
2582081 TACAAATA
66 TACAAATA
* * * *
2582089 AAAATAAATTATATCATAAAAATATAAA-TTAGTACAATTATATCCCAAAAATAC--ATTTAAAC
1 AAAATAAATTATACCATAAAAATTTAAACTTA-TATAATCATA-CCCAAAAA-ACAAATTTAAAC
*
2582151 TTCTA-AAATTA
63 TTTTACAAA-TA
* ** * * *
2582162 AAAATAAATTATACCATCAAAATTTAAACTCGTATAAT--TA--TAAAAAACACATTTAAACTTC
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
2582223 TACAAATA
66 TACAAATA
* * * * * *
2582231 AAAATAACTTATACCTTAAAAATTTAAACTTGTATAATTATACCCAAAAAATAAATTTAAACTTC
1 AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
2582296 TACAAATA
66 TACAAATA
2582304 AAA
1 AAA
2582307 CTTCTACAAA
Statistics
Matches: 538, Mismatches: 83, Indels: 56
0.79 0.12 0.08
Matches are distributed among these distances:
67 26 0.05
68 34 0.06
69 53 0.10
70 7 0.01
71 20 0.04
72 113 0.21
73 234 0.43
74 50 0.09
75 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (73 bp):
AAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAACAAATTTAAACTTT
TACAAATA
Found at i:2581845 original size:218 final size:213
Alignment explanation
Indices: 2581585--2582306 Score: 708
Period size: 218 Copynumber: 3.4 Consensus size: 213
2581575 CTCCAACATT
* * * * *
2581585 AAAATAAATTATACCATAAAAATATAAATTCGTATAATCATACCTCAAAAATACATTTAAGCTTT
1 AAAATAAATTATACTACAAAAATATAAACTCGTATAATCATACC-CAAAAATAAATTTAAACTTT
* * *
2581650 TTCAAATAAAAATAAATTATACCATAAAAATTTAAACTTATATAATCATACCCAAAAAATAAATT
65 TACAAATAAAAATAAATTATATCATAAAAATTTAAACTTATATAATCATACCCAAAAAATACATT
* * *
2581715 TAAACTTTTATAAATAAAGATAAATAATACTTTAAAAATTTAAACTTATGTAATCAACCAAAAAA
130 TAAACTTTTA-AAATAAAAATAAATTATACCTTAAAAATTTAAACTTATGTAATCAACCAAAAAA
2581780 CCAAATCTAAACTTTTATAATTA
194 -CAAAT-TAAACTTTTATAA-TA
* *
2581803 AAAATAAATTATACTACAAAAATATAAACTCGTATAATCATACCCAAAAACATATTTAAACTTTT
1 AAAATAAATTATACTACAAAAATATAAACTCGTATAATCATACCCAAAAATAAATTTAAACTTTT
* ** ** * *** *
2581868 ACAAATAAAATTAAATTATATTTTCAAAAATTTAAACTCCTATAATCACAATAAAAAAACACATT
66 ACAAATAAAAATAAATTATATCAT-AAAAATTTAAACTTATATAATCATACCCAAAAAATACATT
* * *
2581933 TAAATTTTTACAAATAAAAATAAATTAGACCTTAAAAATTTAAACTTATGTGATCATATCCAAAA
130 TAAACTTTTA-AAATAAAAATAAATTATACCTTAAAAATTTAAACTTATGTAATCA-A-CCAAAA
* * *
2581998 AACAAATTTATCTTTT-T-ACA
192 AACAAATTAAACTTTTATAATA
* * * * ** *
2582018 AATA-AAATAATAC-CCAAAAAATTTAAACTTATGTAATCA-ACCCAGAAAATAAATTTAAACTT
1 AAAATAAATTATACTAC-AAAAATATAAACTCGTATAATCATACCCA-AAAATAAATTTAAACTT
* * *
2582080 TTACAAATAAAAATAAATTATATCATAAAAATATAAA-TTAGTACAATTATATCCC-AAAAATAC
64 TTACAAATAAAAATAAATTATATCATAAAAATTTAAACTTA-TATAATCATA-CCCAAAAAATAC
* * * ** * * *
2582143 ATTTAAACTTCTAAAATTAAAAATAAATTATACCATCAAAATTTAAACTCGTATAAT-TA-TAAA
127 ATTTAAACTTTTAAAA-TAAAAATAAATTATACCTTAAAAATTTAAACTTATGTAATCAACCAAA
* * *
2582206 AAACACATTTAAACTTCTACAAATA
191 AAACA-AATTAAACTTTTA-TAATA
* * * * *
2582231 AAAATAACTTATACCT-TAAAAATTTAAACTTGTATAATTATACCCAAAAAATAAATTTAAACTT
1 AAAATAAATTATA-CTACAAAAATATAAACTCGTATAATCATACCC-AAAAATAAATTTAAACTT
*
2582295 CTACAAATAAAA
64 TTACAAATAAAA
2582307 CTTCTACAAA
Statistics
Matches: 411, Mismatches: 76, Indels: 37
0.78 0.15 0.07
Matches are distributed among these distances:
209 8 0.02
210 8 0.02
211 1 0.00
212 4 0.01
213 79 0.19
214 91 0.22
215 37 0.09
216 2 0.00
217 38 0.09
218 129 0.31
219 6 0.01
220 8 0.02
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.32
Consensus pattern (213 bp):
AAAATAAATTATACTACAAAAATATAAACTCGTATAATCATACCCAAAAATAAATTTAAACTTTT
ACAAATAAAAATAAATTATATCATAAAAATTTAAACTTATATAATCATACCCAAAAAATACATTT
AAACTTTTAAAATAAAAATAAATTATACCTTAAAAATTTAAACTTATGTAATCAACCAAAAAACA
AATTAAACTTTTATAATA
Found at i:2582309 original size:15 final size:15
Alignment explanation
Indices: 2582289--2582317 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2582279 AAATAAATTT
2582289 AAACTTCTACAAATA
1 AAACTTCTACAAATA
2582304 AAACTTCTACAAAT
1 AAACTTCTACAAAT
2582318 TAGATGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
AAACTTCTACAAATA
Found at i:2582428 original size:23 final size:23
Alignment explanation
Indices: 2582401--2582478 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
2582391 ACCTTTAATC
2582401 AAATTAATCTTACAAATAAAAAT
1 AAATTAATCTTACAAATAAAAAT
* *
2582424 AAATTATACCTTA-AAAT-AAAGT
1 AAATTA-ATCTTACAAATAAAAAT
*
2582446 AAACTTAAACTTTTACAAATAAAAAT
1 AAA-TT-AA-TCTTACAAATAAAAAT
2582472 AAATTAA
1 AAATTAA
2582479 ACTCGTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
22 7 0.16
23 13 0.30
24 11 0.25
25 6 0.14
26 7 0.16
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.31
Consensus pattern (23 bp):
AAATTAATCTTACAAATAAAAAT
Found at i:2582738 original size:19 final size:19
Alignment explanation
Indices: 2582686--2582739 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
2582676 ATTAAAAAAA
*
2582686 TTAATAATTAATAATTTTTT
1 TTAA-AATTAATAATTTTAT
** **
2582706 TTAATTTTTTTAATTTTAT
1 TTAAAATTAATAATTTTAT
2582725 TTAAAATTAATAATT
1 TTAAAATTAATAATT
2582740 AATATGTTAA
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTAAAATTAATAATTTTAT
Found at i:2582809 original size:23 final size:25
Alignment explanation
Indices: 2582761--2582822 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
2582751 TTTAATATGA
**
2582761 ATTTTTTAAAATTTAATTAAATTTT
1 ATTTTTTAATTTTTAATTAAATTTT
*
2582786 ATTTTTT-ATTTTTAGTTAAA-TTT
1 ATTTTTTAATTTTTAATTAAATTTT
2582809 ATTTTTTAATTTTT
1 ATTTTTTAATTTTT
2582823 TTCATGACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.30
24 16 0.48
25 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTTTTAATTTTTAATTAAATTTT
Found at i:2583714 original size:19 final size:20
Alignment explanation
Indices: 2583678--2583716 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
2583668 AAAAATAAGT
* *
2583678 TTTTTATAAATTATAAGTAA
1 TTTTTATAAATAAAAAGTAA
2583698 TTTTTATAAA-AAAAAGTAA
1 TTTTTATAAATAAAAAGTAA
2583717 AATATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTTTTATAAATAAAAAGTAA
Found at i:2583959 original size:15 final size:15
Alignment explanation
Indices: 2583922--2583965 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2583912 ATTTTTGACA
2583922 ATTTTATTTAATTTTT
1 ATTTTATTT-ATTTTT
**
2583938 AAATTATTTATTTTT
1 ATTTTATTTATTTTT
*
2583953 ATTTTATTAATTT
1 ATTTTATTTATTT
2583966 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 16 0.70
16 7 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTATTTATTTTT
Found at i:2584303 original size:53 final size:51
Alignment explanation
Indices: 2584293--2584423 Score: 155
Period size: 50 Copynumber: 2.6 Consensus size: 51
2584283 TAAAAATTAA
*
2584293 AAAATTATTTTATATTAAATCTCT-AATTACT-TTTTAAAA-AATAATAAAATT
1 AAAAATATTTTATATTAAATCT-TGAATTACTATTTTAAAATAAT-A-AAAATT
*
2584344 AAAAATA-TTTATATTAAATCTCGAATTACTA-TTTAAATATTAATAAAAATT
1 AAAAATATTTTATATTAAATCTTGAATTACTATTTTAAA-A-TAATAAAAATT
*
2584395 AAAAATATTTTATTTTAAATCTTGAATTA
1 AAAAATATTTTATATTAAATCTTGAATTA
2584424 TTATCTAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
50 27 0.39
51 20 0.29
52 20 0.29
53 3 0.04
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (51 bp):
AAAAATATTTTATATTAAATCTTGAATTACTATTTTAAAATAATAAAAATT
Found at i:2584371 original size:50 final size:52
Alignment explanation
Indices: 2584222--2584442 Score: 236
Period size: 53 Copynumber: 4.2 Consensus size: 52
2584212 TTTATTGTTT
* ** *
2584222 AAAAA-AATAAAAATTAAAAAATATATTTTATATTAAATTTTAAATTATTATTT-
1 AAAAATAATAAAAATT--AAAA-ATATTTTATATTAAATCTCGAATTACTATTTA
* * *
2584275 TAAAATAATAAAAATTAAAAAATTATTTTATATTAAATCTCTAATTACTTTTTA
1 AAAAATAATAAAAATT-AAAAA-TATTTTATATTAAATCTCGAATTACTATTTA
2584329 AAAAATAAT-AAAATTAAAAATA-TTTATATTAAATCTCGAATTACTATTTA
1 AAAAATAATAAAAATTAAAAATATTTTATATTAAATCTCGAATTACTATTTA
* * * * * *
2584379 AATATTAATAAAAATTAAAAATATTTTATTTTAAATCTTGAATTATTATCTA
1 AAAAATAATAAAAATTAAAAATATTTTATATTAAATCTCGAATTACTATTTA
*
2584431 ATAAATAA-AAAA
1 AAAAATAATAAAA
2584443 TATGTTATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
50 33 0.23
51 19 0.13
52 35 0.24
53 40 0.28
54 18 0.12
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (52 bp):
AAAAATAATAAAAATTAAAAATATTTTATATTAAATCTCGAATTACTATTTA
Found at i:2584479 original size:42 final size:42
Alignment explanation
Indices: 2584387--2584486 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 42
2584377 TAAATATTAA
* * *
2584387 TAAAAATTAAAAATATTTTATTTTAAATCTTGAATTATTATC
1 TAAAAATAAAAAATATGTTATATTAAATCTTGAATTATTATC
* * *
2584429 TAATAAATAAAAAATATGTTATATTAAATTTTGAATTGTTATT
1 TAA-AAATAAAAAATATGTTATATTAAATCTTGAATTATTATC
2584472 TAAAAATAAAAAATA
1 TAAAAATAAAAAATA
2584487 ATAACTTTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 15 0.29
43 36 0.71
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (42 bp):
TAAAAATAAAAAATATGTTATATTAAATCTTGAATTATTATC
Found at i:2584682 original size:22 final size:21
Alignment explanation
Indices: 2584657--2584728 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
2584647 AAGTCATACA
2584657 TACATTCAGTTAAAGTTATATG
1 TACATTCAGTTAAA-TTATATG
* *
2584679 TACATCCAATTAAAATTATATG
1 TACATTCAGTT-AAATTATATG
* * * *
2584701 CATATTTAGTTATAATTATATA
1 TACATTCAGTTA-AATTATATG
2584723 TACATT
1 TACATT
2584729 TAATTTTATT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.03
22 34 0.89
23 3 0.08
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (21 bp):
TACATTCAGTTAAATTATATG
Found at i:2585193 original size:20 final size:20
Alignment explanation
Indices: 2585168--2585242 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
2585158 TTTTCACAAT
2585168 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
2585188 TTGTATCGATACAATGTTCA
1 TTGTATCGATACATTGTTCA
2585208 TTGTATCGATACATT-TTGCA
1 TTGTATCGATACATTGTT-CA
*
2585228 ATGTATCGATACATT
1 TTGTATCGATACATT
2585243 CAGACATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 2 0.04
20 49 0.96
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:2587002 original size:79 final size:79
Alignment explanation
Indices: 2586870--2587108 Score: 282
Period size: 79 Copynumber: 2.9 Consensus size: 79
2586860 TTCATCTCGA
* * *
2586870 GGATACTCCAATCCCGATTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCT
1 GGATACTCCAATCCCGATTTTATTCCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCT
*
2586935 CGTTATTTTCGAGG
66 CGTCATTTTCGAGG
*
2586949 GGATACTCCAA-CCCTGATTTTATTCCCAAAACACCAATTTTTCATAATTGGGGATACTCCAACC
1 GGATACTCCAATCCC-GATTTTATTCCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
2587013 TCGTCATTTTCGAGG
65 TCGTCATTTTCGAGG
* * * * *
2587028 GGATACTCCAATCTTCTAACTCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATAC
1 GGATACTCCAA-----T--C-CCGATTTTATTCCCAAAACACCAATTTTTCATAATCGGGGATAC
* *
2587093 TCCAACCCCGTTATTT
58 TCCAACCTCGTCATTT
2587109 CATCGGGGAT
Statistics
Matches: 137, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
78 3 0.02
79 81 0.59
87 51 0.37
88 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAATCCCGATTTTATTCCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCT
CGTCATTTTCGAGG
Found at i:2587122 original size:28 final size:28
Alignment explanation
Indices: 2587082--2587156 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
2587072 ATTTTCCACA
*
2587082 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
*
2587110 ATCGGGGATACTCTAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
* *
2587138 -TAAGAGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
2587157 AGCTTTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:2587266 original size:50 final size:49
Alignment explanation
Indices: 2587141--2587272 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 49
2587131 TTATTTCTAA
* *
2587141 GAGGATACTCCAACCCAGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 GAGGATACTCCAACCCGGCTTTATTT-CTAAATATTGATTTCTCACAATC
2587191 G-GAGATACTCCAACCCCGGCTTTATTTCTAAATATTGATTTCTCACAATC
1 GAG-GATACTCCAA-CCCGGCTTTATTTCTAAATATTGATTTCTCACAATC
*
2587241 GAGGATACTCCAACCCTGGCCTTATTTCTAAA
1 GAGGATACTCCAACCC-GGCTTTATTTCTAAA
2587273 GCATCAATTT
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
49 4 0.05
50 58 0.77
51 13 0.17
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (49 bp):
GAGGATACTCCAACCCGGCTTTATTTCTAAATATTGATTTCTCACAATC
Found at i:2587306 original size:51 final size:50
Alignment explanation
Indices: 2587142--2587309 Score: 151
Period size: 50 Copynumber: 3.3 Consensus size: 50
2587132 TATTTCTAAG
* * * * **
2587142 AGGATACTCCAA-CCCAGCTTTATTTCCAAAATATTGATTTCTCACAATC-
1 AGGATACTCCAACCCCGGCCTTATTT-CTAAACATCAATTTCTCACAATCA
* * * ** *
2587191 GGAGATACTCCAACCCCGGCTTTATTTCTAAATATTGATTTCTCACAATCG
1 AG-GATACTCCAACCCCGGCCTTATTTCTAAACATCAATTTCTCACAATCA
* * * *
2587242 AGGATACTCCAACCCTGGCCTTATTTCTAAAGCATCAATTTTTTACAATTA
1 AGGATACTCCAACCCCGGCCTTATTTCTAAA-CATCAATTTCTCACAATCA
2587293 AGGATACTCCAACCCCG
1 AGGATACTCCAACCCCG
2587310 TTATTTTTAA
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 59 0.58
51 41 0.41
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (50 bp):
AGGATACTCCAACCCCGGCCTTATTTCTAAACATCAATTTCTCACAATCA
Found at i:2587377 original size:79 final size:79
Alignment explanation
Indices: 2587294--2587469 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 79
2587284 TTACAATTAA
* * *
2587294 GGATACTCCAACCCCGTTATTTTTAAGGAGATACTCCAACCCCGATTTTATTTTCAAAATACCGA
1 GGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTATTTCCAAAACACCGA
*
2587359 TTTTCTATAATCAG
66 TTTTCCATAATCAG
** * * ** * * *
2587373 GGATACTCCAACCCTATTATTTTCGAGGGGATACTTTAACTCCGATTTTATTTCCAGAACACTGA
1 GGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTATTTCCAAAACACCGA
*
2587438 TTTTCCATAATCGG
66 TTTTCCATAATCAG
*
2587452 GGATACTCCAGCCCCGTT
1 GGATACTCCAACCCCGTT
2587470 GTTATCTCCA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTTCAAGGAGATACTCCAACCCCGATTTTATTTCCAAAACACCGA
TTTTCCATAATCAG
Found at i:2601070 original size:100 final size:100
Alignment explanation
Indices: 2600894--2601106 Score: 365
Period size: 100 Copynumber: 2.1 Consensus size: 100
2600884 TTTACTTTTC
*
2600894 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTCCCAGTC
*
2600959 CTCAAATAGCAGGACGCTCTCTGC-TTTCACCCTTT
66 CTCAAAAAGCAGGACGCTCTCT-CTTTTCACCCTTT
* **
2600994 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCTCACACAAATTGGTGGCACTTTTCAGTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTCCCAGTC
2601059 CTCAAAAAGCAGGACGCTCTCTCTTTTCACCCTTT
66 CTCAAAAAGCAGGACGCTCTCTCTTTTCACCCTTT
2601094 AGTCCTCAAAGAG
1 AGTCCTCAAAGAG
2601107 TAAGACGTCT
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
99 1 0.01
100 106 0.99
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (100 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAATTGGTGGCACTTCCCAGTC
CTCAAAAAGCAGGACGCTCTCTCTTTTCACCCTTT
Found at i:2601160 original size:55 final size:55
Alignment explanation
Indices: 2601094--2601215 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 55
2601084 TTCACCCTTT
* ** * **
2601094 AGTCCTCAAAGAGTAAG-ACGTCTTTCAAAGACCACATGAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAG-AAGCACGCCTTTCAAAGACCACACAAGTTGGTGGCACTTCCC
* * *
2601149 AGTCCTCAAAGAGCAGCACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGAAGCACGCCTTTCAAAGACCACACAAGTTGGTGGCACTTCCC
*
2601204 AATCCTCAAAGA
1 AGTCCTCAAAGA
2601216 ACAGGACGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 2 0.04
55 54 0.96
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGAAGCACGCCTTTCAAAGACCACACAAGTTGGTGGCACTTCCC
Found at i:2601385 original size:149 final size:148
Alignment explanation
Indices: 2601020--2601373 Score: 501
Period size: 149 Copynumber: 2.4 Consensus size: 148
2601010 GACGCCTTCT
* * *
2601020 CCTTTTAAAGCTCACACAAATTGGTGGCACTTTTCAGTCCTCAAAAAGCAGGACGCTCTCTCTTT
1 CCTTTTAAAGC-CACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
* * * **
2601085 TCACCCTTTAGTCCTCAAAGAGTAAGACGTCTTTCAAAGACCACATGAGTTGGTGGCATTTTTCA
65 TCACCATTTAGTCCTCAAAGAGCAAGACATCTTTCAAAGACCACACAAGTTGGTGGCATTTTTCA
2601150 GTCCTCAAAGAGCAGCACG
130 GTCCTCAAAGAGCAGCACG
** * *
2601169 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAACAGGACGCTCTCTCCTT
1 CCTTTTAAAG-CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTT
* * * *
2601234 TCACCATTTAGTCTTTAAAGAGCAAGACATTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCA
65 TCACCATTTAGTCCTCAAAGAGCAAGACATCTTTCAAAGACCACACAAGTTGGTGGCATTTTTCA
* *
2601299 GTCCTCAAAGAGTAGGACG
130 GTCCTCAAAGAGCAGCACG
* *
2601318 CCTTTTAAAGCCAACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAAGACGC
1 CCTTTTAAAGCC-ACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGC
2601374 CTTTTCCTTT
Statistics
Matches: 179, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
148 2 0.01
149 176 0.98
150 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (148 bp):
CCTTTTAAAGCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTT
CACCATTTAGTCCTCAAAGAGCAAGACATCTTTCAAAGACCACACAAGTTGGTGGCATTTTTCAG
TCCTCAAAGAGCAGCACG
Found at i:2601413 original size:61 final size:60
Alignment explanation
Indices: 2601264--2602023 Score: 823
Period size: 61 Copynumber: 12.8 Consensus size: 60
2601254 AGCAAGACAT
*
2601264 TTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGACG------CC
1 TTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* * *
2601320 TTTTAAAGCCAACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAAGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* * *
2601381 TTTCAAAGCCCACACAATTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGACGCC-TTT-C
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* * ** * *
2601440 ----AAAGCCCACACAAGCTGGTAGCACCTTCAGTCCTCAAAGAGCAAGACGTCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* ** * **
2601496 TTTTAAAGCCCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCA--A-G---ATGAC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCC
* * *
2601551 -TTT-----CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAGGAGCAAGATGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* *
2601606 TTTTAAAGCCCACACAAGTTGGTGGCATATTCTAGTCCTCAAAAAGCAGGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCC
* * ** *
2601667 TTTTAAAACCCACACAAGTTGGTAGCACATTCTAGTCCTCAAAAAGCAGGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCC
* * * *
2601728 TTTTAAAACCCACACAAGTTGGTGGCACTTTTCAGTTCTTAAAGAGCAGGATGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
*
2601789 TTTTAAAGCCCACACAAGTTGGTGGCACTTATCAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
* *
2601850 TTTTAAAGCCCACACAAGTTAGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCTTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCC
*
2601912 TTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAGTCCTCAAAGAGCAGGATG-CTTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCAT-TTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCC
** * * * *
2601973 TTGCAAAGCCCATACAAGTTGGTGGCACTTTCTAGTCCCCAAGGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGA
2602024 TCCATTTCAT
Statistics
Matches: 607, Mismatches: 65, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
49 31 0.05
50 3 0.00
51 1 0.00
52 1 0.00
54 25 0.04
55 71 0.12
56 8 0.01
58 1 0.00
59 2 0.00
60 39 0.06
61 365 0.60
62 60 0.10
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
TTTTAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCC
Found at i:2601582 original size:49 final size:49
Alignment explanation
Indices: 2601505--2601602 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
2601495 CTTTTAAAGC
2601505 CCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAAGATGACTTT
1 CCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAAGATGACTTT
* * * *
2601554 CCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAGGAGCAAGATGCCTTT
1 CCACACAAGTTGATGGCACCTTCT-AGTCCTCAAAGAGCAAGATGACTTT
2601603 TCCTTTTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 4 0.09
49 40 0.91
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
CCACACAAGTTGATGGCACCTTCTAGTCCTCAAAGAGCAAGATGACTTT
Found at i:2603314 original size:62 final size:63
Alignment explanation
Indices: 2603219--2603342 Score: 178
Period size: 62 Copynumber: 2.0 Consensus size: 63
2603209 CATTGTTCAT
