Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 91
Found at i:2659586 original size:18 final size:18
Alignment explanation
Indices: 2659530--2659597 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
2659520 TCACTCATTA
2659530 ATGCATCGATGCACTCACC
1 ATGCATCGATGCACT-ACC
***
2659549 AT--ATCGAATGCA-TTTT
1 ATGCATCG-ATGCACTACC
2659565 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
*
2659583 ATGCATCGATACACT
1 ATGCATCGATGCACT
2659598 CAGGTTTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 2 0.05
17 10 0.26
18 24 0.63
19 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (18 bp):
ATGCATCGATGCACTACC
Found at i:2659632 original size:64 final size:63
Alignment explanation
Indices: 2659555--2659707 Score: 202
Period size: 64 Copynumber: 2.4 Consensus size: 63
2659545 CACCATATCG
2659555 AATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGG-TT-TTATGAAAAACATC
1 AATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGGCTTGTT-T--AAAACATC
2659618 A
63 A
* * * * * *
2659619 AATGCATTTTATGCATCGATGCACAGACTATGCATTGATGCACTCAGGCTTGTTTAAAATATCG
1 AATGCATTTTATGCATCGATGCAC-TACCATGCATCGATACACTCAGGCTTGTTTAAAACATCA
2659683 AATGCATTTTATGCATCGATGCACT
1 AATGCATTTTATGCATCGATGCACT
2659708 CAGGCTTGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
64 55 0.70
65 19 0.24
66 3 0.04
67 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (63 bp):
AATGCATTTTATGCATCGATGCACTACCATGCATCGATACACTCAGGCTTGTTTAAAACATCA
Found at i:2659698 original size:45 final size:45
Alignment explanation
Indices: 2659647--2659798 Score: 259
Period size: 45 Copynumber: 3.4 Consensus size: 45
2659637 ATGCACAGAC
*
2659647 TATGCATTGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
1 TATGCATCGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
2659692 TATGCATCGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
1 TATGCATCGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
* *
2659737 TATGCATCGATGCACTCAGACTTGTTTAAAATATTGAATGCATTT
1 TATGCATCGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
* *
2659782 GATGCATTGATGCACTC
1 TATGCATCGATGCACTC
2659799 TTAGTGCACT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 102 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (45 bp):
TATGCATCGATGCACTCAGGCTTGTTTAAAATATCGAATGCATTT
Found at i:2660926 original size:31 final size:35
Alignment explanation
Indices: 2660880--2660943 Score: 100
Period size: 33 Copynumber: 1.9 Consensus size: 35
2660870 CTTATTCAAA
2660880 TTCCTACAACTATGTTGGAGC-ATT-CCAACTTAT
1 TTCCTACAACTATGTTGGAGCTATTACCAACTTAT
2660913 TTCCTA-AA-TATGTTGGAGCTATTACCAACTT
1 TTCCTACAACTATGTTGGAGCTATTACCAACTT
2660944 TTCCAACTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 11 0.38
32 5 0.17
33 13 0.45
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (35 bp):
TTCCTACAACTATGTTGGAGCTATTACCAACTTAT
Found at i:2672036 original size:19 final size:19
Alignment explanation
Indices: 2672012--2672060 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
2672002 AAAAACGCTT
2672012 TATGAACAGTAATATACGG
1 TATGAACAGTAATATACGG
* * **
2672031 TATGAACAATATTATATTG
1 TATGAACAGTAATATACGG
2672050 TATGAACAGTA
1 TATGAACAGTA
2672061 CTGTGATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (19 bp):
TATGAACAGTAATATACGG
Found at i:2673751 original size:19 final size:19
Alignment explanation
Indices: 2673727--2673772 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2673717 AAAAACGTTT
*
2673727 TATGAATAGTAATT-TATTA
1 TATGAACAGT-ATTATATTA
*
2673746 TATGAACAGTATTATATTG
1 TATGAACAGTATTATATTA
2673765 TATGAACA
1 TATGAACA
2673773 ATAATGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (19 bp):
TATGAACAGTATTATATTA
Found at i:2676347 original size:15 final size:16
Alignment explanation
Indices: 2676327--2676357 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2676317 AGTTTTTCTC
2676327 TTTTTTTTGCTTTTTT
1 TTTTTTTTGCTTTTTT
2676343 TTTTTTTTGCTTTTT
1 TTTTTTTTGCTTTTT
2676358 GAAACTCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.87
Consensus pattern (16 bp):
TTTTTTTTGCTTTTTT
Found at i:2676819 original size:23 final size:23
Alignment explanation
Indices: 2676789--2676833 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2676779 AACTGGTTTG
2676789 GGCTCCAGGTTTGCTTGTAATTA
1 GGCTCCAGGTTTGCTTGTAATTA
*
2676812 GGCTCCAGGTTTGTTTGTAATT
1 GGCTCCAGGTTTGCTTGTAATT
2676834 GGACTCGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.42
Consensus pattern (23 bp):
GGCTCCAGGTTTGCTTGTAATTA
Found at i:2677980 original size:402 final size:400
Alignment explanation
Indices: 2677126--2678249 Score: 1239
Period size: 402 Copynumber: 2.8 Consensus size: 400
2677116 AGATTGAATC
* * * * * * * *
2677126 GATTGAATCGGGGA-AGACTTATTCCGCTGTTACTCAGGGAATATTAAATCTTGAAAGAGAGGGA
1 GATTGAATC-GGGACAAACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAATAGAGAGA
* ** * *** * * * *
2677190 TTTGTTCCACTTTTTTTTTGAGGAAATATCAGATTTGGGGATGTTGATCCATTCTGTTATAACTC
65 TATGTTCTGC-TTCTTCCAGAGGGAATATCAGATTTGGGGATGTTGATCCATTCCGCTATCACTC
* * *
2677255 AGGGAAGATTGAATCGGGGCAGACTTGTTAT-GTTGTTACTTA-AGGAATATCATATCCTGAAAG
129 AGGGAAGATTGAATCGGGGCAGACTTGTT-TCGTTGTTAC-TACGGGAATATCAAATCTTGAAAG
* * * * * * * *
2677318 AGAGGGATATGTTCTGCTTCTTC-CGAAGAGAATATCAAATCTGGGGGAGTTTACCCATTCTGCT
192 AGATGGATTTTTTCCGCTTCTTCTAG-AGGGAATATCAAATCT-GGGGAGTTGATCCATTCTGCT
* ** * * * *
2677382 GTCACTTAGGGAAGATTGAATC-ATGCAGACTTGTTCCGCTGTAACTCAAGGAATATCAATTCTT
255 GTCACTTA-GGAAAATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT
* * * *
2677446 GGAAGAGAATGATATGTTCCACTTCGTCTAAAGAGAATATCAGATCTGGGGGAGTTGATCCATTT
319 AGAAGAGAATGATATGTTACACTTCGTCTAAAGAGAATATCAGATCTAGAGGAGTTGATCCATTT
* * *
2677511 CGCTGTCACTCAAGGAA
384 CACTATCACTCAAGAAA
* * *
2677528 GATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT-AAA-AGAGATGG
1 GATTGAATCGGGACAAACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAATAGAGA--G
* * * *
2677591 ATATGTTCTGCTTCTTCCAGAGGGAATATCATATATGGGGATATTGATCCATTCCGCTATCACTT
64 ATATGTTCTGCTTCTTCCAGAGGGAATATCAGATTTGGGGATGTTGATCCATTCCGCTATCACTC
* *
2677656 AGGGAAGATTGACTTGGGGCAGACTTGTTTCGTTGTTA-TACGGGGAATATCAAATCTTGAAAGA
129 AGGGAAGATTGAATCGGGGCAGACTTGTTTCGTTGTTACTAC-GGGAATATCAAATCTTGAAAGA
* * * *
2677720 GATAGATTTTTTCCGCTTCTTCTAGAGGGAATATCAGATCTGGGGATGTTGATCCATTCCGCTTT
193 GATGGATTTTTTCCGCTTCTTCTAGAGGGAATATCAAATCTGGGGA-GTTGATCCATTCTGCTGT
* *
2677785 CACTCAGGAATAATTGAATCGGGGCAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTTAG
257 CACTTAGGAA-AATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAG
* * * * *
2677850 AAGAG-ATGGATATGTTATATTTCTTCTAAATTA-AATATTAGATCTAGAGGAGTTGATCCATTT
321 AAGAGAAT-GATATGTTACACTTCGTCTAAA-GAGAATATCAGATCTAGAGGAGTTGATCCATTT
2677913 CACTATCACTCGAA-AAA
384 CACTATCACTC-AAGAAA
* * * *
2677930 TATTGAATCGGGACAAATTTGTTCCATTGTCACTCAAGGAATATCAAATCTTGAAATATAGAGAT
1 GATTGAATCGGGACAAACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAATAGAGAGAT
* * * * *
2677995 ATGTTCTGCTTTTTCTAGAGGGAATATCAGATTTGGGGACGTTGATCCATTTCGCTGTCACTCAG
66 ATGTTCTGCTTCTTCCAGAGGGAATATCAGATTTGGGGATGTTGATCCATTCCGCTATCACTCAG
* * * * *
2678060 AGAAGATTGAATCGGGGCAAACTTGTTCCGTTATTACT-CAGGGAATATTAAATCTTGAAAGAGA
131 GGAAGATTGAATCGGGGCAGACTTGTTTCGTTGTTACTAC-GGGAATATCAAATCTTGAAAGAGA
* * *
2678124 TGGATATGTTT-CGCTTCTTCTAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCTGCTGTC
195 TGGAT-TTTTTCCGCTTCTTCTAGAGGGAATATCAAATC-TGGGGAGTTGATCCATTCTGCTGTC
**
2678188 ACTTAATAAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT
258 ACTTAGGAAA-ATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTT
2678250 GAAAAAGAGG
Statistics
Matches: 610, Mismatches: 93, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
399 2 0.00
400 14 0.02
401 162 0.27
402 411 0.67
403 17 0.03
404 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (400 bp):
GATTGAATCGGGACAAACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAATAGAGAGAT
ATGTTCTGCTTCTTCCAGAGGGAATATCAGATTTGGGGATGTTGATCCATTCCGCTATCACTCAG
GGAAGATTGAATCGGGGCAGACTTGTTTCGTTGTTACTACGGGAATATCAAATCTTGAAAGAGAT
GGATTTTTTCCGCTTCTTCTAGAGGGAATATCAAATCTGGGGAGTTGATCCATTCTGCTGTCACT
TAGGAAAATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAGAAGAG
AATGATATGTTACACTTCGTCTAAAGAGAATATCAGATCTAGAGGAGTTGATCCATTTCACTATC
ACTCAAGAAA
Found at i:2678270 original size:268 final size:268
Alignment explanation
Indices: 2677126--2678291 Score: 1170
Period size: 268 Copynumber: 4.4 Consensus size: 268
2677116 AGATTGAATC
* * * * *
2677126 GATTGAATCGGGGAAGACTTATTCCGCTGTTACTCAGGGAATATTAAATCTTGAAAGAGAGGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAGAT
* * * * * * *
2677191 TTGTTCCACTTTTTTTTTGAGGAAATATCAGATTTGGGGATGTTGATCCA-TTCTGTTATAACTC
66 TTGTTCCGC-TTTTTCTAGAGGGAATATCAGATTTGGGGATGTTGATCCATTTC-GCTGTCACTC
* **** * * * * *
2677255 AGGGAAGATTGAATCGGGGCAGACTTGTTATGTTGTTACTTAAGGAATATCATATCCTGAAAGAG
129 AGAGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAG
* * * * * * * *
2677320 AGGGATATGTTCTGCTTCTTCCGAAGAGAATATCAAATCTGGGGGAGTTTACCCATTCTGCTGTC
194 ATGGATATGTTCTGCTTCTTCCAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCTGCTATC
* *
2677385 ACTTAGGGAA
259 ACTTAAGAAA
** * * * *
2677395 GATTGAATC-ATGCAGACTTGTTCCGCTGTAACTCAAGGAATATCAATTCTTGGAAGAGA-ATGA
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGA-GA
* * ** * * *
2677458 TATGTTCCACTTCGTCTAAAGAGAATATCAGATCTGGGGGA-GTTGATCCATTTCGCTGTCACTC
65 TTTGTTCCGCTTTTTCTAGAGGGAATATCAGAT-TTGGGGATGTTGATCCATTTCGCTGTCACTC
*
2677522 A-AGGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAAAAGA
129 AGA-GAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGA
* * * *
2677586 GATGGATATGTTCTGCTTCTTCCAGAGGGAATATCATAT-ATGGGGATATTGATCCATTCCGCTA
193 GATGGATATGTTCTGCTTCTTCCAAAGGGAATATCATATCTTGGGGA-GTTGATCCATTCTGCTA
* *
2677650 TCACTTAGGGAA
257 TCACTTAAGAAA
* * * * * * *
2677662 GATTGACTTGGGGCAGACTTGTTTCGTTGTTA-TACGGGGAATATCAAATCTTGAAAGAGATAGA
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACT-CAGGGAATATCAAATCTTGAAAGAGAGAGA
* * * * *
2677726 TTTTTTCCGCTTCTTCTAGAGGGAATATCAGATCTGGGGATGTTGATCCATTCCGCTTTCACTCA
65 TTTGTTCCGCTTTTTCTAGAGGGAATATCAGATTTGGGGATGTTGATCCATTTCGCTGTCACTCA
* *
2677791 G-GAATAATTGAATCGGGGCAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTT-AGAAGA
130 GAGAA-GATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGA-AAGA
* ** * *** * * * * *
2677854 GATGGATATGTTATATTTCTTCTAAATTAAATATTAGATCTAGAGGAGTTGATCCATT-TCACTA
193 GATGGATATGTTCTGCTTCTTCCAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCT-GCTA
*
2677918 TCACTCGAA-AAA
257 TCACT-TAAGAAA
* * * * ** * * *
2677930 TATTGAATCGGGACAAATTTGTTCCATTGTCACTCAAGGAATATCAAATCTTGAAATATAGAGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAGAT
* * *
2677995 ATGTTCTGCTTTTTCTAGAGGGAATATCAGATTTGGGGACGTTGATCCATTTCGCTGTCACTCAG
66 TTGTTCCGCTTTTTCTAGAGGGAATATCAGATTTGGGGATGTTGATCCATTTCGCTGTCACTCAG
* ** * * *
2678060 AGAAGATTGAATCGGGGCAAACTTGTTCCGTTATTACTCAGGGAATATTAAATCTTGAAAGAGAT
131 AGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAT
* *
2678125 GGATATGTT-TCGCTTCTTCTAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCTGCTGTCA
196 GGATATGTTCT-GCTTCTTCCAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCTGCTATCA
*
2678189 CTTAATAAA
260 CTTAAGAAA
* * *
2678198 GATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAGAT
* * *
2678263 TTGTTCTGATTTTTGT-GAAGGGAATATCA
66 TTGTTCCGCTTTTTCTAG-AGGGAATATCA
2678292 AATATGAAAT
Statistics
Matches: 734, Mismatches: 141, Indels: 45
0.80 0.15 0.05
Matches are distributed among these distances:
266 5 0.01
267 163 0.22
268 545 0.74
269 21 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (268 bp):
GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGAGAT
TTGTTCCGCTTTTTCTAGAGGGAATATCAGATTTGGGGATGTTGATCCATTTCGCTGTCACTCAG
AGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAGAGAT
GGATATGTTCTGCTTCTTCCAAAGGGAATATCATATCTTGGGGAGTTGATCCATTCTGCTATCAC
TTAAGAAA
Found at i:2678284 original size:134 final size:135
Alignment explanation
Indices: 2677126--2678291 Score: 1054
Period size: 134 Copynumber: 8.7 Consensus size: 135
2677116 AGATTGAATC
* * * *
2677126 GATTGAATCGGGGAAGACTTATTCCGCTGTTACTCAGGGAATATTAAATCTTGAAAGAGAGGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* ** * * ** * * * *
2677191 TTGTTCCACTTTTTTTTTGAGGAAATATCAGAT-TTGGGGATGTTGATCCATTCTGTTATAACTC
66 ATGTTCTGC-TTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTC
*
2677255 AGGGAA
130 AAGGAA
** * * * * * *
2677261 GATTGAATCGGGGCAGACTTGTTATGTTGTTACTTAAGGAATATCATATCCTGAAAGAGAGGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
** * * * * * *
2677326 ATGTTCTGCTTCTTCCGAAGAGAATATCAAATCTGGGGGA-GTTTACCCATTCTGCTGTCACTTA
66 ATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTCA
*
2677390 GGGAA
131 AGGAA
** * * * * **
2677395 GATTGAATC-ATGCAGACTTGTTCCGCTGTAACTCAAGGAATATCAATTCTTGGAAGAGAATGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
** * * *
2677459 ATGTTCCACTTCGTCTAAAGAGAATATCAGATCTGGGGGA-GTTGATCCATT-TCGCTGTCACTC
66 ATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCT-GCTGTCACTC
2677522 AAGGAA
130 AAGGAA
* * *
2677528 GATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAAAAGAGATGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* * * * * * * *
2677593 ATGTTCTGCTTCTTCCAGAGGGAATATCATAT-ATGGGGATATTGATCCATTCCGCTATCACTTA
66 ATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTCA
*
2677657 GGGAA
131 AGGAA
* * * * * * **
2677662 GATTGACTTGGGGCAGACTTGTTTCGTTGTTA-TACGGGGAATATCAAATCTTGAAAGAGATAGA
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACT-CAGGGAATATCAAATCTTGAAAGAGAGGGA
* * * * * *
2677726 TTTTTTCCGCTTCTTCTAGAGGGAATATCAGATC-TGGGGATGTTGATCCATTCCGCTTTCACTC
65 TATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTC
2677790 -AGGAA
130 AAGGAA
* * * *
2677795 TAATTGAATCGGGGCAGACTTGTTTCACTGTCACTCAGGGAATATCAAATCTT-AGAAGAGATGG
1 -GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGA-AAGAGAGGG
* ** *** * * * * *
2677859 ATATGTTATATTTCTTCTAAATTAAATATTAGATCTAGAGGA-GTTGATCCATT-TCACTATCAC
64 ATATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCT-GCTGTCAC
*
2677922 TCGAA-AAA
128 TC-AAGGAA
* * * * ** * * * *
2677930 TATTGAATCGGGACAAATTTGTTCCATTGTCACTCAAGGAATATCAAATCTTGAAATATAGAGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* * *
2677995 ATGTTCTGCTTTTTCTAGAGGGAATATCAGAT-TTGGGGACGTTGATCCATT-TCGCTGTCACTC
66 ATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCT-GCTGTCACTC
2678058 -AGAGAA
130 AAG-GAA
* * * * * *
2678064 GATTGAATCGGGGCAAACTTGTTCCGTTATTACTCAGGGAATATTAAATCTTGAAAGAGATGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* *
2678129 ATGTT-TCGCTTCTTCTAAAGGGAATATCATATCTTGGGGA-GTTGATCCATTCTGCTGTCACTT
66 ATGTTCT-GCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTC
**
2678192 AATAAA
130 AAGGAA
* *
2678198 GATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGAAAAAGAGGGAT
1 GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
* * * * *
2678263 TTGTTCTGATTTTTGTGAAGGGAATATCA
66 ATGTTCTGCTTCTTCTAAAGGGAATATCA
2678292 AATATGAAAT
Statistics
Matches: 834, Mismatches: 174, Indels: 47
0.79 0.16 0.04
Matches are distributed among these distances:
132 2 0.00
133 125 0.15
134 621 0.74
135 85 0.10
136 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (135 bp):
GATTGAATCGGGGCAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGAT
ATGTTCTGCTTCTTCTAAAGGGAATATCAGATCTTGGGGATGTTGATCCATTCTGCTGTCACTCA
AGGAA
Found at i:2679962 original size:2 final size:2
Alignment explanation
Indices: 2679955--2680030 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
2679945 CTTTATCGTT
2679955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2679997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2680031 CCTTTATCGG
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2686552 original size:3 final size:3
Alignment explanation
Indices: 2686544--2686631 Score: 119
Period size: 3 Copynumber: 29.7 Consensus size: 3
2686534 AATAAAATGG
*
2686544 AAT AAT AAT AAT AAT AAT AAT AAT AAT ACA- AAT -AC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
*
2686588 AAT AAT AAT -AC AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AA
2686632 AAAAAGTTAG
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
2 3 0.04
3 69 0.91
4 4 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2686584 original size:20 final size:19
Alignment explanation
Indices: 2686544--2686633 Score: 114
Period size: 20 Copynumber: 4.7 Consensus size: 19
2686534 AATAAAATGG
2686544 AATAATAATAATAAT--AAT
1 AATAATAATAA-AATACAAT
2686562 AATAATAATACAAATACAAT
1 AATAATAATA-AAATACAAT
2686582 AATAATAATAATAATACAAT
1 AATAATAATAA-AATACAAT
*
2686602 AATAATAAT-AAATAATAAT
1 AATAATAATAAAAT-ACAAT
2686621 AATAATAATAAAA
1 AATAATAATAAAA
2686634 AAAGTTAGTA
Statistics
Matches: 65, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
18 16 0.25
19 16 0.25
20 33 0.51
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAATAATAAAATACAAT
Found at i:2693481 original size:30 final size:33
Alignment explanation
Indices: 2693414--2693485 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 33
2693404 TTCTTCGATA
2693414 TTAAAAAATAAATAAATAATTAAAACATTTTCT
1 TTAAAAAATAAATAAATAATTAAAACATTTTCT
2693447 TTAAAATAAT-AAT-AATAA-TAAAACATTTTC-
1 TTAAAA-AATAAATAAATAATTAAAACATTTTCT
2693477 TTAAAAAAT
1 TTAAAAAAT
2693486 TCATTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 3 0.08
30 6 0.16
31 12 0.32
32 5 0.13
33 9 0.24
34 3 0.08
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (33 bp):
TTAAAAAATAAATAAATAATTAAAACATTTTCT
Found at i:2693742 original size:17 final size:17
Alignment explanation
Indices: 2693713--2693746 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2693703 AATAAACATA
2693713 TAAAATAATAAATTAAAT
1 TAAAATAATAAA-TAAAT
2693731 TAAAAT-ATAAATAAAT
1 TAAAATAATAAATAAAT
2693747 AGTGACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATAATAAATAAAT
Found at i:2695267 original size:3 final size:3
Alignment explanation
Indices: 2695254--2695315 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
2695244 TTGTAATATT
2695254 TAA TAAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
2695299 TAA TGA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TA
2695316 GAATGAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 48 0.91
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:2695277 original size:26 final size:26
Alignment explanation
Indices: 2695254--2695315 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
2695244 TTGTAATATT
2695254 TAATAAATAATAATAATAATAATATAA
1 TAAT-AATAATAATAATAATAATATAA
2695281 TAATAATAATAATAATAATAATGATAA
1 TAATAATAATAATAATAATAAT-ATAA
*
2695308 AAATAATA
1 TAATAATA
2695316 GAATGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (26 bp):
TAATAATAATAATAATAATAATATAA
Found at i:2695562 original size:45 final size:45
Alignment explanation
Indices: 2695489--2695602 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
2695479 TCAAAAAGCT
* * * *
2695489 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATAA
*
2695536 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATAA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATAA
* *
2695581 CCCGAAGGCTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
2695603 AAAAGCTCCC
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 51 0.86
47 8 0.14
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATAA
Found at i:2695589 original size:121 final size:121
Alignment explanation
Indices: 2695425--2695717 Score: 523
Period size: 121 Copynumber: 2.4 Consensus size: 121
2695415 TCTTGAAATG
* * *
2695425 TTGAAAACATCATGCACTGAAGGACTTACAAATGACCCGAAGGCTTTGAAAATATCAAAAAGCTC
1 TTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTC
*
2695490 CCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTT
66 CCGAAGACTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTT
*
2695546 TTGAAAGCATCATGCACTGAAGGGCTTACAGATAACCCGAAGGCTTTGAAAATATCAAAAAGCTC
1 TTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTC
2695611 CCGAAGACTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTT
66 CCGAAGACTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTT
* *
2695667 TTGAAGGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAA
1 TTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAA
2695718 GCATCATGCA
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 164 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (121 bp):
TTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTC
CCGAAGACTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTT
Found at i:2695683 original size:45 final size:45
Alignment explanation
Indices: 2695620--2695807 Score: 322
Period size: 45 Copynumber: 4.2 Consensus size: 45
2695610 CCCGAAGACT
* * * *
2695620 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGG
1 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
2695665 TTTTGAAGGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
2695710 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
2695755 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
2695800 CTTTGAAA
1 TTTTGAAA
2695808 TATCAAAAAG
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (45 bp):
TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:2695901 original size:45 final size:45
Alignment explanation
Indices: 2695830--2695933 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
2695820 CCCAAAGGTT
* * * *
2695830 TTTTGAAAACATCCTGCAGTGCAGGGCTTACGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
2695875 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
*
2695920 TTTTGAAAATATCA
1 TTTTGAAAACATCA
2695934 AAAAGCTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG
Found at i:2695901 original size:210 final size:211
Alignment explanation
Indices: 2695489--2695933 Score: 766
Period size: 210 Copynumber: 2.1 Consensus size: 211
2695479 TCAAAAAGCT
* * *
2695489 CCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAGC
*
2695554 ATCATGCACTGAAGGGCTTACAGATAACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCGAAGAC
64 ATCATGCACTGAAGGGCTTACAGATAACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGAC
*
2695619 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAGGCATCATGCAC
129 TTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCAC
2695684 TGAAGGGCTTACAGATGA
194 TGAAGGGCTTACAGATGA
*
2695702 CCCGAAGGTTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAGCAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAGCAT
* **
2695767 CATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTG-AAATATCAAAAAGCTCCCAAAGGTTT
66 CATGCACTGAAGGGCTTACAGATAACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGACTT
*
2695831 TTTGAAAACATCCTGCAGTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACTG
131 TTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACTG
2695896 AAGGGCTTACAGATGA
196 AAGGGCTTACAGATGA
*
2695912 CCCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
2695934 AAAAGCTCCT
Statistics
Matches: 220, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
210 122 0.55
211 90 0.41
213 8 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (211 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAGCAT
CATGCACTGAAGGGCTTACAGATAACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGACTT
TTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACTG
AAGGGCTTACAGATGA
Found at i:2695925 original size:120 final size:121
Alignment explanation
Indices: 2695710--2696009 Score: 485
Period size: 120 Copynumber: 2.5 Consensus size: 121
2695700 GACCCGAAGG
* * * *
2695710 TTTTGAAAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAGCATCATGCACT
1 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
*
2695775 GAAGGGCTTACAGATGACCCGAAGGCTTTG-AAATATCAAAAAGCTCCCAAAGGTT
66 GAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGGCT
*
2695830 TTTTGAAAACATCCTGCAGTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
1 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
* **
2695895 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCAAAAAGCTCCTGAAGGCT
66 GAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGGCT
* * *
2695951 TTTTGAAAACATCCTGCACTTCAGGGCTTACGGATAACCCGAAGGTTTTGAAAACATCA
1 TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCA
2696010 AACATGACCC
Statistics
Matches: 166, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
120 89 0.54
121 77 0.46
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (121 bp):
TTTTGAAAACATCCTGCACTGCAGGGCTTACGGATGACCCGAAGGTTTTGAAAGCATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGCTTTGAAAATATCAAAAAGCTCCCAAAGGCT
Found at i:2696094 original size:32 final size:32
Alignment explanation
Indices: 2696053--2696114 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2696043 CATCTATTTT
2696053 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
2696085 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
2696115 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:2697279 original size:16 final size:15
Alignment explanation
Indices: 2697249--2697284 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2697239 TTATCTTGTC
2697249 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
2697264 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
2697280 TATAT
1 TATAT
2697285 CTTAAATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:2699323 original size:8 final size:8
Alignment explanation
Indices: 2699310--2699361 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 8
2699300 CTTGACCCCC
2699310 TCTTTTTT
1 TCTTTTTT
2699318 TC-TTTTT
1 TCTTTTTT
2699325 TCTTTTTT
1 TCTTTTTT
2699333 TCTTCTTCTTCT
1 TC-T-TT-TT-T
2699345 TCTCTTTTT
1 TCT-TTTTT
2699354 TCTTTTTT
1 TCTTTTTT
2699362 CTTCTTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.18
8 14 0.36
9 5 0.13
10 4 0.10
11 6 0.15
12 3 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (8 bp):
TCTTTTTT
Found at i:2699338 original size:3 final size:3
Alignment explanation
Indices: 2699332--2699375 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
2699322 TTTTCTTTTT
2699332 TTC TTC TTC TTC TTC -TC TT- TT- TTC TT- TT- TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2699375 T
1 T
2699376 CTTTTTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 10 0.26
3 28 0.74
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:2699361 original size:28 final size:29
Alignment explanation
Indices: 2699318--2699382 Score: 123
Period size: 28 Copynumber: 2.3 Consensus size: 29
2699308 CCTCTTTTTT
2699318 TCTTTTTTCTTTTTTTCTTCTTCTTCTTC
1 TCTTTTTTCTTTTTTTCTTCTTCTTCTTC
2699347 TCTTTTTTC-TTTTTTCTTCTTCTTCTTC
1 TCTTTTTTCTTTTTTTCTTCTTCTTCTTC
2699375 TCTTTTTT
1 TCTTTTTT
2699383 TTCAAGTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 27 0.75
29 9 0.25
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (29 bp):
TCTTTTTTCTTTTTTTCTTCTTCTTCTTC
Found at i:2702914 original size:9 final size:9
Alignment explanation
Indices: 2702902--2702932 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2702892 GAAATAAATG
2702902 AATGTAAAA
1 AATGTAAAA
2702911 AATGTAAAA
1 AATGTAAAA
*
2702920 AATGTAAAG
1 AATGTAAAA
2702929 AATG
1 AATG
2702933 ATTGCCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (9 bp):
AATGTAAAA
Found at i:2706285 original size:15 final size:15
Alignment explanation
Indices: 2706265--2706296 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2706255 TGCAATGAAT
2706265 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2706280 AATGAATGTATGCAA
1 AATGAATGTATGCAA
2706295 AA
1 AA
2706297 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2711882 original size:3 final size:3
Alignment explanation
Indices: 2711874--2711932 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
2711864 CTATAATATG
* * * *
2711874 TAA TAA TAA TATT TAT TAA TAA AAA TAT TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2711919 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
2711933 TAAATAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:2711924 original size:17 final size:17
Alignment explanation
Indices: 2711874--2711935 Score: 76
Period size: 17 Copynumber: 3.8 Consensus size: 17
2711864 CTATAATATG
* *
2711874 TAATAATAATAT-TTAT
1 TAATAATAATATAATAA
*
2711890 TAATAA-AA-ATATTAA
1 TAATAATAATATAATAA
2711905 TAATAATAATATAATAA
1 TAATAATAATATAATAA
2711922 TAATAATAATATAA
1 TAATAATAATATAA
2711936 ATAAATAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
14 2 0.05
15 11 0.27
16 8 0.20
17 20 0.49
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:2713223 original size:29 final size:29
Alignment explanation
Indices: 2713191--2713256 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
2713181 AATCAATCTT
*
2713191 ACCACCGAACTATTTT-TT-ATCTCAATTCG
1 ACCACCGAAC-ATTTTATTGAT-TCAATTAG
*
2713220 ACCACCAAACATTTTAATTGATTCAATTAG
1 ACCACCGAACATTTT-ATTGATTCAATTAG
2713250 ACCACCG
1 ACCACCG
2713257 CACCGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 5 0.16
29 9 0.29
30 15 0.48
31 2 0.06
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (29 bp):
ACCACCGAACATTTTATTGATTCAATTAG
Found at i:2721448 original size:24 final size:24
Alignment explanation
Indices: 2721410--2721539 Score: 152
Period size: 24 Copynumber: 5.4 Consensus size: 24
2721400 GGATCAAGCT
* *
2721410 CAACACCGACCACCGGAACTCCGA
1 CAACGCCGACGACCGGAACTCCGA
*
2721434 CACCGCCGACGACCGGAACTCCGA
1 CAACGCCGACGACCGGAACTCCGA
* *
2721458 CAACGCCGACGTCCGGTACTCCGA
1 CAACGCCGACGACCGGAACTCCGA
* * *
2721482 CAACGCCGACGTCCGGTACTGCGA
1 CAACGCCGACGACCGGAACTCCGA
* * *
2721506 CAACACCGACCACCGGGACTCCGA
1 CAACGCCGACGACCGGAACTCCGA
*
2721530 CAACACCGAC
1 CAACGCCGAC
2721540 CACGGGTATT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.27, C:0.44, G:0.22, T:0.07
Consensus pattern (24 bp):
CAACGCCGACGACCGGAACTCCGA
Found at i:2721489 original size:48 final size:48
Alignment explanation
Indices: 2721410--2721539 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
2721400 GGATCAAGCT
*
2721410 CAACACCGACCACCGGAACTCCGACACCGCCGACGACCGGAACTCCGA
1 CAACACCGACCACCGGAACTCCGACAACGCCGACGACCGGAACTCCGA
* ** * * * *
2721458 CAACGCCGACGTCCGGTACTCCGACAACGCCGACGTCCGGTACTGCGA
1 CAACACCGACCACCGGAACTCCGACAACGCCGACGACCGGAACTCCGA
* *
2721506 CAACACCGACCACCGGGACTCCGACAACACCGAC
1 CAACACCGACCACCGGAACTCCGACAACGCCGAC
2721540 CACGGGTATT
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.27, C:0.44, G:0.22, T:0.07
Consensus pattern (48 bp):
CAACACCGACCACCGGAACTCCGACAACGCCGACGACCGGAACTCCGA
Found at i:2722237 original size:21 final size:21
Alignment explanation
Indices: 2722210--2722349 Score: 106
Period size: 21 Copynumber: 6.8 Consensus size: 21
2722200 AATCAGTTTC
*
2722210 CAAAATCGCAACGCGATTTTT
1 CAAAATCGCAACGCGATATTT
* * * * *
2722231 GAAAATCGTAATGCGATAGTA
1 CAAAATCGCAACGCGATATTT
* ** *
2722252 CAAATTCGCATTGCGATTTTT
1 CAAAATCGCAACGCGATATTT
*
2722273 CAAAATCGCAACGCGA-ATAT
1 CAAAATCGCAACGCGATATTT
* **
2722293 GAAAATCGCATTGCGAT-TTT
1 CAAAATCGCAACGCGATATTT
*
2722313 CCAAAATCGCAACGCGA-ATAT
1 -CAAAATCGCAACGCGATATTT
*
2722334 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2722350 ACACATAAAT
Statistics
Matches: 89, Mismatches: 27, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
20 32 0.36
21 57 0.64
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (21 bp):
CAAAATCGCAACGCGATATTT
Found at i:2722268 original size:42 final size:41
Alignment explanation
Indices: 2722211--2722343 Score: 171
Period size: 41 Copynumber: 3.2 Consensus size: 41
2722201 ATCAGTTTCC
** * * *
2722211 AAAATCGCAACGCGATTTTTGAAAATCGTAATGCG-ATA-G
1 AAAATCGCATTGCGATTTTTCAAAATCGCAACGCGAATATG
2722250 TACAAATTCGCATTGCGATTTTTCAAAATCGCAACGCGAATATG
1 -A-AAA-TCGCATTGCGATTTTTCAAAATCGCAACGCGAATATG
*
2722294 AAAATCGCATTGCGATTTTCCAAAATCGCAACGCGAATATG
1 AAAATCGCATTGCGATTTTTCAAAATCGCAACGCGAATATG
2722335 AAAATCGCA
1 AAAATCGCA
2722344 ACGCGAACAC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
40 1 0.01
41 48 0.58
42 29 0.35
43 4 0.05
44 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (41 bp):
AAAATCGCATTGCGATTTTTCAAAATCGCAACGCGAATATG
Found at i:2722299 original size:20 final size:20
Alignment explanation
Indices: 2722272--2722368 Score: 106
Period size: 20 Copynumber: 4.8 Consensus size: 20
2722262 TTGCGATTTT
2722272 TCAAAATCGCAACGCGAATA
1 TCAAAATCGCAACGCGAATA
* ** * *
2722292 TGAAAATCGCATTGCGATTT
1 TCAAAATCGCAACGCGAATA
2722312 TCCAAAATCGCAACGCGAATA
1 T-CAAAATCGCAACGCGAATA
* *
2722333 TGAAAATCGCAACGCGAACA
1 TCAAAATCGCAACGCGAATA
2722353 -CATAAATCGCAACGCG
1 TCA-AAATCGCAACGCG
2722369 TATCCGTAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 46 0.74
21 15 0.24
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
TCAAAATCGCAACGCGAATA
Found at i:2722378 original size:20 final size:20
Alignment explanation
Indices: 2722316--2722509 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2722306 CGATTTTCCA
* ** *
2722316 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2722336 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2722356 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2722376 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
2722396 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
2722416 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2722436 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2722456 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2722476 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2722497 AAATCGCAACGCG
1 AAATCGCAACGCG
2722510 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2722408 original size:60 final size:60
Alignment explanation
Indices: 2722316--2722509 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2722306 CGATTTTCCA
* ** * *
2722316 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
2722376 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
2722436 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
2722497 AAATCGCAACGCG
1 AAATCGCAACGCG
2722510 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:2722930 original size:33 final size:33
Alignment explanation
Indices: 2722891--2722961 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
2722881 TTCACTTAGA
* *
2722891 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
2722924 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
2722957 TTTCA
1 TTTCA
2722962 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:2723067 original size:21 final size:20
Alignment explanation
Indices: 2723041--2723146 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
2723031 TGTAGAAGAG
2723041 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
2723062 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
2723082 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
2723103 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
2723117 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
2723136 TCGCAACGAGA
1 TCGCAACGAGA
2723147 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:2723085 original size:20 final size:21
Alignment explanation
Indices: 2723039--2723117 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
2723029 TTTGTAGAAG
*
2723039 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
2723061 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
2723080 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
2723102 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
2723118 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:2723098 original size:41 final size:38
Alignment explanation
Indices: 2723034--2723150 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
2723024 TTCAATTTGT
* *
2723034 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
2723072 AGAATGACTGTCGCAACGAGAGAAATGAAAAGCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
2723113 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
2723146 AGAAT
1 AGAAT
2723151 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.10
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:2723123 original size:14 final size:14
Alignment explanation
Indices: 2723104--2723157 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
2723094 AAATGAAAAG
2723104 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
*
2723118 CGCAACGCGAAATGAAAAT
1 CGCAA--CG--A-GAGAAT
2723137 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
2723151 CGCAACG
1 CGCAACG
2723158 CGAAACCAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.43, C:0.24, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:2723133 original size:33 final size:33
Alignment explanation
Indices: 2723093--2723162 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
2723083 CGCAACGAGA
2723093 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
*
2723126 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
2723159 GAAA
1 GAAA
2723163 CCAAAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.26, T:0.07
Consensus pattern (33 bp):
GAAATGAAAAGCGCAACGAGAGAATCGCAACGC
Found at i:2723169 original size:33 final size:33
Alignment explanation
Indices: 2723099--2723173 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
2723089 GAGAGAAATG
* **
2723099 AAAAGCGCAACGAGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
2723132 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
2723165 AAAATCGCA
1 AAAATCGCA
2723174 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.24, G:0.23, T:0.07
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAACGCGAAACC
Found at i:2723210 original size:14 final size:14
Alignment explanation
Indices: 2723191--2723247 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
2723181 TTTCATTTCG
2723191 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2723205 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
2723222 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
2723238 CGTTGCGATT
1 CGTTGCGATT
2723248 TCATTTCAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 1 0.03
16 5 0.13
17 5 0.13
18 1 0.03
19 8 0.21
ACGTcount: A:0.09, C:0.26, G:0.25, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2723225 original size:33 final size:32