* * *
2603219 TGTATCGATACATTCTGGATTTTACCCAGATGTATCGATACATTGTTCATTGTATCGATACAA
1 TGTATAGATACATTCTGGAGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACAA
* * * *
2603282 TGTATAGATACATTTTGG-GTTTACCCAGATGTATCGATATATTTTTCAATGTATTGATACA
1 TGTATAGATACATTCTGGAGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACA
2603343 TTCAGGCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
62 38 0.70
63 16 0.30
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (63 bp):
TGTATAGATACATTCTGGAGTTTACCCAGATGTATCGATACATTGTTCAATGTATCGATACAA
Found at i:2605787 original size:51 final size:52
Alignment explanation
Indices: 2605711--2605826 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 52
2605701 ATTTTTGAAG
** ***
2605711 GGATACTCCAACCCCGGCTTTATTTCTAAAATATTGAT-TTCTCACAATCGA
1 GGATACTCCAACCCCAACTTTATTTCTAAAATACCAATCTTCTCACAATCGA
* * *
2605762 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATCTTTTCACAATCGG
1 GGATACTCCAACCCCAACTTTATTTCTAAAATACCAATCTTCTCACAATCGA
2605814 GGATACTCCAACC
1 GGATACTCCAACC
2605827 TTGTTATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 32 0.57
52 24 0.43
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (52 bp):
GGATACTCCAACCCCAACTTTATTTCTAAAATACCAATCTTCTCACAATCGA
Found at i:2605846 original size:79 final size:79
Alignment explanation
Indices: 2605762--2605982 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 79
2605752 TCACAATCGA
* *
2605762 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATCTTTTCACAATCGGGGATACTCCAAC-
1 GGATACTCCAACCCCAATTTTATTTCTAAAACACC-ATTTTTTCACAATCGGGGATACTCCAACA
* **
2605826 CTTGTTATTTTTGA-G
65 C-CGTTATTTTCAAGG
* * * * *
2605841 GGATACTCCAACTCCAGTTTTATTTCCAGAACATCGATTTTTTCACAATCGGGGATACTCCAACA
1 GGATACTCCAACCCCAATTTTATTTCTAAAACA-CCATTTTTTCACAATCGGGGATACTCCAACA
2605906 CCGTTATTTTCAAGG
65 CCGTTATTTTCAAGG
** * *
2605921 GGATACTCCAACCCTGATTTTATTTCTAAAACACCATTTTTTCATAGTCAGGGGATACTCCA
1 GGATACTCCAACCCCAATTTTATTTCTAAAACACCATTTTTTCACAATC-GGGGATACTCCA
2605983 GCCCCGTTGT
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 77 0.65
80 42 0.35
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (79 bp):
GGATACTCCAACCCCAATTTTATTTCTAAAACACCATTTTTTCACAATCGGGGATACTCCAACAC
CGTTATTTTCAAGG
Found at i:2606956 original size:29 final size:29
Alignment explanation
Indices: 2606914--2606972 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2606904 CTCTTTGGAT
*
2606914 CGTCTGAAGTACTCGTAAAAGCCGAGCCA
1 CGTCCGAAGTACTCGTAAAAGCCGAGCCA
2606943 CGTCCGAAGTACTCGTAAAAGCCGAGCCA
1 CGTCCGAAGTACTCGTAAAAGCCGAGCCA
2606972 C
1 C
2606973 ATTGCGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.15
Consensus pattern (29 bp):
CGTCCGAAGTACTCGTAAAAGCCGAGCCA
Found at i:2610149 original size:24 final size:23
Alignment explanation
Indices: 2610105--2610164 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
2610095 ATCTTTAATC
* *
2610105 TCTCTTATTCTCTTTTTTTTTCCT
1 TCTCTT-TTCTCTCTTATTTTCCT
* *
2610129 TTTCATTTTCTCTCTTATTTTTCT
1 TCTC-TTTTCTCTCTTATTTTCCT
2610153 TCTCTTTTCTCT
1 TCTCTTTTCTCT
2610165 ATCCTTCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 8 0.27
24 20 0.67
25 2 0.07
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (23 bp):
TCTCTTTTCTCTCTTATTTTCCT
Found at i:2611985 original size:33 final size:33
Alignment explanation
Indices: 2611948--2612014 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2611938 TTCAACGATT
2611948 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2611981 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2612014 T
1 T
2612015 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2611986 original size:13 final size:13
Alignment explanation
Indices: 2611968--2611992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2611958 CATAAAATGT
2611968 TGTATCGATACAA
1 TGTATCGATACAA
2611981 TGTATCGATACA
1 TGTATCGATACA
2611993 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2612075 original size:13 final size:13
Alignment explanation
Indices: 2612057--2612081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2612047 ATTACTCACA
2612057 TGTATCGATACAT
1 TGTATCGATACAT
2612070 TGTATCGATACA
1 TGTATCGATACA
2612082 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2618064 original size:18 final size:20
Alignment explanation
Indices: 2618018--2618065 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2618008 AGAATTTATC
*
2618018 AAATTTTTTATTATTTTTCA
1 AAATATTTTATTATTTTTCA
*
2618038 AAATTTTTTATT-TTTTT-A
1 AAATATTTTATTATTTTTCA
*
2618056 ATATATTTTA
1 AAATATTTTA
2618066 CGAGAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 5 0.19
20 12 0.46
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
AAATATTTTATTATTTTTCA
Found at i:2618064 original size:20 final size:20
Alignment explanation
Indices: 2618018--2618054 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2618008 AGAATTTATC
2618018 AAATTTTTTATTATTTTTCA
1 AAATTTTTTATTATTTTTCA
2618038 AAATTTTTTATT-TTTTT
1 AAATTTTTTATTATTTTT
2618055 AATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
AAATTTTTTATTATTTTTCA
Found at i:2620271 original size:32 final size:33
Alignment explanation
Indices: 2620209--2620273 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2620199 CACACCTAGA
2620209 TGTATCGATACATATTACTTAGTATCGATACAT
1 TGTATCGATACATATTACTTAGTATCGATACAT
* * *
2620242 TGTATCGATATATGTT-CTTGGTATCGATACAT
1 TGTATCGATACATATTACTTAGTATCGATACAT
2620274 ATTGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTACTTAGTATCGATACAT
Found at i:2620365 original size:20 final size:21
Alignment explanation
Indices: 2620320--2620374 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
2620310 AAAACTCACT
*
2620320 TTGTATCGATACATACTTGAA
1 TTGTATCGATACATACATGAA
* *
2620341 TTGTATCAATACATA-ATGCA
1 TTGTATCGATACATACATGAA
2620361 TTGTATCGATACAT
1 TTGTATCGATACAT
2620375 TGAGCCAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TTGTATCGATACATACATGAA
Found at i:2620872 original size:35 final size:36
Alignment explanation
Indices: 2620805--2620873 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
2620795 AGTGATTGAG
* **
2620805 AGGTTCTATTTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAA
2620841 AGGTTCTATCTTAGCCCGTG-AAAAGATAGGGAG
1 AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAG
2620874 GTTTTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (36 bp):
AGGTTCTATCTTAGCCCGTGAAAAAGATAGGGAGAA
Found at i:2621711 original size:27 final size:27
Alignment explanation
Indices: 2621662--2621723 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
2621652 AAATTTGATC
*
2621662 TGATTTATTTTTTTATCATGATTCAATT
1 TGATTT-TTTTTTTATCACGATTCAATT
* *
2621690 TGATTTTTTTTTTTTTACGATTCAATT
1 TGATTTTTTTTTTATCACGATTCAATT
*
2621717 TAATTTT
1 TGATTTT
2621724 AAAATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (27 bp):
TGATTTTTTTTTTATCACGATTCAATT
Found at i:2621745 original size:14 final size:15
Alignment explanation
Indices: 2621721--2621764 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
2621711 TCAATTTAAT
2621721 TTTAAAATTAATAAA
1 TTTAAAATTAATAAA
* *
2621736 -TTAAATTTAAAAAA
1 TTTAAAATTAATAAA
2621750 TTTAAAATTAATAAA
1 TTTAAAATTAATAAA
2621765 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAAATTAATAAA
Found at i:2622274 original size:4 final size:4
Alignment explanation
Indices: 2622267--2622333 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
2622257 GACATATAAT
*
2622267 TTTA TTTA TTTTA TTTA -TTA TTTA TATT- TTAA TTTA TTATA TTTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TT-TA -TTTA
*
2622313 TTTA TTT- TTTA TATA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TT
2622334 ACAATAAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 7 0.13
4 33 0.63
5 10 0.19
6 2 0.04
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:2622279 original size:9 final size:9
Alignment explanation
Indices: 2622265--2622333 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
2622255 TTGACATATA
2622265 ATTTTATTT
1 ATTTTATTT
2622274 ATTTTATTT
1 ATTTTATTT
2622283 A--TTATTT
1 ATTTTATTT
*
2622290 A-TAT-TTT
1 ATTTTATTT
*
2622297 AATTTATTAT
1 ATTTTATT-T
2622307 ATTTTATTT
1 ATTTTATTT
2622316 ATTTT-TTAT
1 ATTTTATT-T
2622325 ATATTTATT
1 AT-TTTATT
2622334 ACAATAAATG
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
7 11 0.22
8 5 0.10
9 21 0.42
10 11 0.22
11 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTATTT
Found at i:2622308 original size:15 final size:14
Alignment explanation
Indices: 2622265--2622318 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
2622255 TTGACATATA
*
2622265 ATTTTATTTATTTT
1 ATTTTATTTATTAT
2622279 A-TTTA-TTATTTAT
1 ATTTTATTTA-TTAT
2622292 ATTTTAATTTATTAT
1 ATTTT-ATTTATTAT
2622307 ATTTTATTTATT
1 ATTTTATTTATT
2622319 TTTTATATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 3 0.09
13 8 0.23
14 11 0.31
15 10 0.29
16 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATTTATTAT
Found at i:2622310 original size:33 final size:33
Alignment explanation
Indices: 2622267--2622331 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2622257 GACATATAAT
2622267 TTTATTTATTTTATTTATTATTTATAT-TTTAA
1 TTTATTTATTTTATTTATTATTTATATATTTAA
*
2622299 TTTATTATATTTTATTTATTTTTTATATATTTA
1 TTTATT-TATTTTATTTATTATTTATATATTTA
2622332 TTACAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 6 0.20
33 20 0.67
34 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (33 bp):
TTTATTTATTTTATTTATTATTTATATATTTAA
Found at i:2622329 original size:15 final size:15
Alignment explanation
Indices: 2622278--2622333 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
2622268 TTATTTATTT
*
2622278 TATTTATTATTTATA
1 TATTTATTTTTTATA
*
2622293 T-TTTAATTTATTATATTT
1 TATTT-ATTT-TT-TA-TA
2622311 TATTTATTTTTTATA
1 TATTTATTTTTTATA
2622326 TATTTATT
1 TATTTATT
2622334 ACAATAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 4 0.12
17 4 0.12
18 6 0.18
19 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTATTTTTTATA
Found at i:2623518 original size:23 final size:23