Alignment explanation
Indices: 2723174--2723251 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 32
2723164 CAAAATCGCA
*
2723174 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGA-TTTCATCTCGCGTTGCGATTCTCTCG
2723207 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATT-TCATCTCGCGTTGCGATTCTCTCG
2723240 TTGCGATTTCAT
1 TTGCGATTTCAT
2723252 TTCAACCAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
32 6 0.14
33 37 0.86
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (32 bp):
TTGCGATTTCATCTCGCGTTGCGATTCTCTCG
Found at i:2723227 original size:19 final size:18
Alignment explanation
Indices: 2723169--2723251 Score: 74
Period size: 19 Copynumber: 4.9 Consensus size: 18
2723159 GAAACCAAAA
* *
2723169 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATC
2723188 TCGCGTTGCGA-TTC-TC
1 TCGCGTTGCGATTTCATC
2723204 T--CGTTGCGATTGTCATC
1 TCGCGTTGCGATT-TCATC
2723221 TCGCGTTGCGA-TTC-TC
1 TCGCGTTGCGATTTCATC
2723237 T--CGTTGCGATTTCAT
1 TCGCGTTGCGATTTCAT
2723252 TTCAACCAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
14 16 0.29
15 4 0.07
16 8 0.15
17 8 0.15
18 1 0.02
19 18 0.33
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATC
Found at i:2725257 original size:93 final size:93
Alignment explanation
Indices: 2724952--2725329 Score: 724
Period size: 93 Copynumber: 4.1 Consensus size: 93
2724942 TAGATTGCTT
*
2724952 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2725017 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2725045 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACAC--TGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2725108 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2725136 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2725201 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2725229 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2725294 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2725322 AGTAAATT
1 AGTAAATT
2725330 ATCCATTCAA
Statistics
Matches: 280, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
91 90 0.32
93 190 0.68
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2725261 original size:184 final size:185
Alignment explanation
Indices: 2724952--2725329 Score: 722
Period size: 184 Copynumber: 2.0 Consensus size: 185
2724942 TAGATTGCTT
*
2724952 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
2725017 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2725082 GTGTATTCTTTAACAC-TGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2725136 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
2725201 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2725266 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACAC-GTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
2725322 AGTAAATT
1 AGTAAATT
2725330 ATCCATTCAA
Statistics
Matches: 190, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 144 0.76
186 46 0.24
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2725413 original size:19 final size:19
Alignment explanation
Indices: 2725373--2725501 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2725363 TAGTTTACTT
* *
2725373 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2725393 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2725412 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2725431 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2725445 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2725464 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2725478 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2725497 TCGCA
1 TCGCA
2725502 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2725452 original size:33 final size:32
Alignment explanation
Indices: 2725409--2725501 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2725399 CGCGAAACCA
**
2725409 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2725441 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2725474 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2725502 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2725499 original size:52 final size:52
Alignment explanation
Indices: 2725373--2725501 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2725363 TAGTTTACTT
**
2725373 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2725425 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2725478 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2725502 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2725519 original size:19 final size:19
Alignment explanation
Indices: 2725497--2725630 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
2725487 GAAACCAAAA
*
2725497 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2725516 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
2725532 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2725549 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2725565 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2725582 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2725600 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2725620 TCGTGTTGCGA
1 TCGCGTTGCGA
2725631 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
18 16 0.17
19 28 0.30
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2725538 original size:14 final size:14
Alignment explanation
Indices: 2725519--2725575 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2725509 TTTCATTTCG
2725519 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
2725533 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
2725550 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
2725566 CGTTGCGATT
1 CGTTGCGATT
2725576 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:2725544 original size:33 final size:33
Alignment explanation
Indices: 2725502--2725630 Score: 168
Period size: 33 Copynumber: 3.8 Consensus size: 33
2725492 CAAAATCGCA
2725502 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
* *
2725535 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
*
2725568 TTGCGATTTTCATTTCGCGTTGCGATTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA-TT-CTTT--CG
* *
2725605 TTGCGATTTTAAGTTTCGTGTTGCGA
1 TTGCGATTTTCA-TTTCGCGTTGCGA
2725631 AAGTAAACTA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
33 55 0.65
34 2 0.02
35 2 0.02
37 13 0.15
38 12 0.14
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
Found at i:2727575 original size:14 final size:14
Alignment explanation
Indices: 2727556--2727591 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2727546 ATTGTTTAAT
2727556 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2727570 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2727584 TGATTTGT
1 TGATTTGT
2727592 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2727758 original size:33 final size:33
Alignment explanation
Indices: 2727716--2727834 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
2727706 GCGAAATGAA
2727716 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
2727749 AATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--C-G--A-GAG
* *
2727788 AATCGCAATGCGGAAATGAAAATCGCAATGGGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAG
2727822 AATCGCAATGCGA
1 AATCGCAATGCGA
2727835 TTTTCATTTC
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
33 29 0.39
34 13 0.17
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 13 0.17
40 16 0.21
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:2727785 original size:20 final size:19
Alignment explanation
Indices: 2727698--2727817 Score: 178
Period size: 19 Copynumber: 6.5 Consensus size: 19
2727688 AAAATTGACT
2727698 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2727717 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2727736 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2727750 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2727769 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2727789 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2727809 ATCGCAATG
1 ATCGCAATG
2727818 GGAGAATCGC
Statistics
Matches: 93, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
14 10 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 39 0.42
20 38 0.41
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2727847 original size:73 final size:72
Alignment explanation
Indices: 2727698--2727834 Score: 240
Period size: 73 Copynumber: 1.9 Consensus size: 72
2727688 AAAATTGACT
2727698 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
2727762 AATGAAA
66 AATGAAA
* *
2727769 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGAATCGCAATGCG
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCG
2727834 A
65 A
2727835 TTTTCATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
71 10 0.16
72 19 0.31
73 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (72 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
AATGAAA
Found at i:2730379 original size:24 final size:24
Alignment explanation
Indices: 2730345--2730391 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2730335 CTGAAACATC
2730345 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2730369 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2730392 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2731101 original size:20 final size:20
Alignment explanation
Indices: 2731073--2731322 Score: 259
Period size: 20 Copynumber: 12.5 Consensus size: 20
2731063 AAATTTCAGT
* *
2731073 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2731093 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2731113 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2731133 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
**
2731153 GTTGCGATTTATAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2731173 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
2731193 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2731213 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2731233 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
2731253 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
2731273 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
2731293 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
2731313 GTTGCGATTT
1 GTTGCGATTT
2731323 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:2731339 original size:21 final size:21
Alignment explanation
Indices: 2731309--2731391 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
2731299 ATTTTCATAT
*
2731309 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
2731330 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
2731351 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
2731372 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
2731392 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:2731382 original size:42 final size:43
Alignment explanation
Indices: 2731289--2731387 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2731279 ATTTATGTGT
* *
2731289 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
2731330 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
2731372 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2731388 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:2731944 original size:29 final size:29
Alignment explanation
Indices: 2731898--2731957 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
2731888 TGAAAATGAA
* **
2731898 TTAAAAATTTGATGATTATGTTGTAAGTT
1 TTAAAAATTGGATGATTATAATGTAAGTT
* *
2731927 TTAAAAGTTGGATTATTATAATGTAAGTT
1 TTAAAAATTGGATGATTATAATGTAAGTT
2731956 TT
1 TT
2731958 CTAAAGGTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (29 bp):
TTAAAAATTGGATGATTATAATGTAAGTT
Found at i:2735532 original size:3 final size:3
Alignment explanation
Indices: 2735518--2735567 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
2735508 GTCCCGATAA
* *
2735518 TAT TAA TAT TAT TATT TAC T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2735563 TAT TA
1 TAT TA
2735568 ATAATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2736464 original size:109 final size:107
Alignment explanation
Indices: 2736305--2736548 Score: 328
Period size: 109 Copynumber: 2.3 Consensus size: 107
2736295 GAAATTATGC
* * * *
2736305 TTAGGCCCCTAAC-TTATGCTTGTTTTTGCAAAATAGTCACTTATAGGGACCAATTTTGTAATTT
1 TTAGTCCCCTAACTTTA-GCGTGTTTTTCCAAAATAGTCACATATAGGGACCAATTTTGTAATTT
* * * *
2736369 ACCCGTTTATTGTTCATGTTATAAATTTTTAGTATAATTTTTGT
65 ACCCATTTATTGTGCATGTTATAAA-ATTTAGTATAATTTCTGT
*
2736413 TTAGTTTCCCTAACTTTAGCGTGTTTTTCCAAAATAGTCACATATAGGGACCAATTTTGTAATTT
1 TTAG-TCCCCTAACTTTAGCGTGTTTTTCCAAAATAGTCACATATAGGGACCAATTTTGTAATTT
* * *