Alignment explanation
Indices: 2623491--2623534 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
2623481 ATATTATTTT
2623491 TATTTAAAT-TTAATTATAAAAAA
1 TATTTAAATATTAATT-TAAAAAA
2623514 TATTTAAATATTAATTTAAAA
1 TATTTAAATATTAATTTAAAA
2623535 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATTTAAATATTAATTTAAAAAA
Found at i:2623697 original size:2 final size:2
Alignment explanation
Indices: 2623690--2623728 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2623680 CCGCGTTCTT
2623690 TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2623729 ACACACACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:2625702 original size:33 final size:33
Alignment explanation
Indices: 2625655--2625724 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
2625645 GGTCGCACTG
2625655 CTGCAGGCAATGGAAGATCAGCAGTTGTAGGTT
1 CTGCAGGCAATGGAAGATCAGCAGTTGTAGGTT
* *
2625688 CTGCGGGCAATGGAAGATCATCAGTTGTAGGTT
1 CTGCAGGCAATGGAAGATCAGCAGTTGTAGGTT
2625721 CTGC
1 CTGC
2625725 TCCCTTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (33 bp):
CTGCAGGCAATGGAAGATCAGCAGTTGTAGGTT
Found at i:2629320 original size:2 final size:2
Alignment explanation
Indices: 2629313--2629378 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
2629303 AATTACACAA
2629313 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2629354 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2629379 ATAAATGCTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2630160 original size:2 final size:2
Alignment explanation
Indices: 2630153--2630195 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
2630143 CCACACCCCT
*
2630153 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA AA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2630195 C
1 C
2630196 GCTTCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2630794 original size:58 final size:58
Alignment explanation
Indices: 2630704--2630822 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
2630694 TGTTCATAAT
2630704 CAAGAGCAATACTTTTCAGTATGGTGGAGTTACACCAGCAGTAAGCACAAATAATGTA
1 CAAGAGCAATACTTTTCAGTATGGTGGAGTTACACCAGCAGTAAGCACAAATAATGTA
2630762 CAAGAGCAATACTTTTCAGTATGGTGGAGTTACACCAGCAGTAAGCACAAATAATGTA
1 CAAGAGCAATACTTTTCAGTATGGTGGAGTTACACCAGCAGTAAGCACAAATAATGTA
2630820 CAA
1 CAA
2630823 AACTCATAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (58 bp):
CAAGAGCAATACTTTTCAGTATGGTGGAGTTACACCAGCAGTAAGCACAAATAATGTA
Found at i:2632446 original size:19 final size:19
Alignment explanation
Indices: 2632422--2632502 Score: 66
Period size: 19 Copynumber: 4.4 Consensus size: 19
2632412 GTGATAGGAT
2632422 TTTAAATAAAAATATTAAA
1 TTTAAATAAAAATATTAAA
2632441 -TT---TAAAAA-A-TAAA
1 TTTAAATAAAAATATTAAA
*
2632454 TTTAAATAAAATTATTAAA
1 TTTAAATAAAAATATTAAA
*
2632473 TTTATTTATAAAATATATTAAA
1 TTTA--AATAAAA-ATATTAAA
2632495 TTTTAAAT
1 -TTTAAAT
2632503 TTAATATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 18
0.69 0.06 0.26
Matches are distributed among these distances:
13 4 0.08
14 3 0.06
15 6 0.12
17 5 0.10
18 3 0.06
19 8 0.17
21 8 0.17
22 7 0.15
23 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTAAATAAAAATATTAAA
Found at i:2632556 original size:17 final size:16
Alignment explanation
Indices: 2632522--2632573 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
2632512 AAGATTAAAG
*
2632522 TTTAATTATATTTCTTA
1 TTTAATTATATAT-TTA
2632539 TTTAATTATATAATTTA
1 TTTAATTATAT-ATTTA
*
2632556 TATTAATTTTATATTTA
1 T-TTAATTATATATTTA
2632573 T
1 T
2632574 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTAATTATATATTTA
Found at i:2632647 original size:17 final size:18
Alignment explanation
Indices: 2632614--2632649 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2632604 CCTTGCTTTT
2632614 TTTTAAATTTATAATTTA
1 TTTTAAATTTATAATTTA
*
2632632 TTTTAATTTTAT-ATTTA
1 TTTTAAATTTATAATTTA
2632649 T
1 T
2632650 ATATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATTTATAATTTA
Found at i:2632745 original size:22 final size:22
Alignment explanation
Indices: 2632712--2632761 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2632702 AATTATTTTT
*
2632712 ATTTTAAA--ATTTAAGATT-A
1 ATTTTAAATTATTTAAAATTAA
2632731 ATTATTAAATTATTTAAAATTAA
1 ATT-TTAAATTATTTAAAATTAA
2632754 ATTTTAAA
1 ATTTTAAA
2632762 AAATAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 5 0.19
22 14 0.54
23 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTTAAATTATTTAAAATTAA
Found at i:2632769 original size:36 final size:37
Alignment explanation
Indices: 2632680--2632769 Score: 87
Period size: 36 Copynumber: 2.5 Consensus size: 37
2632670 TATTATCACG
* * * **
2632680 TAAATATTAAAAAATTA-TATTAAATTATTTTTATTT
1 TAAATTTTAAAAAATAATTATTAAATTATTTTAAAAT
* * *
2632716 TAAAATTT-AAGATTAATTATTAAATTA-TTTAAAAT
1 TAAATTTTAAAAAATAATTATTAAATTATTTTAAAAT
2632751 TAAATTTTAAAAAATAATT
1 TAAATTTTAAAAAATAATT
2632770 TAAAAAATAG
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
35 17 0.41
36 24 0.59
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (37 bp):
TAAATTTTAAAAAATAATTATTAAATTATTTTAAAAT
Found at i:2632840 original size:22 final size:23
Alignment explanation
Indices: 2632808--2632851 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
2632798 ATCTATTTAT
2632808 AAATATAAA-TTA-ATTTTAAAA
1 AAATATAAATTTATATTTTAAAA
2632829 AAATAATAAATTTATATTTTAAA
1 AAAT-ATAAATTTATATTTTAAA
2632852 TCAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 3 0.15
24 8 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATAAATTTATATTTTAAAA
Found at i:2633881 original size:17 final size:18
Alignment explanation
Indices: 2633850--2633885 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2633840 TAAAAAAATT
2633850 AAAATATAATATAATATA
1 AAAATATAATATAATATA
*
2633868 AAAATATTAT-TAATATA
1 AAAATATAATATAATATA
2633885 A
1 A
2633886 TACTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATATAATATAATATA
Found at i:2633882 original size:27 final size:26
Alignment explanation
Indices: 2633837--2633887 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2633827 ACACAAATTG
2633837 ATATAAAAAAATTAAAATATAATATA
1 ATATAAAAAAATTAAAATATAATATA
* *
2633863 ATATAAAAATATTATTAATATAATA
1 ATATAAAAAAATTA-AAATATAATA
2633888 CTTAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATATAAAAAAATTAAAATATAATATA
Found at i:2633894 original size:22 final size:21
Alignment explanation
Indices: 2633856--2633901 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
2633846 AATTAAAATA
2633856 TAATATAATATAAAAATATTAT
1 TAATATAATATAAAAATA-TAT
*
2633878 TAATATAATACT-TAAATATAT
1 TAATATAATA-TAAAAATATAT
2633899 TAA
1 TAA
2633902 AATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 15 0.68
23 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
TAATATAATATAAAAATATAT
Found at i:2634247 original size:18 final size:19
Alignment explanation
Indices: 2634224--2634261 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2634214 TGATTATAAC
2634224 ATAATA-AAATACATAAAT
1 ATAATACAAATACATAAAT
* *
2634242 ATAATACGATTACATAAAT
1 ATAATACAAATACATAAAT
2634261 A
1 A
2634262 GGTGATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
ATAATACAAATACATAAAT
Found at i:2637109 original size:2 final size:2
Alignment explanation
Indices: 2637097--2637134 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2637087 CAGTAAAAAT
*
2637097 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2637135 ATTGTCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2639046 original size:91 final size:92
Alignment explanation
Indices: 2638951--2639151 Score: 289
Period size: 90 Copynumber: 2.2 Consensus size: 92
2638941 TATATAATAT
*
2638951 ATATAAGATATAATTTTTTTACATAAATATTAATATTTATTATGAG-TTTTTTTAAAA-ATTTTT
1 ATATAA-ATATAATTTTTTTACATAAATACTAATATTTATTATGAGTTTTTTTTAAAATATTTTT
2639014 CATATATTATAATAATTCATTGAATTCA
65 CATATATTATAATAATTCATTGAATTCA
* * * * *
2639042 ATATATATACAGTTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTTAAAATTTTTTT
1 ATATAAATATAATTTTTTTACATAAATACTAATATTTATTATGAG-TTTTTTTTAAAATATTTTT
*
2639107 CATATATTATAATAATTTATTGAATTCA
65 CATATATTATAATAATTCATTGAATTCA
2639135 ATATTAAATATTAATTT
1 ATA-TAAATA-TAATTT
2639152 GACTAATTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 35 0.37
91 5 0.05
92 11 0.12
93 35 0.37
94 5 0.05
95 4 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (92 bp):
ATATAAATATAATTTTTTTACATAAATACTAATATTTATTATGAGTTTTTTTTAAAATATTTTTC
ATATATTATAATAATTCATTGAATTCA
Found at i:2639075 original size:90 final size:92
Alignment explanation
Indices: 2638964--2639138 Score: 291
Period size: 93 Copynumber: 1.9 Consensus size: 92
2638954 TAAGATATAA
*
2638964 TTTTTTTACATAAATATTAATATTTATTATGAG-TTTTTTTAAAA-ATTTTTCATATATTATAAT
1 TTTTTTTACATAAATACTAATATTTATTATGAGTTTTTTTTAAAATATTTTTCATATATTATAAT
2639027 AATTCATTGAATTCAATATATATACAG
66 AATTCATTGAATTCAATATATATACAG
* *
2639054 TTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTTAAAATTTTTTTCATATATTATAA
1 TTTTTTTACATAAATACTAATATTTATTATGAG-TTTTTTTTAAAATATTTTTCATATATTATAA
*
2639119 TAATTTATTGAATTCAATAT
65 TAATTCATTGAATTCAATAT
2639139 TAAATATTAA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
90 31 0.40
92 11 0.14
93 36 0.46
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (92 bp):
TTTTTTTACATAAATACTAATATTTATTATGAGTTTTTTTTAAAATATTTTTCATATATTATAAT
AATTCATTGAATTCAATATATATACAG
Found at i:2639383 original size:27 final size:27
Alignment explanation
Indices: 2639342--2639393 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2639332 AAAATTTTTT
*
2639342 ATATATTATAATAATTT-ATTGAATTGA
1 ATATATAATAATAATTTGATT-AATTGA
*
2639369 ATATATAATATTAATTTGATTAATT
1 ATATATAATAATAATTTGATTAATT
2639394 AATTTTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 19 0.86
28 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
ATATATAATAATAATTTGATTAATTGA
Found at i:2639395 original size:234 final size:236
Alignment explanation
Indices: 2639053--2639505 Score: 761
Period size: 236 Copynumber: 1.9 Consensus size: 236
2639043 TATATATACA
*