2736478 ATCCATTTCTTGTGCATGTTATAAAATTTGGTATAATTTCTGT
65 ACCCATTTATTGTGCATGTTATAAAATTTAGTATAATTTCTGT
*
2736521 TTAGTCCTCCTAACTTTAGCGTATTTTT
1 TTAGTCC-CCTAACTTTAGCGTGTTTTT
2736549 GCATGTTAAT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 42 0.35
109 72 0.61
110 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (107 bp):
TTAGTCCCCTAACTTTAGCGTGTTTTTCCAAAATAGTCACATATAGGGACCAATTTTGTAATTTA
CCCATTTATTGTGCATGTTATAAAATTTAGTATAATTTCTGT
Found at i:2736579 original size:108 final size:109
Alignment explanation
Indices: 2736327--2736607 Score: 289
Period size: 108 Copynumber: 2.6 Consensus size: 109
2736317 CTTATGCTTG
* * * * * *
2736327 TTTTTGCAAAATAGTCACTTATAGGGACCAATTTTGTAATTTACCCGTTTATTGTTCATGTTATA
1 TTTTTCCAAAATAATCACATATAAGGACCAATTTTGTAATTTACCCATTTATTGTGCATGTTATA
* * * *
2736392 AATTTTTAGTATAATTTTTGTTTAGTTTCCCTAACTTTAGCGTG
66 AATATTTAGTATAATTTCTGTTTAGTCTCCCTAACTTTAGCGTA
* * * *
2736436 TTTTTCCAAAATAGTCACATATAGGGACCAATTTTGTAATTTATCCATTTCTTGTGCATGTTATA
1 TTTTTCCAAAATAATCACATATAAGGACCAATTTTGTAATTTACCCATTTATTGTGCATGTTATA
*
2736501 AA-ATTTGGTATAATTTCTGTTTAGTC-CTCCTAACTTTAGCGTA
66 AATATTTAGTATAATTTCTGTTTAGTCTC-CCTAACTTTAGCGTA
* *** * * * ** ** *
2736544 TTTTTGCATGTTAATCACCTGTAAGGATCGTTTTTGTAATTTACCCAACT-TTATGCATGTTATA
1 TTTTTCCAAAATAATCACATATAAGGACCAATTTTGTAATTTACCCATTTATTGTGCATGTTATA
2736608 TATTTTCAGG
Statistics
Matches: 145, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
107 14 0.10
108 70 0.48
109 61 0.42
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (109 bp):
TTTTTCCAAAATAATCACATATAAGGACCAATTTTGTAATTTACCCATTTATTGTGCATGTTATA
AATATTTAGTATAATTTCTGTTTAGTCTCCCTAACTTTAGCGTA
Found at i:2737691 original size:132 final size:131
Alignment explanation
Indices: 2737529--2737819 Score: 338
Period size: 132 Copynumber: 2.2 Consensus size: 131
2737519 TTTCGGTCGG
* * * * *
2737529 AGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATT-GACGATTGGAAATAATCAGATAT
1 AGTAATAAATGATTTCTTTAAGGCATGAGAGGTAATTTATTCGA-AATTGAAAATAATCAGATAT
* * * * * *
2737593 TA-CAATTTTCTCTCGAGTCAATGTT-AATTTTTAGGACGGAATAGTGATATCTCTTCATTTCGA
65 TATC-ATTTTCACTCGAATAAATATTGAA-TTTTAAGACGAAATAGTGATATCTCTTCATTTC-A
2737656 ATTGA
127 ATTGA
* * * *
2737661 AGTAATAAACGATTTCTTTAAGGCATGAGAGGTAATTTATTCTAAATTGAAAATTATTAGATATT
1 AGTAATAAATGATTTCTTTAAGGCATGAGAGGTAATTTATTCGAAATTGAAAATAATCAGATATT
* *
2737726 ATCGTTTTCACTCGAATAAATATTGAATTTTAAGACGAAATGGTGATATCTCTTCATTTCAATTG
66 ATCATTTTCACTCGAATAAATATTGAATTTTAAGACGAAATAGTGATATCTCTTCATTTCAATTG
*
2737791 G
131 A
*
2737792 GGTAATAAATGATTAT-TTTAAGGCATGA
1 AGTAATAAATGATT-TCTTTAAGGCATGA
2737820 AATGTCAATT
Statistics
Matches: 135, Mismatches: 20, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
131 29 0.21
132 102 0.76
133 4 0.03
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (131 bp):
AGTAATAAATGATTTCTTTAAGGCATGAGAGGTAATTTATTCGAAATTGAAAATAATCAGATATT
ATCATTTTCACTCGAATAAATATTGAATTTTAAGACGAAATAGTGATATCTCTTCATTTCAATTG
A
Found at i:2737850 original size:131 final size:132
Alignment explanation
Indices: 2737529--2737865 Score: 337
Period size: 132 Copynumber: 2.6 Consensus size: 132
2737519 TTTCGGTCGG
* * * * * * * * * *
2737529 AGTAATAAATGAATGCTTTAAGGCATGAGAGGTCATTTATT-GACGATTGGAAATAATCAGATAT
1 AGTAATAAACGATTTCTTTAAGGCATGAAAGGTAATTTATTCTA-AATTGAAAATTATTAGATAT
* * * * * * *
2737593 TA-CAATTTTCTCTCGAGTCAATGTT-AATTTTTAGGACGGAATAGTGATATCTCTTCATTTCGA
65 TATC-GTTTTCACTCGAATAAATATTGAA-TTTTAAGACGAAATAGTGATATCTCTTCATTTCGA
2737656 ATTGA
128 ATTGA
*
2737661 AGTAATAAACGATTTCTTTAAGGCATGAGAGGTAATTTATTCTAAATTGAAAATTATTAGATATT
1 AGTAATAAACGATTTCTTTAAGGCATGAAAGGTAATTTATTCTAAATTGAAAATTATTAGATATT
*
2737726 ATCGTTTTCACTCGAATAAATATTGAATTTTAAGACGAAATGGTGATATCTCTTCATTTC-AATT
66 ATCGTTTTCACTCGAATAAATATTGAATTTTAAGACGAAATAGTGATATCTCTTCATTTCGAATT
*
2737790 GG
131 GA
* * * * * *
2737792 GGTAATAAATGATTAT-TTTAAGGCATGAAATGTCAA-TTATTCT-CATTAGGAAATTATTATAT
1 AGTAATAAACGATT-TCTTTAAGGCATGAAAGGT-AATTTATTCTAAATT-GAAAATTATTAGAT
2737854 ATTATCGTTTTC
63 ATTATCGTTTTC
2737866 TCTTTTAAAA
Statistics
Matches: 174, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
130 3 0.02
131 63 0.36
132 104 0.60
133 4 0.02
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (132 bp):
AGTAATAAACGATTTCTTTAAGGCATGAAAGGTAATTTATTCTAAATTGAAAATTATTAGATATT
ATCGTTTTCACTCGAATAAATATTGAATTTTAAGACGAAATAGTGATATCTCTTCATTTCGAATT
GA
Found at i:2746387 original size:232 final size:233
Alignment explanation
Indices: 2745650--2747120 Score: 1593
Period size: 233 Copynumber: 6.3 Consensus size: 233
2745640 CTTACTTAAG
* * * * * *
2745650 AAGTCATTCGGGCCATCGGTAAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTATAAG
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* * *
2745715 CCTTTCTAGAAAGATGATAAG-TCTTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAC
66 TCTTTCGAGCAAGATGATAAGTTC-TTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAC
*
2745779 ATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAGAGTAA
130 ATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAA
2745844 TAAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
195 TAAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
* **
2745883 AAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* * * *
2745948 TCTTTCGAACAAGATGATAAGTCCTTCGAGCCATCCATAAGACATTCAGGCAGGATGTTTTCACA
66 TCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACA
* * * * *
2746013 TGTTTTTTGAAAACAAATGGGAAAAATTTCTCATTTAAATCTAAAAATTGAAATTTTTAAAAAGT
131 TGTTTTTCG--AA-AAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGT
* *
2746078 AATAAAAGTTTCTTACATAGTAAACTATTTCCAAAATTGGT
193 AATAAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
* *
2746119 AAGTTCTTCGGG-CTATTAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
1 AAGTCCTTCGGGTC-ATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* ** *
2746183 GTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCTATAAGACCTTTGGGCATGATGTTTTCAC
65 GTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAC
* *
2746248 ATGTTTTTCGAAAAATGAGAAAA-TTTCTAATTGAAATCTGAAAATTGAAATTTTTGAAAAGTAA
130 ATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAA
* * *
2746312 TAAAAGTTTCTTACAC-AGTACACTATTTCCAAAATT-TT
195 TAAAAGTTTATTAC-CTAGTAAACTATTTCCAAAATTGGT
* * * *
2746350 AAAGTCCTTCGAGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCATTTGGGTCATCCGTAA
1 -AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * ** * * *
2746415 GTCTTTCGAGTAAGATAATAAG-TCATTTGGGCCATCCATAAGACCTTTGGGTAGAATGATTTCA
65 GTCTTTCGAGCAAGATGATAAGTTC-TTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCA
*
2746479 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTGAAATCTGAAAATTGAAATTTTTGAAAAGTA
129 CATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTA
**
2746544 GGAAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
194 ATAAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
* * * *
2746584 AAGTCATTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAG
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
* * * * *
2746649 TCTTTCGAGCAAGATGATAAGTTCTTCAGGCCATTCATAAGACCTTCAGGTAAGATGCTTTCACA
66 TCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACA
* * *
2746714 TGATTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATTTGAAAATTGAAATTTTTTAAAGTAAGA
131 TGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAA-TTTTT---G--A-A
** * * * *
2746779 AACCAATTTCCAAAGTTTCTTTCCTAGTAAACTATTTCTAAAATTGGT
189 AAGTAA--T-AAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
* * **
2746827 AAGTCCTTCGAG-CAATCAGTAAGTCTTTCGAGCATGATGAGTAAAT-C-T----T--T-TG---
1 AAGTCCTTCGGGTC-ATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
* * * * *
2746879 GGC--T--ATC----T-ATAAG-TCTTTCGAGCCATCCATAAGACCTT-ATGGTAGGGTGTTTTC
65 GTCTTTCGAGCAAGATGATAAGTTC-TTCGGGCCATCCATAAGACCTTCA-GGCAGGATGTTTTC
* * *
2746933 TCATGTTTTTCGAAAAATGAGAAACA-TTTCTCATTTAAATATGAAAATTG-AAGTTTTGAAAAG
128 ACATGTTTTTCGAAAAATGAGAAA-AGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAG
* * *
2746996 TGAGAAAATGATTTCTAAAGTTTCTTACCTAGTAAACTACTTCCAAAATTAGT
192 T-----AAT-A-----AAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
* * * * * * * *
2747049 AAGTCCTTCGAGTTACCAATAAATCTTTTCAGCATGATGATTAAATCCTTCGGGTCATCTATAAG
1 AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
*
2747114 TCATTCG
66 TCTTTCG
2747121 GACAGGTTGT
Statistics
Matches: 1059, Mismatches: 125, Indels: 103
0.82 0.10 0.08
Matches are distributed among these distances:
214 3 0.00
215 1 0.00
217 2 0.00
219 2 0.00
220 4 0.00
221 5 0.00
222 150 0.14
223 3 0.00
224 1 0.00
227 2 0.00
228 1 0.00
229 1 0.00
230 1 0.00
231 6 0.01
232 204 0.19
233 360 0.34
234 14 0.01
235 4 0.00
236 210 0.20
237 2 0.00
239 1 0.00
240 4 0.00
241 1 0.00
242 2 0.00
243 75 0.07
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (233 bp):
AAGTCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAG
TCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCACA
TGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAT
AAAAGTTTATTACCTAGTAAACTATTTCCAAAATTGGT
Found at i:2747018 original size:465 final size:450
Alignment explanation
Indices: 2745650--2747107 Score: 1371
Period size: 465 Copynumber: 3.1 Consensus size: 450
2745640 CTTACTTAAG
* * * * **
2745650 AAGTCATTCGGGCCATCGGTAAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTATAAG
1 AAGTC-TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAG
* * * * * * *
2745715 CCTTTCTAGAAAGATGATAAG-TCTTTCGGGCCATCCATAAGACCTTCAGGCAGGATGTTTTCAC
65 TCTTTCGAGCAAGATGATAAGTTC-TTCAGGCCATCTATAAGACCTTCAGGCAAGATGCTTTCAC
* * * * * **
2745779 ATGTTTTTCGAAAAATGAGAAAAGTTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAGAGTAA
129 ATGATTTTCAAAAAATGAGAAAA-TTTCTAATTGAAATCTGAAAATTGAAATTTTTGAAAACCAA
* * *
2745844 TAAAAGTTTATTAC-CTAGTAAACTATTTCCAAAATTGGT-AAGTCCTTCGGGCCATCAGTAAGT
193 TAAAAGTTTCTTACAC-AGTAAACTATTTCCAAAATT-GTAAAGTCCTTCGAGTCATCAGTAAGT
* ** * * * *
2745907 CTTTCAAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAACAAGATGATAAGTCC
256 CTTTCGAGCATGATGAGTAAATCATTTGGG-C--C-GTAA----TT----C---ATAATAAGTCT
* * * *
2745972 TTCGAGCCATCCATAAGACATTCA-GGCAGGATGTTTTCACATGTTTTTTGAAAACAAATGGGAA
306 TTCGAGCCATCCATAAGACCTT-ATGGTAGGATGTTTTCACATGTTTTTCG--AA-AAATGAG-A
* * *
2746036 AAATTTCTCATTTAAATCTAAAAATTGAAATTTTTAAAA--AGTAAT-AAAAGTTTCTTACATAG
366 AAATTTCTCATTTAAATCTGAAAATTGAAATTTTGAAAAGTAG-AATGAAAAGTTTCTTACCTAG
2746098 TAAACTATTTCCAAAATTGGT
430 TAAACTATTTCCAAAATTGGT
* * * *
2746119 AAGTTCTTCGGG-CTATTAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAA
1 AAG-TCTTCGGGTC-ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAA
* ** * *
2746183 GTCTTTCGAGCAAGATGATAAGTTCTTCGGGCCATCTATAAGACCTTTGGGCATGATGTTTTCAC
64 GTCTTTCGAGCAAGATGATAAGTTCTTCAGGCCATCTATAAGACCTTCAGGCAAGATGCTTTCAC
* * **
2746248 ATGTTTTTCGAAAAATGAGAAAATTTCTAATTGAAATCTGAAAATTGAAATTTTTGAAAAGTAAT
129 ATGATTTTCAAAAAATGAGAAAATTTCTAATTGAAATCTGAAAATTGAAATTTTTGAAAACCAAT
* *
2746313 AAAAGTTTCTTACACAGTACACTATTTCCAAAATTTTAAAGTCCTTCGAGTCATCAGTAAGTCTT
194 AAAAGTTTCTTACACAGTAAACTATTTCCAAAATTGTAAAGTCCTTCGAGTCATCAGTAAGTCTT
* **
2746378 TTGAGCATGATGCTTAAATCATTTGGGTCATCCGTAAGTCTTTCGAGTAAGATAATAAGTCATTT
259 TCGAGCATGATGAGTAAATCATTTGGG----CCGTAA----TTC-------ATAATAAGTC-TTT
* * *
2746443 -GGGCCATCCATAAGACCTT-TGGGTAGAATGATTTCACATGTTTTTCGAAAAATGAGAAAAGTT
308 CGAGCCATCCATAAGACCTTAT-GGTAGGATGTTTTCACATGTTTTTCGAAAAATGAGAAAA-TT
* *
2746506 TCTCATTGAAATCTGAAAATTGAAATTTTTGAAAAGTAG---GAAAAGTTTATTACCTAGTAAAC
371 TCTCATTTAAATCTGAAAATTGAAA-TTTTGAAAAGTAGAATGAAAAGTTTCTTACCTAGTAAAC
2746568 TATTTCCAAAATTGGT
435 TATTTCCAAAATTGGT
2746584 AAGTCATTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAG
1 AAGTC-TTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAG
*
2746649 TCTTTCGAGCAAGATGATAAGTTCTTCAGGCCAT-TCATAAGACCTTCAGGTAAGATGCTTTCAC
65 TCTTTCGAGCAAGATGATAAGTTCTTCAGGCCATCT-ATAAGACCTTCAGGCAAGATGCTTTCAC
* * *
2746713 ATGATTTTCAAAAAATGAGAAAAGTTTCTCATTTAAATTTGAAAATTGAAATTTTTTAAAGTAAG
129 ATGATTTTCAAAAAATGAGAAAA-TTTCTAATTGAAATCTGAAAATTGAAA-TTTTT---G--A-
* * *
2746778 AAACCAATTTCCAAAGTTTCTTTC-CTAGTAAACTATTTCTAAAATTGGT-AAGTCCTTCGAG-C
186 AAACCAA--T-AAAAGTTTCTTACAC-AGTAAACTATTTCCAAAATT-GTAAAGTCCTTCGAGTC
*
2746840 AATCAGTAAGTCTTTCGAGCATGATGAGTAAATCTTTTGGG-C-T-A-TC-T-ATAAGTCTTTCG
246 -ATCAGTAAGTCTTTCGAGCATGATGAGTAAATCATTTGGGCCGTAATTCATAATAAGTCTTTCG
* *
2746899 AGCCATCCATAAGACCTTATGGTAGGGTGTTTTCTCATGTTTTTCGAAAAATGAGAAACATTTCT
310 AGCCATCCATAAGACCTTATGGTAGGATGTTTTCACATGTTTTTCGAAAAATGAGAAA-ATTTCT
* *
2746964 CATTTAAATATGAAAATTGAAGTTTTGAAAAGTGAGAAAATGATTTCTAAAGTTTCTTACCTAGT
374 CATTTAAATCTGAAAATTGAAATTTTGAAAAGT-AG--AATGA-----AAAGTTTCTTACCTAGT
* *
2747029 AAACTACTTCCAAAATTAGT
431 AAACTATTTCCAAAATTGGT
* * * * *
2747049 AAGTCCTTCGAGTTACCAATAAATCTTTTC-AGCATGATGATTAAATCCTTCGGGTCATC
1 AAGT-CTTCGGGTCATCAGTAAGTC-TTTCGAGCATGATGATTAAATCCTTCGGGTCATC
2747108 TATAAGTCAT
Statistics
Matches: 856, Mismatches: 80, Indels: 110
0.82 0.08 0.11
Matches are distributed among these distances:
454 14 0.02
455 85 0.10
456 3 0.00
460 2 0.00
464 10 0.01
465 281 0.33
466 40 0.05
467 6 0.01
468 182 0.21
469 137 0.16
470 6 0.01
471 3 0.00
472 1 0.00
473 5 0.01
475 3 0.00
476 77 0.09
477 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (450 bp):
AAGTCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCCGTAAGT
CTTTCGAGCAAGATGATAAGTTCTTCAGGCCATCTATAAGACCTTCAGGCAAGATGCTTTCACAT
GATTTTCAAAAAATGAGAAAATTTCTAATTGAAATCTGAAAATTGAAATTTTTGAAAACCAATAA
AAGTTTCTTACACAGTAAACTATTTCCAAAATTGTAAAGTCCTTCGAGTCATCAGTAAGTCTTTC
GAGCATGATGAGTAAATCATTTGGGCCGTAATTCATAATAAGTCTTTCGAGCCATCCATAAGACC
TTATGGTAGGATGTTTTCACATGTTTTTCGAAAAATGAGAAAATTTCTCATTTAAATCTGAAAAT
TGAAATTTTGAAAAGTAGAATGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGT
Found at i:2747085 original size:222 final size:222
Alignment explanation
Indices: 2746678--2747120 Score: 561
Period size: 222 Copynumber: 2.0 Consensus size: 222
2746668 AGTTCTTCAG
*
2746678 GCCATTCATAAGACCTTCAGGTAAGATGCTTTCACATGATTTTCAAAAAATGAGAAAAGTTTCTC
1 GCCATCCATAAGACCTTCAGGTAAGATGCTTTCACATGATTTTCAAAAAATGAGAAAAGTTTCTC
* ** * *
2746743 ATTTAAATTTGAAAATTGAAATTTTTTAAAGTAAGAAACCAATTTCCAAAGTTTCTTTCCTAGTA
66 ATTTAAATATGAAAATTGAAATTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCTAGTA
* * * * * *
2746808 AACTATTTCTAAAATTGGTAAGTCCTTCGAGCAATCAGTAAGTCTTTCGAGCATGATGAGTAAAT
131 AACTACTTCCAAAATTAGTAAGTCCTTCGAGCAACCAATAAATCTTTCGAGCATGATGAGTAAAT
* * *
2746873 CTTTTGGG-CTATCTATAAGTCTTTCGA
196 CCTTCGGGTC-ATCTATAAGTCATTCGA
* * * * * *
2746900 GCCATCCATAAGACCTT-ATGGTAGGGTGTTTTCTCATGTTTTTCGAAAAATGAGAAACA-TTTC
1 GCCATCCATAAGACCTTCA-GGTAAGATGCTTTCACATGATTTTCAAAAAATGAGAAA-AGTTTC
* * ** *
2746963 TCATTTAAATATGAAAATTGAAGTTTTGAAAAGTGAGAAAATGATTTCTAAAGTTTCTTACCTAG
64 TCATTTAAATATGAAAATTGAAATTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCTAG
** *
2747028 TAAACTACTTCCAAAATTAGTAAGTCCTTCGAGTTACCAATAAATCTTTTC-AGCATGATGATTA
129 TAAACTACTTCCAAAATTAGTAAGTCCTTCGAGCAACCAATAAATC-TTTCGAGCATGATGAGTA
2747092 AATCCTTCGGGTCATCTATAAGTCATTCG
193 AATCCTTCGGGTCATCTATAAGTCATTCG
2747121 GACAGGTTGT
Statistics
Matches: 188, Mismatches: 29, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
221 1 0.01
222 181 0.96
223 6 0.03
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (222 bp):
GCCATCCATAAGACCTTCAGGTAAGATGCTTTCACATGATTTTCAAAAAATGAGAAAAGTTTCTC
ATTTAAATATGAAAATTGAAATTTTGAAAAGTAAGAAAACAATTTCCAAAGTTTCTTACCTAGTA
AACTACTTCCAAAATTAGTAAGTCCTTCGAGCAACCAATAAATCTTTCGAGCATGATGAGTAAAT
CCTTCGGGTCATCTATAAGTCATTCGA
Found at i:2748063 original size:134 final size:133
Alignment explanation
Indices: 2747728--2748054 Score: 309
Period size: 134 Copynumber: 2.5 Consensus size: 133
2747718 AGTCTACCTC
* * * * * ** * ***
2747728 GAAGAATAGTGGAATGAATCAAC-ATCCCTAAATCTAATTTTCCCTAAAGAAATAGCATAACAAA
1 GAAGAACAATGGAATGAATCAACGTTTCC-AGATCTAATTGACCCTCAAGAAATAGTGGAACAAA
* * * *
2747792 TCCCTTTTTTCCAGATTTGATCTTCCCTGAGGAACAATGGAACAAGTCTACCTCGATTCAATATT
65 TCCCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAATGAAACAAGTCTACATCGATTAAATATT
2747857 CCCT
130 CCCT
* * * *** * * *
2747861 GATGAACAGTGGAATGAGTCTTTGTTTCCAGATCTGATTGGCCCTCAAGAAGTAGTGGAACAAAT
1 GAAGAACAATGGAATGAATCAACGTTTCCAGATCTAATTGACCCTCAAGAAATAGTGGAACAAAT
* * * * **
2747926 CCCTCTCTTTCCAGATTTGATCTTCCTTGAGTAATAGTGAAACAAGTCTGTATCGATTAAATATT
66 CCCT-TCTTTCCAGATTTGATCTTCCCTGAGGAACAATGAAACAAGTCTACATCGATTAAATATT
*
2747991 CCTT
130 CCCT
*
2747995 GAAGAACAATGGAATGAATCAACGTTTCTCA-ATCTAATCT-ACCCTGAAGAAATAGTGGAA
1 GAAGAACAATGGAATGAATCAACGTTTC-CAGATCTAAT-TGACCCTCAAGAAATAGTGGAA
2748055 TGGATCCCTT
Statistics
Matches: 152, Mismatches: 38, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
133 48 0.32
134 101 0.66
135 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (133 bp):
GAAGAACAATGGAATGAATCAACGTTTCCAGATCTAATTGACCCTCAAGAAATAGTGGAACAAAT
CCCTTCTTTCCAGATTTGATCTTCCCTGAGGAACAATGAAACAAGTCTACATCGATTAAATATTC
CCT
Found at i:2748204 original size:3 final size:3
Alignment explanation
Indices: 2748190--2748245 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
2748180 GTCCCGATAA
* * * * *
2748190 TAT TAA TAT TAT TAT T-T TCTT TAT TAT TAA TAT TAA TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
2748235 TAT TAT TAT TA
1 TAT TAT TAT TA
2748246 CTAATATATT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2748229 original size:15 final size:15
Alignment explanation
Indices: 2748187--2748252 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
2748177 TTTGTCCCGA
2748187 TAATATTAATATTAT
1 TAATATTAATATTAT
* **
2748202 T-ATTTTCTTTATTAT
1 TAATATT-AATATTAT
2748217 TAATATTAATATTAT
1 TAATATTAATATTAT
* *
2748232 TAATATTATTATTAC
1 TAATATTAATATTAT
2748247 TAATAT
1 TAATAT
2748253 ATTTTAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 4 0.10
15 33 0.80
16 4 0.10
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATATTAATATTAT
Found at i:2749321 original size:109 final size:108
Alignment explanation
Indices: 2749130--2749477 Score: 317
Period size: 109 Copynumber: 3.2 Consensus size: 108
2749120 TACTTAGGTC
* * * * *
2749130 CCCCTAA-TTTATGCATGTTTTTACAAAATAGTCACTTGTAGGGACCAATTTTGTAATTTATCCA
1 CCCCTAACTTTA-GCGTGTTTTTGCAAAATAGTCACTTATAAGGACCAATTTTGTAATTTACCCA
* * * *
2749194 TTTCTTATGCATGTTATAAATTTTTGGTATAATTTCTATTTAGTT
65 TTTCTTATGCATGCTATAAATTTTTGGGATAATTTATATTTA-AT
* *
2749239 CCCCTAACTTTAGCGTGTTTTTGCTAAATAGTCACTTATAAGGATCAATTTTGTAATTTACCCAT
1 CCCCTAACTTTAGCGTGTTTTTGCAAAATAGTCACTTATAAGGACCAATTTTGTAATTTACCCAT
* * *
2749304 TTTTTGTGCATGCTATAAATTTTTGGGATAATTTATGTTTAAT
66 TTCTTATGCATGCTATAAATTTTTGGGATAATTTATATTTAAT
* * *** * * * * **
2749347 CCCCATAACTTTAGTGTATTTTTGCATGTTAGTCACATATAGGGACTATTTTTGTAATTTATACA
1 CCCC-TAACTTTAGCGTGTTTTTGCAAAATAGTCACTTATAAGGACCAATTTTGTAATTTACCCA
* * * * * *
2749412 CTT-TTATGCATGTTATATATTTTAGGGCT-ATTTATGTTTTAAT
65 TTTCTTATGCATGCTATAAATTTTTGGGATAATTTAT-ATTTAAT
* *
2749455 -CTCTATATGTTTAGCGTGTTTTT
1 CCCCTA-A-CTTTAGCGTGTTTTT
2749478 AAAGTTTAGT
Statistics
Matches: 196, Mismatches: 38, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
106 2 0.01
107 9 0.05
108 44 0.22
109 137 0.70
110 4 0.02
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (108 bp):
CCCCTAACTTTAGCGTGTTTTTGCAAAATAGTCACTTATAAGGACCAATTTTGTAATTTACCCAT
TTCTTATGCATGCTATAAATTTTTGGGATAATTTATATTTAAT
Found at i:2750513 original size:131 final size:131
Alignment explanation
Indices: 2750262--2750506 Score: 323
Period size: 131 Copynumber: 1.9 Consensus size: 131
2750252 GGTCGGAGTA
*
2750262 ATAAATGACTGCCTTAAGGCTTGAGATGTCATTTATTCTCGATTGGAAATAATCAGATATTATCG
1 ATAAATGACTGCCTTAAGGCATGAGATGTCATTTATTCTCGATTGGAAATAATCAGATATTATCG
* * * * * * *
2750327 TTTTCTCTCGAGTCAATGTTGAATTTTAGGAAGGAATAATGATATCTCTTCATTTCGAATTGAAG
66 TTTCCTCTCGAATCAATATTGAATTGTAAGAAGAAATAATGATATATCTTCATTTCGAATTGAAG
2750392 T
131 T
* * * *
2750393 ATAAATGATTGCTTTAAGGCATGAGA-GATCATTTATTCTCGATTGGAAATCATTAGATATTATC
1 ATAAATGACTGCCTTAAGGCATGAGATG-TCATTTATTCTCGATTGGAAATAATCAGATATTATC
* **
2750457 GTTTCCAT-TCGAATCAATATTGAATTGTAAGACGAAATGGTGATATATCT
65 GTTTCC-TCTCGAATCAATATTGAATTGTAAGAAGAAATAATGATATATCT
2750507 ATATTTCAGT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
130 1 0.01
131 95 0.98
132 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (131 bp):
ATAAATGACTGCCTTAAGGCATGAGATGTCATTTATTCTCGATTGGAAATAATCAGATATTATCG
TTTCCTCTCGAATCAATATTGAATTGTAAGAAGAAATAATGATATATCTTCATTTCGAATTGAAG
T
Found at i:2754176 original size:37 final size:38
Alignment explanation
Indices: 2754080--2754524 Score: 536
Period size: 37 Copynumber: 11.6 Consensus size: 38
2754070 TATAAAATAT
* * *
2754080 TTTTTAAAACTA-ATATTATATATA-TTTCGAAAAACG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
*
2754116 TTTTCAAAATCTATATATTATATATATTTTC-AAACATG
1 TTTTCAAAA-CTATATATTATATATATTTTCAAAAAATG
*
2754154 TTTTCTAAACTATATATTATATATATTTTTCAAAAAATG
1 TTTTCAAAACTATATATTATATATA-TTTTCAAAAAATG
2754193 TTTT-AAAACTATATATTATATATATTTTCAAAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
2754230 TTTTCAAAACTATATATTATATATAATTTT-AAAAAATG
1 TTTTCAAAACTATATATTATATAT-ATTTTCAAAAAATG
* *
2754268 TTTACAAAACTATATATTATATATATATATATATATTCAAAAATG
1 TTTTCAAAACTATATATTATATATAT-T-T-T-CA---AAAAATG
* *
2754313 TTTTCAAAACTATATATTATAGATGTTTTC-AAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
*
2754350 TTTTCAAAACTATATA-T-TATATATTTTCAAAAAACG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
*
2754386 TTTT-AAAACTATATATTATATATATTTTC-GAAAATG
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
2754422 TTATT-AAAACTATATATTATATATATTTTC-AAAAATG
1 TT-TTCAAAACTATATATTATATATATTTTCAAAAAATG
*
2754459 TTTTCAAAACTATATATTATATATACTTTTGGGAAAAAAATG
1 TTTTCAAAACTATATATTATATATA-TTTT---CAAAAAATG
* **
2754501 CTTTCAACGCTATATATTATATAT
1 TTTTCAAAACTATATATTATATAT
2754525 GTTATGTACA
Statistics
Matches: 363, Mismatches: 21, Indels: 44
0.85 0.05 0.10
Matches are distributed among these distances:
35 20 0.06
36 29 0.08
37 127 0.35
38 104 0.29
39 20 0.06
40 1 0.00
42 30 0.08
43 1 0.00
44 1 0.00
45 30 0.08
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (38 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAAAATG
Found at i:2754318 original size:12 final size:12
Alignment explanation
Indices: 2754303--2754358 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
2754293 TATATATATA
2754303 TTCAAAAATGTT
1 TTCAAAAATGTT
* *
2754315 TTCAAAACTATATA
1 TTCAAAA--ATGTT
* *
2754329 TT-ATAGATGTT
1 TTCAAAAATGTT
2754340 TTCAAAAATGTT
1 TTCAAAAATGTT
2754352 TTCAAAA
1 TTCAAAA
2754359 CTATATATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
11 5 0.15
12 21 0.64
13 2 0.06
14 5 0.15
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (12 bp):
TTCAAAAATGTT
Found at i:2754394 original size:72 final size:73
Alignment explanation
Indices: 2754287--2754488 Score: 293
Period size: 72 Copynumber: 2.8 Consensus size: 73
2754277 CTATATATTA
* *
2754287 TATATATATATATATATTCAAAAATGTTTTCAAAACTATATATTATAGATGTTTTCAAAAATGTT
1 TATATATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATAGATATTTTCAAAAATGTT
2754352 -TTCAAAAC
66 ATT-AAAAC
* * *
2754360 TATATAT-TATATATTTTCAAAAAACGTTTT-AAAACTATATATTATATATATTTTCGAAAATGT
1 TATATATATATATATTTTC-AAAAATGTTTTCAAAACTATATATTATAGATATTTTCAAAAATGT
2754423 TATTAAAAC
65 TATTAAAAC
*
2754432 TATATATTATATATATTTTCAAAAATGTTTTCAAAACTATATATTATATATACTTTT
1 TATATA-TATATATATTTTCAAAAATGTTTTCAAAACTATATATTATAGATA-TTTT
2754489 GGGAAAAAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
72 52 0.44
73 30 0.26
74 31 0.26
75 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (73 bp):
TATATATATATATATTTTCAAAAATGTTTTCAAAACTATATATTATAGATATTTTCAAAAATGTT
ATTAAAAC
Found at i:2754431 original size:109 final size:110
Alignment explanation
Indices: 2754285--2754482 Score: 337
Period size: 109 Copynumber: 1.8 Consensus size: 110
2754275 AACTATATAT
*
2754285 TATATATATATATATATATTCAAAAATGTTTTCAAAACTATATATTATAGATGTTTTCAAAAATG
1 TATATATATATATATATATTCAAAAATGTTTTCAAAACTATATATTATAGATATTTTCAAAAATG
2754350 TTTTCAAAACTATATATTATATATTTTCAAAAAACGTTTTAAAAC
66 TTTTCAAAACTATATATTATATATTTTCAAAAAACGTTTTAAAAC
* * *
2754395 TATATAT-TATATATATTTTCGAAAATGTTATT-AAAACTATATATTATATATATTTTCAAAAAT
1 TATATATATATATATATATTCAAAAATGTT-TTCAAAACTATATATTATAGATATTTTCAAAAAT
2754458 GTTTTCAAAACTATATATTATATAT
65 GTTTTCAAAACTATATATTATATAT
2754483 ACTTTTGGGA
Statistics
Matches: 83, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
109 74 0.89
110 9 0.11
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (110 bp):
TATATATATATATATATATTCAAAAATGTTTTCAAAACTATATATTATAGATATTTTCAAAAATG
TTTTCAAAACTATATATTATATATTTTCAAAAAACGTTTTAAAAC
Found at i:2754808 original size:21 final size:21
Alignment explanation
Indices: 2754784--2754824 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2754774 ATAGCAGACA
2754784 TTATTACGACTGTAGCGGGTG
1 TTATTACGACTGTAGCGGGTG
** *
2754805 TTATTGTGAGTGTAGCGGGT
1 TTATTACGACTGTAGCGGGT
2754825 ATATCGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.37, T:0.37
Consensus pattern (21 bp):
TTATTACGACTGTAGCGGGTG
Found at i:2767737 original size:45 final size:44
Alignment explanation
Indices: 2767664--2767831 Score: 192
Period size: 45 Copynumber: 3.7 Consensus size: 44
2767654 AATGCACAAT
* * *
2767664 TATGCATTTTCATTTATGGCATTCTTTCATGCCAATAATGCACCCA
1 TATGCA-TTTCAATTAT-GCATCCTTTCATGCCGATAATGCACCCA
** *
2767710 TACACATTTCAATTATGTCATCATTTCATGCCGATAATGCACCCA
1 TATGCATTTCAATTATG-CATCCTTTCATGCCGATAATGCACCCA
* * * *
2767755 CATGCATTTCAATCATGACATCCTTTCGTGTCGATAATGCACCCA