2639053 GTTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTTAAAATTTTTTTCATATATTATA
1 GTTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTCAAAATTTTTTTCATATATTATA
* *
2639118 ATAATTTATTGAATTCAATATTAAATATTAATTTGACTAATTAATTTTATCTCATTTATCTT-TT
66 ATAATTTATTGAATTCAATATTAAATATTAATTTGACTAATTAATTTTATCCCATTCATCTTATT
*
2639182 CATTATGTATAATATAATAAATTAATTTTATCTTAGCCTCATTCATTGAATAATATATTAATTTC
131 CATTATGTATAATATAATAAATTAATTTTATCTTAACCTCATTCATTGAATAATATATTAATTTC
2639247 ATTAATTACTTTTTAAATTTATATAACATATATAAAATATAG
196 ATTAATTACTTTTTAAA-TTATATAACATATATAAAATATAG
*
2639289 GTTTTTTTACGTAAATGCTAATATTTATTATGAGTTTTTTTTCAAAA-TTTTTT-ATATATTATA
1 GTTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTCAAAATTTTTTTCATATATTATA
* *
2639352 ATAATTTATTGAATTGAATA-TATAATATTAATTTGATTAATTAATTTTATCCCATTCATCTTCA
66 ATAATTTATTGAATTCAATATTA-AATATTAATTTGACTAATTAATTTTATCCCATTCATCTT-A
* * *
2639416 TTCATTGTGTATAATATAATATATTAATTTTATCTTAATCTCATTCATTGAATAATATATTAATT
129 TTCATTATGTATAATATAATAAATTAATTTTATCTTAACCTCATTCATTGAATAATATATTAATT
2639481 TCATTAATTACTTTTTAAATTATAT
194 TCATTAATTACTTTTTAAATTATAT
2639506 TTTAATTCTT
Statistics
Matches: 204, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
233 2 0.01
234 65 0.32
235 12 0.06
236 125 0.61
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (236 bp):
GTTTTTTTACATAAATGCTAATATTTATTATGAGTTTTTTTTCAAAATTTTTTTCATATATTATA
ATAATTTATTGAATTCAATATTAAATATTAATTTGACTAATTAATTTTATCCCATTCATCTTATT
CATTATGTATAATATAATAAATTAATTTTATCTTAACCTCATTCATTGAATAATATATTAATTTC
ATTAATTACTTTTTAAATTATATAACATATATAAAATATAG
Found at i:2639713 original size:311 final size:306
Alignment explanation
Indices: 2638629--2639883 Score: 1413
Period size: 311 Copynumber: 4.0 Consensus size: 306
2638619 ATAATTATTT
*
2638629 ATCTATATAATATATATATAATATAGTTTTTTTACATAAATATTAATATTTATTATGAGTTTTTT
1 ATCTATATAATATATATAAAATATAGTTTTTTTACATAAATATTAATATTTATTATGAGTTTTTT
* *
2638694 TCAAAATTTTTTTCATATATTATAATAATTTATTAAATTTAATATATATAATATTAATTTGACTA
66 TCAAAA-TTTTTT-ATATATTATAATAATTCATTGAATTT-A-ATATATAATATTAATTTGACTA
* * *
2638759 ATTAATTTTATCTCATTCATCTTTATTCATTATATATAATATAATACATTAATTTTATCTT-AGC
127 ATTAATTTTATCTCATTCATCTTCATTCATTATGTATAATATAATATATTAATTTTAT-TTAAGC
2638823 ATCATTCATTAAATAATATATTAATTTCATTAATTACTTTTTAAATTACATTTTAA-TTTTTTAA
191 ATCATTCATTAAATAATATATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTTTTTTAA
* *
2638887 TAAAATCATTAAATTTAATATAATATATTAATTTCATTAATTACTTTTTAA
256 TAGAATCATTGAATTTAATATAATATATTAATTTCATTAATTACTTTTTAA
* *
2638938 ATCTATATAATATATATAAGATATAATTTTTTTACATAAATATTAATATTTATTATGAGTTTTTT
1 ATCTATATAATATATATAAAATATAGTTTTTTTACATAAATATTAATATTTATTATGAGTTTTTT
* * * * * *
2639003 TAAAAATTTTTCATATATTATAATAATTCATTGAATTCAATATATATACAGTT-TTTTTACATAA
66 TCAAAATTTTTTATATATTATAATAATTCATTGAATTTAATATATA-ATA-TTAATTTGAC-T-A
* * ** * * ** * * * * * *
2639067 ATGCTAATATTTATTATGAGTTTTTTTTTA-AAATT-TTTTTCATATATTATAATAA-TTTATTG
127 AT--TAAT-TTTA-TCTCA-TTCATCTTCATTCATTATGTATAATATAATATATTAATTTTATTT
* * * * * *
2639129 AA--TTCAAT-ATTAAATATTAATTTGACTAATTAATTTTATCTCATTTATCTTTTCATTATGTA
187 AAGCATCATTCATT-AA-A-TAA--T-A-T-ATTAATTTCAT-T-AATTA-CTTTTTA-AAT-TA
* * ** ** * *
2639191 TAATATAATAAATTAATTTTATCTTAGCCTCATT-CA-TTGA-ATAATATATTAATTTCATTAAT
239 -CAT-T--TTAATT--TTTT-TAATAGAATCATTGAATTTAATATAATATATTAATTTCATTAAT
2639253 TACTTTTTAA
297 TACTTTTTAA
* * * **
2639263 ATTTATATAACATATATAAAATATAGGTTTTTTTACGTAAATGCTAATATTTATTATGAGTTTTT
1 ATCTATATAATATATATAAAATATA-GTTTTTTTACATAAATATTAATATTTATTATGAG-TTTT
* * *
2639328 TTTCAAAATTTTTTATATATTATAATAATTTATTGAATTGAATATATAATATTAATTTGATTAAT
64 TTTCAAAATTTTTTATATATTATAATAATTCATTGAATTTAATATATAATATTAATTTGACTAAT
* * *
2639393 TAATTTTATCCCATTCATCTTCATTCATTGTGTATAATATAATATATTAATTTTATCTTAATC-T
129 TAATTTTATCTCATTCATCTTCATTCATTATGTATAATATAATATATTAATTTTAT-TTAAGCAT
* *
2639457 CATTCATTGAATAATATATTAATTTCATTAATTACTTTTTAAATTATATTTTAATTCTTTTTAAT
193 CATTCATTAAATAATATATTAATTTCATTAATTACTTTTTAAATTACATTTTAATT-TTTTTAAT
2639522 AGAATCATTGAATTTAATATAATATATTAACTTT-ATTAATTACTTTTTAA
257 AGAATCATTGAATTTAATATAATATATTAA-TTTCATTAATTACTTTTTAA
* *
2639572 ATCTATATAATATATATAAAATACTAGTTTTTTTTACATAAATGTTAATATTTATTATAAGTTTT
1 ATCTATATAATATATATAAAATA-TAG-TTTTTTTACATAAATATTAATATTTATTATGAGTTTT
*
2639637 TTTCAAAAATTTTTTTATATATTATAATAATTCATTGAATTTAATATATAATATTAATTTAACTA
64 TTTC-AAAA-TTTTTTATATATTATAATAATTCATTGAATTTAATATATAATATTAATTTGACTA
* * * * *
2639702 ATTAATTTTATCTTATTTATCTTCATTCACTATGTATAATATAATATATTAATTTTATTTTAGCT
127 ATTAATTTTATCTCATTCATCTTCATTCATTATGTATAATATAATATATTAATTTTATTTAAGCA
* * *
2639767 TGATTCATTGAATAATATATTAATTTTATTAATTACTTTTTAAATTACATTTTAATTTTTTTAAT
192 TCATTCATTAAATAATATATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTTTTTTAAT
2639832 AGAATCATTGAATTTAATATAATATATTAATTTCATTAATTACTTTTTAA
257 AGAATCATTGAATTTAATATAATATATTAATTTCATTAATTACTTTTTAA
2639882 AT
1 AT
2639884 TATGTTTTAA
Statistics
Matches: 791, Mismatches: 104, Indels: 101
0.79 0.10 0.10
Matches are distributed among these distances:
305 7 0.01
306 17 0.02
307 34 0.04
308 22 0.03
309 130 0.16
310 113 0.14
311 178 0.23
312 9 0.01
313 10 0.01
314 7 0.01
315 14 0.02
316 2 0.00
317 14 0.02
318 7 0.01
319 9 0.01
320 8 0.01
321 21 0.03
322 13 0.02
323 4 0.01
324 11 0.01
325 61 0.08
326 39 0.05
327 53 0.07
328 8 0.01
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (306 bp):
ATCTATATAATATATATAAAATATAGTTTTTTTACATAAATATTAATATTTATTATGAGTTTTTT
TCAAAATTTTTTATATATTATAATAATTCATTGAATTTAATATATAATATTAATTTGACTAATTA
ATTTTATCTCATTCATCTTCATTCATTATGTATAATATAATATATTAATTTTATTTAAGCATCAT
TCATTAAATAATATATTAATTTCATTAATTACTTTTTAAATTACATTTTAATTTTTTTAATAGAA
TCATTGAATTTAATATAATATATTAATTTCATTAATTACTTTTTAA
Found at i:2640731 original size:38 final size:40
Alignment explanation
Indices: 2640689--2640776 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
2640679 ATTTTATATT
* *
2640689 AAATTTTAAATTATTATTT-AAA-AAATA-ATAAAAATTAA
1 AAATTTTAAATTA-AATTTCAAATAAATATATAAAAATAAA
* * *
2640727 AAATTTTATATTAAATTTCAAATTATTATATAAAAATAAA
1 AAATTTTAAATTAAATTTCAAATAAATATATAAAAATAAA
2640767 AAATTTTAAA
1 AAATTTTAAA
2640777 AATCATTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
37 4 0.10
38 15 0.37
39 3 0.07
40 19 0.46
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (40 bp):
AAATTTTAAATTAAATTTCAAATAAATATATAAAAATAAA
Found at i:2640741 original size:50 final size:49
Alignment explanation
Indices: 2640655--2640809 Score: 177
Period size: 50 Copynumber: 3.0 Consensus size: 49
2640645 GATATAACAG
*
2640655 AAAATAATAAAAAATTAAAAAATTATTTTATATTAAATTTTAAATTATTATTTAA
1 AAAATAAT-AAAAATT--AAAA--ATTTTATATTAAATTTTAAATTATTATAT-A
*
2640710 AAAATAATAAAAATTAAAAATTTTATATTAAATTTCAAATTATTATATA
1 AAAATAATAAAAATTAAAAATTTTATATTAAATTTTAAATTATTATATA
*
2640759 AAAATAA-AAAATTTTAAAAATCATTTATATTAAATATTTTAAATTATTATA
1 AAAATAATAAAA-ATTAAAAAT--TTTATATT-AA-ATTTTAAATTATTATA
2640810 ATTAAATTTA
Statistics
Matches: 91, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
48 4 0.04
49 16 0.18
50 27 0.30
51 8 0.09
52 6 0.07
53 15 0.16
54 7 0.08
55 8 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (49 bp):
AAAATAATAAAAATTAAAAATTTTATATTAAATTTTAAATTATTATATA
Found at i:2641022 original size:22 final size:22
Alignment explanation
Indices: 2640981--2641028 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2640971 TTGAATGAAT
*
2640981 ATATGATTATAATAATATATAC
1 ATATGATTATAATAATATATAA
2641003 ATATGACTT-TAACTAA-ATATAA
1 ATATGA-TTATAA-TAATATATAA
2641025 ATAT
1 ATAT
2641029 AGTAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
ATATGATTATAATAATATATAA
Found at i:2642339 original size:79 final size:79
Alignment explanation
Indices: 2642148--2642376 Score: 255
Period size: 79 Copynumber: 2.9 Consensus size: 79
2642138 TGGAGATAAC
* * * * * *
2642148 AACGGGGCTGGAGTATCTACGATTATGAAAAATAGGTATTCTGGAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCTCCGATTATGAAAAATCGGTATTTTAGAAATAAAATCAGGGTTGGAGT
* *
2642213 ATCCCTTCGGAAAT
66 ATCCCCTCGAAAAT
* * *
2642227 AACAGGGTTGGAGTATC-CATGATTAT-AGAAAATCGGTATTTTAAAAATAAAATCAGGGTTGGA
1 AACGGGGTTGGAGTATCTC-CGATTATGA-AAAATCGGTATTTTAGAAATAAAATCAGGGTTGGA
2642290 GTATCCCCTCGAAAAT
64 GTATCCCCTCGAAAAT
* * * ** ***
2642306 AATGGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCAGGGTTGGAGT
1 AACGGGGTTGGAGTATCTCCGATTATGAAAAATCGGTATTTTAGAAATAAAATCAGGGTTGGAGT
2642371 ATCCCC
66 ATCCCC
2642377 GATTGTGAGA
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
79 121 0.98
80 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCTCCGATTATGAAAAATCGGTATTTTAGAAATAAAATCAGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:2642379 original size:51 final size:51
Alignment explanation
Indices: 2642310--2642427 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2642300 GAAAATAATG
* * * * *
2642310 GGGTTGGAGTATCTCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCA
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAAGAAAGCCA
* * * *
2642361 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAAGAAAGCCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAAGAAAGCCA
2642412 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2642428 TCGAAAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAAGAAAGCCA
Found at i:2642484 original size:28 final size:30
Alignment explanation
Indices: 2642410--2642486 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 30
2642400 GAAAGAAAGC
2642410 CGGGGTTGGAGTATCCCC--TCGAAAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
*
2642438 CGGGGTTGGAGTATCCCCGAT-G-CAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
2642466 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2642487 TGTGAAAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
28 44 0.96
29 1 0.02
30 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.22
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCGATCGAAAATAA
Found at i:2642576 original size:158 final size:158
Alignment explanation
Indices: 2642282--2642585 Score: 357
Period size: 158 Copynumber: 1.9 Consensus size: 158
2642272 AATAAAATCA
* * *
2642282 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCTCCGATTGTGAAAAATCGATGCTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAGATGCTT
* * * *
2642347 TAGAAATAAGGCCAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAAGAAAGCCG
66 TAGAAATAAAGCCAGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAAGAAAACCG
*
2642412 GGGTTGGAGTATCCCCTCGAAAATAACG
131 GAGTTGGAGTATCCCCTCGAAAATAACG
*
2642440 GGGTTGGAGTAT-CCC-CGATGCAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TG
1 GGGTTGGAGTATCCCCTCGA--AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAA-TAGATG
* ** * *** * *
2642502 CTTTGGAAATAAAATC-GAAGTTGGAGTATCCCTGATTGTG-GAAAATTGGTGTTTTAGAAATAA
63 CTTTAGAAATAAAGCCAG-AGTTGGAGTATCCCCGATTGTGAG-AAATCAATATTTTAGAAAGAA
*
2642565 AATCGGAGTTGGAGTATCCCC
126 AACCGGAGTTGGAGTATCCCC
2642586 GATTATGGAA
Statistics
Matches: 122, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
156 3 0.02
157 5 0.04
158 112 0.92
159 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (158 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATAGATGCTT
TAGAAATAAAGCCAGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAAGAAAACCG
GAGTTGGAGTATCCCCTCGAAAATAACG
Found at i:2642628 original size:51 final size:51
Alignment explanation
Indices: 2642470--2642632 Score: 222
Period size: 51 Copynumber: 3.2 Consensus size: 51
2642460 CAATAACGGG
* * * *
2642470 GTTGGAGTATCCCCGATTGTGAAAAATT-AGTGCTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGA-TGTTTTAGAAATAAAATCGGA
* *
2642521 GTTGGAGTATCCCTGATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGGA
* *
2642572 GTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAACTAGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAA-TCGGA
2642624 -TTGGAGTAT
1 GTTGGAGTAT
2642633 GCCCTCGGAA
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
51 96 0.96
52 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:2642790 original size:78 final size:77
Alignment explanation
Indices: 2642572--2642791 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 77
2642562 TAAAATCGGA
* * * *
2642572 GTTGGAGTATCCCCGATTATGGAAAATTGATGTTTT-AGAAATAAAACTAGGATTGGAGTATGCC
1 GTTGGAGTAT-CCCGATGATGAAAAATTGATGTTTTGA-AAATAAAACCAGGGTTGGAGTAT-CC
*
2642636 CTCGGAAATGACGGG
63 CTCGGAAATAACGGG
** * ** * * *
2642651 GTTGGAGTATTCCTAATTG-TGAAAAATTGGTGTTTTGGGAATAAAATCAAGGTTAGAGTATCCT
1 GTTGGAGTA-TCCCGA-TGATGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGGAGTATCC-
2642715 CTCGGAAATAACGGG
63 CTCGGAAATAACGGG
*
2642730 GTTGGAGTATCCCGATGATGAAAAATTGATATTTTGAAAATAAAACCAGGGTTGGAGTATCC
1 GTTGGAGTATCCCGATGATGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGGAGTATCC
2642792 GTGAGATAAA
Statistics
Matches: 114, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
77 2 0.02
78 43 0.38
79 67 0.59
80 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (77 bp):
GTTGGAGTATCCCGATGATGAAAAATTGATGTTTTGAAAATAAAACCAGGGTTGGAGTATCCCTC
GGAAATAACGGG
Found at i:2645980 original size:46 final size:45
Alignment explanation
Indices: 2645832--2646163 Score: 220
Period size: 45 Copynumber: 7.4 Consensus size: 45
2645822 ATGCTTTTCA
* * * *
2645832 AGGAC-AAAGGAAAAAAAAGGAAAATGAAATGCGTCCTGTTCTTTG
1 AGGACAAAAGGGAAAAGAAGG-AAATGAAGTGCGTCCTGCTCTTTG
* *
2645877 AGGACAAAA--GAAAA-AAGAAAATAAAGTGCGTCCTGCTCTTTG
1 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
* *
2645919 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTCATGCTCTTTG
1 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
* * **
2645964 AGGACAAAAGGGGAAAAGAAGGGAATGGAA-TGTGTCCTATTCTTTG
1 AGGACAAAA-GGGAAAAGAAGGAAAT-GAAGTGCGTCCTGCTCTTTG
* * * * * *
2646010 AGGACACGGGGGAAAAGGAAAAATAAAAGAAATGAAATGCGTCCTACTTTTTG
1 AGG--AC-----AAAAGGGAAAA-GAAGGAAATGAAGTGCGTCCTGCTCTTTG
* * *
2646063 AGGAC-AAA-GG-AAA-AAGGAGAAT-AA-AGCATCCTACTCTTTG
1 AGGACAAAAGGGAAAAGAAGGA-AATGAAGTGCGTCCTGCTCTTTG
* * * * *
2646103 AGGACAAAAGGGAAAAGAAAGAAATGAAATGTGTCCTACTCTTTA
1 AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
*
2646148 AGGGC-AAAGGAGAAAA
1 AGGACAAAAGG-GAAAA
2646164 AGGACAAGGC
Statistics
Matches: 233, Mismatches: 31, Indels: 46
0.75 0.10 0.15
Matches are distributed among these distances:
40 18 0.08
41 9 0.04
42 35 0.15
43 12 0.05
44 21 0.09
45 62 0.27
46 34 0.15
47 3 0.01
48 2 0.01
51 2 0.01
52 9 0.04
53 26 0.11
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.19
Consensus pattern (45 bp):
AGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTG
Found at i:2646270 original size:62 final size:62
Alignment explanation
Indices: 2646197--2646980 Score: 1001
Period size: 62 Copynumber: 12.7 Consensus size: 62
2646187 GGGTAAAAGA
* * * **
2646197 GAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGACCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2646259 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGAACTAGAAAGGTGCCATCAACCTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2646322 -AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAG-GTGCCACCAACTTGTGTGGGCTTT
*
2646383 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTC
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
2646446 G-AAAGGAAATGGCGCCCTGCTCTTTAAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
** *
2646507 GAAAAGAAAAAGGTACCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTC
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* ** *
2646570 G-AAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2646631 GAAAAGAAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2646694 -AAAAGGAAAAAGGCGTTCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAA-GAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
2646756 GAAAA-AAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCATCTTGTGT-GGCTTC
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
2646817 G-AAAGGAAAAGGCGTCCTGCTTTTTTAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTT
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
2646878 GAAAAGAAAAATGTGCCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTC
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
2646941 G-AAAGAAAAAGGCGTCCTGCTTTTTGAGGACTAAAGGGTG
1 GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTG
2646981 AAAAGAGAGA
Statistics
Matches: 626, Mismatches: 80, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
60 26 0.04
61 142 0.23
62 302 0.48
63 152 0.24
64 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (62 bp):
GAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:2646345 original size:124 final size:124
Alignment explanation
Indices: 2646199--2646980 Score: 1192
Period size: 124 Copynumber: 6.3 Consensus size: 124
2646189 GTAAAAGAGA
* * * * **
2646199 AAAGGAAAAGGTGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGACCTTTGAAAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
* * * **
2646264 GAAAAAGGTGTCCTGCTCTTTGAGAACTAGAAAGGTGCCATCAACCTGTGTGGGCTTTA
66 GAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
2646323 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGAGTGCCACCAGCTTGTGTGGGCTTTGAAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAG-GTGCCACCAGCTTGTGTGGGCTTTGAAA
2646387 AGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
65 AGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
* * * *
2646447 AAAGGAAATGGCGCCCTGCTCTTTAAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
**
2646512 GAAAAAGGTACCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
66 GAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
* * *
2646571 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
* * * **
2646636 GAAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGGGCTTTA
66 GAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
*
2646695 AAAGGAAAAAGGCGTTCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAA
1 AAAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAA
*
2646760 A-AAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCATCTTGTGT-GGCTTCG
65 AGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
* * *
2646818 AAAGGAAAAGGCGTCCTGCTTTTTTAGGACTAAAGGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
* * * *
2646883 GAAAAATGTGCCCTACTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTAGGCTTCG
66 GAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
* * *
2646942 AAAGAAAAAGGCGTCCTGCTTTTTGAGGACTAAAGGGTG
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTG
2646981 AAAAGAGAGA
Statistics
Matches: 602, Mismatches: 51, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
122 56 0.09
123 60 0.10
124 427 0.71
125 59 0.10
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (124 bp):
AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAA
GAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTCG
Found at i:2648079 original size:25 final size:25
Alignment explanation
Indices: 2648051--2648105 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
2648041 TGCTCTTTTC
2648051 TTTTCTCTCTT-TTTTTCTTTTTTGG
1 TTTT-TCTCTTGTTTTTCTTTTTTGG
* * *
2648076 TTTTTTTTTTGTTTTTTTTTTTTGG
1 TTTTTCTCTTGTTTTTCTTTTTTGG
2648101 TTTTT
1 TTTTT
2648106 TAAAAAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (25 bp):
TTTTTCTCTTGTTTTTCTTTTTTGG
Found at i:2648084 original size:13 final size:13
Alignment explanation
Indices: 2648062--2648106 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
2648052 TTTCTCTCTT
2648062 TTTTTCTTTTTTGG
1 TTTTT-TTTTTTGG
*
2648076 -TTTTTTTTTTGT
1 TTTTTTTTTTTGG
2648088 TTTTTTTTTTTGG
1 TTTTTTTTTTTGG
2648101 TTTTTT
1 TTTTTT
2648107 AAAAAGAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (13 bp):
TTTTTTTTTTTGG
Found at i:2650767 original size:79 final size:80
Alignment explanation
Indices: 2650585--2650774 Score: 208
Period size: 80 Copynumber: 2.4 Consensus size: 80
2650575 TGGAGATGAC
* * * * * *
2650585 AACGGGGCTGGAGTATCCCCTGAATATG-GAAAATCGGTGTTCTAGAAATAAAATCAGGGTTGAA
1 AACGGGGTTGGAGTATCCCC-GATTGTGAAAAAATCGATATTCTAGAAATAAAATCAGGGTTGAA
*