1 TATGCATTTCAATTATG-CATCCTTTCATGCCGATAATGCACCCA
*
2767800 TATGCATTTCATTTATAGCATCCTTTCATGCC
1 TATGCATTTCAATTAT-GCATCCTTTCATGCC
2767832 TTTTATATGC
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.01
45 95 0.94
46 5 0.05
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (44 bp):
TATGCATTTCAATTATGCATCCTTTCATGCCGATAATGCACCCA
Found at i:2767853 original size:45 final size:44
Alignment explanation
Indices: 2767804--2768020 Score: 299
Period size: 45 Copynumber: 4.8 Consensus size: 44
2767794 CACCCATATG
**
2767804 CATTTCATTTATAGCATCCTTTCATGCCTTTTATATGCTATTATA
1 CATTTCATTTAT-GCATCCTTTCATGCCTTTTATACACTATTATA
* *
2767849 CATTTCATTTATGACATCTTTTCACGCCTTTTATACACTATTATA
1 CATTTCATTTATG-CATCCTTTCATGCCTTTTATACACTATTATA
* *
2767894 CATTTCATTTATGGCATCCTTTCATGCTTTTTATACAATATTATA
1 CATTTCATTTAT-GCATCCTTTCATGCCTTTTATACACTATTATA
*
2767939 CATTTCATTTATGACATCCTTTCATGCCTTTTATACCCTATTATA
1 CATTTCATTTATG-CATCCTTTCATGCCTTTTATACACTATTATA
** *
2767984 CATTTCATTTATGGCATAATTTCATGTCTTTTATACA
1 CATTTCATTTAT-GCATCCTTTCATGCCTTTTATACA
2768021 ACGTTATGCA
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
44 2 0.01
45 149 0.97
46 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (44 bp):
CATTTCATTTATGCATCCTTTCATGCCTTTTATACACTATTATA
Found at i:2767853 original size:90 final size:90
Alignment explanation
Indices: 2767759--2768021 Score: 269
Period size: 90 Copynumber: 2.9 Consensus size: 90
2767749 CACCCACATG
* * ** * * *
2767759 CATTTCAATCATGACATCCTTTCGTGTCGATAATGCACCCA-TATGCATTTCATTTATAGCATCC
1 CATTTCATTTATGACATCCTTTCACGCCGATAATACA-CCATTATACATTTCATTTATAGCATCC
***
2767823 TTTCATGCCTTTTATATGCTATTATA
65 TTTCATGCCTTTTATACAATATTATA
* ** * * *
2767849 CATTTCATTTATGACATCTTTTCACGCCTTTTATACACTATTATACATTTCATTTATGGCATCCT
1 CATTTCATTTATGACATCCTTTCACGCCGATAATACACCATTATACATTTCATTTATAGCATCCT
*
2767914 TTCATGCTTTTTATACAATATTATA
66 TTCATGCCTTTTATACAATATTATA
* ** * * **
2767939 CATTTCATTTATGACATCCTTTCATGCCTTTTATAC-CCTATTATACATTTCATTTATGGCATAA
1 CATTTCATTTATGACATCCTTTCACGCCGATAATACACC-ATTATACATTTCATTTATAGCATCC
*
2768003 TTTCATGTCTTTTATACAA
65 TTTCATGCCTTTTATACAA
2768022 CGTTATGCAT
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
89 3 0.02
90 144 0.98
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (90 bp):
CATTTCATTTATGACATCCTTTCACGCCGATAATACACCATTATACATTTCATTTATAGCATCCT
TTCATGCCTTTTATACAATATTATA
Found at i:2767898 original size:135 final size:135
Alignment explanation
Indices: 2767759--2768020 Score: 314
Period size: 135 Copynumber: 1.9 Consensus size: 135
2767749 CACCCACATG
* * * *
2767759 CATTTCAATCATGACATCCTTTCGTG-TCGATAATGCACCCA-TATGCATTTCATTTAT-AGCAT
1 CATTTCAATCATGACATCCTTTCATGCT-GATAATACA-ACATTATACATTTCATTTATGA-CAT
** **
2767821 CCTTTCATGCCTTTTATATGCTATTATACATTTCATTTATGACATCTTTTCACGCCTTTTATACA
63 CCTTTCATGCCTTTTATACCCTATTATACATTTCATTTATGACATAATTTCACGCCTTTTATACA
2767886 CTATTATA
128 CTATTATA
* * * ** * *
2767894 CATTTCATTTATGGCATCCTTTCATGCTTTTTATACAATATTATACATTTCATTTATGACATCCT
1 CATTTCAATCATGACATCCTTTCATGCTGATAATACAACATTATACATTTCATTTATGACATCCT
* * *
2767959 TTCATGCCTTTTATACCCTATTATACATTTCATTTATGGCATAATTTCATGTCTTTTATACA
66 TTCATGCCTTTTATACCCTATTATACATTTCATTTATGACATAATTTCACGCCTTTTATACA
2768021 ACGTTATGCA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
134 1 0.01
135 103 0.97
136 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (135 bp):
CATTTCAATCATGACATCCTTTCATGCTGATAATACAACATTATACATTTCATTTATGACATCCT
TTCATGCCTTTTATACCCTATTATACATTTCATTTATGACATAATTTCACGCCTTTTATACACTA
TTATA
Found at i:2768132 original size:81 final size:81
Alignment explanation
Indices: 2768046--2768199 Score: 247
Period size: 81 Copynumber: 1.9 Consensus size: 81
2768036 AAGCATCTAG
*
2768046 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGT-ATAATTGACACCTTTCTGTCAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACT-ATCATAATTGACACCTTTCTGTCAAATG
*
2768110 CACAGCTAGACTATTAA
65 CACAACTAGACTATTAA
* * *
2768127 TCTTTTATTCAAAGGTATTTAACCTTTTATCTAACTATCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTATCATAATTGACACCTTTCTGTCAAATGC
2768192 ACAACTAG
66 ACAACTAG
2768200 GCCTCAAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTATCATAATTGACACCTTTCTGTCAAATGC
ACAACTAGACTATTAA
Found at i:2768246 original size:68 final size:68
Alignment explanation
Indices: 2768135--2768330 Score: 257
Period size: 68 Copynumber: 2.9 Consensus size: 68
2768125 AATCTTTTAT
* * * * *
2768135 TCAAAGGTATTTAACCTTTTATCTAACTATCATAATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2768200 GCC
66 GCC
* * *
2768203 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGCCACCTTTCTATCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2768268 GCC
66 GCC
* * ** * * *
2768271 TTAAAGGCACTTAGCATTTCATCTAGTTGGCATAATTAACATCTTTCTGTCAAATGCACA
1 TCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACA
2768331 GTTATGCTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 111 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.32
Consensus pattern (68 bp):
TCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
GCC
Found at i:2768463 original size:68 final size:68
Alignment explanation
Indices: 2768352--2769099 Score: 1154
Period size: 68 Copynumber: 11.0 Consensus size: 68
2768342 AATCATTTAT
* * * * *
2768352 TCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGGTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768417 GCC
66 GCC
* * * * *
2768420 TCAAACGCAATTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGAACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768485 GCC
66 GCC
* *
2768488 TCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768553 GCC
66 GCC
* * *
2768556 TCAAAGACACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768621 GCC
66 GCC
* ** *
2768624 TCAAAGGCAATTAGCCTTTCATCTAACTGGCATAATTTCCACCTTTCTATCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768689 GCC
66 GCC
* *
2768692 TCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATCCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768757 GCC
66 GCC
* * *
2768760 TCAAAGGCACTTAACCTTTCATCTAACTGGTATAATTGACACCTTTATGTCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768825 GCC
66 GCC
* *
2768828 TTAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768893 GCC
66 GCC
* ** *
2768896 TCAAAGGCACTTAGCCTTTCATGTAACTGGCATAATTGACACCTTTCTAACAAATGCATAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2768961 GCC
66 GCC
* * * *
2768964 TCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAAGGCACAACTAT
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
2769029 GCT
66 GCC
* * *
2769032 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCCGTCAAATGCACATCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
2769097 GCC
66 GCC
2769100 ATTAATCTTT
Statistics
Matches: 616, Mismatches: 64, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 616 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (68 bp):
TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
GCC
Found at i:2768712 original size:204 final size:204
Alignment explanation
Indices: 2768135--2769099 Score: 1336
Period size: 204 Copynumber: 4.7 Consensus size: 204
2768125 AATCTTTTAT
* * * ** *
2768135 TCAAAGGTATTTAACCTTTTATCTAACTATCATAATTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
2768200 GCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGCCACCTTTCTATCAAATGCACAGC
66 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
* * ** * * *
2768265 TAGGCCTTAAAGGCACTTAGCATTTCATCTAGTTGGCATAATTAACATCTTTCTGTCAAATGCAC
131 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
** *
2768330 AGTTATGCTATTAATCATTTAT
196 A---A--C---TAGGC-----C
* * * *
2768352 TCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGGTAG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
* * *
2768417 GCCTCAAACGCAATTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGAACAGC
66 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
2768482 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
131 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
2768547 AACTAGGCC
196 AACTAGGCC
* *
2768556 TCAAAGACACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
* *
2768621 GCCTCAAAGGCAATTAGCCTTTCATCTAACTGGCATAATTTCCACCTTTCTATCAAATGCACAGC
66 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
*
2768686 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATCCAC
131 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
*
2768751 AGCTAGGCC
196 AACTAGGCC
* *
2768760 TCAAAGGCACTTAACCTTTCATCTAACTGGTATAATTGACACCTTTATGTCAAATGCACAGCTAG
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
* * * *
2768825 GCCTTAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGC
66 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
* * ** *
2768890 TAGGCCTCAAAGGCACTTAGCCTTTCATGTAACTGGCATAATTGACACCTTTCTAACAAATGCAT
131 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
*
2768955 AGCTAGGCC
196 AACTAGGCC
* * * * *
2768964 TCAAAGGCACTTAGCCTTTCATCTAAATGGCATAATTGACACCTTTCTGTCAAAGGCACAACTAT
1 TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
* * * ** *
2769029 GCTTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCCGTCAAATGCACATC
66 GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
2769094 TAGGCC
131 TAGGCC
2769100 ATTAATCTTT
Statistics
Matches: 691, Mismatches: 57, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
204 505 0.73
209 3 0.00
212 1 0.00
214 1 0.00
217 181 0.26
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (204 bp):
TCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
GCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGCCACCTTTCTATCAAATGCACAGC
TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCACAATTGACACCTTTCTGTCAAATGCAC
AACTAGGCC
Found at i:2773597 original size:46 final size:45
Alignment explanation
Indices: 2773541--2773732 Score: 172
Period size: 45 Copynumber: 4.2 Consensus size: 45
2773531 TCATTGAAAG
* ** * * *
2773541 CATCCATTCATACTTATAATGTA-CCATTATGCATTTTCATTTATGG
1 CATCCTTTCATACCAATAATGCACCCA-TATGCA-TTTCAATTATGA
* *
2773587 CATTCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGA
1 CATCCTTTCATACCAATAATGCACCCATATGCATTTCAATTATGA
** * * *
2773632 CATCCTTTCAT-GTAGATAATACACCTATATACATTTCAATTATGA
1 CATCCTTTCATACCA-ATAATGCACCCATATGCATTTCAATTATGA
* ** * * *
2773677 CATCCTTTCGTGTCGATAATGCACCCATATGCATTTCATTTATGG
1 CATCCTTTCATACCAATAATGCACCCATATGCATTTCAATTATGA
2773722 CATCCTTTCAT
1 CATCCTTTCAT
2773733 GCATTATATA
Statistics
Matches: 119, Mismatches: 24, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 92 0.77
46 23 0.19
47 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (45 bp):
CATCCTTTCATACCAATAATGCACCCATATGCATTTCAATTATGA
Found at i:2773757 original size:45 final size:45
Alignment explanation
Indices: 2773566--2773968 Score: 354
Period size: 45 Copynumber: 8.9 Consensus size: 45
2773556 ATAATGTACC
* * * *
2773566 ATTATGCATTTTCATTTATGGCATTCTTTCATGCCA-ATAATGCACCC-
1 ATTATACA-TTTCATTTATGGCATCCTTTCATG-CATTTTAT--ACCCT
* * * * ** *
2773613 A-TATGCATTTCAATTATGACATCCTTTCATGTAGATAATACACCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATAC-CCT
* * * ** **
2773658 A-TATACATTTCAATTATGACATCCTTTCGTGTCGATAATGCACCC-
1 ATTATACATTTCATTTATGGCATCCTTTCATG-C-ATTTTATACCCT
* * *
2773703 A-TATGCATTTCATTTATGGCATCCTTTCATGCATTATATACGCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATACCCT
* * *
2773747 ATTATACATTTCATTTCTGGCATCCTTTCATGCTTTTTATACACT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATACCCT
* * *
2773792 ATTATACATTT-ATTTTATGACATCATTTCATGTC-TTTTATACACT
1 ATTATACATTTCA-TTTATGGCATCCTTTCATG-CATTTTATACCCT
* *
2773837 ATTATACATTTCATTTATGGCATCTTTTCATGCCTTTTATACCCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATACCCT
* *
2773882 ATTATACATTTCATTTATGGAATCCTTTCATGCCTTTTATACCCT
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATACCCT
*** *
2773927 ATTATACATTTCATTTACAACATCCTTTCATGCCTTTTATAC
1 ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATAC
2773969 AACGTTATGC
Statistics
Matches: 308, Mismatches: 37, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
43 9 0.03
44 7 0.02
45 277 0.90
46 10 0.03
47 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (45 bp):
ATTATACATTTCATTTATGGCATCCTTTCATGCATTTTATACCCT
Found at i:2773950 original size:135 final size:135
Alignment explanation
Indices: 2773708--2773969 Score: 400
Period size: 135 Copynumber: 1.9 Consensus size: 135
2773698 CACCCATATG
* * *
2773708 CATTTCATTTATGGCATCCTTTCATGCATTATATACGCTATTATACATTTCATTTCTGGCATCCT
1 CATTTCATTTATGGCATCCTTTCATGCATTATATACCCTATTATACATTTCATTTATGGAATCCT
* ** *
2773773 TTCATGCTTTTTATACACTATTATACATTTATTTTATGACATCATTTCATGTCTTTTATACACTA