2650649 GTACCCCTTTGAAAAT
65 GTACCCCTTCGAAAAT
* * * *
2650665 AACAGGGTTAGAGTATCCTCGATTGTGAAAAAATCGATATTCT-GAAAATAAAA-CTAGGGTTGG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATATTCTAG-AAATAAAATC-AGGGTTGA
**
2650728 AGTATTCC-TCGAAAAT
64 AGTACCCCTTCGAAAAT
2650744 AACGGGGTTGGAGTATCCCCGATTGTGAAAA
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAA
2650775 GATTAGTGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
79 42 0.46
80 49 0.54
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (80 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAAATCGATATTCTAGAAATAAAATCAGGGTTGAAG
TACCCCTTCGAAAAT
Found at i:2650793 original size:79 final size:79
Alignment explanation
Indices: 2650585--2650815 Score: 207
Period size: 79 Copynumber: 2.9 Consensus size: 79
2650575 TGGAGATGAC
* * * * **
2650585 AACGGGGCTGGAGTATCCCCTGAATATGGAAAATCGGTGTTCTAGAAATAAAATCAGGGTTGAAG
1 AACGGGGTTGGAGTATCCCC-GATTGTGAAAAATTAGTGTTCTAGAAATAAAATCAGGGTTGAAG
*
2650650 TACCCCTTTGAAAAT
65 TACCCCTTCGAAAAT
* * * * * * *
2650665 AACAGGGTTAGAGTATCCTCGATTGTGAAAAAATCGATATTCT-GAAAATAAAA-CTAGGGTTGG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAG-TGTTCTAG-AAATAAAATC-AGGGTTGA
**
2650728 AGTATTCC-TCGAAAAT
63 AGTACCCCTTCGAAAAT
* ** *
2650744 AACGGGGTTGGAGTATCCCCGATTGTGAAAAGATTAGTGTTTTAGAAATAAAATTGGGGTTAAAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAA-ATTAGTGTTCTAGAAATAAAATCAGGGTTGAAG
2650809 TATCCCC
65 TA-CCCC
2650816 GATTGTGAAA
Statistics
Matches: 116, Mismatches: 28, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
79 68 0.59
80 48 0.41
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTCTAGAAATAAAATCAGGGTTGAAGT
ACCCCTTCGAAAAT
Found at i:2650862 original size:51 final size:52
Alignment explanation
Indices: 2650746--2650866 Score: 163
Period size: 51 Copynumber: 2.3 Consensus size: 52
2650736 TCGAAAATAA
* * * *
2650746 CGGGGTTGGAGTATCCCCGATTGTGAAAAGATTAGTGTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAAC
* ** *
2650798 TGGGGTTAAAGTATCCCCGATTGTGAAAA-ATCAATATTTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAAC
2650849 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
2650867 TCAGAAATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 32 0.55
52 26 0.45
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAGATCAATATTTTAGAAATAAAAC
Found at i:2650941 original size:130 final size:131
Alignment explanation
Indices: 2650670--2650947 Score: 334
Period size: 130 Copynumber: 2.1 Consensus size: 131
2650660 AAAATAACAG
* * * *
2650670 GGTTAGAGTATCCTCGATTGTGAAAAAATCGATATTCTGAAAATAAAACTAGGGTTGGAGTATTC
1 GGTTAGAGTATCCCCGATTGTGAAAAAATCAATATTCTGAAAATAAAACCAGGGTTGGAGTATCC
* * * * *
2650735 CTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGATTAGTGTTTTAGAAATAAAATTG
66 CTCGAAAATAACGGGATTGGAGTATCCACAATTATGAAAAGATTAGTGTTTTAGAAATAAAATCG
*
2650800 G
131 A
* * * *
2650801 GGTTAAAGTATCCCCGATTGTG-AAAAATCAATATT-TTAGAAATAAAGCCGGGGTTGGAGTATC
1 GGTTAGAGTATCCCCGATTGTGAAAAAATCAATATTCTGA-AAATAAAACCAGGGTTGGAGTAT-
2650864 CCCTC-AGAAATAACGGGATTGGAGTATCCACAATTATGAAAA-ATT-GATGTTTT-GAAAATAA
64 CCCTCGA-AAATAACGGGATTGGAGTATCCACAATTATGAAAAGATTAG-TGTTTTAG-AAATAA
2650925 AATCGA
126 AATCGA
*
2650931 GGTTGGAGTATCCCCGA
1 GGTTAGAGTATCCCCGA
2650948 GATGAAAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
129 4 0.03
130 67 0.53
131 55 0.44
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (131 bp):
GGTTAGAGTATCCCCGATTGTGAAAAAATCAATATTCTGAAAATAAAACCAGGGTTGGAGTATCC
CTCGAAAATAACGGGATTGGAGTATCCACAATTATGAAAAGATTAGTGTTTTAGAAATAAAATCG
A
Found at i:2653344 original size:50 final size:48
Alignment explanation
Indices: 2653234--2653366 Score: 212
Period size: 50 Copynumber: 2.7 Consensus size: 48
2653224 AAAAATGCTT
* * *
2653234 GAATGTATCGATACATTGAAAAATGTATCGATACATCTGGTAAACCTA
1 GAATGTATCGATACAATGAACAATGTATCGATACATCTGGTAAACCCA
*
2653282 GAATGTATCGATACAATGAACAATGTATCAATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAACAATGTATCGATACATCT-GGT-AAACCCA
2653332 GAATGTATCGATACAATGAACAATGTATCGATACA
1 GAATGTATCGATACAATGAACAATGTATCGATACA
2653367 AATTGTGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 35 0.45
49 3 0.04
50 40 0.51
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (48 bp):
GAATGTATCGATACAATGAACAATGTATCGATACATCTGGTAAACCCA
Found at i:2654873 original size:78 final size:78
Alignment explanation
Indices: 2654733--2654950 Score: 203
Period size: 78 Copynumber: 2.8 Consensus size: 78
2654723 ATTTTTAGTG
* * * * *
2654733 AAAATCGAGATTGGAATATCCCCTC-AAAGATGGTGGGGTTAGAGTATCCTCGTGAT--TAAAAA
1 AAAAT-GAGATTAGAGTAT-CCCTCGAAA-ATGATGAGGTTAGAGTATCC-C-TGATAGTGAAAA
*
2654795 TTTAATATTTTGGAAGTA
61 TTTAATATTTTGGAAATA
* * * *
2654813 AAAATGAGATTAGAGTATCCTTTGGAAATGATG-GGCTT-GAAGTATTCCTGATAGTGAAAATTT
1 AAAATGAGATTAGAGTATCCCTCGAAAATGATGAGG-TTAG-AGTATCCCTGATAGTGAAAATTT
*
2654876 GATATTTTGGAAATA
64 AATATTTTGGAAATA
* * * *
2654891 AAAATGGGGTTGGAGTATCCCTCGAAAATGATGAGGTTAGAGTATCCCTGATGGTGAAAA
1 AAAATGAGATTAGAGTATCCCTCGAAAATGATGAGGTTAGAGTATCCCTGATAGTGAAAA
2654951 ATGATGGGGT
Statistics
Matches: 113, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
76 4 0.04
77 4 0.04
78 84 0.74
79 16 0.14
80 5 0.04
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.31
Consensus pattern (78 bp):
AAAATGAGATTAGAGTATCCCTCGAAAATGATGAGGTTAGAGTATCCCTGATAGTGAAAATTTAA
TATTTTGGAAATA
Found at i:2654981 original size:32 final size:33
Alignment explanation
Indices: 2654915--2654984 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2654905 GTATCCCTCG
* *
2654915 AAAATGATGAGGTTAGAGTATCCCTGATGGTGA
1 AAAATGATGAGGTTAGAGTATCCCTAATGATGA
*
2654948 AAAATGATGGGGTTAGAGTATCCC-AATGATGA
1 AAAATGATGAGGTTAGAGTATCCCTAATGATGA
2654980 AAAAT
1 AAAAT
2654985 TCGATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.39, C:0.09, G:0.27, T:0.26
Consensus pattern (33 bp):
AAAATGATGAGGTTAGAGTATCCCTAATGATGA
Found at i:2655136 original size:80 final size:79
Alignment explanation
Indices: 2654947--2655149 Score: 195
Period size: 80 Copynumber: 2.6 Consensus size: 79
2654937 CCTGATGGTG
* * * *
2654947 AAAAATGATGGGGTTAGAGTATCC-CAATGATGAAAAATTCGATATTTTAGAAGTAAAAATAAGA
1 AAAAATGAT-GGGTTAGAGTACCCTCGATGGTGAAAAATTCAATATTTTAGAAGTAAAAATAAGA
*
2655011 TTGAAGTATTCCCTC
65 TTGAAGCATTCCCTC
* * *
2655026 AGAAATGATGAGGTT-GAAGTATCCCT-GATGGTGAAAAATTCAATATTTTGGAAGTAAAAAT-G
1 AAAAATGATG-GGTTAG-AGTA-CCCTCGATGGTGAAAAATTCAATATTTTAGAAGTAAAAATAA
*
2655088 GAGTTGGAGCA-TCCCATC
63 GA-TTGAAGCATTCCC-TC
*
2655106 AAAAATAATAGGGTTAGAGTACCCTCGAT-G-GATAAAATTCAATA
1 AAAAATGAT-GGGTTAGAGTACCCTCGATGGTGA-AAAATTCAATA
2655150 AATTTTTATA
Statistics
Matches: 103, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
78 4 0.04
79 38 0.37
80 59 0.57
81 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (79 bp):
AAAAATGATGGGTTAGAGTACCCTCGATGGTGAAAAATTCAATATTTTAGAAGTAAAAATAAGAT
TGAAGCATTCCCTC
Found at i:2656975 original size:14 final size:14
Alignment explanation
Indices: 2656956--2656992 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
2656946 CTCTCTTTTT
2656956 TCTCTTTGGAAATC
1 TCTCTTTGGAAATC
2656970 TCTCTTTGG-AATC
1 TCTCTTTGGAAATC
2656983 -CTCTTTGGAA
1 TCTCTTTGGAA
2656993 TATCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 5 0.23
14 9 0.41
ACGTcount: A:0.19, C:0.22, G:0.16, T:0.43
Consensus pattern (14 bp):
TCTCTTTGGAAATC
Found at i:2656986 original size:12 final size:13
Alignment explanation
Indices: 2656956--2656993 Score: 60
Period size: 12 Copynumber: 2.9 Consensus size: 13
2656946 CTCTCTTTTT
2656956 TCTCTTTGGAAATC
1 TCTCTTTGG-AATC
2656970 TCTCTTTGGAATC
1 TCTCTTTGGAATC
2656983 -CTCTTTGGAAT
1 TCTCTTTGGAAT
2656994 ATCAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.46
13 4 0.17
14 9 0.38
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (13 bp):
TCTCTTTGGAATC
Found at i:2657556 original size:20 final size:20
Alignment explanation
Indices: 2657528--2657566 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2657518 ACACGTATTA
2657528 TATCAATACATTCACTTATG
1 TATCAATACATTCACTTATG
*
2657548 TATCGATACATTCACTTAT
1 TATCAATACATTCACTTAT
2657567 TATATCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (20 bp):
TATCAATACATTCACTTATG
Found at i:2658670 original size:2 final size:2
Alignment explanation
Indices: 2658663--2658696 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2658653 GAGAAATGTA
2658663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2658697 TTATCATATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2659565 original size:19 final size:20
Alignment explanation
Indices: 2659526--2659583 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 20
2659516 TTAATATCTA
*
2659526 AAATTTTTAAAA-ATTAAATT
1 AAATTTTTAAAATATT-TATT
2659546 -AATTTTTAAAATATTTATT
1 AAATTTTTAAAATATTTATT
2659565 AAATTTATTTAAAATATTT
1 AAA-TT-TTTAAAATATTT
2659584 TTCAAGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 14 0.42
20 5 0.15
21 2 0.06
22 12 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTTTAAAATATTTATT
Found at i:2659574 original size:24 final size:22
Alignment explanation
Indices: 2659538--2659583 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
2659528 ATTTTTAAAA
2659538 ATTAAATTAATTTTTAAAATATTT
1 ATTAAATTAA--TTTAAAATATTT
*
2659562 ATTAAATTTATTTAAAATATTT
1 ATTAAATTAATTTAAAATATTT
2659584 TTCAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTAAATTAATTTAAAATATTT
Found at i:2659928 original size:18 final size:18
Alignment explanation
Indices: 2659896--2659945 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
2659886 TTTTTAAAAA
*
2659896 TATAATTTT-AAATATTT
1 TATATTTTTAAAATATTT
2659913 TATATTTTTAAAATATTT
1 TATATTTTTAAAATATTT
2659931 TAATACTTTTTAAAA
1 T-ATA-TTTTTAAAA
2659946 CTAATTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 8 0.28
18 9 0.31
19 3 0.10
20 9 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATTTTTAAAATATTT
Found at i:2663258 original size:24 final size:24
Alignment explanation
Indices: 2663209--2663258 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
2663199 TATTATGAAC
*
2663209 TTATATATGCCTTATCTAAGTCGA
1 TTATATATGCCTTATCTAAATCGA
* *
2663233 TTATATATGCTTTATCTAAATTGA
1 TTATATATGCCTTATCTAAATCGA
2663257 TT
1 TT
2663259 GCTATAAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (24 bp):
TTATATATGCCTTATCTAAATCGA
Found at i:2663733 original size:21 final size:20
Alignment explanation
Indices: 2663709--2663755 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2663699 TTAGATAAAC
2663709 ATTTATTTAAAATTGATTTCA
1 ATTTATTT-AAATTGATTTCA
**
2663730 ATTTTATTTATCTTGATTTCA
1 A-TTTATTTAAATTGATTTCA
2663751 ATTTA
1 ATTTA
2663756 ATTATTACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 12 0.52
22 7 0.30
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTATTTAAATTGATTTCA
Found at i:2663735 original size:133 final size:136
Alignment explanation
Indices: 2663564--2663827 Score: 322
Period size: 133 Copynumber: 1.9 Consensus size: 136
2663554 ATTTATAAAT
* * * * *
2663564 TTTTTTGATAAATATTTATTGAAATTTATTTTAATTTTATTTATATCAATTTCAA-T-TTATTAC
1 TTTTTAGATAAACATTTATTAAAATTGATTTCAATTTTATTTATATCAATTTCAATTATTATTAC
* * *
2663627 CCAATTTTGTCGCGT-A-TTCAAACTAAA-CTTGATTCCAAGTTTATCATTTAAACTTTTAAATT
66 CCAA-TTTGTCGCCTAATTTCAAACTAAACCTTGATTCCAACTTTATCATTTAAACCTTTAAATT
2663689 ATAGAGA
130 ATAGAGA
* **
2663696 TTTTTAGATAAACATTTATTTAAAATTGATTTCAATTTTATTTATCTTGATTTCAATTTAATTAT
1 TTTTTAGATAAACATTTA-TTAAAATTGATTTCAATTTTATTTATATCAATTTCAA-TT-ATTAT
* * *
2663761 TACCCAATTTGTTGCCTACATTTCAAAGTAAACCTTGATTCTAACTTTATCATTTAAACCTTTAA
63 TACCCAATTTGTCGCCTA-ATTTCAAACTAAACCTTGATTCCAACTTTATCATTTAAACCTTTAA
2663826 AT
127 AT
2663828 GCACAGATTT
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
132 16 0.15
133 31 0.28
135 1 0.01
136 8 0.07
137 11 0.10
138 1 0.01
139 10 0.09
140 31 0.28
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (136 bp):
TTTTTAGATAAACATTTATTAAAATTGATTTCAATTTTATTTATATCAATTTCAATTATTATTAC
CCAATTTGTCGCCTAATTTCAAACTAAACCTTGATTCCAACTTTATCATTTAAACCTTTAAATTA
TAGAGA
Found at i:2663979 original size:2 final size:2
Alignment explanation
Indices: 2663972--2663999 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2663962 TATATTTTAG
2663972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2664000 GATTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2664063 original size:17 final size:17
Alignment explanation
Indices: 2664042--2664084 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2664032 AAATAACTAA
2664042 AAATATATTTTTTAAAT
1 AAATATATTTTTTAAAT
* * *
2664059 TAATATATATTTTCAAT
1 AAATATATTTTTTAAAT
2664076 AAATATATT
1 AAATATATT
2664085 AAAAATATAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AAATATATTTTTTAAAT
Found at i:2664064 original size:15 final size:15
Alignment explanation
Indices: 2664046--2664127 Score: 51
Period size: 15 Copynumber: 5.3 Consensus size: 15
2664036 AACTAAAAAT
2664046 ATATTTTTTAAATTA
1 ATATTTTTTAAATTA
* *
2664061 ATATATATTTTCAATAA
1 ATAT-T-TTTTAAATTA
* **
2664078 ATATATTAAAAATATA
1 ATATTTTTTAAAT-TA
*
2664094 ATA-ATTTTAATATT-
1 ATATTTTTTAA-ATTA
2664108 ATATTTTTTAAAATTA
1 ATATTTTTT-AAATTA
2664124 ATAT
1 ATAT
2664128 ATGATTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
14 3 0.06
15 22 0.44
16 13 0.26
17 12 0.24
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
ATATTTTTTAAATTA
Found at i:2664143 original size:23 final size:21
Alignment explanation
Indices: 2664100--2664141 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2664090 TATAATAATT
2664100 TTAATATTATATTTTTTAAAA
1 TTAATATTATATTTTTTAAAA
2664121 TTAATA-TATGATTTTTTAAAA
1 TTAATATTAT-ATTTTTTAAAA
2664142 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TTAATATTATATTTTTTAAAA
Found at i:2664199 original size:18 final size:19
Alignment explanation
Indices: 2664167--2664213 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2664157 AGAATTATTT
*
2664167 TAAAATTACAATTTTAAATA
1 TAAAATTA-ATTTTTAAATA
*
2664187 TATAATTAATTTTTTAAATA
1 TAAAATTAA-TTTTTAAATA
2664207 TAAAATT
1 TAAAATT
2664214 TTATTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAAATTAATTTTTAAATA
Found at i:2664329 original size:13 final size:13
Alignment explanation
Indices: 2664313--2664338 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2664303 TATTTATTAA
2664313 ATTTATTAAAAAT
1 ATTTATTAAAAAT
2664326 ATTTATTAAAAAT
1 ATTTATTAAAAAT
2664339 TACTTTCTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTATTAAAAAT
Found at i:2666418 original size:32 final size:33
Alignment explanation
Indices: 2666356--2666448 Score: 125
Period size: 32 Copynumber: 2.8 Consensus size: 33
2666346 TAAAATATCA
2666356 ATATAAAATAAATATATTAAAATATTAAAATTT
1 ATATAAAATAAATATATTAAAATATTAAAATTT
* *
2666389 ATATAAAATAAAT-TATTTATATATTAAAATTT
1 ATATAAAATAAATATATTAAAATATTAAAATTT
*
2666421 ATATAAATATTAAATATTTTAAATATAT
1 ATATAAA-A-TAAATATATTAAA-ATAT
2666449 AAATAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
32 24 0.47
33 14 0.27
34 5 0.10
35 4 0.08
36 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
ATATAAAATAAATATATTAAAATATTAAAATTT
Found at i:2666420 original size:14 final size:14
Alignment explanation
Indices: 2666377--2666425 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
2666367 ATATATTAAA
2666377 ATATTAAAATTTAT
1 ATATTAAAATTTAT
*
2666391 ATAAAATAAATTATTTAT
1 AT--ATTAAA--ATTTAT
2666409 ATATTAAAATTTAT
1 ATATTAAAATTTAT
2666423 ATA
1 ATA
2666426 AATATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.38
16 10 0.34
18 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTAAAATTTAT
Found at i:2666422 original size:18 final size:17
Alignment explanation
Indices: 2666377--2666439 Score: 51
Period size: 18 Copynumber: 3.7 Consensus size: 17
2666367 ATATATTAAA
2666377 ATATTAAAATTTA-TAT
1 ATATTAAAATTTATTAT
* *
2666393 AAAAT-AAA-TTATTTAT
1 ATATTAAAATTTA-TTAT
*
2666409 ATATTAAAATTTATATAA
1 ATATTAAAATTTAT-TAT
2666427 ATATTAAATATTT
1 ATATTAAA-ATTT
2666440 TAAATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 9 0.25
17 4 0.11
18 13 0.36
19 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATTAAAATTTATTAT
Found at i:2666448 original size:18 final size:20
Alignment explanation
Indices: 2666407--2666453 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
2666397 TAAATTATTT
2666407 ATATATTAAA-ATTTATATA
1 ATATATTAAATATTTATATA
2666426 A-ATATTAAATATTT-TA-A
1 ATATATTAAATATTTATATA
2666443 ATATA-TAAATA
1 ATATATTAAATA
2666454 AATAAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATTAAATATTTATATA
Found at i:2666453 original size:8 final size:8
Alignment explanation
Indices: 2666420--2666462 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
2666410 TATTAAAATT
2666420 TATATAAA
1 TATATAAA
2666428 TAT-TAAA
1 TATATAAA
*
2666435 TATTTTAAA
1 TA-TATAAA
2666444 TATATAAA
1 TATATAAA
*
2666452 TAAATAAA
1 TATATAAA
2666460 TAT
1 TAT
2666463 CATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
7 6 0.20
8 18 0.60
9 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TATATAAA
Found at i:2668045 original size:15 final size:15
Alignment explanation
Indices: 2668019--2668064 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2668009 TATTTAACTG
*
2668019 TTTAAGTAAATTAAA
1 TTTAATTAAATTAAA
*
2668034 TTTTATTAAATT-AA
1 TTTAATTAAATTAAA
2668048 TTTAATTAAAATTAAA
1 TTTAATT-AAATTAAA
2668064 T
1 T
2668065 AGTAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 8 0.31
15 15 0.58
16 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATTAAA
Found at i:2674007 original size:2 final size:2
Alignment explanation
Indices: 2673995--2674028 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2673985 GTATGTGGAT
*
2673995 TC TC AC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2674029 ATGCATGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:2674303 original size:24 final size:24
Alignment explanation
Indices: 2674274--2674319 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2674264 GTTGATCAGT
*
2674274 TTTTCCTGCTTTGGCCACAAGGAA
1 TTTTCCCGCTTTGGCCACAAGGAA
*
2674298 TTTTCCCGCTTTGGCCGCAAGG
1 TTTTCCCGCTTTGGCCACAAGG
2674320 GGAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (24 bp):
TTTTCCCGCTTTGGCCACAAGGAA
Found at i:2680931 original size:2 final size:2
Alignment explanation
Indices: 2680924--2680951 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2680914 GTCTTATTAC
2680924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2680952 GGATATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2681424 original size:2 final size:2
Alignment explanation
Indices: 2681417--2681449 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2681407 ACAGTTAGGA
2681417 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2681450 GCTAATTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2684963 original size:4 final size:4
Alignment explanation
Indices: 2684954--2684986 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
2684944 CGCATACACA
2684954 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
2684987 CTGTCTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2685549 original size:8 final size:8
Alignment explanation
Indices: 2685538--2685563 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2685528 ATATATATAT
2685538 ATATATCC
1 ATATATCC
2685546 ATATATCC
1 ATATATCC
2685554 ATATATCC
1 ATATATCC
2685562 AT
1 AT
2685564 TCATCAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATATCC
Found at i:2685559 original size:2 final size:2
Alignment explanation
Indices: 2685506--2685543 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2685496 TCAGTGAGTG
2685506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2685544 CCATATATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2685803 original size:2 final size:2
Alignment explanation
Indices: 2685796--2685824 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2685786 ATGTTTCATA
2685796 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2685825 ATGAATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.