66 TTCATGCCTTTTATACACTATTATACATTTATTTTACAACATCATTTCATGCCTTTTATACACTA
2773838 TTATA
131 TTATA
* * *
2773843 CATTTCATTTATGGCATCTTTTCATGCCTTTTATACCCTATTATACATTTCATTTATGGAATCCT
1 CATTTCATTTATGGCATCCTTTCATGCATTATATACCCTATTATACATTTCATTTATGGAATCCT
* *
2773908 TTCATGCCTTTTATACCCTATTATACATTTCA-TTTACAACATCCTTTCATGCCTTTTATACA
66 TTCATGCCTTTTATACACTATTATACATTT-ATTTTACAACATCATTTCATGCCTTTTATACA
2773970 ACGTTATGCA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
135 113 0.99
136 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.47
Consensus pattern (135 bp):
CATTTCATTTATGGCATCCTTTCATGCATTATATACCCTATTATACATTTCATTTATGGAATCCT
TTCATGCCTTTTATACACTATTATACATTTATTTTACAACATCATTTCATGCCTTTTATACACTA
TTATA
Found at i:2774196 original size:68 final size:68
Alignment explanation
Indices: 2774084--2774627 Score: 766
Period size: 68 Copynumber: 8.0 Consensus size: 68
2774074 AATCTTTTAT
* * * *
2774084 TCAAAGGTATTTATCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774149 GCC
66 GCC
* * * * * *
2774152 TCAAAGGCACTTAGCCTTTCATCTATCTAGCATAATTGATACCTTTTTGTCAAATGCATAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774217 GCC
66 GCC
* *
2774220 TCAAAGGCACTTAACCTTTCATCTAACTGGCATACTTGACACCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774285 GCC
66 GCC
* ** * *
2774288 TAAAAAACACTTAGCCTTTCATCTAACTGGTATAATTGACACATTTCTGTCAAATGCACAACTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774353 GCC
66 GCC
* * * *
2774356 TCAAAGGCACTTAGTCTTTCATCTAACTGGCATAATTGTCACCTTTCTTTCAAATGCACAATTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
*
2774421 ACC
66 GCC
* * * *
2774424 TCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACAACTTTCTATCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774489 GCCC
66 G-CC
* * * * * *
2774493 TCAAAGGTACTTAGCCTTTCATCTAACTGGAATAATTGA-AACTTTATATCAAATGCACAGCTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774557 GCC
66 GCC
* *
2774560 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCATAACTAG
1 TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
2774625 GCC
66 GCC
2774628 ATTAATATTT
Statistics
Matches: 422, Mismatches: 52, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
67 39 0.09
68 344 0.82
69 39 0.09
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (68 bp):
TCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAACTAG
GCC
Found at i:2774898 original size:57 final size:57
Alignment explanation
Indices: 2774832--2774993 Score: 279
Period size: 57 Copynumber: 2.8 Consensus size: 57
2774822 TAAAGTTCTT
* * *
2774832 ATACAAAAATTCATAAACAAATTATGTATTTCTTAACTTTTTGCACCCGAAGTGCCC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
* *
2774889 ATACGAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGGCC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
2774946 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
1 ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACAC
2774994 TCAGTGTCAT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 99 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (57 bp):
ATACAAAAATTCATAAACAAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCC
Found at i:2775350 original size:20 final size:21
Alignment explanation
Indices: 2775325--2775371 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
2775315 TCAATAGTAT
*
2775325 CGATACTAC-TACTCTGGTAC
1 CGATACTACATACTATGGTAC
*
2775345 CGATACTTCTATACTATGGTAC
1 CGATACTAC-ATACTATGGTAC
2775367 CGATA
1 CGATA
2775372 TCCCCTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
22 15 0.65
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (21 bp):
CGATACTACATACTATGGTAC
Found at i:2777429 original size:42 final size:42
Alignment explanation
Indices: 2777382--2777462 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
2777372 AGAATCTCAG
2777382 GGTGAGGCTAAGAAGTCTAA-AACCGAGGGTGAGGGTGCTGAT
1 GGTGAGGCTAAGAAGTCTAATAA-CGAGGGTGAGGGTGCTGAT
* *
2777424 GGTGAGGCTGAGAAGTCTAATAATGAGGGTGAGGGTGCT
1 GGTGAGGCTAAGAAGTCTAATAACGAGGGTGAGGGTGCT
2777463 AAGGGTAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.42, T:0.21
Consensus pattern (42 bp):
GGTGAGGCTAAGAAGTCTAATAACGAGGGTGAGGGTGCTGAT
Found at i:2777464 original size:21 final size:21
Alignment explanation
Indices: 2777406--2777464 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
2777396 GTCTAAAACC
* **
2777406 GAGGGTGAGGGTGCTGATGGT
1 GAGGGTGAGGGTGCTAATAAT
* *
2777427 GAGGCTGAGAAGT-CTAATAAT
1 GAGGGTGAG-GGTGCTAATAAT
2777448 GAGGGTGAGGGTGCTAA
1 GAGGGTGAGGGTGCTAA
2777465 GGGTAAGGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.25, C:0.07, G:0.46, T:0.22
Consensus pattern (21 bp):
GAGGGTGAGGGTGCTAATAAT
Found at i:2778344 original size:12 final size:12
Alignment explanation
Indices: 2778327--2778352 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2778317 GTACAAGAAA
2778327 CAAGTTAATAAG
1 CAAGTTAATAAG
2778339 CAAGTTAATAAG
1 CAAGTTAATAAG
2778351 CA
1 CA
2778353 TCTTTATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (12 bp):
CAAGTTAATAAG
Found at i:2783382 original size:16 final size:16
Alignment explanation
Indices: 2783361--2783419 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
2783351 CTTCATAAAG
2783361 AAATTCAAATCGTGGC
1 AAATTCAAATCGTGGC
2783377 AAATTCAAATCGTGGC
1 AAATTCAAATCGTGGC
*
2783393 AAATTCAAATTGTGGC
1 AAATTCAAATCGTGGC
*
2783409 ATATTCAAATC
1 AAATTCAAATC
2783420 CAGAAGGGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (16 bp):
AAATTCAAATCGTGGC
Found at i:2785645 original size:2 final size:2
Alignment explanation
Indices: 2785638--2785670 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2785628 AGATCATTTA
2785638 AT AT 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 AT AT A
2785671 CCCCCATCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2785861 original size:12 final size:12
Alignment explanation
Indices: 2785836--2785917 Score: 85
Period size: 12 Copynumber: 6.8 Consensus size: 12
2785826 ATGGAGATAT
* *
2785836 CAGAAATCAAAA
1 CAGAATTCAGAA
2785848 CAGAATTCAGAA
1 CAGAATTCAGAA
*
2785860 CA-TATATCAGAA
1 CAGAAT-TCAGAA
* * *
2785872 TAGAATCCAGAT
1 CAGAATTCAGAA
*
2785884 CAGAAATCAGAA
1 CAGAATTCAGAA
2785896 CAGAATTCAGAA
1 CAGAATTCAGAA
2785908 CAGAATTCAG
1 CAGAATTCAG
2785918 GTCATGTATC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
11 2 0.04
12 52 0.93
13 2 0.04
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2785876 original size:24 final size:24
Alignment explanation
Indices: 2785836--2785917 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
2785826 ATGGAGATAT
*
2785836 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
* * * * *
2785860 CATATATCAGAATAGAATCCAGAT
1 CAGAAATCAGAACAGAATTCAGAA
2785884 CAGAAATCAGAACAGAATTCAGAA
1 CAGAAATCAGAACAGAATTCAGAA
*
2785908 CAGAATTCAG
1 CAGAAATCAG
2785918 GTCATGTATC
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAGAA
Found at i:2790452 original size:2 final size:2
Alignment explanation
Indices: 2790447--2790510 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
2790437 ACACACACAC
2790447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2790488 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
2790511 CCCTCATCCC
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2790696 original size:12 final size:12
Alignment explanation
Indices: 2790681--2790728 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
2790671 TAGAAATCAA
2790681 AACAGAATTCAG
1 AACAGAATTCAG
* *
2790693 AACAGAATCCAT
1 AACAGAATTCAG
* *
2790705 ATCAGAAATCAG
1 AACAGAATTCAG
2790717 AACAGAATTCAG
1 AACAGAATTCAG
2790729 GTCATGTATC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:2790852 original size:3 final size:3
Alignment explanation
Indices: 2790844--2790887 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
2790834 TTTGTTTTAT
*
2790844 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2790888 AATAATTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 8 0.22
3 29 0.78
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2790868 original size:16 final size:16
Alignment explanation
Indices: 2790841--2790887 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
2790831 TCATTTGTTT
2790841 TATT-TATTATTATTA
1 TATTATATTATTATTA
* * *
2790856 TTTTGTTTTATTATTA
1 TATTATATTATTATTA
2790872 TATTATATTATTATTA
1 TATTATATTATTATTA
2790888 AATAATTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTATATTATTATTA
Found at i:2790880 original size:23 final size:23
Alignment explanation
Indices: 2790834--2790877 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2790824 TTTTATTTCA
2790834 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATTTATTATTATTAT
2790857 TTTGTTTTA-TTATTA-TATTAT
1 TTTGTTTTATTTATTATTATTAT
2790878 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTGTTTTATTTATTATTATTAT
Found at i:2792309 original size:11 final size:11
Alignment explanation
Indices: 2792273--2792312 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
2792263 TTAATTCCTT
2792273 TTATTTTAATCA
1 TTATTTTAAT-A
*
2792285 TTATTTGCAATA
1 TTATTT-TAATA
2792297 TTATTTTAATA
1 TTATTTTAATA
2792308 TTATT
1 TTATT
2792313 ATTTTGTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.36
12 13 0.52
13 3 0.12
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:2792367 original size:2 final size:2
Alignment explanation
Indices: 2792360--2792389 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2792350 TTTATTATTT
2792360 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
2792390 ATAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2792691 original size:116 final size:114
Alignment explanation
Indices: 2792468--2792679 Score: 241
Period size: 115 Copynumber: 1.9 Consensus size: 114
2792458 AATAATCATA
* * *
2792468 TTTTAATATATATATATTTTTCAATATTAAGAAAAGGATTGTCTTAAAGCACCTAGAAGTCTGTT
1 TTTTAATATATATATATTTTTCAATATGAAGAAAAGGACTGTCTTAAAGCACCTAGAAGTCTCTT
* * * ** **
2792533 TTCTGATATTTTTACTAAATATCCTATTTTATAAATTTTATATTAATTG
66 TTCTGAAATTTTAAATAAATATAATATTTTATAAATAATATATTAATTG
* * * *
2792582 TTTTAATTATTTATTTATTTTTTAATATCGAAGAAAA-GAGCTGTCTTAAGGCACCTAGAAGTC-
1 TTTTAA-TATATATATATTTTTCAATAT-GAAGAAAAGGA-CTGTCTTAAAGCACCTAGAAGTCT
2792645 CTTTTCTGAAATTTCTAAATAAATA-AATATTTTAT
63 CTTTTCTGAAATTT-TAAATAAATATAATATTTTAT
2792680 TTATAAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
114 6 0.07
115 40 0.49
116 36 0.44
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (114 bp):
TTTTAATATATATATATTTTTCAATATGAAGAAAAGGACTGTCTTAAAGCACCTAGAAGTCTCTT
TTCTGAAATTTTAAATAAATATAATATTTTATAAATAATATATTAATTG
Found at i:2792696 original size:29 final size:31
Alignment explanation
Indices: 2792663--2792721 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
2792653 AAATTTCTAA
2792663 ATAAATAAAT-ATTTTATTT-ATAAATATAT
1 ATAAATAAATAATTTTATTTCATAAATATAT
* * *
2792692 ATAAATTAATAATTTTTTTTCATAATTATA
1 ATAAATAAATAATTTTATTTCATAAATATA
2792722 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.36
30 8 0.32
31 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (31 bp):
ATAAATAAATAATTTTATTTCATAAATATAT
Found at i:2795282 original size:22 final size:22
Alignment explanation
Indices: 2795256--2795297 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2795246 AGTATGTCCA
2795256 GGGGGTATCGATTCCCCCCTGG
1 GGGGGTATCGATTCCCCCCTGG
2795278 GGGGGTATCGATTCCCCCCT
1 GGGGGTATCGATTCCCCCCT
2795298 AAAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.24
Consensus pattern (22 bp):
GGGGGTATCGATTCCCCCCTGG
Found at i:2799109 original size:16 final size:16
Alignment explanation
Indices: 2799088--2799123 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2799078 GACTGTCTTG
2799088 CAGAATTTACGAGATA
1 CAGAATTTACGAGATA
2799104 CAGAATTTACGAGATA
1 CAGAATTTACGAGATA
2799120 -AGAA
1 CAGAA
2799124 GCTTTATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.22
Consensus pattern (16 bp):
CAGAATTTACGAGATA
Found at i:2802097 original size:21 final size:21
Alignment explanation
Indices: 2802073--2802123 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
2802063 CTGGGCATAA
*
2802073 GGAACCGATACCCTATGAAGG
1 GGAATCGATACCCTATGAAGG
2802094 GGAATCGATACCCTATGAAGG
1 GGAATCGATACCCTATGAAGG
2802115 GGAATCGAT
1 GGAATCGAT
2802124 TCCCCTTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (21 bp):
GGAATCGATACCCTATGAAGG
Found at i:2802185 original size:21 final size:21
Alignment explanation
Indices: 2802160--2802199 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2802150 AGTATGTCCA
2802160 GGGGGTATCGATTCCCCCTGG
1 GGGGGTATCGATTCCCCCTGG
2802181 GGGGGTATCGATTCCCCCT
1 GGGGGTATCGATTCCCCCT
2802200 AAAGGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.30, G:0.35, T:0.25
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCCTGG
Done.